Multiple sequence alignment - TraesCS7D01G171400

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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 TraesCS7D01G171400 chr7D 100.000 3873 0 0 1 3873 123740808 123736936 0.000000e+00 7153.0
1 TraesCS7D01G171400 chr7D 84.437 861 75 20 2992 3828 123661922 123661097 0.000000e+00 793.0
2 TraesCS7D01G171400 chr7D 84.437 861 75 20 2992 3828 123668667 123667842 0.000000e+00 793.0
3 TraesCS7D01G171400 chr7D 76.575 1302 243 45 1452 2725 124293410 124294677 0.000000e+00 658.0
4 TraesCS7D01G171400 chr7D 88.034 468 43 7 59 516 174121865 174121401 3.400000e-150 542.0
5 TraesCS7D01G171400 chr7D 79.487 156 26 6 1682 1834 124504770 124504618 5.290000e-19 106.0
6 TraesCS7D01G171400 chr7D 95.652 46 2 0 3828 3873 69143078 69143123 1.490000e-09 75.0
7 TraesCS7D01G171400 chr7B 90.405 2543 137 46 1281 3771 85150986 85148499 0.000000e+00 3245.0
8 TraesCS7D01G171400 chr7B 86.555 714 48 12 523 1233 85151739 85151071 0.000000e+00 743.0
9 TraesCS7D01G171400 chr7B 77.080 1322 251 40 1424 2725 85940690 85941979 0.000000e+00 715.0
10 TraesCS7D01G171400 chr7B 80.000 155 27 4 1682 1834 86165673 86165521 1.140000e-20 111.0
11 TraesCS7D01G171400 chr7A 90.081 2228 123 49 696 2899 126592561 126594714 0.000000e+00 2800.0
12 TraesCS7D01G171400 chr7A 89.756 615 52 10 3094 3702 126669972 126670581 0.000000e+00 776.0
13 TraesCS7D01G171400 chr7A 76.533 1321 260 35 1424 2725 126860792 126862081 0.000000e+00 676.0
14 TraesCS7D01G171400 chr7A 95.052 384 14 4 3272 3651 126589504 126589122 1.990000e-167 599.0
15 TraesCS7D01G171400 chr7A 90.526 190 5 4 523 699 126592020 126592209 5.000000e-59 239.0
16 TraesCS7D01G171400 chr7A 89.080 174 11 4 2913 3084 126598401 126598568 3.920000e-50 209.0
17 TraesCS7D01G171400 chr7A 88.591 149 8 6 3689 3828 126670789 126670937 5.140000e-39 172.0
18 TraesCS7D01G171400 chr7A 81.250 144 23 4 1682 1823 126918976 126918835 3.160000e-21 113.0
19 TraesCS7D01G171400 chr2D 88.158 532 48 9 1 521 65686551 65686024 1.530000e-173 619.0
20 TraesCS7D01G171400 chr2D 87.476 527 51 10 1 515 196886971 196886448 9.260000e-166 593.0
21 TraesCS7D01G171400 chr5B 87.572 523 45 10 1 516 352142797 352142288 4.310000e-164 588.0
22 TraesCS7D01G171400 chr6D 88.048 502 48 9 1 494 50640360 50640857 5.580000e-163 584.0
23 TraesCS7D01G171400 chrUn 86.226 530 59 11 1 521 111182715 111182191 2.610000e-156 562.0
24 TraesCS7D01G171400 chr4D 86.069 524 53 15 1 516 36482189 36482700 2.630000e-151 545.0
25 TraesCS7D01G171400 chr4D 87.470 423 45 5 1 418 49372712 49372293 7.530000e-132 481.0
26 TraesCS7D01G171400 chr6A 84.440 527 63 12 1 516 115629502 115628984 5.780000e-138 501.0
27 TraesCS7D01G171400 chr4A 96.078 51 2 0 3823 3873 741583322 741583372 2.480000e-12 84.2
28 TraesCS7D01G171400 chr5A 100.000 43 0 0 3830 3872 455864984 455865026 3.210000e-11 80.5
29 TraesCS7D01G171400 chr6B 100.000 42 0 0 3831 3872 692012771 692012730 1.150000e-10 78.7
