Multiple sequence alignment - TraesCS1A01G041100

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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 TraesCS1A01G041100 chr1A 100.000 5814 0 0 1 5814 22617040 22611227 0.000000e+00 10737.0
1 TraesCS1A01G041100 chr1A 90.210 2574 216 16 2374 4925 13665234 13667793 0.000000e+00 3325.0
2 TraesCS1A01G041100 chr1A 88.137 2571 265 29 2373 4925 13454441 13456989 0.000000e+00 3022.0
3 TraesCS1A01G041100 chr1A 85.588 2817 339 37 2062 4829 12589705 12586907 0.000000e+00 2891.0
4 TraesCS1A01G041100 chr1A 83.671 2817 369 45 2288 5070 13315683 13318442 0.000000e+00 2569.0
5 TraesCS1A01G041100 chr1A 92.047 943 50 5 974 1915 13663273 13664191 0.000000e+00 1303.0
6 TraesCS1A01G041100 chr1A 83.396 1060 135 23 977 2019 12590869 12589834 0.000000e+00 944.0
7 TraesCS1A01G041100 chr1A 82.565 1107 129 37 974 2049 13314093 13315166 0.000000e+00 917.0
8 TraesCS1A01G041100 chr1A 90.530 623 43 10 137 750 12592578 12591963 0.000000e+00 809.0
9 TraesCS1A01G041100 chr1A 79.673 1102 165 22 974 2049 13453253 13454321 0.000000e+00 739.0
10 TraesCS1A01G041100 chr1A 81.542 921 136 17 995 1909 13414043 13414935 0.000000e+00 728.0
11 TraesCS1A01G041100 chr1A 79.702 941 152 23 989 1914 13569521 13570437 1.370000e-180 643.0
12 TraesCS1A01G041100 chr1A 80.749 748 113 16 1177 1915 12571053 12570328 6.580000e-154 555.0
13 TraesCS1A01G041100 chr1A 92.201 359 14 4 2000 2351 13664894 13665245 4.050000e-136 496.0
14 TraesCS1A01G041100 chr1A 82.500 240 18 12 114 352 13567972 13568188 7.690000e-44 189.0
15 TraesCS1A01G041100 chr1A 77.778 315 53 15 4758 5065 13342696 13343000 1.660000e-40 178.0
16 TraesCS1A01G041100 chr1A 74.923 323 58 17 4853 5166 12586837 12586529 6.120000e-25 126.0
17 TraesCS1A01G041100 chr1A 83.962 106 8 4 711 808 12572635 12572531 6.200000e-15 93.5
18 TraesCS1A01G041100 chr1A 94.000 50 3 0 708 757 13453037 13453086 6.250000e-10 76.8
19 TraesCS1A01G041100 chr1A 84.416 77 9 3 112 185 13346447 13346523 8.080000e-09 73.1
20 TraesCS1A01G041100 chr1D 91.724 3178 240 11 2656 5814 11495882 11499055 0.000000e+00 4390.0
21 TraesCS1A01G041100 chr1D 86.810 2646 312 24 2373 4988 11178203 11180841 0.000000e+00 2918.0
22 TraesCS1A01G041100 chr1D 88.636 2244 239 13 2520 4754 11455520 11457756 0.000000e+00 2717.0
23 TraesCS1A01G041100 chr1D 86.694 2465 290 23 2553 4988 11319548 11322003 0.000000e+00 2700.0
24 TraesCS1A01G041100 chr1D 91.568 925 50 9 974 1897 11453900 11454797 0.000000e+00 1251.0
25 TraesCS1A01G041100 chr1D 94.671 638 17 6 344 970 11452467 11453098 0.000000e+00 974.0
26 TraesCS1A01G041100 chr1D 80.474 1096 159 28 974 2049 11177023 11178083 0.000000e+00 787.0
27 TraesCS1A01G041100 chr1D 80.740 919 148 16 997 1909 11288059 11288954 0.000000e+00 689.0
28 TraesCS1A01G041100 chr1D 79.766 939 154 22 989 1915 11273102 11274016 0.000000e+00 649.0
29 TraesCS1A01G041100 chr1D 100.000 36 0 0 280 315 11452424 11452459 3.760000e-07 67.6
30 TraesCS1A01G041100 chr1B 85.106 3075 353 43 2055 5055 16519276 16522319 0.000000e+00 3044.0
31 TraesCS1A01G041100 chr1B 88.457 2521 258 20 2304 4796 16857717 16860232 0.000000e+00 3013.0
32 TraesCS1A01G041100 chr1B 84.962 2866 366 38 2147 4979 16891382 16894215 0.000000e+00 2844.0
33 TraesCS1A01G041100 chr1B 86.455 2584 307 28 2523 5079 17017345 17014778 0.000000e+00 2793.0
34 TraesCS1A01G041100 chr1B 80.291 1101 162 22 974 2049 16530003 16531073 0.000000e+00 780.0
35 TraesCS1A01G041100 chr1B 80.094 1065 154 32 998 2036 16856397 16857429 0.000000e+00 739.0
36 TraesCS1A01G041100 chr1B 79.206 1058 151 30 1000 2036 16925811 16926820 0.000000e+00 671.0
37 TraesCS1A01G041100 chr1B 80.149 937 150 19 989 1915 17018945 17018035 0.000000e+00 667.0
38 TraesCS1A01G041100 chr1B 81.074 782 127 13 974 1740 16518220 16518995 6.440000e-169 604.0
