Multiple sequence alignment - TraesCS7B01G036800

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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 TraesCS7B01G036800 chr7B 100.000 3972 0 0 1 3972 35636392 35640363 0.000000e+00 7336.0
1 TraesCS7B01G036800 chr7B 88.814 1037 88 18 369 1401 35506701 35507713 0.000000e+00 1247.0
2 TraesCS7B01G036800 chr7B 86.593 910 57 19 944 1848 35307632 35308481 0.000000e+00 944.0
3 TraesCS7B01G036800 chr7B 90.654 428 36 4 1422 1848 35507702 35508126 2.070000e-157 566.0
4 TraesCS7B01G036800 chr7B 97.727 132 2 1 3411 3541 35639672 35639803 3.990000e-55 226.0
5 TraesCS7B01G036800 chr7B 97.727 132 2 1 3281 3412 35639802 35639932 3.990000e-55 226.0
6 TraesCS7B01G036800 chr7B 90.196 153 12 3 791 942 35301965 35302115 3.130000e-46 196.0
7 TraesCS7B01G036800 chr7A 96.065 1347 43 4 2075 3412 88501280 88502625 0.000000e+00 2185.0
8 TraesCS7B01G036800 chr7A 92.308 1222 65 9 743 1960 88500082 88501278 0.000000e+00 1709.0
9 TraesCS7B01G036800 chr7A 91.629 1111 62 11 743 1848 88435713 88436797 0.000000e+00 1507.0
10 TraesCS7B01G036800 chr7A 92.325 899 56 9 953 1848 88315501 88316389 0.000000e+00 1266.0
11 TraesCS7B01G036800 chr7A 81.518 1515 129 63 381 1848 87450707 87452117 0.000000e+00 1107.0
12 TraesCS7B01G036800 chr7A 93.684 570 28 6 3409 3970 88502491 88503060 0.000000e+00 846.0
13 TraesCS7B01G036800 chr7A 88.546 681 73 4 1 679 88188193 88188870 0.000000e+00 821.0
14 TraesCS7B01G036800 chr7A 88.399 681 73 5 1 679 88144263 88144939 0.000000e+00 815.0
15 TraesCS7B01G036800 chr7A 87.755 539 60 4 147 680 88499482 88500019 3.370000e-175 625.0
16 TraesCS7B01G036800 chr7A 85.397 630 44 20 770 1398 88008334 88008916 9.440000e-171 610.0
17 TraesCS7B01G036800 chr7A 91.560 391 28 3 1008 1398 88172577 88172962 5.840000e-148 534.0
18 TraesCS7B01G036800 chr7A 87.073 410 49 4 369 776 88006741 88007148 1.010000e-125 460.0
19 TraesCS7B01G036800 chr7A 89.831 354 35 1 1 354 88035361 88035713 1.680000e-123 453.0
20 TraesCS7B01G036800 chr7A 89.458 332 28 6 351 679 88047214 88047541 2.860000e-111 412.0
21 TraesCS7B01G036800 chr7A 84.634 410 50 9 369 776 88119766 88120164 2.880000e-106 396.0
22 TraesCS7B01G036800 chr7A 93.182 88 6 0 860 947 88172472 88172559 3.220000e-26 130.0
23 TraesCS7B01G036800 chr7A 95.122 41 2 0 2176 2216 88316682 88316722 9.210000e-07 65.8
24 TraesCS7B01G036800 chr7A 96.774 31 1 0 2176 2206 88437088 88437118 7.000000e-03 52.8
25 TraesCS7B01G036800 chr7D 96.338 1147 38 4 1936 3080 87221593 87222737 0.000000e+00 1882.0
26 TraesCS7B01G036800 chr7D 92.736 1239 56 10 704 1936 87220249 87221459 0.000000e+00 1759.0
27 TraesCS7B01G036800 chr7D 93.882 899 43 8 953 1848 87206451 87207340 0.000000e+00 1345.0
28 TraesCS7B01G036800 chr7D 88.064 687 60 6 1 679 87219583 87220255 0.000000e+00 795.0
29 TraesCS7B01G036800 chr7D 89.002 591 29 8 3411 3970 87223390 87223975 0.000000e+00 699.0
30 TraesCS7B01G036800 chr7D 93.925 428 24 2 1422 1848 86919030 86919456 0.000000e+00 645.0
31 TraesCS7B01G036800 chr7D 93.458 428 25 3 1422 1848 86755540 86755965 2.010000e-177 632.0
32 TraesCS7B01G036800 chr7D 89.189 481 32 10 1377 1848 86292328 86292797 2.060000e-162 582.0
33 TraesCS7B01G036800 chr7D 96.073 331 13 0 3082 3412 87223191 87223521 1.260000e-149 540.0
34 TraesCS7B01G036800 chr7D 87.310 394 27 12 770 1162 86754993 86755364 2.840000e-116 429.0
35 TraesCS7B01G036800 chr7D 86.329 395 30 13 770 1162 86918482 86918854 3.690000e-110 409.0
36 TraesCS7B01G036800 chr7D 86.392 316 40 3 440 753 86887250 86887564 3.800000e-90 342.0
37 TraesCS7B01G036800 chr7D 89.744 234 23 1 1005 1237 86291939 86292172 8.340000e-77 298.0
38 TraesCS7B01G036800 chr7D 86.809 235 28 3 1962 2196 86292911 86293142 3.940000e-65 259.0
39 TraesCS7B01G036800 chr7D 95.122 41 2 0 2176 2216 86919757 86919797 9.210000e-07 65.8
40 TraesCS7B01G036800 chr7D 92.683 41 3 0 2176 2216 86756266 86756306 4.290000e-05 60.2
41 TraesCS7B01G036800 chr3D 88.391 379 38 5 1 378 571044141 571044514 6.050000e-123 451.0
42 TraesCS7B01G036800 chr3D 88.679 371 38 3 1 371 29493664 29494030 2.180000e-122 449.0
43 TraesCS7B01G036800 chr3D 88.828 367 39 2 1 367 123618681 123619045 2.180000e-122 449.0
44 TraesCS7B01G036800 chrUn 88.679 371 39 3 1 371 223002011 223002378 2.180000e-122 449.0