30 TraesCS7D01G171400 chr6B 89.655 58 5 1 3815 3872 184774 184718 5.370000e-09 73.1
31 TraesCS7D01G171400 chr3D 100.000 42 0 0 3829 3870 586405031 586404990 1.150000e-10 78.7
32 TraesCS7D01G171400 chr1D 97.778 45 0 1 3830 3873 62158998 62159042 4.150000e-10 76.8
33 TraesCS7D01G171400 chr3A 92.308 52 2 2 3823 3872 41525023 41524972 5.370000e-09 73.1
34 TraesCS7D01G171400 chr1B 95.652 46 1 1 3827 3872 118175757 118175801 5.370000e-09 73.1


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 TraesCS7D01G171400 chr7D 123736936 123740808 3872 True 7153.000000 7153 100.000000 1 3873 1 chr7D.!!$R3 3872
1 TraesCS7D01G171400 chr7D 123661097 123661922 825 True 793.000000 793 84.437000 2992 3828 1 chr7D.!!$R1 836
2 TraesCS7D01G171400 chr7D 123667842 123668667 825 True 793.000000 793 84.437000 2992 3828 1 chr7D.!!$R2 836
3 TraesCS7D01G171400 chr7D 124293410 124294677 1267 False 658.000000 658 76.575000 1452 2725 1 chr7D.!!$F2 1273
4 TraesCS7D01G171400 chr7B 85148499 85151739 3240 True 1994.000000 3245 88.480000 523 3771 2 chr7B.!!$R2 3248
5 TraesCS7D01G171400 chr7B 85940690 85941979 1289 False 715.000000 715 77.080000 1424 2725 1 chr7B.!!$F1 1301
6 TraesCS7D01G171400 chr7A 126592020 126598568 6548 False 1082.666667 2800 89.895667 523 3084 3 chr7A.!!$F2 2561
7 TraesCS7D01G171400 chr7A 126860792 126862081 1289 False 676.000000 676 76.533000 1424 2725 1 chr7A.!!$F1 1301
8 TraesCS7D01G171400 chr7A 126669972 126670937 965 False 474.000000 776 89.173500 3094 3828 2 chr7A.!!$F3 734
9 TraesCS7D01G171400 chr2D 65686024 65686551 527 True 619.000000 619 88.158000 1 521 1 chr2D.!!$R1 520
10 TraesCS7D01G171400 chr2D 196886448 196886971 523 True 593.000000 593 87.476000 1 515 1 chr2D.!!$R2 514
11 TraesCS7D01G171400 chr5B 352142288 352142797 509 True 588.000000 588 87.572000 1 516 1 chr5B.!!$R1 515
12 TraesCS7D01G171400 chrUn 111182191 111182715 524 True 562.000000 562 86.226000 1 521 1 chrUn.!!$R1 520
13 TraesCS7D01G171400 chr4D 36482189 36482700 511 False 545.000000 545 86.069000 1 516 1 chr4D.!!$F1 515
14 TraesCS7D01G171400 chr6A 115628984 115629502 518 True 501.000000 501 84.440000 1 516 1 chr6A.!!$R1 515

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
978 1383 0.036022 GAAGCCACTGCAAGAGAGGT 59.964 55.0 0.0 0.0 41.13 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2911 3397 0.038343 CCACCCTGCGGAAAAACATG 60.038 55.0 0.0 0.0 0.0 3.21 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 9.464714 ACTCTGTGTAAATTATAGTAGAATGCG 57.535 33.333 0.00 0.00 0.00 4.73
163 174 9.803315 GTGTTCCATTCTTTCTTAGAAAACTTT 57.197 29.630 8.82 0.00 45.62 2.66
215 233 4.277476 TGAAAGGGTAATACCAATGCCAG 58.723 43.478 12.03 0.00 41.02 4.85
218 236 3.898482 AGGGTAATACCAATGCCAGAAC 58.102 45.455 12.03 0.00 41.02 3.01
262 280 7.769507 TCATTCATTCTAGTCTGTACGTAGTCT 59.230 37.037 0.00 0.00 43.93 3.24
298 318 6.822073 TCAAATCGTCTCATTTATGTACGG 57.178 37.500 15.13 5.18 38.14 4.02
305 325 7.823665 TCGTCTCATTTATGTACGGCTTATAT 58.176 34.615 15.13 0.00 38.14 0.86