39 TraesCS1A01G041100 chr1B 82.615 719 80 15 2055 2730 16546052 16546768 1.390000e-165 593.0
40 TraesCS1A01G041100 chr1B 81.560 705 87 29 2055 2728 17340015 17340707 5.120000e-150 542.0
41 TraesCS1A01G041100 chr1B 83.879 428 57 9 996 1423 16950455 16950870 1.170000e-106 398.0
42 TraesCS1A01G041100 chr1B 82.297 209 16 8 114 318 16529244 16529435 1.680000e-35 161.0
43 TraesCS1A01G041100 chr1B 79.518 249 33 12 4680 4911 17039371 17039124 1.680000e-35 161.0
44 TraesCS1A01G041100 chr1B 97.101 69 2 0 439 507 35062947 35063015 3.680000e-22 117.0
45 TraesCS1A01G041100 chr1B 81.818 99 13 4 5677 5771 16524084 16524181 1.740000e-10 78.7
46 TraesCS1A01G041100 chr1B 95.349 43 1 1 768 810 16529847 16529888 3.760000e-07 67.6
47 TraesCS1A01G041100 chrUn 81.844 705 85 29 2055 2728 317984083 317983391 2.370000e-153 553.0
48 TraesCS1A01G041100 chrUn 79.392 296 28 18 2055 2322 317004283 317003993 1.660000e-40 178.0
49 TraesCS1A01G041100 chrUn 79.392 296 28 18 2055 2322 346218216 346218506 1.660000e-40 178.0


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 TraesCS1A01G041100 chr1A 22611227 22617040 5813 True 10737.000000 10737 100.00000 1 5814 1 chr1A.!!$R1 5813
1 TraesCS1A01G041100 chr1A 13314093 13318442 4349 False 1743.000000 2569 83.11800 974 5070 2 chr1A.!!$F2 4096
2 TraesCS1A01G041100 chr1A 13663273 13667793 4520 False 1708.000000 3325 91.48600 974 4925 3 chr1A.!!$F6 3951
3 TraesCS1A01G041100 chr1A 13453037 13456989 3952 False 1279.266667 3022 87.27000 708 4925 3 chr1A.!!$F4 4217
4 TraesCS1A01G041100 chr1A 12586529 12592578 6049 True 1192.500000 2891 83.60925 137 5166 4 chr1A.!!$R3 5029
5 TraesCS1A01G041100 chr1A 13414043 13414935 892 False 728.000000 728 81.54200 995 1909 1 chr1A.!!$F1 914
6 TraesCS1A01G041100 chr1A 13567972 13570437 2465 False 416.000000 643 81.10100 114 1914 2 chr1A.!!$F5 1800
7 TraesCS1A01G041100 chr1A 12570328 12572635 2307 True 324.250000 555 82.35550 711 1915 2 chr1A.!!$R2 1204
8 TraesCS1A01G041100 chr1D 11495882 11499055 3173 False 4390.000000 4390 91.72400 2656 5814 1 chr1D.!!$F4 3158
9 TraesCS1A01G041100 chr1D 11319548 11322003 2455 False 2700.000000 2700 86.69400 2553 4988 1 chr1D.!!$F3 2435
10 TraesCS1A01G041100 chr1D 11177023 11180841 3818 False 1852.500000 2918 83.64200 974 4988 2 chr1D.!!$F5 4014
11 TraesCS1A01G041100 chr1D 11452424 11457756 5332 False 1252.400000 2717 93.71875 280 4754 4 chr1D.!!$F6 4474
12 TraesCS1A01G041100 chr1D 11288059 11288954 895 False 689.000000 689 80.74000 997 1909 1 chr1D.!!$F2 912
13 TraesCS1A01G041100 chr1D 11273102 11274016 914 False 649.000000 649 79.76600 989 1915 1 chr1D.!!$F1 926
14 TraesCS1A01G041100 chr1B 16891382 16894215 2833 False 2844.000000 2844 84.96200 2147 4979 1 chr1B.!!$F2 2832
15 TraesCS1A01G041100 chr1B 16856397 16860232 3835 False 1876.000000 3013 84.27550 998 4796 2 chr1B.!!$F9 3798
16 TraesCS1A01G041100 chr1B 17014778 17018945 4167 True 1730.000000 2793 83.30200 989 5079 2 chr1B.!!$R2 4090
17 TraesCS1A01G041100 chr1B 16518220 16524181 5961 False 1242.233333 3044 82.66600 974 5771 3 chr1B.!!$F7 4797
18 TraesCS1A01G041100 chr1B 16925811 16926820 1009 False 671.000000 671 79.20600 1000 2036 1 chr1B.!!$F3 1036
19 TraesCS1A01G041100 chr1B 16546052 16546768 716 False 593.000000 593 82.61500 2055 2730 1 chr1B.!!$F1 675
20 TraesCS1A01G041100 chr1B 17340015 17340707 692 False 542.000000 542 81.56000 2055 2728 1 chr1B.!!$F5 673
21 TraesCS1A01G041100 chr1B 16529244 16531073 1829 False 336.200000 780 85.97900 114 2049 3 chr1B.!!$F8 1935
22 TraesCS1A01G041100 chrUn 317983391 317984083 692 True 553.000000 553 81.84400 2055 2728 1 chrUn.!!$R2 673

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
211 214 0.256752 TCAGAGGCATGTTCATGGGG 59.743 55.0 13.55 0.0 0.00 4.96 F
212 215 0.754217 CAGAGGCATGTTCATGGGGG 60.754 60.0 13.55 0.0 0.00 5.40 F