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 TraesCS7B01G036800 chr7B 35636392 35640363 3971 False 2596.000000 7336 98.484667 1 3972 3 chr7B.!!$F4 3971
1 TraesCS7B01G036800 chr7B 35307632 35308481 849 False 944.000000 944 86.593000 944 1848 1 chr7B.!!$F2 904
2 TraesCS7B01G036800 chr7B 35506701 35508126 1425 False 906.500000 1247 89.734000 369 1848 2 chr7B.!!$F3 1479
3 TraesCS7B01G036800 chr7A 88499482 88503060 3578 False 1341.250000 2185 92.453000 147 3970 4 chr7A.!!$F11 3823
4 TraesCS7B01G036800 chr7A 87450707 87452117 1410 False 1107.000000 1107 81.518000 381 1848 1 chr7A.!!$F1 1467
5 TraesCS7B01G036800 chr7A 88188193 88188870 677 False 821.000000 821 88.546000 1 679 1 chr7A.!!$F6 678
6 TraesCS7B01G036800 chr7A 88144263 88144939 676 False 815.000000 815 88.399000 1 679 1 chr7A.!!$F5 678
7 TraesCS7B01G036800 chr7A 88435713 88437118 1405 False 779.900000 1507 94.201500 743 2206 2 chr7A.!!$F10 1463
8 TraesCS7B01G036800 chr7A 88315501 88316722 1221 False 665.900000 1266 93.723500 953 2216 2 chr7A.!!$F9 1263
9 TraesCS7B01G036800 chr7A 88006741 88008916 2175 False 535.000000 610 86.235000 369 1398 2 chr7A.!!$F7 1029
10 TraesCS7B01G036800 chr7D 87206451 87207340 889 False 1345.000000 1345 93.882000 953 1848 1 chr7D.!!$F2 895
11 TraesCS7B01G036800 chr7D 87219583 87223975 4392 False 1135.000000 1882 92.442600 1 3970 5 chr7D.!!$F6 3969
12 TraesCS7B01G036800 chr7D 86291939 86293142 1203 False 379.666667 582 88.580667 1005 2196 3 chr7D.!!$F3 1191
13 TraesCS7B01G036800 chr7D 86754993 86756306 1313 False 373.733333 632 91.150333 770 2216 3 chr7D.!!$F4 1446
14 TraesCS7B01G036800 chr7D 86918482 86919797 1315 False 373.266667 645 91.792000 770 2216 3 chr7D.!!$F5 1446

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
929 2180 0.031585 ACGCTCAGACACGTTAAGCA 59.968 50.0 0.00 0.00 40.09 3.91 F
1435 2758 0.110678 TGGTGTCCAATTGGGCGTTA 59.889 50.0 23.59 9.52 44.44 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2735 4287 1.371467 TCAGCAAGAGGGAAATGGGA 58.629 50.0 0.00 0.0 0.0 4.37 R
3430 5436 1.308047 AACAGTCAATTCACAGCGCA 58.692 45.0 11.47 0.0 0.0 6.09 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
70 71 4.174009 CAAGTACGTTCATCGATCAAGGT 58.826 43.478 12.00 12.00 42.86 3.50
152 153 1.202758 TGCGGGTGAAAGAGTGACAAT 60.203 47.619 0.00 0.00 0.00 2.71
174 175 0.109597 CGTTGCTCCAGTCCAATTGC 60.110 55.000 0.00 0.00 0.00 3.56
178 179 0.961019 GCTCCAGTCCAATTGCAACA 59.039 50.000 0.00 0.00 0.00 3.33
185 186 5.716228 TCCAGTCCAATTGCAACATCTTTAT 59.284 36.000 0.00 0.00 0.00 1.40
186 187 6.211184 TCCAGTCCAATTGCAACATCTTTATT 59.789 34.615 0.00 0.00 0.00 1.40
216 218 7.918562 GTCTTTAGAGTATTTCTTCGAGCAGAT 59.081 37.037 0.00 0.00 37.36 2.90
221 223 6.644592 AGAGTATTTCTTCGAGCAGATATTGC 59.355 38.462 0.00 2.73 42.91 3.56
247 249 3.748048 TGCGAAGAAGGTGATTTCAAGAG 59.252 43.478 0.00 0.00 0.00 2.85
252 254 7.588512 CGAAGAAGGTGATTTCAAGAGATTTT 58.411 34.615 0.00 0.00 0.00 1.82
314 316 6.672218 TCTGGGATCTTAGGTCAAAATCACTA 59.328 38.462 0.00 0.00 0.00 2.74
321 323 7.272978 TCTTAGGTCAAAATCACTATACCTGC 58.727 38.462 0.00 0.00 37.85 4.85
435 441 7.245292 AGATTATCCTCTGGTACTAATGAGCT 58.755 38.462 0.00 0.00 0.00 4.09
579 590 7.648142 TGATTCAAAAGTGTCGCTAGAAATTT 58.352 30.769 0.00 0.00 0.00 1.82
582 593 5.235616 TCAAAAGTGTCGCTAGAAATTTCGT 59.764 36.000 12.42 4.28 0.00 3.85
624 637 5.104693 TGTTCAGGACAAGTTCTAGGTGAAA 60.105 40.000 0.00 0.00 34.00 2.69
627 640 4.627467 CAGGACAAGTTCTAGGTGAAATCG 59.373 45.833 0.00 0.00 36.30 3.34
669 682 3.073356 ACATTGACCCGGAACTTCCTTTA 59.927 43.478 0.73 0.00 33.30 1.85
674 687 2.640826 ACCCGGAACTTCCTTTATGTGA 59.359 45.455 0.73 0.00 33.30 3.58
679 694 4.377022 CGGAACTTCCTTTATGTGACAACG 60.377 45.833 6.25 0.00 33.30 4.10
740 766 0.393944 GGGTCTCCCATTTCGTTCCC 60.394 60.000 0.00 0.00 44.65 3.97
788 2006 7.729124 ACTGAAATTTCTGGGATCATGATTT 57.271 32.000 23.81 0.00 0.00 2.17
857 2102 2.906897 AGTGTGCGGCCCACTTTG 60.907 61.111 12.46 0.00 44.92 2.77
890 2135 0.531657 TGCAAGGCCCATTGAATTCG 59.468 50.000 8.85 0.00 31.55 3.34
925 2176 1.441515 GCGACGCTCAGACACGTTA 60.442 57.895 13.73 0.00 43.71 3.18
926 2177 1.000233 GCGACGCTCAGACACGTTAA 61.000 55.000 13.73 0.00 43.71 2.01
927 2178 0.975544 CGACGCTCAGACACGTTAAG 59.024 55.000 0.00 0.00 43.71 1.85
928 2179 0.708918 GACGCTCAGACACGTTAAGC 59.291 55.000 0.00 0.00 43.71 3.09