465 486 0.804933 GCACCTTACGGTTAGAGGCG 60.805 60.000 0.00 0.00 42.13 5.52
495 516 3.625853 TGAAACATGTTTGGGTCAGTCA 58.374 40.909 27.85 14.09 32.11 3.41
516 537 7.670894 GTCAACTGACTCAAATCTTGTTTTC 57.329 36.000 2.51 0.00 41.65 2.29
517 538 7.250569 GTCAACTGACTCAAATCTTGTTTTCA 58.749 34.615 2.51 0.00 41.65 2.69
518 539 7.430502 GTCAACTGACTCAAATCTTGTTTTCAG 59.569 37.037 2.51 0.00 41.65 3.02
519 540 7.121168 TCAACTGACTCAAATCTTGTTTTCAGT 59.879 33.333 11.25 11.25 41.86 3.41
520 541 7.020914 ACTGACTCAAATCTTGTTTTCAGTC 57.979 36.000 11.25 2.63 39.00 3.51
602 627 2.719556 CGTAGATTGCATCGAACTACCG 59.280 50.000 0.00 0.00 32.54 4.02
605 630 1.593006 GATTGCATCGAACTACCGGTG 59.407 52.381 19.93 10.05 43.03 4.94
633 667 3.118454 CGTCGGTGGAGCGCAATT 61.118 61.111 11.47 0.00 0.00 2.32
686 720 4.703897 ACAACTGATTCTCTCCAACGAAA 58.296 39.130 0.00 0.00 0.00 3.46
732 1121 1.441729 GGCCAGCTACACGCATCTA 59.558 57.895 0.00 0.00 42.61 1.98
733 1122 0.598680 GGCCAGCTACACGCATCTAG 60.599 60.000 0.00 0.00 42.61 2.43
734 1123 1.218230 GCCAGCTACACGCATCTAGC 61.218 60.000 0.00 0.00 42.61 3.42
761 1154 0.390735 CGCCGTTAACCAACTAGGCT 60.391 55.000 15.17 0.00 43.14 4.58
767 1160 4.331717 CCGTTAACCAACTAGGCTAACATG 59.668 45.833 0.00 0.00 45.28 3.21
768 1161 4.331717 CGTTAACCAACTAGGCTAACATGG 59.668 45.833 14.86 14.86 45.28 3.66
769 1162 2.420058 ACCAACTAGGCTAACATGGC 57.580 50.000 15.88 0.00 43.14 4.40
770 1163 1.633432 ACCAACTAGGCTAACATGGCA 59.367 47.619 15.88 0.00 43.14 4.92
771 1164 2.041081 ACCAACTAGGCTAACATGGCAA 59.959 45.455 15.88 0.00 43.14 4.52
772 1165 2.423538 CCAACTAGGCTAACATGGCAAC 59.576 50.000 0.00 0.00 34.73 4.17
773 1166 3.347216 CAACTAGGCTAACATGGCAACT 58.653 45.455 0.00 0.00 37.61 3.16
774 1167 3.721087 ACTAGGCTAACATGGCAACTT 57.279 42.857 0.00 0.00 37.61 2.66
775 1168 3.347216 ACTAGGCTAACATGGCAACTTG 58.653 45.455 0.00 0.00 46.64 3.16
776 1169 0.890683 AGGCTAACATGGCAACTTGC 59.109 50.000 5.08 5.08 45.21 4.01
847 1240 5.163774 GGTCAACTCATCATCTTTCTCAAGC 60.164 44.000 0.00 0.00 0.00 4.01
860 1260 6.997655 TCTTTCTCAAGCTACAGATCTGAAA 58.002 36.000 29.27 14.96 0.00 2.69
863 1263 5.174395 TCTCAAGCTACAGATCTGAAAAGC 58.826 41.667 29.27 27.99 35.91 3.51
887 1291 6.918569 GCAAATCTACACACGATCTACTGTAT 59.081 38.462 0.00 0.00 0.00 2.29
889 1293 8.746751 CAAATCTACACACGATCTACTGTATTG 58.253 37.037 0.00 0.00 0.00 1.90
891 1295 8.672823 ATCTACACACGATCTACTGTATTGTA 57.327 34.615 0.00 0.00 0.00 2.41
892 1296 8.672823 TCTACACACGATCTACTGTATTGTAT 57.327 34.615 0.00 0.00 0.00 2.29
893 1297 8.557029 TCTACACACGATCTACTGTATTGTATG 58.443 37.037 0.00 0.00 0.00 2.39
897 1301 9.170584 CACACGATCTACTGTATTGTATGTTAG 57.829 37.037 0.00 0.00 0.00 2.34
933 1338 3.125316 TGGTTTGTTAACGAAGAGACGG 58.875 45.455 8.60 0.00 35.00 4.79
934 1339 3.126073 GGTTTGTTAACGAAGAGACGGT 58.874 45.455 8.60 0.00 35.00 4.83
949 1354 3.387397 AGACGGTTTTCACTTAAGGTCG 58.613 45.455 7.53 2.74 0.00 4.79
975 1380 1.552337 CTAGGAAGCCACTGCAAGAGA 59.448 52.381 0.00 0.00 41.13 3.10