383 386 0.908198 GGTGAGCTCATCCAACCTCT 59.092 55.0 21.47 0.0 0.00 3.69 F
1617 4780 0.116143 TTGGATTTGGAGGGTTGGGG 59.884 55.0 0.00 0.0 0.00 4.96 F
2903 7227 0.981183 TCGGCTAATCACCACAACCT 59.019 50.0 0.00 0.0 0.00 3.50 F
4076 8409 0.183492 ACAAGAGCTTGGCAACCTCA 59.817 50.0 21.28 0.0 44.45 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1555 4715 0.440758 TTTGTAAAGGCATCGTCGCG 59.559 50.000 0.00 0.0 0.00 5.87 R
1617 4780 2.091852 CTCTGGCAAGAGTGGTCTTC 57.908 55.000 10.25 0.0 44.35 2.87 R
1972 5181 2.620115 CTGCATATGCCAGTAAAGGTGG 59.380 50.000 24.54 0.0 41.18 4.61 R
3122 7446 0.467290 GGTTTCACCTCTTGGCCACA 60.467 55.000 3.88 0.0 34.73 4.17 R
4355 8691 1.068194 CACCTCCTTCACTGACGAGAC 60.068 57.143 0.00 0.0 0.00 3.36 R
5385 10463 4.771903 TGCAACTTTACCAACTACACAGA 58.228 39.130 0.00 0.0 0.00 3.41 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
24 25 4.957759 AGTGTCATTAACCGGTAAATGC 57.042 40.909 8.00 0.00 33.91 3.56
25 26 4.328536 AGTGTCATTAACCGGTAAATGCA 58.671 39.130 8.00 0.00 33.91 3.96
26 27 4.947388 AGTGTCATTAACCGGTAAATGCAT 59.053 37.500 8.00 0.00 33.91 3.96
27 28 5.034152 GTGTCATTAACCGGTAAATGCATG 58.966 41.667 8.00 4.41 33.91 4.06
28 29 4.944317 TGTCATTAACCGGTAAATGCATGA 59.056 37.500 8.00 6.84 33.91 3.07
29 30 5.416013 TGTCATTAACCGGTAAATGCATGAA 59.584 36.000 8.00 0.00 33.91 2.57
30 31 5.971202 GTCATTAACCGGTAAATGCATGAAG 59.029 40.000 8.00 0.00 33.91 3.02
31 32 2.939460 AACCGGTAAATGCATGAAGC 57.061 45.000 8.00 0.00 45.96 3.86
32 33 1.102978 ACCGGTAAATGCATGAAGCC 58.897 50.000 4.49 0.00 44.83 4.35
33 34 1.102154 CCGGTAAATGCATGAAGCCA 58.898 50.000 0.00 0.00 44.83 4.75
34 35 1.066002 CCGGTAAATGCATGAAGCCAG 59.934 52.381 0.00 0.00 44.83 4.85
35 36 1.066002 CGGTAAATGCATGAAGCCAGG 59.934 52.381 0.00 0.00 44.83 4.45
42 43 3.575506 CATGAAGCCAGGCAGGTAA 57.424 52.632 15.80 0.00 40.61 2.85
43 44 1.838112 CATGAAGCCAGGCAGGTAAA 58.162 50.000 15.80 0.00 40.61 2.01
44 45 2.381911 CATGAAGCCAGGCAGGTAAAT 58.618 47.619 15.80 0.00 40.61 1.40
45 46 2.603075 TGAAGCCAGGCAGGTAAATT 57.397 45.000 15.80 0.00 40.61 1.82
46 47 2.446435 TGAAGCCAGGCAGGTAAATTC 58.554 47.619 15.80 7.30 40.61 2.17
47 48 2.224992 TGAAGCCAGGCAGGTAAATTCA 60.225 45.455 15.80 10.06 40.61 2.57
48 49 2.134789 AGCCAGGCAGGTAAATTCAG 57.865 50.000 15.80 0.00 40.61 3.02
49 50 1.635487 AGCCAGGCAGGTAAATTCAGA 59.365 47.619 15.80 0.00 40.61 3.27
50 51 2.019984 GCCAGGCAGGTAAATTCAGAG 58.980 52.381 6.55 0.00 40.61 3.35
51 52 2.356125 GCCAGGCAGGTAAATTCAGAGA 60.356 50.000 6.55 0.00 40.61 3.10
52 53 3.873801 GCCAGGCAGGTAAATTCAGAGAA 60.874 47.826 6.55 0.00 40.61 2.87
53 54 4.335416 CCAGGCAGGTAAATTCAGAGAAA 58.665 43.478 0.00 0.00 0.00 2.52
54 55 4.952335 CCAGGCAGGTAAATTCAGAGAAAT 59.048 41.667 0.00 0.00 0.00 2.17
55 56 5.163581 CCAGGCAGGTAAATTCAGAGAAATG 60.164 44.000 0.00 0.00 0.00 2.32
56 57 5.649395 CAGGCAGGTAAATTCAGAGAAATGA 59.351 40.000 0.00 0.00 0.00 2.57
57 58 5.884792 AGGCAGGTAAATTCAGAGAAATGAG 59.115 40.000 0.00 0.00 0.00 2.90
58 59 5.882557 GGCAGGTAAATTCAGAGAAATGAGA 59.117 40.000 0.00 0.00 0.00 3.27
59 60 6.038050 GGCAGGTAAATTCAGAGAAATGAGAG 59.962 42.308 0.00 0.00 0.00 3.20
60 61 6.820656 GCAGGTAAATTCAGAGAAATGAGAGA 59.179 38.462 0.00 0.00 0.00 3.10
61 62 7.335422 GCAGGTAAATTCAGAGAAATGAGAGAA 59.665 37.037 0.00 0.00 0.00 2.87
62 63 8.881743 CAGGTAAATTCAGAGAAATGAGAGAAG 58.118 37.037 0.00 0.00 0.00 2.85
63 64 8.820831 AGGTAAATTCAGAGAAATGAGAGAAGA 58.179 33.333 0.00 0.00 0.00 2.87
64 65 9.097257 GGTAAATTCAGAGAAATGAGAGAAGAG 57.903 37.037 0.00 0.00 0.00 2.85
65 66 9.651913 GTAAATTCAGAGAAATGAGAGAAGAGT 57.348 33.333 0.00 0.00 0.00 3.24
67 68 9.874205 AAATTCAGAGAAATGAGAGAAGAGTAG 57.126 33.333 0.00 0.00 0.00 2.57
68 69 8.593945 ATTCAGAGAAATGAGAGAAGAGTAGT 57.406 34.615 0.00 0.00 0.00 2.73
69 70 9.693739 ATTCAGAGAAATGAGAGAAGAGTAGTA 57.306 33.333 0.00 0.00 0.00 1.82