929 2180 0.031585 ACGCTCAGACACGTTAAGCA 59.968 50.000 0.00 0.00 40.09 3.91
930 2181 0.710567 CGCTCAGACACGTTAAGCAG 59.289 55.000 0.00 0.00 33.21 4.24
931 2182 1.666023 CGCTCAGACACGTTAAGCAGA 60.666 52.381 0.00 0.00 33.21 4.26
932 2183 1.989165 GCTCAGACACGTTAAGCAGAG 59.011 52.381 0.00 0.00 33.21 3.35
933 2184 2.351835 GCTCAGACACGTTAAGCAGAGA 60.352 50.000 0.00 0.00 33.21 3.10
934 2185 3.857383 GCTCAGACACGTTAAGCAGAGAA 60.857 47.826 0.00 0.00 33.21 2.87
935 2186 3.902150 TCAGACACGTTAAGCAGAGAAG 58.098 45.455 0.00 0.00 0.00 2.85
936 2187 2.410053 CAGACACGTTAAGCAGAGAAGC 59.590 50.000 0.00 0.00 0.00 3.86
937 2188 1.727335 GACACGTTAAGCAGAGAAGCC 59.273 52.381 0.00 0.00 34.23 4.35
938 2189 0.716108 CACGTTAAGCAGAGAAGCCG 59.284 55.000 0.00 0.00 34.23 5.52
939 2190 1.014564 ACGTTAAGCAGAGAAGCCGC 61.015 55.000 0.00 0.00 34.23 6.53
940 2191 1.014044 CGTTAAGCAGAGAAGCCGCA 61.014 55.000 0.00 0.00 34.23 5.69
941 2192 1.156736 GTTAAGCAGAGAAGCCGCAA 58.843 50.000 0.00 0.00 34.23 4.85
942 2193 1.129437 GTTAAGCAGAGAAGCCGCAAG 59.871 52.381 0.00 0.00 34.23 4.01
1023 2281 3.592070 TCGACCTCGAGCTTGGAG 58.408 61.111 6.99 4.96 44.22 3.86
1029 2287 1.078848 CTCGAGCTTGGAGTTGGGG 60.079 63.158 0.00 0.00 0.00 4.96
1298 2564 2.167693 ACCGCTCTTACCGATTTCATGA 59.832 45.455 0.00 0.00 0.00 3.07
1381 2703 6.006759 GCTAATTATCCTTAGCTGGCAAAG 57.993 41.667 0.00 0.00 46.53 2.77
1435 2758 0.110678 TGGTGTCCAATTGGGCGTTA 59.889 50.000 23.59 9.52 44.44 3.18
1450 2773 4.141597 TGGGCGTTATTGAGATCAACCATA 60.142 41.667 0.00 0.00 38.86 2.74
1551 2874 4.054780 TGTTTAAGTTCAGACTCTGCGT 57.945 40.909 0.62 0.00 34.21 5.24
1554 2877 5.006358 TGTTTAAGTTCAGACTCTGCGTTTC 59.994 40.000 0.62 0.00 34.21 2.78
1873 3273 3.181526 GCTGAACACTGCTACTGAATTCG 60.182 47.826 0.04 0.00 0.00 3.34
1917 3326 6.843208 TGAGAACGTTTGTGTTATTGTTCAA 58.157 32.000 0.46 0.00 38.46 2.69
1946 3489 6.484364 TTGAGATAGCTGACCATTGATGTA 57.516 37.500 0.00 0.00 0.00 2.29
2083 3626 2.385013 TTGTCCATGTGATCCGTCAG 57.615 50.000 0.00 0.00 34.36 3.51
2154 3698 2.554032 GTTCACCTGCAGCAGTAACAAT 59.446 45.455 21.26 0.00 0.00 2.71
2308 3859 1.134907 GCAGTTTAGTGTAGGGCGCTA 60.135 52.381 7.64 6.37 39.02 4.26
2344 3895 1.929836 CTTGCTACTCTTGGTCGATGC 59.070 52.381 0.00 0.00 0.00 3.91
2352 3903 2.868583 CTCTTGGTCGATGCGAAATCAT 59.131 45.455 0.00 0.00 37.72 2.45
2371 3922 5.627499 TCATTGTGTGATTTTGGACTAGC 57.373 39.130 0.00 0.00 0.00 3.42
2498 4050 7.523293 ACATGTGATCCATTTGTCAACTTTA 57.477 32.000 0.00 0.00 0.00 1.85
2550 4102 7.650104 CCTGATTTAACGTGTTTGGTTATTGTT 59.350 33.333 0.00 0.00 30.59 2.83
2619 4171 6.867816 TCTTAATTGCAGCGTCATTTTGAAAT 59.132 30.769 0.00 0.00 0.00 2.17
2669 4221 1.215647 GATCGACGTGCTGGAGGTT 59.784 57.895 0.00 0.00 0.00 3.50
2698 4250 6.072230 GGAGTCTACTACGGTAGTTTTGTTCT 60.072 42.308 24.46 14.23 44.13 3.01
2699 4251 6.907741 AGTCTACTACGGTAGTTTTGTTCTC 58.092 40.000 24.46 8.36 44.13 2.87
2712 4264 7.352079 AGTTTTGTTCTCATCTCAATTGGTT 57.648 32.000 5.42 0.00 0.00 3.67
2725 4277 3.031013 CAATTGGTTATTCCCCACTCCC 58.969 50.000 0.00 0.00 34.77 4.30
2734 4286 4.965283 ATTCCCCACTCCCAAAAGATAA 57.035 40.909 0.00 0.00 0.00 1.75
2735 4287 4.965283 TTCCCCACTCCCAAAAGATAAT 57.035 40.909 0.00 0.00 0.00 1.28
2906 4458 3.636300 TCCTTGAGTTTTGTTGGATGGTG 59.364 43.478 0.00 0.00 0.00 4.17
3132 5137 2.253758 GCACTTGTTCAGCTGGCGA 61.254 57.895 15.13 6.43 0.00 5.54
3156 5161 0.109412 GCTCCTTCTGTTGCATGCAC 60.109 55.000 22.58 16.00 0.00 4.57
3407 5413 8.939932 TCTCTACTCACTAGATCCTGAAGATAA 58.060 37.037 0.00 0.00 34.42 1.75
3408 5414 9.567776 CTCTACTCACTAGATCCTGAAGATAAA 57.432 37.037 0.00 0.00 34.42 1.40
3409 5415 9.922477 TCTACTCACTAGATCCTGAAGATAAAA 57.078 33.333 0.00 0.00 34.42 1.52
3412 5418 7.930865 ACTCACTAGATCCTGAAGATAAAATGC 59.069 37.037 0.00 0.00 34.42 3.56
3413 5419 6.925718 TCACTAGATCCTGAAGATAAAATGCG 59.074 38.462 0.00 0.00 34.42 4.73
3414 5420 6.146837 CACTAGATCCTGAAGATAAAATGCGG 59.853 42.308 0.00 0.00 34.42 5.69
3415 5421 5.041191 AGATCCTGAAGATAAAATGCGGT 57.959 39.130 0.00 0.00 34.42 5.68
3416 5422 5.440610 AGATCCTGAAGATAAAATGCGGTT 58.559 37.500 0.00 0.00 34.42 4.44
3417 5423 5.888161 AGATCCTGAAGATAAAATGCGGTTT 59.112 36.000 0.00 0.00 34.42 3.27
3418 5424 5.975693 TCCTGAAGATAAAATGCGGTTTT 57.024 34.783 5.19 5.19 42.47 2.43
3419 5425 6.339587 TCCTGAAGATAAAATGCGGTTTTT 57.660 33.333 5.15 1.88 40.40 1.94