70 71 9.521841 TTCAGAGAAATGAGAGAAGAGTAGTAA 57.478 33.333 0.00 0.00 0.00 2.24
71 72 9.521841 TCAGAGAAATGAGAGAAGAGTAGTAAA 57.478 33.333 0.00 0.00 0.00 2.01
77 78 9.868277 AAATGAGAGAAGAGTAGTAAATGACTG 57.132 33.333 0.00 0.00 39.39 3.51
78 79 8.815565 ATGAGAGAAGAGTAGTAAATGACTGA 57.184 34.615 0.00 0.00 39.39 3.41
79 80 8.046294 TGAGAGAAGAGTAGTAAATGACTGAC 57.954 38.462 0.00 0.00 39.39 3.51
80 81 7.121463 TGAGAGAAGAGTAGTAAATGACTGACC 59.879 40.741 0.00 0.00 39.39 4.02
81 82 6.948886 AGAGAAGAGTAGTAAATGACTGACCA 59.051 38.462 0.00 0.00 39.39 4.02
82 83 7.617723 AGAGAAGAGTAGTAAATGACTGACCAT 59.382 37.037 0.00 0.00 39.39 3.55
83 84 8.824756 AGAAGAGTAGTAAATGACTGACCATA 57.175 34.615 0.00 0.00 39.39 2.74
84 85 9.427821 AGAAGAGTAGTAAATGACTGACCATAT 57.572 33.333 0.00 0.00 39.39 1.78
87 88 9.642343 AGAGTAGTAAATGACTGACCATATACA 57.358 33.333 0.00 0.00 39.39 2.29
144 145 5.639931 GTCTTTGAGTCACTTTCCCTGTATC 59.360 44.000 0.00 0.00 0.00 2.24
202 205 5.215903 CAGTACGTACTATTCAGAGGCATG 58.784 45.833 26.95 8.01 34.13 4.06
205 208 4.683832 ACGTACTATTCAGAGGCATGTTC 58.316 43.478 0.00 0.00 0.00 3.18
206 209 4.159693 ACGTACTATTCAGAGGCATGTTCA 59.840 41.667 0.00 0.00 0.00 3.18
207 210 5.163405 ACGTACTATTCAGAGGCATGTTCAT 60.163 40.000 0.00 0.00 0.00 2.57
210 213 2.133281 TTCAGAGGCATGTTCATGGG 57.867 50.000 13.55 0.00 0.00 4.00
211 214 0.256752 TCAGAGGCATGTTCATGGGG 59.743 55.000 13.55 0.00 0.00 4.96
212 215 0.754217 CAGAGGCATGTTCATGGGGG 60.754 60.000 13.55 0.00 0.00 5.40
213 216 1.217057 AGAGGCATGTTCATGGGGGT 61.217 55.000 13.55 0.00 0.00 4.95
223 226 2.698274 GTTCATGGGGGTCAAAAGTGTT 59.302 45.455 0.00 0.00 0.00 3.32
258 261 4.058817 CTGTTGTTGGTCTTCCTCTGTAC 58.941 47.826 0.00 0.00 34.23 2.90
329 332 1.556911 GTCCTCCTCTTCTCCATTGCA 59.443 52.381 0.00 0.00 0.00 4.08
352 355 1.123077 CCTGGAATGAGGTCGATCCA 58.877 55.000 3.31 3.31 39.57 3.41
383 386 0.908198 GGTGAGCTCATCCAACCTCT 59.092 55.000 21.47 0.00 0.00 3.69
388 391 1.554160 AGCTCATCCAACCTCTGAGTG 59.446 52.381 3.66 0.00 38.88 3.51
389 392 1.552337 GCTCATCCAACCTCTGAGTGA 59.448 52.381 3.66 0.00 38.88 3.41
390 393 2.027745 GCTCATCCAACCTCTGAGTGAA 60.028 50.000 3.66 0.00 38.88 3.18
391 394 3.859443 CTCATCCAACCTCTGAGTGAAG 58.141 50.000 3.66 0.00 33.34 3.02
393 396 1.423584 TCCAACCTCTGAGTGAAGCA 58.576 50.000 3.66 0.00 0.00 3.91
394 397 1.768275 TCCAACCTCTGAGTGAAGCAA 59.232 47.619 3.66 0.00 0.00 3.91
395 398 2.149578 CCAACCTCTGAGTGAAGCAAG 58.850 52.381 3.66 0.00 0.00 4.01
396 399 1.534595 CAACCTCTGAGTGAAGCAAGC 59.465 52.381 3.66 0.00 0.00 4.01
398 401 1.141657 ACCTCTGAGTGAAGCAAGCAA 59.858 47.619 3.66 0.00 0.00 3.91
399 402 1.805345 CCTCTGAGTGAAGCAAGCAAG 59.195 52.381 3.66 0.00 0.00 4.01
970 2098 2.027192 GGGTATCAGTGGAACAGCAAGA 60.027 50.000 0.00 0.00 41.80 3.02
971 2099 3.265791 GGTATCAGTGGAACAGCAAGAG 58.734 50.000 0.00 0.00 41.80 2.85
972 2100 1.818642 ATCAGTGGAACAGCAAGAGC 58.181 50.000 0.00 0.00 41.80 4.09
1087 3041 3.482232 AAGCTGCACAAGGGCGTCT 62.482 57.895 1.02 0.00 36.28 4.18
1442 4596 5.581085 ACAAGTTCGATGGTATTGCTTCTAC 59.419 40.000 0.00 0.00 0.00 2.59
1471 4631 5.821470 ACTGAAGTAATCGATCCTCGTCTTA 59.179 40.000 0.00 0.00 41.35 2.10
1515 4675 3.323115 CAGAGCTAGTTGGCATCTATGGA 59.677 47.826 5.78 0.00 34.17 3.41
1554 4714 2.550830 TGAGTTTGCTCTCCTTGGAC 57.449 50.000 0.00 0.00 42.13 4.02
1555 4715 1.072331 TGAGTTTGCTCTCCTTGGACC 59.928 52.381 0.00 0.00 42.13 4.46
1568 4731 4.814294 GGACCGCGACGATGCCTT 62.814 66.667 8.23 0.00 0.00 4.35
1572 4735 1.807981 CCGCGACGATGCCTTTACA 60.808 57.895 8.23 0.00 0.00 2.41
1586 4749 6.377327 TGCCTTTACAAAGAAACTGAAGAG 57.623 37.500 3.25 0.00 38.28 2.85
1617 4780 0.116143 TTGGATTTGGAGGGTTGGGG 59.884 55.000 0.00 0.00 0.00 4.96
1759 4924 7.121759 TGGATCTCCAAAAATCAAACTCAGATC 59.878 37.037 0.00 0.00 44.35 2.75
1760 4925 6.824305 TCTCCAAAAATCAAACTCAGATCC 57.176 37.500 0.00 0.00 0.00 3.36
1761 4926 6.546484 TCTCCAAAAATCAAACTCAGATCCT 58.454 36.000 0.00 0.00 0.00 3.24
1768 4933 2.373169 TCAAACTCAGATCCTGGCAACT 59.627 45.455 0.00 0.00 37.61 3.16
1771 4936 3.107402 ACTCAGATCCTGGCAACTCTA 57.893 47.619 0.00 0.00 37.61 2.43
1773 4938 3.196685 ACTCAGATCCTGGCAACTCTAAC 59.803 47.826 0.00 0.00 37.61 2.34
1799 4964 5.763698 CAGATCTTGTGATACTGGATGCAAT 59.236 40.000 0.00 0.00 32.19 3.56
1864 5029 5.653769 AGGTATGCATCACTTACAGCAAAAT 59.346 36.000 0.19 0.00 40.76 1.82
1868 5035 4.983538 TGCATCACTTACAGCAAAATTGTG 59.016 37.500 0.00 0.00 33.48 3.33
1916 5086 9.192642 TCCTATGCTAGTTGTACAAGTAATACA 57.807 33.333 20.77 18.45 0.00 2.29
1967 5176 7.092891 GGGAGGGTTCAGAATAATTTTTCCATT 60.093 37.037 5.17 0.00 0.00 3.16
1968 5177 7.765819 GGAGGGTTCAGAATAATTTTTCCATTG 59.234 37.037 5.17 0.00 0.00 2.82
1972 5181 7.278646 GGTTCAGAATAATTTTTCCATTGAGGC 59.721 37.037 5.17 1.86 37.29 4.70
1984 5194 2.094675 CATTGAGGCCACCTTTACTGG 58.905 52.381 5.01 0.00 31.76 4.00
1996 5206 3.947834 ACCTTTACTGGCATATGCAGTTC 59.052 43.478 28.07 11.95 44.36 3.01
1997 5208 3.947196 CCTTTACTGGCATATGCAGTTCA 59.053 43.478 28.07 15.77 44.36 3.18
2023 5824 8.867097 ACACTAAACTGTAAATCTTCTAGGTGA 58.133 33.333 0.00 0.00 0.00 4.02
2073 6002 7.493367 AGACTATGTTACTATGGCTGAAACTC 58.507 38.462 0.00 0.00 0.00 3.01
2085 6014 2.613691 CTGAAACTCATTGGCATTGGC 58.386 47.619 9.31 2.73 40.13 4.52
2157 6129 7.548196 TGACAACTGTAACAAGTAAGGAAAG 57.452 36.000 0.00 0.00 0.00 2.62
2256 6316 5.046014 ACATATTTTAAAGGGTGGCAATGCA 60.046 36.000 7.79 0.00 0.00 3.96
2347 6561 8.988060 TGTCCCTTCACTAACTCATTATATTCA 58.012 33.333 0.00 0.00 0.00 2.57
2466 6685 5.480073 GCTGCCATATATTAAATTGGTGGGA 59.520 40.000 0.00 0.00 0.00 4.37
2483 6702 7.111136 TGGTGGGACAATCTATACTAGGATA 57.889 40.000 0.00 0.00 44.16 2.59
2698 7012 4.213482 GCCTGTTACGAGTTTGTTTCTGAT 59.787 41.667 0.00 0.00 0.00 2.90
2730 7045 5.510861 CCTTATAGATGGTTAGTTCCACCCG 60.511 48.000 0.00 0.00 40.51 5.28
2903 7227 0.981183 TCGGCTAATCACCACAACCT 59.019 50.000 0.00 0.00 0.00 3.50
2929 7253 4.621068 TTTCGATGTCTCCAAATCATGC 57.379 40.909 0.00 0.00 0.00 4.06
3271 7595 4.151335 CCGTCTCATCTGAAAACTTGTCTG 59.849 45.833 0.00 0.00 0.00 3.51
3766 8099 2.087646 CTGGGAAAAAGTAGCAGCCTC 58.912 52.381 0.00 0.00 0.00 4.70
3822 8155 2.292323 ACCTGAGGTACCTTGGTCTAGG 60.292 54.545 25.83 21.37 41.31 3.02
3846 8179 6.382456 AGGTACTGGAATCAGGGAACTCCT 62.382 50.000 0.00 0.00 43.12 3.69
4076 8409 0.183492 ACAAGAGCTTGGCAACCTCA 59.817 50.000 21.28 0.00 44.45 3.86
4078 8411 0.475906 AAGAGCTTGGCAACCTCACT 59.524 50.000 21.28 7.99 0.00 3.41
4153 8486 2.431057 AGGTTTCGTGAAGTCTCTGTGT 59.569 45.455 0.00 0.00 0.00 3.72
4163 8496 5.864474 GTGAAGTCTCTGTGTAACCTACATG 59.136 44.000 0.00 0.00 41.34 3.21
4193 8529 8.275632 TCGAAAGTCTATTTATTGATCGCAATG 58.724 33.333 0.00 0.00 44.18 2.82
4208 8544 1.401539 GCAATGCCGGTGAAACTTCTC 60.402 52.381 1.90 0.00 36.74 2.87
4213 8549 2.224523 TGCCGGTGAAACTTCTCTTGAT 60.225 45.455 1.90 0.00 36.74 2.57
4261 8597 1.137872 GTGCCTCCTGTACATCTCCAG 59.862 57.143 0.00 0.00 0.00 3.86
4276 8612 5.829924 ACATCTCCAGAAATTTGTGTCTTGT 59.170 36.000 13.69 8.88 0.00 3.16
4291 8627 1.912731 TCTTGTATGCCCAGCCAACTA 59.087 47.619 0.00 0.00 0.00 2.24
4372 8708 1.157585 TCGTCTCGTCAGTGAAGGAG 58.842 55.000 13.70 13.70 33.48 3.69
4422 8759 2.281484 GTTGCTGTCCCTTCGCCA 60.281 61.111 0.00 0.00 0.00 5.69
4756 9102 2.045045 CTCAAAGCCCATCCCGCA 60.045 61.111 0.00 0.00 0.00 5.69
4806 9163 1.467734 AGAAGGTACTGACGCTACACG 59.532 52.381 0.00 0.00 45.20 4.49
5112 9535 4.764823 ACGGAAATTATGAACAGGCAAAGA 59.235 37.500 0.00 0.00 0.00 2.52
5114 9537 5.973565 CGGAAATTATGAACAGGCAAAGATC 59.026 40.000 0.00 0.00 0.00 2.75
5782 11475 8.298854 TCATGTTTGTAATGACTGAAATTCTGG 58.701 33.333 4.93 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.583457 GCATTTACCGGTTAATGACACTAGT 59.417 40.000 37.56 7.39 32.98 2.57