3438 5444 4.604843 TTTTCTTCTCATATGCGCTGTG 57.395 40.909 9.73 4.84 0.00 3.66
3439 5445 3.525268 TTCTTCTCATATGCGCTGTGA 57.475 42.857 9.73 9.30 0.00 3.58
3440 5446 3.525268 TCTTCTCATATGCGCTGTGAA 57.475 42.857 9.73 10.44 0.00 3.18
3441 5447 4.063998 TCTTCTCATATGCGCTGTGAAT 57.936 40.909 9.73 0.00 0.00 2.57
3442 5448 4.445453 TCTTCTCATATGCGCTGTGAATT 58.555 39.130 9.73 0.00 0.00 2.17
3443 5449 4.271776 TCTTCTCATATGCGCTGTGAATTG 59.728 41.667 9.73 1.43 0.00 2.32
3444 5450 3.795877 TCTCATATGCGCTGTGAATTGA 58.204 40.909 9.73 1.68 0.00 2.57
3445 5451 3.557185 TCTCATATGCGCTGTGAATTGAC 59.443 43.478 9.73 0.00 0.00 3.18
3446 5452 3.534554 TCATATGCGCTGTGAATTGACT 58.465 40.909 9.73 0.00 0.00 3.41
3447 5453 3.310501 TCATATGCGCTGTGAATTGACTG 59.689 43.478 9.73 0.00 0.00 3.51
3448 5454 1.527034 ATGCGCTGTGAATTGACTGT 58.473 45.000 9.73 0.00 0.00 3.55
3449 5455 1.308047 TGCGCTGTGAATTGACTGTT 58.692 45.000 9.73 0.00 0.00 3.16
3450 5456 2.488952 TGCGCTGTGAATTGACTGTTA 58.511 42.857 9.73 0.00 0.00 2.41
3451 5457 2.223144 TGCGCTGTGAATTGACTGTTAC 59.777 45.455 9.73 0.00 0.00 2.50
3452 5458 2.480419 GCGCTGTGAATTGACTGTTACT 59.520 45.455 0.00 0.00 0.00 2.24
3453 5459 3.665323 GCGCTGTGAATTGACTGTTACTG 60.665 47.826 0.00 0.00 0.00 2.74
3454 5460 3.494626 CGCTGTGAATTGACTGTTACTGT 59.505 43.478 4.06 0.00 0.00 3.55
3455 5461 4.609113 CGCTGTGAATTGACTGTTACTGTG 60.609 45.833 0.00 0.00 0.00 3.66
3456 5462 4.511454 GCTGTGAATTGACTGTTACTGTGA 59.489 41.667 0.00 0.00 0.00 3.58
3457 5463 5.007626 GCTGTGAATTGACTGTTACTGTGAA 59.992 40.000 0.00 0.00 0.00 3.18
3458 5464 6.458206 GCTGTGAATTGACTGTTACTGTGAAA 60.458 38.462 0.00 0.00 0.00 2.69
3459 5465 7.015226 TGTGAATTGACTGTTACTGTGAAAG 57.985 36.000 0.00 0.00 0.00 2.62
3460 5466 6.597672 TGTGAATTGACTGTTACTGTGAAAGT 59.402 34.615 0.00 0.00 43.40 2.66
3461 5467 7.120579 TGTGAATTGACTGTTACTGTGAAAGTT 59.879 33.333 0.00 0.00 40.56 2.66
3462 5468 7.429340 GTGAATTGACTGTTACTGTGAAAGTTG 59.571 37.037 0.00 0.00 40.56 3.16
3463 5469 4.875544 TGACTGTTACTGTGAAAGTTGC 57.124 40.909 0.00 0.00 40.56 4.17
3464 5470 4.257731 TGACTGTTACTGTGAAAGTTGCA 58.742 39.130 0.00 0.00 40.56 4.08
3465 5471 4.697828 TGACTGTTACTGTGAAAGTTGCAA 59.302 37.500 0.00 0.00 40.56 4.08
3466 5472 5.356751 TGACTGTTACTGTGAAAGTTGCAAT 59.643 36.000 0.59 0.00 40.56 3.56
3467 5473 6.540551 TGACTGTTACTGTGAAAGTTGCAATA 59.459 34.615 0.59 0.00 40.56 1.90
3468 5474 7.228507 TGACTGTTACTGTGAAAGTTGCAATAT 59.771 33.333 0.59 0.00 40.56 1.28
3469 5475 7.584987 ACTGTTACTGTGAAAGTTGCAATATC 58.415 34.615 0.59 2.17 40.56 1.63
3470 5476 7.445402 ACTGTTACTGTGAAAGTTGCAATATCT 59.555 33.333 0.59 0.00 40.56 1.98
3471 5477 7.584108 TGTTACTGTGAAAGTTGCAATATCTG 58.416 34.615 0.59 0.00 40.56 2.90
3472 5478 7.443879 TGTTACTGTGAAAGTTGCAATATCTGA 59.556 33.333 0.59 0.00 40.56 3.27
3473 5479 6.882610 ACTGTGAAAGTTGCAATATCTGAA 57.117 33.333 0.59 0.00 34.57 3.02
3474 5480 7.275888 ACTGTGAAAGTTGCAATATCTGAAA 57.724 32.000 0.59 0.00 34.57 2.69
3475 5481 7.141363 ACTGTGAAAGTTGCAATATCTGAAAC 58.859 34.615 0.59 0.00 43.29 2.78
3484 5490 8.612233 GTTGCAATATCTGAAACTTTGAGATC 57.388 34.615 0.59 0.00 40.15 2.75
3485 5491 7.926674 TGCAATATCTGAAACTTTGAGATCA 57.073 32.000 6.74 0.00 0.00 2.92
3486 5492 8.515695 TGCAATATCTGAAACTTTGAGATCAT 57.484 30.769 6.74 0.00 0.00 2.45
3487 5493 8.618677 TGCAATATCTGAAACTTTGAGATCATC 58.381 33.333 6.74 0.00 0.00 2.92
3488 5494 7.797587 GCAATATCTGAAACTTTGAGATCATCG 59.202 37.037 6.74 0.00 0.00 3.84
3489 5495 5.731599 ATCTGAAACTTTGAGATCATCGC 57.268 39.130 0.00 0.00 0.00 4.58
3490 5496 3.935203 TCTGAAACTTTGAGATCATCGCC 59.065 43.478 0.00 0.00 0.00 5.54
3491 5497 3.009723 TGAAACTTTGAGATCATCGCCC 58.990 45.455 0.00 0.00 0.00 6.13
3492 5498 3.274288 GAAACTTTGAGATCATCGCCCT 58.726 45.455 0.00 0.00 0.00 5.19
3493 5499 2.611225 ACTTTGAGATCATCGCCCTC 57.389 50.000 0.00 0.00 0.00 4.30
3494 5500 1.833630 ACTTTGAGATCATCGCCCTCA 59.166 47.619 0.00 0.00 35.38 3.86
3495 5501 2.158986 ACTTTGAGATCATCGCCCTCAG 60.159 50.000 0.00 0.00 38.08 3.35
3496 5502 1.780503 TTGAGATCATCGCCCTCAGA 58.219 50.000 0.00 0.00 38.08 3.27
3497 5503 1.780503 TGAGATCATCGCCCTCAGAA 58.219 50.000 0.00 0.00 33.50 3.02
3498 5504 2.110578 TGAGATCATCGCCCTCAGAAA 58.889 47.619 0.00 0.00 33.50 2.52
3499 5505 2.501316 TGAGATCATCGCCCTCAGAAAA 59.499 45.455 0.00 0.00 33.50 2.29
3500 5506 2.869192 GAGATCATCGCCCTCAGAAAAC 59.131 50.000 0.00 0.00 0.00 2.43
3501 5507 2.237143 AGATCATCGCCCTCAGAAAACA 59.763 45.455 0.00 0.00 0.00 2.83
3502 5508 2.099141 TCATCGCCCTCAGAAAACAG 57.901 50.000 0.00 0.00 0.00 3.16
3503 5509 1.347707 TCATCGCCCTCAGAAAACAGT 59.652 47.619 0.00 0.00 0.00 3.55
3504 5510 1.466167 CATCGCCCTCAGAAAACAGTG 59.534 52.381 0.00 0.00 0.00 3.66
3505 5511 0.250295 TCGCCCTCAGAAAACAGTGG 60.250 55.000 0.00 0.00 0.00 4.00
3506 5512 0.250295 CGCCCTCAGAAAACAGTGGA 60.250 55.000 0.00 0.00 0.00 4.02
3507 5513 1.528129 GCCCTCAGAAAACAGTGGAG 58.472 55.000 0.00 0.00 0.00 3.86
3508 5514 1.202818 GCCCTCAGAAAACAGTGGAGT 60.203 52.381 0.00 0.00 0.00 3.85
3509 5515 2.772287 CCCTCAGAAAACAGTGGAGTC 58.228 52.381 0.00 0.00 0.00 3.36
3510 5516 2.370189 CCCTCAGAAAACAGTGGAGTCT 59.630 50.000 0.00 0.00 0.00 3.24
3511 5517 3.556004 CCCTCAGAAAACAGTGGAGTCTC 60.556 52.174 0.00 0.00 0.00 3.36
3512 5518 3.323403 CCTCAGAAAACAGTGGAGTCTCT 59.677 47.826 0.00 0.00 0.00 3.10
3513 5519 4.555262 CTCAGAAAACAGTGGAGTCTCTC 58.445 47.826 0.00 0.00 0.00 3.20
3514 5520 4.219115 TCAGAAAACAGTGGAGTCTCTCT 58.781 43.478 0.00 0.00 0.00 3.10
3515 5521 5.386060 TCAGAAAACAGTGGAGTCTCTCTA 58.614 41.667 0.00 0.00 0.00 2.43
3516 5522 5.241949 TCAGAAAACAGTGGAGTCTCTCTAC 59.758 44.000 0.00 5.36 41.33 2.59
3518 5524 5.475564 AGAAAACAGTGGAGTCTCTCTACTC 59.524 44.000 11.70 0.00 46.69 2.59
3519 5525 4.374689 AACAGTGGAGTCTCTCTACTCA 57.625 45.455 11.70 0.00 46.69 3.41
3520 5526 3.681593 ACAGTGGAGTCTCTCTACTCAC 58.318 50.000 11.70 4.81 46.69 3.51
3521 5527 3.329520 ACAGTGGAGTCTCTCTACTCACT 59.670 47.826 11.70 6.67 46.69 3.41
3522 5528 4.532916 ACAGTGGAGTCTCTCTACTCACTA 59.467 45.833 11.70 0.00 46.69 2.74
3523 5529 5.116180 CAGTGGAGTCTCTCTACTCACTAG 58.884 50.000 11.70 0.00 46.69 2.57
3524 5530 5.027460 AGTGGAGTCTCTCTACTCACTAGA 58.973 45.833 9.39 0.00 46.69 2.43
3525 5531 5.665812 AGTGGAGTCTCTCTACTCACTAGAT 59.334 44.000 9.39 0.00 46.69 1.98
3526 5532 5.989777 GTGGAGTCTCTCTACTCACTAGATC 59.010 48.000 0.00 0.00 46.40 2.75
3527 5533 5.071250 TGGAGTCTCTCTACTCACTAGATCC 59.929 48.000 0.00 0.00 46.40 3.36
3528 5534 5.307196 GGAGTCTCTCTACTCACTAGATCCT 59.693 48.000 0.00 0.00 46.40 3.24
3529 5535 6.174720 AGTCTCTCTACTCACTAGATCCTG 57.825 45.833 0.00 0.00 30.60 3.86
3530 5536 5.903010 AGTCTCTCTACTCACTAGATCCTGA 59.097 44.000 0.00 0.00 30.60 3.86
3531 5537 6.385759 AGTCTCTCTACTCACTAGATCCTGAA 59.614 42.308 0.00 0.00 30.60 3.02
3532 5538 6.706270 GTCTCTCTACTCACTAGATCCTGAAG 59.294 46.154 0.00 0.00 30.60 3.02
3533 5539 6.613679 TCTCTCTACTCACTAGATCCTGAAGA 59.386 42.308 0.00 0.00 30.60 2.87
3534 5540 7.292356 TCTCTCTACTCACTAGATCCTGAAGAT 59.708 40.741 0.00 0.00 38.17 2.40
3535 5541 8.499288 TCTCTACTCACTAGATCCTGAAGATA 57.501 38.462 0.00 0.00 34.42 1.98
3678 5711 5.069648 TGATGTACAAGTTGATGCCCAAAAA 59.930 36.000 10.54 0.00 36.36 1.94
3705 5738 6.213802 AGTTTTAAGGGTAGAAGAGAGAAGGG 59.786 42.308 0.00 0.00 0.00 3.95
3747 5780 3.713858 TTTGCTTCAACTGGTGATGTG 57.286 42.857 9.91 0.00 35.70 3.21
3750 5783 1.808945 GCTTCAACTGGTGATGTGGAG 59.191 52.381 9.91 0.00 35.70 3.86
3804 5837 2.108700 GGCTGCGTTTTTGCATATACG 58.891 47.619 13.93 13.93 45.26 3.06
3853 5887 1.762708 AGGGATGTAAACGGCCATTG 58.237 50.000 2.24 0.00 0.00 2.82
3854 5888 0.102300 GGGATGTAAACGGCCATTGC 59.898 55.000 2.24 0.94 0.00 3.56
3877 5911 5.745227 CCAATATGGTCTACTTGTTCCTGT 58.255 41.667 0.00 0.00 31.35 4.00
3884 5918 4.262463 GGTCTACTTGTTCCTGTGTGATGA 60.262 45.833 0.00 0.00 0.00 2.92
3948 5986 4.379143 GCGGTTTTCGGGCGTGAC 62.379 66.667 0.00 0.00 39.69 3.67
3952 5990 1.571215 GGTTTTCGGGCGTGACGATT 61.571 55.000 10.10 0.00 40.38 3.34
3953 5991 0.179233 GTTTTCGGGCGTGACGATTC 60.179 55.000 10.10 0.00 40.38 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 4.042187 GGATGATCCCCTATAAGTGCAAGT 59.958 45.833 0.00 0.00 0.00 3.16
131 132 0.531974 TGTCACTCTTTCACCCGCAC 60.532 55.000 0.00 0.00 0.00 5.34
152 153 3.270027 CAATTGGACTGGAGCAACGATA 58.730 45.455 0.00 0.00 0.00 2.92
185 186 9.627395 CTCGAAGAAATACTCTAAAGACTTCAA 57.373 33.333 0.00 0.00 34.09 2.69
186 187 7.755822 GCTCGAAGAAATACTCTAAAGACTTCA 59.244 37.037 0.00 0.00 34.09 3.02
216 218 3.194755 TCACCTTCTTCGCAGTAGCAATA 59.805 43.478 0.00 0.00 42.27 1.90
221 223 4.245660 TGAAATCACCTTCTTCGCAGTAG 58.754 43.478 0.00 0.00 0.00 2.57
281 283 7.451731 TGACCTAAGATCCCAGAAAATACAT 57.548 36.000 0.00 0.00 0.00 2.29