1 2 5.583061 TGCATTTACCGGTTAATGACACTAG 59.417 40.000 37.56 18.10 32.98 2.57
2 3 5.489249 TGCATTTACCGGTTAATGACACTA 58.511 37.500 37.56 20.37 32.98 2.74
3 4 4.328536 TGCATTTACCGGTTAATGACACT 58.671 39.130 37.56 9.44 32.98 3.55
4 5 4.688511 TGCATTTACCGGTTAATGACAC 57.311 40.909 37.56 24.85 32.98 3.67
5 6 4.944317 TCATGCATTTACCGGTTAATGACA 59.056 37.500 37.56 32.52 32.98 3.58
6 7 5.493133 TCATGCATTTACCGGTTAATGAC 57.507 39.130 37.56 29.37 32.98 3.06
7 8 5.449862 GCTTCATGCATTTACCGGTTAATGA 60.450 40.000 37.56 26.05 42.31 2.57
8 9 4.739716 GCTTCATGCATTTACCGGTTAATG 59.260 41.667 32.13 32.13 42.31 1.90
9 10 4.202111 GGCTTCATGCATTTACCGGTTAAT 60.202 41.667 15.04 13.79 45.15 1.40
10 11 3.129638 GGCTTCATGCATTTACCGGTTAA 59.870 43.478 15.04 11.46 45.15 2.01
11 12 2.685897 GGCTTCATGCATTTACCGGTTA 59.314 45.455 15.04 0.00 45.15 2.85
12 13 1.476488 GGCTTCATGCATTTACCGGTT 59.524 47.619 15.04 0.00 45.15 4.44
13 14 1.102978 GGCTTCATGCATTTACCGGT 58.897 50.000 13.98 13.98 45.15 5.28
14 15 1.066002 CTGGCTTCATGCATTTACCGG 59.934 52.381 0.00 0.00 45.15 5.28
15 16 1.066002 CCTGGCTTCATGCATTTACCG 59.934 52.381 0.00 0.00 45.15 4.02
16 17 1.202452 GCCTGGCTTCATGCATTTACC 60.202 52.381 12.43 0.00 45.15 2.85
17 18 1.477700 TGCCTGGCTTCATGCATTTAC 59.522 47.619 21.03 0.00 45.15 2.01
18 19 1.752498 CTGCCTGGCTTCATGCATTTA 59.248 47.619 21.03 0.00 45.15 1.40
19 20 0.535335 CTGCCTGGCTTCATGCATTT 59.465 50.000 21.03 0.00 45.15 2.32
20 21 1.327690 CCTGCCTGGCTTCATGCATT 61.328 55.000 21.03 0.00 45.15 3.56
21 22 1.756950 CCTGCCTGGCTTCATGCAT 60.757 57.895 21.03 0.00 45.15 3.96
22 23 1.851065 TACCTGCCTGGCTTCATGCA 61.851 55.000 21.03 0.00 45.15 3.96
23 24 0.680921 TTACCTGCCTGGCTTCATGC 60.681 55.000 21.03 0.00 40.22 4.06
24 25 1.838112 TTTACCTGCCTGGCTTCATG 58.162 50.000 21.03 6.12 40.22 3.07
25 26 2.834638 ATTTACCTGCCTGGCTTCAT 57.165 45.000 21.03 5.43 40.22 2.57
26 27 2.224992 TGAATTTACCTGCCTGGCTTCA 60.225 45.455 21.03 15.70 40.22 3.02
27 28 2.424956 CTGAATTTACCTGCCTGGCTTC 59.575 50.000 21.03 13.27 40.22 3.86
28 29 2.041620 TCTGAATTTACCTGCCTGGCTT 59.958 45.455 21.03 3.25 40.22 4.35
29 30 1.635487 TCTGAATTTACCTGCCTGGCT 59.365 47.619 21.03 1.67 40.22 4.75
30 31 2.019984 CTCTGAATTTACCTGCCTGGC 58.980 52.381 12.87 12.87 40.22 4.85
31 32 3.634397 TCTCTGAATTTACCTGCCTGG 57.366 47.619 0.00 0.00 42.93 4.45
32 33 5.649395 TCATTTCTCTGAATTTACCTGCCTG 59.351 40.000 0.00 0.00 0.00 4.85
33 34 5.819991 TCATTTCTCTGAATTTACCTGCCT 58.180 37.500 0.00 0.00 0.00 4.75
34 35 5.882557 TCTCATTTCTCTGAATTTACCTGCC 59.117 40.000 0.00 0.00 0.00 4.85
35 36 6.820656 TCTCTCATTTCTCTGAATTTACCTGC 59.179 38.462 0.00 0.00 0.00 4.85
36 37 8.783833 TTCTCTCATTTCTCTGAATTTACCTG 57.216 34.615 0.00 0.00 0.00 4.00
37 38 8.820831 TCTTCTCTCATTTCTCTGAATTTACCT 58.179 33.333 0.00 0.00 0.00 3.08
38 39 9.097257 CTCTTCTCTCATTTCTCTGAATTTACC 57.903 37.037 0.00 0.00 0.00 2.85
39 40 9.651913 ACTCTTCTCTCATTTCTCTGAATTTAC 57.348 33.333 0.00 0.00 0.00 2.01
41 42 9.874205 CTACTCTTCTCTCATTTCTCTGAATTT 57.126 33.333 0.00 0.00 0.00 1.82
42 43 9.034800 ACTACTCTTCTCTCATTTCTCTGAATT 57.965 33.333 0.00 0.00 0.00 2.17
43 44 8.593945 ACTACTCTTCTCTCATTTCTCTGAAT 57.406 34.615 0.00 0.00 0.00 2.57
44 45 9.521841 TTACTACTCTTCTCTCATTTCTCTGAA 57.478 33.333 0.00 0.00 0.00 3.02
45 46 9.521841 TTTACTACTCTTCTCTCATTTCTCTGA 57.478 33.333 0.00 0.00 0.00 3.27
51 52 9.868277 CAGTCATTTACTACTCTTCTCTCATTT 57.132 33.333 0.00 0.00 35.76 2.32
52 53 9.249053 TCAGTCATTTACTACTCTTCTCTCATT 57.751 33.333 0.00 0.00 35.76 2.57
53 54 8.682710 GTCAGTCATTTACTACTCTTCTCTCAT 58.317 37.037 0.00 0.00 35.76 2.90
54 55 7.121463 GGTCAGTCATTTACTACTCTTCTCTCA 59.879 40.741 0.00 0.00 35.76 3.27
55 56 7.121463 TGGTCAGTCATTTACTACTCTTCTCTC 59.879 40.741 0.00 0.00 35.76 3.20