292 294 7.878644 GGTATAGTGATTTTGACCTAAGATCCC 59.121 40.741 0.00 0.00 30.80 3.85
314 316 8.978874 TTCATACTCATAACAATTGCAGGTAT 57.021 30.769 5.05 3.80 0.00 2.73
374 380 7.931948 CCGGGACTTACAGAAACTCATATAAAT 59.068 37.037 0.00 0.00 0.00 1.40
390 396 3.259123 TCTTTGGAAGTACCGGGACTTAC 59.741 47.826 32.16 32.16 39.79 2.34
435 441 7.073208 TCTCTGAGTATGAATAACCCCATGTA 58.927 38.462 4.32 0.00 0.00 2.29
496 505 1.803334 TGGCACGGTTGTCATAGAAC 58.197 50.000 0.00 0.00 30.23 3.01
497 506 2.779755 ATGGCACGGTTGTCATAGAA 57.220 45.000 0.00 0.00 46.62 2.10
502 511 0.665835 GTGAAATGGCACGGTTGTCA 59.334 50.000 0.00 0.00 43.00 3.58
504 513 1.398692 AAGTGAAATGGCACGGTTGT 58.601 45.000 0.00 0.00 43.42 3.32
579 590 0.389426 GGCCTCAGTTTAGCGAACGA 60.389 55.000 0.00 2.05 43.20 3.85
582 593 1.003118 ACATGGCCTCAGTTTAGCGAA 59.997 47.619 3.32 0.00 0.00 4.70
624 637 1.680522 ATGGCAGTTCCGAGAGCGAT 61.681 55.000 0.00 0.00 40.82 4.58
627 640 0.391661 TCAATGGCAGTTCCGAGAGC 60.392 55.000 0.00 0.00 37.80 4.09
669 682 6.959671 AAACACAATTTTTCGTTGTCACAT 57.040 29.167 0.00 0.00 37.69 3.21
674 687 8.548721 TGTAACAAAAACACAATTTTTCGTTGT 58.451 25.926 15.24 0.00 40.23 3.32
679 694 9.701355 CCATCTGTAACAAAAACACAATTTTTC 57.299 29.630 0.00 0.00 30.31 2.29
857 2102 1.199624 CTTGCAGTTCCAAAACGTGC 58.800 50.000 0.00 0.00 40.48 5.34
890 2135 0.786581 CGCATCGATCTGCACCATAC 59.213 55.000 11.30 0.00 42.40 2.39
951 2202 1.515521 CCGTTTTCTTGCGGCCTCTT 61.516 55.000 0.00 0.00 41.53 2.85
1023 2281 3.905249 GGCACGATCTTCCCCAAC 58.095 61.111 0.00 0.00 0.00 3.77
1298 2564 2.551721 CCGCTATGGCTTCAGAATGGAT 60.552 50.000 0.00 0.00 34.24 3.41
1450 2773 8.928448 ACTATCCTGTCATGTATATTCAACACT 58.072 33.333 0.00 0.00 0.00 3.55
1551 2874 8.349245 CCATTGTTACTTCAGTGTATGTTGAAA 58.651 33.333 0.00 0.00 33.30 2.69
1554 2877 6.072508 AGCCATTGTTACTTCAGTGTATGTTG 60.073 38.462 0.00 0.00 0.00 3.33
1873 3273 5.127845 TCTCAGATACTGTTTGGAGATCACC 59.872 44.000 1.62 1.62 32.61 4.02
1917 3326 6.660521 TCAATGGTCAGCTATCTCAAAAACAT 59.339 34.615 0.00 0.00 0.00 2.71
1946 3489 2.635915 TCAACCAACGTCCTACCATTCT 59.364 45.455 0.00 0.00 0.00 2.40
2071 3614 6.996282 TCTAGACATAATACTGACGGATCACA 59.004 38.462 0.00 0.00 0.00 3.58
2267 3818 5.721232 TGCACATTGATCAAACATAATGCA 58.279 33.333 13.09 17.07 34.69 3.96
2352 3903 5.123820 GCATAGCTAGTCCAAAATCACACAA 59.876 40.000 0.00 0.00 0.00 3.33
2371 3922 7.912250 CACATAAAGGTAAGCTCTTTTGCATAG 59.088 37.037 4.41 0.00 36.12 2.23
2442 3994 7.083858 CACATAAAATGGTTATATTGCTCGGG 58.916 38.462 0.00 0.00 33.60 5.14
2498 4050 2.489329 CTCCAGACAAATGGCAAACGAT 59.511 45.455 0.00 0.00 40.41 3.73
2698 4250 5.044179 AGTGGGGAATAACCAATTGAGATGA 60.044 40.000 7.12 0.00 40.24 2.92
2699 4251 5.203528 AGTGGGGAATAACCAATTGAGATG 58.796 41.667 7.12 0.00 40.24 2.90
2712 4264 6.411554 GGATTATCTTTTGGGAGTGGGGAATA 60.412 42.308 0.00 0.00 0.00 1.75
2725 4277 7.495055 CAAGAGGGAAATGGGATTATCTTTTG 58.505 38.462 0.00 0.00 0.00 2.44
2734 4286 1.925255 TCAGCAAGAGGGAAATGGGAT 59.075 47.619 0.00 0.00 0.00 3.85
2735 4287 1.371467 TCAGCAAGAGGGAAATGGGA 58.629 50.000 0.00 0.00 0.00 4.37
2906 4458 4.610680 GCAGATAAACCGAACTGACAACAC 60.611 45.833 0.00 0.00 32.90 3.32
3132 5137 2.574006 TGCAACAGAAGGAGCAGAAT 57.426 45.000 0.00 0.00 32.48 2.40
3156 5161 5.582665 GCCCAAACAGAGTTGTAGAGATTAG 59.417 44.000 0.00 0.00 36.23 1.73
3206 5211 2.829120 GAGAGTTTAGACCCTGCACTCT 59.171 50.000 0.00 0.00 45.53 3.24
3416 5422 4.694982 TCACAGCGCATATGAGAAGAAAAA 59.305 37.500 11.47 0.00 0.00 1.94
3417 5423 4.252878 TCACAGCGCATATGAGAAGAAAA 58.747 39.130 11.47 0.00 0.00 2.29
3418 5424 3.860641 TCACAGCGCATATGAGAAGAAA 58.139 40.909 11.47 0.00 0.00 2.52
3419 5425 3.525268 TCACAGCGCATATGAGAAGAA 57.475 42.857 11.47 0.00 0.00 2.52
3420 5426 3.525268 TTCACAGCGCATATGAGAAGA 57.475 42.857 11.47 0.00 0.00 2.87
3421 5427 4.271776 TCAATTCACAGCGCATATGAGAAG 59.728 41.667 11.47 4.00 32.13 2.85
3422 5428 4.034394 GTCAATTCACAGCGCATATGAGAA 59.966 41.667 11.47 10.34 32.94 2.87
3423 5429 3.557185 GTCAATTCACAGCGCATATGAGA 59.443 43.478 11.47 0.00 0.00 3.27
3424 5430 3.558829 AGTCAATTCACAGCGCATATGAG 59.441 43.478 11.47 4.10 0.00 2.90
3425 5431 3.310501 CAGTCAATTCACAGCGCATATGA 59.689 43.478 11.47 7.22 0.00 2.15
3426 5432 3.064408 ACAGTCAATTCACAGCGCATATG 59.936 43.478 11.47 4.46 0.00 1.78
3427 5433 3.273434 ACAGTCAATTCACAGCGCATAT 58.727 40.909 11.47 0.00 0.00 1.78