56 57 6.948886 TGGTCAGTCATTTACTACTCTTCTCT 59.051 38.462 0.00 0.00 35.76 3.10
57 58 7.159322 TGGTCAGTCATTTACTACTCTTCTC 57.841 40.000 0.00 0.00 35.76 2.87
58 59 7.726033 ATGGTCAGTCATTTACTACTCTTCT 57.274 36.000 0.00 0.00 35.76 2.85
61 62 9.642343 TGTATATGGTCAGTCATTTACTACTCT 57.358 33.333 0.00 0.00 35.76 3.24
111 112 9.827411 GGAAAGTGACTCAAAGACAATAATTAC 57.173 33.333 0.00 0.00 0.00 1.89
112 113 9.010029 GGGAAAGTGACTCAAAGACAATAATTA 57.990 33.333 0.00 0.00 0.00 1.40
124 125 4.262894 GGTGATACAGGGAAAGTGACTCAA 60.263 45.833 0.00 0.00 0.00 3.02
128 129 2.304761 TGGGTGATACAGGGAAAGTGAC 59.695 50.000 0.00 0.00 0.00 3.67
134 135 0.618458 GCAGTGGGTGATACAGGGAA 59.382 55.000 0.00 0.00 0.00 3.97
144 145 4.699735 TGTAATTATTCAGTGCAGTGGGTG 59.300 41.667 21.21 0.00 0.00 4.61
181 182 5.184340 ACATGCCTCTGAATAGTACGTAC 57.816 43.478 18.10 18.10 0.00 3.67
202 205 2.316108 ACACTTTTGACCCCCATGAAC 58.684 47.619 0.00 0.00 0.00 3.18
205 208 2.965147 AGAAACACTTTTGACCCCCATG 59.035 45.455 0.00 0.00 0.00 3.66
206 209 3.117131 AGAGAAACACTTTTGACCCCCAT 60.117 43.478 0.00 0.00 0.00 4.00
207 210 2.243736 AGAGAAACACTTTTGACCCCCA 59.756 45.455 0.00 0.00 0.00 4.96
213 216 5.415701 AGCAAGTCAAGAGAAACACTTTTGA 59.584 36.000 0.00 0.00 43.98 2.69
223 226 3.378112 CCAACAACAGCAAGTCAAGAGAA 59.622 43.478 0.00 0.00 0.00 2.87
258 261 1.118838 GGTGGAGATGAGGACTGAGG 58.881 60.000 0.00 0.00 0.00 3.86
329 332 0.904865 TCGACCTCATTCCAGGCAGT 60.905 55.000 0.00 0.00 36.98 4.40
341 344 1.550976 ACAAGAAGGTGGATCGACCTC 59.449 52.381 27.40 19.90 46.29 3.85
352 355 2.092429 TGAGCTCACCAAACAAGAAGGT 60.092 45.455 13.74 0.00 35.65 3.50
383 386 2.224606 CCTTCTTGCTTGCTTCACTCA 58.775 47.619 0.00 0.00 0.00 3.41
388 391 7.326968 AGAAATATACCTTCTTGCTTGCTTC 57.673 36.000 0.00 0.00 28.46 3.86
389 392 7.709149 AAGAAATATACCTTCTTGCTTGCTT 57.291 32.000 9.74 0.00 40.72 3.91
390 393 7.148000 GGAAAGAAATATACCTTCTTGCTTGCT 60.148 37.037 13.34 0.47 41.24 3.91
391 394 6.975197 GGAAAGAAATATACCTTCTTGCTTGC 59.025 38.462 13.34 0.00 41.24 4.01
393 396 7.148000 GCTGGAAAGAAATATACCTTCTTGCTT 60.148 37.037 13.34 1.52 41.24 3.91
394 397 6.319911 GCTGGAAAGAAATATACCTTCTTGCT 59.680 38.462 13.34 2.04 41.24 3.91
395 398 6.319911 AGCTGGAAAGAAATATACCTTCTTGC 59.680 38.462 10.83 9.38 41.24 4.01
396 399 7.554118 TCAGCTGGAAAGAAATATACCTTCTTG 59.446 37.037 15.13 2.85 41.24 3.02
398 401 7.200434 TCAGCTGGAAAGAAATATACCTTCT 57.800 36.000 15.13 0.00 34.56 2.85
399 402 7.554476 ACTTCAGCTGGAAAGAAATATACCTTC 59.446 37.037 19.08 0.00 34.44 3.46
897 2025 5.707298 TCAAGCATGAGAACTCCCTTTTTAG 59.293 40.000 0.00 0.00 0.00 1.85
953 2081 1.818642 GCTCTTGCTGTTCCACTGAT 58.181 50.000 0.00 0.00 36.03 2.90
971 2099 4.190001 TCTCTTGATCAATCAGCTTGAGC 58.810 43.478 8.96 0.00 46.71 4.26
972 2100 4.271533 GCTCTCTTGATCAATCAGCTTGAG 59.728 45.833 19.13 15.21 46.71 3.02
975 2925 4.162698 AGAGCTCTCTTGATCAATCAGCTT 59.837 41.667 25.33 17.00 36.31 3.74
1087 3041 6.134055 TCAGGAGGTCCTCGATATTTTTCTA 58.866 40.000 12.91 0.00 46.65 2.10
1442 4596 6.249035 GAGGATCGATTACTTCAGTAGGAG 57.751 45.833 0.00 0.00 0.00 3.69
1471 4631 2.099921 CCGCTTCTATGTACAGAGCACT 59.900 50.000 12.75 0.00 0.00 4.40
1515 4675 2.260639 TGAGCTCCTGATCCCTCTTT 57.739 50.000 12.15 0.00 0.00 2.52
1554 4714 1.355796 TTGTAAAGGCATCGTCGCGG 61.356 55.000 6.13 0.00 0.00 6.46
1555 4715 0.440758 TTTGTAAAGGCATCGTCGCG 59.559 50.000 0.00 0.00 0.00 5.87
1568 4731 6.248569 AGACCCTCTTCAGTTTCTTTGTAA 57.751 37.500 0.00 0.00 0.00 2.41
1572 4735 3.716872 TGGAGACCCTCTTCAGTTTCTTT 59.283 43.478 0.00 0.00 26.68 2.52
1617 4780 2.091852 CTCTGGCAAGAGTGGTCTTC 57.908 55.000 10.25 0.00 44.35 2.87
1741 4906 5.166398 GCCAGGATCTGAGTTTGATTTTTG 58.834 41.667 0.00 0.00 32.44 2.44
1742 4907 4.834496 TGCCAGGATCTGAGTTTGATTTTT 59.166 37.500 0.00 0.00 32.44 1.94
1749 4914 2.641815 AGAGTTGCCAGGATCTGAGTTT 59.358 45.455 0.00 0.00 32.44 2.66