3428 5434 2.698803 ACAGTCAATTCACAGCGCATA 58.301 42.857 11.47 0.00 0.00 3.14
3429 5435 1.527034 ACAGTCAATTCACAGCGCAT 58.473 45.000 11.47 0.00 0.00 4.73
3430 5436 1.308047 AACAGTCAATTCACAGCGCA 58.692 45.000 11.47 0.00 0.00 6.09
3431 5437 2.480419 AGTAACAGTCAATTCACAGCGC 59.520 45.455 0.00 0.00 0.00 5.92
3432 5438 3.494626 ACAGTAACAGTCAATTCACAGCG 59.505 43.478 0.00 0.00 0.00 5.18
3433 5439 4.511454 TCACAGTAACAGTCAATTCACAGC 59.489 41.667 0.00 0.00 0.00 4.40
3434 5440 6.603237 TTCACAGTAACAGTCAATTCACAG 57.397 37.500 0.00 0.00 0.00 3.66
3435 5441 6.597672 ACTTTCACAGTAACAGTCAATTCACA 59.402 34.615 0.00 0.00 31.97 3.58
3436 5442 7.016361 ACTTTCACAGTAACAGTCAATTCAC 57.984 36.000 0.00 0.00 31.97 3.18
3437 5443 7.471721 CAACTTTCACAGTAACAGTCAATTCA 58.528 34.615 0.00 0.00 32.94 2.57
3438 5444 6.414987 GCAACTTTCACAGTAACAGTCAATTC 59.585 38.462 0.00 0.00 32.94 2.17
3439 5445 6.127758 TGCAACTTTCACAGTAACAGTCAATT 60.128 34.615 0.00 0.00 32.94 2.32
3440 5446 5.356751 TGCAACTTTCACAGTAACAGTCAAT 59.643 36.000 0.00 0.00 32.94 2.57
3441 5447 4.697828 TGCAACTTTCACAGTAACAGTCAA 59.302 37.500 0.00 0.00 32.94 3.18
3442 5448 4.257731 TGCAACTTTCACAGTAACAGTCA 58.742 39.130 0.00 0.00 32.94 3.41
3443 5449 4.875544 TGCAACTTTCACAGTAACAGTC 57.124 40.909 0.00 0.00 32.94 3.51
3444 5450 5.835113 ATTGCAACTTTCACAGTAACAGT 57.165 34.783 0.00 0.00 32.94 3.55
3445 5451 7.747799 CAGATATTGCAACTTTCACAGTAACAG 59.252 37.037 0.00 0.00 32.94 3.16
3446 5452 7.443879 TCAGATATTGCAACTTTCACAGTAACA 59.556 33.333 0.00 0.00 32.94 2.41
3447 5453 7.806690 TCAGATATTGCAACTTTCACAGTAAC 58.193 34.615 0.00 0.00 32.94 2.50
3448 5454 7.977789 TCAGATATTGCAACTTTCACAGTAA 57.022 32.000 0.00 0.00 32.94 2.24
3449 5455 7.977789 TTCAGATATTGCAACTTTCACAGTA 57.022 32.000 0.00 0.00 32.94 2.74
3450 5456 6.882610 TTCAGATATTGCAACTTTCACAGT 57.117 33.333 0.00 0.00 37.30 3.55
3451 5457 7.365741 AGTTTCAGATATTGCAACTTTCACAG 58.634 34.615 0.00 0.00 39.75 3.66
3452 5458 7.275888 AGTTTCAGATATTGCAACTTTCACA 57.724 32.000 0.00 0.00 39.75 3.58
3458 5464 7.750229 TCTCAAAGTTTCAGATATTGCAACT 57.250 32.000 0.00 0.00 43.68 3.16
3459 5465 8.239314 TGATCTCAAAGTTTCAGATATTGCAAC 58.761 33.333 0.00 0.00 33.75 4.17
3460 5466 8.339344 TGATCTCAAAGTTTCAGATATTGCAA 57.661 30.769 1.54 0.00 0.00 4.08
3461 5467 7.926674 TGATCTCAAAGTTTCAGATATTGCA 57.073 32.000 1.54 0.00 0.00 4.08
3462 5468 7.797587 CGATGATCTCAAAGTTTCAGATATTGC 59.202 37.037 1.54 0.00 0.00 3.56
3463 5469 7.797587 GCGATGATCTCAAAGTTTCAGATATTG 59.202 37.037 1.54 2.97 0.00 1.90
3464 5470 7.041508 GGCGATGATCTCAAAGTTTCAGATATT 60.042 37.037 1.54 0.00 0.00 1.28
3465 5471 6.426328 GGCGATGATCTCAAAGTTTCAGATAT 59.574 38.462 1.54 0.00 0.00 1.63
3466 5472 5.755375 GGCGATGATCTCAAAGTTTCAGATA 59.245 40.000 1.54 0.00 0.00 1.98
3467 5473 4.574013 GGCGATGATCTCAAAGTTTCAGAT 59.426 41.667 1.08 1.08 0.00 2.90
3468 5474 3.935203 GGCGATGATCTCAAAGTTTCAGA 59.065 43.478 0.00 0.00 0.00 3.27
3469 5475 3.064545 GGGCGATGATCTCAAAGTTTCAG 59.935 47.826 0.00 0.00 0.00 3.02
3470 5476 3.009723 GGGCGATGATCTCAAAGTTTCA 58.990 45.455 0.00 0.00 0.00 2.69
3471 5477 3.274288 AGGGCGATGATCTCAAAGTTTC 58.726 45.455 0.00 0.00 0.00 2.78
3472 5478 3.274288 GAGGGCGATGATCTCAAAGTTT 58.726 45.455 0.00 0.00 0.00 2.66
3473 5479 2.237143 TGAGGGCGATGATCTCAAAGTT 59.763 45.455 0.00 0.00 34.97 2.66
3474 5480 1.833630 TGAGGGCGATGATCTCAAAGT 59.166 47.619 0.00 0.00 34.97 2.66
3475 5481 2.102084 TCTGAGGGCGATGATCTCAAAG 59.898 50.000 0.00 0.00 37.13 2.77
3476 5482 2.110578 TCTGAGGGCGATGATCTCAAA 58.889 47.619 0.00 0.00 37.13 2.69
3477 5483 1.780503 TCTGAGGGCGATGATCTCAA 58.219 50.000 0.00 0.00 37.13 3.02
3478 5484 1.780503 TTCTGAGGGCGATGATCTCA 58.219 50.000 0.00 0.00 36.30 3.27
3479 5485 2.869192 GTTTTCTGAGGGCGATGATCTC 59.131 50.000 0.00 0.00 0.00 2.75
3480 5486 2.237143 TGTTTTCTGAGGGCGATGATCT 59.763 45.455 0.00 0.00 0.00 2.75
3481 5487 2.611292 CTGTTTTCTGAGGGCGATGATC 59.389 50.000 0.00 0.00 0.00 2.92
3482 5488 2.026822 ACTGTTTTCTGAGGGCGATGAT 60.027 45.455 0.00 0.00 0.00 2.45
3483 5489 1.347707 ACTGTTTTCTGAGGGCGATGA 59.652 47.619 0.00 0.00 0.00 2.92
3484 5490 1.466167 CACTGTTTTCTGAGGGCGATG 59.534 52.381 0.00 0.00 0.00 3.84
3485 5491 1.611673 CCACTGTTTTCTGAGGGCGAT 60.612 52.381 0.00 0.00 0.00 4.58
3486 5492 0.250295 CCACTGTTTTCTGAGGGCGA 60.250 55.000 0.00 0.00 0.00 5.54
3487 5493 0.250295 TCCACTGTTTTCTGAGGGCG 60.250 55.000 0.00 0.00 32.35 6.13
3488 5494 1.202818 ACTCCACTGTTTTCTGAGGGC 60.203 52.381 0.00 0.00 32.35 5.19
3489 5495 2.370189 AGACTCCACTGTTTTCTGAGGG 59.630 50.000 0.00 0.00 32.35 4.30
3490 5496 3.323403 AGAGACTCCACTGTTTTCTGAGG 59.677 47.826 0.00 0.00 0.00 3.86
3491 5497 4.280677 AGAGAGACTCCACTGTTTTCTGAG 59.719 45.833 0.00 0.00 0.00 3.35
3492 5498 4.219115 AGAGAGACTCCACTGTTTTCTGA 58.781 43.478 0.00 0.00 0.00 3.27
3493 5499 4.599047 AGAGAGACTCCACTGTTTTCTG 57.401 45.455 0.00 0.00 0.00 3.02
3494 5500 5.390387 AGTAGAGAGACTCCACTGTTTTCT 58.610 41.667 0.00 0.00 31.79 2.52
3495 5501 5.241949 TGAGTAGAGAGACTCCACTGTTTTC 59.758 44.000 4.79 0.00 44.49 2.29
3496 5502 5.010213 GTGAGTAGAGAGACTCCACTGTTTT 59.990 44.000 4.79 0.00 44.49 2.43
3497 5503 4.521256 GTGAGTAGAGAGACTCCACTGTTT 59.479 45.833 4.79 0.00 44.49 2.83
3498 5504 4.076394 GTGAGTAGAGAGACTCCACTGTT 58.924 47.826 4.79 0.00 44.49 3.16
3499 5505 3.329520 AGTGAGTAGAGAGACTCCACTGT 59.670 47.826 8.46 0.00 44.49 3.55
3500 5506 3.950397 AGTGAGTAGAGAGACTCCACTG 58.050 50.000 8.46 0.00 44.49 3.66
3501 5507 5.027460 TCTAGTGAGTAGAGAGACTCCACT 58.973 45.833 12.50 12.50 44.49 4.00
3502 5508 5.347620 TCTAGTGAGTAGAGAGACTCCAC 57.652 47.826 0.00 0.00 44.49 4.02
3503 5509 5.071250 GGATCTAGTGAGTAGAGAGACTCCA 59.929 48.000 3.15 0.00 44.49 3.86
3504 5510 5.307196 AGGATCTAGTGAGTAGAGAGACTCC 59.693 48.000 3.15 4.76 44.49 3.85
3505 5511 6.041637 TCAGGATCTAGTGAGTAGAGAGACTC 59.958 46.154 3.15 0.00 45.19 3.36
3506 5512 5.903010 TCAGGATCTAGTGAGTAGAGAGACT 59.097 44.000 3.15 0.00 41.28 3.24
3507 5513 6.169557 TCAGGATCTAGTGAGTAGAGAGAC 57.830 45.833 3.15 0.00 41.28 3.36
3508 5514 6.613679 TCTTCAGGATCTAGTGAGTAGAGAGA 59.386 42.308 3.15 0.00 41.28 3.10
3509 5515 6.826668 TCTTCAGGATCTAGTGAGTAGAGAG 58.173 44.000 3.15 0.00 41.28 3.20
3510 5516 6.816616 TCTTCAGGATCTAGTGAGTAGAGA 57.183 41.667 3.15 0.00 41.28 3.10
3511 5517 9.567776 TTTATCTTCAGGATCTAGTGAGTAGAG 57.432 37.037 3.15 0.00 41.28 2.43
3512 5518 9.922477 TTTTATCTTCAGGATCTAGTGAGTAGA 57.078 33.333 0.00 0.00 42.22 2.59
3515 5521 8.986991 ACATTTTATCTTCAGGATCTAGTGAGT 58.013 33.333 0.00 0.00 35.98 3.41
3516 5522 9.829507 AACATTTTATCTTCAGGATCTAGTGAG 57.170 33.333 0.00 0.00 35.98 3.51
3519 5525 9.620259 GGAAACATTTTATCTTCAGGATCTAGT 57.380 33.333 0.00 0.00 35.98 2.57
3520 5526 9.618890 TGGAAACATTTTATCTTCAGGATCTAG 57.381 33.333 0.00 0.00 33.55 2.43
3521 5527 9.618890 CTGGAAACATTTTATCTTCAGGATCTA 57.381 33.333 0.00 0.00 41.51 1.98
3522 5528 8.331740 TCTGGAAACATTTTATCTTCAGGATCT 58.668 33.333 0.00 0.00 41.51 2.75
3523 5529 8.511604 TCTGGAAACATTTTATCTTCAGGATC 57.488 34.615 0.00 0.00 41.51 3.36
3524 5530 8.884124 TTCTGGAAACATTTTATCTTCAGGAT 57.116 30.769 0.00 0.00 41.51 3.24
3525 5531 8.163408 TCTTCTGGAAACATTTTATCTTCAGGA 58.837 33.333 0.00 0.00 41.51 3.86
3526 5532 8.340618 TCTTCTGGAAACATTTTATCTTCAGG 57.659 34.615 0.00 0.00 41.51 3.86
3527 5533 8.457261 CCTCTTCTGGAAACATTTTATCTTCAG 58.543 37.037 0.00 0.00 41.51 3.02
3528 5534 7.944554 ACCTCTTCTGGAAACATTTTATCTTCA 59.055 33.333 0.00 0.00 41.51 3.02
3529 5535 8.341892 ACCTCTTCTGGAAACATTTTATCTTC 57.658 34.615 0.00 0.00 41.51 2.87
3530 5536 7.394641 GGACCTCTTCTGGAAACATTTTATCTT 59.605 37.037 0.00 0.00 41.51 2.40
3531 5537 6.887002 GGACCTCTTCTGGAAACATTTTATCT 59.113 38.462 0.00 0.00 41.51 1.98
3532 5538 6.659242 TGGACCTCTTCTGGAAACATTTTATC 59.341 38.462 0.00 0.00 41.51 1.75
3533 5539 6.552008 TGGACCTCTTCTGGAAACATTTTAT 58.448 36.000 0.00 0.00 41.51 1.40
3534 5540 5.947663 TGGACCTCTTCTGGAAACATTTTA 58.052 37.500 0.00 0.00 41.51 1.52
3535 5541 4.803452 TGGACCTCTTCTGGAAACATTTT 58.197 39.130 0.00 0.00 41.51 1.82
3625 5657 4.081972 GGAGATGCTCTAAGTCTGAACACA 60.082 45.833 0.00 0.00 0.00 3.72
3678 5711 8.983789 CCTTCTCTCTTCTACCCTTAAAACTAT 58.016 37.037 0.00 0.00 0.00 2.12
3705 5738 1.465187 GCCTTCGCGGTGATGTAAAAC 60.465 52.381 6.13 0.00 34.25 2.43
3747 5780 1.682087 GCCATTTAGGACACCACCTCC 60.682 57.143 0.00 0.00 41.22 4.30
3804 5837 2.150397 ACGCTACTCCAACAAGTGAC 57.850 50.000 0.00 0.00 0.00 3.67
3853 5887 4.576463 CAGGAACAAGTAGACCATATTGGC 59.424 45.833 0.00 0.00 42.67 4.52
3854 5888 5.586243 CACAGGAACAAGTAGACCATATTGG 59.414 44.000 0.00 0.00 45.02 3.16
3934 5972 0.179233 GAATCGTCACGCCCGAAAAC 60.179 55.000 0.00 0.00 37.93 2.43


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

AutoCloner maintained by Alex Coulton.