1759 4924 3.450457 AGATCTGAGTTAGAGTTGCCAGG 59.550 47.826 0.00 0.00 39.20 4.45
1760 4925 4.734398 AGATCTGAGTTAGAGTTGCCAG 57.266 45.455 0.00 0.00 39.20 4.85
1761 4926 4.284490 ACAAGATCTGAGTTAGAGTTGCCA 59.716 41.667 0.00 0.00 39.20 4.92
1768 4933 7.119387 TCCAGTATCACAAGATCTGAGTTAGA 58.881 38.462 0.00 0.00 40.37 2.10
1771 4936 6.580788 CATCCAGTATCACAAGATCTGAGTT 58.419 40.000 0.00 0.00 34.29 3.01
1773 4938 4.989797 GCATCCAGTATCACAAGATCTGAG 59.010 45.833 0.00 0.00 34.29 3.35
1818 4983 4.410492 CTTGTTCTCAAGGAATTCACGG 57.590 45.455 7.93 0.00 45.02 4.94
1919 5091 9.871238 CTCCCGCTATAATATGTTTATACACTT 57.129 33.333 0.00 0.00 37.03 3.16
1939 5116 2.640316 ATTATTCTGAACCCTCCCGC 57.360 50.000 0.00 0.00 0.00 6.13
1943 5143 8.531146 TCAATGGAAAAATTATTCTGAACCCTC 58.469 33.333 0.00 0.00 0.00 4.30
1972 5181 2.620115 CTGCATATGCCAGTAAAGGTGG 59.380 50.000 24.54 0.00 41.18 4.61
1984 5194 5.327091 CAGTTTAGTGTGAACTGCATATGC 58.673 41.667 21.09 21.09 45.02 3.14
1996 5206 8.926710 CACCTAGAAGATTTACAGTTTAGTGTG 58.073 37.037 0.51 0.00 31.46 3.82
1997 5208 8.867097 TCACCTAGAAGATTTACAGTTTAGTGT 58.133 33.333 0.00 0.00 34.21 3.55
2012 5813 8.896744 CATGCTTGAAATTTATCACCTAGAAGA 58.103 33.333 0.00 0.00 0.00 2.87
2049 5850 7.265673 TGAGTTTCAGCCATAGTAACATAGTC 58.734 38.462 0.00 0.00 0.00 2.59
2085 6014 7.064966 GCAAAATGTTTAGATGGATTTCTTGGG 59.935 37.037 0.00 0.00 0.00 4.12
2597 6902 8.164153 CCAATCAAATGACGAACAAAATGAATC 58.836 33.333 0.00 0.00 0.00 2.52
2698 7012 8.426569 AACTAACCATCTATAAGGGCGTATAA 57.573 34.615 0.00 0.00 0.00 0.98
2730 7045 7.492352 AAAAACTGAGGGCATACGAATATAC 57.508 36.000 0.00 0.00 0.00 1.47
2818 7142 7.350744 TCTCCACAATTTTTCATCCCATATG 57.649 36.000 0.00 0.00 0.00 1.78
3014 7338 3.735029 GCGTCCACTCTCGTCGGT 61.735 66.667 0.00 0.00 0.00 4.69
3029 7353 4.057432 ACTTGTTCAAATTCATTTGGGCG 58.943 39.130 11.49 1.32 45.39 6.13
3122 7446 0.467290 GGTTTCACCTCTTGGCCACA 60.467 55.000 3.88 0.00 34.73 4.17
3130 7454 4.503714 TTCACTCTTTGGTTTCACCTCT 57.496 40.909 0.00 0.00 39.58 3.69
3314 7638 3.788142 ACCCACTTCCATATCAGTCCATT 59.212 43.478 0.00 0.00 0.00 3.16
3540 7864 1.768870 ACATGCTATCCCCAGTACCAC 59.231 52.381 0.00 0.00 0.00 4.16
3822 8155 3.108376 AGTTCCCTGATTCCAGTACCTC 58.892 50.000 0.00 0.00 38.74 3.85
3846 8179 1.210478 GCAGGTTTCCTATCTCAGCCA 59.790 52.381 0.00 0.00 29.64 4.75
3955 8288 6.575162 ACCACCTTATTGAGACAAACATTC 57.425 37.500 0.00 0.00 0.00 2.67
4096 8429 5.649782 AACTACCATCCTTGAAGCAAATG 57.350 39.130 0.00 0.00 0.00 2.32
4193 8529 1.878953 TCAAGAGAAGTTTCACCGGC 58.121 50.000 0.00 0.00 0.00 6.13
4213 8549 3.695357 TCTCCCAAGAGATCCATCAGA 57.305 47.619 0.00 0.00 44.42 3.27
4261 8597 5.132897 TGGGCATACAAGACACAAATTTC 57.867 39.130 0.00 0.00 0.00 2.17
4276 8612 1.202806 GCAGATAGTTGGCTGGGCATA 60.203 52.381 0.00 0.00 32.83 3.14
4291 8627 1.303888 CCACCCTTGCAGTGCAGAT 60.304 57.895 18.81 2.25 40.61 2.90
4355 8691 1.068194 CACCTCCTTCACTGACGAGAC 60.068 57.143 0.00 0.00 0.00 3.36
4372 8708 4.008933 ACGTCCTCCTGCTGCACC 62.009 66.667 0.00 0.00 0.00 5.01
4422 8759 3.135530 GTGGGTGCTCTTTATCCAGAGAT 59.864 47.826 1.77 0.00 42.81 2.75
4599 8936 3.703001 AACCACAGTTACCATCCTCTG 57.297 47.619 0.00 0.00 33.27 3.35
4674 9011 4.020573 CCCTCGCTCCACCACAATATATTA 60.021 45.833 0.00 0.00 0.00 0.98
4675 9012 3.244561 CCCTCGCTCCACCACAATATATT 60.245 47.826 0.00 0.00 0.00 1.28
4806 9163 1.130561 GGTGCACGAGGAATTAGTTGC 59.869 52.381 11.45 0.00 0.00 4.17
5112 9535 7.725251 TGCCAAAGAAACTTCTGTAAAATGAT 58.275 30.769 0.00 0.00 37.65 2.45
5114 9537 7.951530 ATGCCAAAGAAACTTCTGTAAAATG 57.048 32.000 0.00 0.00 37.65 2.32
5385 10463 4.771903 TGCAACTTTACCAACTACACAGA 58.228 39.130 0.00 0.00 0.00 3.41
5633 10736 5.609696 CGAAACAGAGCAACTTACTACAACG 60.610 44.000 0.00 0.00 0.00 4.10


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

AutoCloner maintained by Alex Coulton.