976 1381 0.324285 AGGAAGCCACTGCAAGAGAG 59.676 55.000 0.00 0.00 41.13 3.20
977 1382 0.676151 GGAAGCCACTGCAAGAGAGG 60.676 60.000 0.00 0.00 41.13 3.69
978 1383 0.036022 GAAGCCACTGCAAGAGAGGT 59.964 55.000 0.00 0.00 41.13 3.85
979 1384 0.250640 AAGCCACTGCAAGAGAGGTG 60.251 55.000 0.00 0.00 41.13 4.00
980 1385 1.072159 GCCACTGCAAGAGAGGTGT 59.928 57.895 1.46 0.00 37.43 4.16
981 1386 0.952984 GCCACTGCAAGAGAGGTGTC 60.953 60.000 1.46 0.00 37.43 3.67
982 1387 0.394192 CCACTGCAAGAGAGGTGTCA 59.606 55.000 1.46 0.00 37.43 3.58
983 1388 1.506493 CACTGCAAGAGAGGTGTCAC 58.494 55.000 0.00 0.00 37.43 3.67
984 1389 1.069823 CACTGCAAGAGAGGTGTCACT 59.930 52.381 2.35 0.00 37.43 3.41
985 1390 1.069823 ACTGCAAGAGAGGTGTCACTG 59.930 52.381 2.35 0.00 37.43 3.66
998 1404 2.808543 GTGTCACTGAAAGCTAACCCAG 59.191 50.000 0.00 0.00 37.60 4.45
1048 1454 1.835927 GAGCTGGCTGGAGGTTGAGT 61.836 60.000 0.00 0.00 0.00 3.41
1049 1455 1.073897 GCTGGCTGGAGGTTGAGTT 59.926 57.895 0.00 0.00 0.00 3.01
1108 1514 3.310860 ATCGTCAACCCCAGGCGAC 62.311 63.158 0.00 0.00 34.36 5.19
1179 1585 2.100418 GCCCATCCTTTTCATCTTCAGC 59.900 50.000 0.00 0.00 0.00 4.26
1235 1641 2.580276 CGTGGCCGGCTTAGGTAA 59.420 61.111 28.56 0.22 0.00 2.85
1236 1642 1.145377 CGTGGCCGGCTTAGGTAAT 59.855 57.895 28.56 0.00 0.00 1.89
1237 1643 0.463116 CGTGGCCGGCTTAGGTAATT 60.463 55.000 28.56 0.00 0.00 1.40
1240 1646 1.282447 TGGCCGGCTTAGGTAATTGAA 59.718 47.619 28.56 0.00 0.00 2.69
1241 1647 2.291024 TGGCCGGCTTAGGTAATTGAAA 60.291 45.455 28.56 0.00 0.00 2.69
1242 1648 2.956333 GGCCGGCTTAGGTAATTGAAAT 59.044 45.455 28.56 0.00 0.00 2.17
1243 1649 3.383505 GGCCGGCTTAGGTAATTGAAATT 59.616 43.478 28.56 0.00 0.00 1.82
1244 1650 4.142026 GGCCGGCTTAGGTAATTGAAATTT 60.142 41.667 28.56 0.00 0.00 1.82
1246 1652 5.518847 GCCGGCTTAGGTAATTGAAATTTTC 59.481 40.000 22.15 2.05 0.00 2.29
1247 1653 5.741982 CCGGCTTAGGTAATTGAAATTTTCG 59.258 40.000 4.76 0.00 0.00 3.46
1249 1655 6.250527 CGGCTTAGGTAATTGAAATTTTCGTG 59.749 38.462 4.76 0.00 0.00 4.35
1250 1656 7.088272 GGCTTAGGTAATTGAAATTTTCGTGT 58.912 34.615 4.76 0.00 0.00 4.49
1251 1657 7.597369 GGCTTAGGTAATTGAAATTTTCGTGTT 59.403 33.333 4.76 2.66 0.00 3.32
1252 1658 8.974408 GCTTAGGTAATTGAAATTTTCGTGTTT 58.026 29.630 4.76 0.00 0.00 2.83
1256 1662 9.244799 AGGTAATTGAAATTTTCGTGTTTTCTC 57.755 29.630 4.76 0.00 32.02 2.87
1257 1663 8.484799 GGTAATTGAAATTTTCGTGTTTTCTCC 58.515 33.333 4.76 0.00 32.02 3.71
1258 1664 9.026074 GTAATTGAAATTTTCGTGTTTTCTCCA 57.974 29.630 4.76 0.00 32.02 3.86
1259 1665 6.879188 TTGAAATTTTCGTGTTTTCTCCAC 57.121 33.333 4.76 0.00 32.02 4.02
1261 1667 6.033341 TGAAATTTTCGTGTTTTCTCCACTG 58.967 36.000 4.76 0.00 32.02 3.66
1262 1668 5.828299 AATTTTCGTGTTTTCTCCACTGA 57.172 34.783 0.00 0.00 0.00 3.41
1263 1669 4.609691 TTTTCGTGTTTTCTCCACTGAC 57.390 40.909 0.00 0.00 0.00 3.51
1264 1670 1.847818 TCGTGTTTTCTCCACTGACG 58.152 50.000 0.00 0.00 0.00 4.35
1265 1671 0.232303 CGTGTTTTCTCCACTGACGC 59.768 55.000 0.00 0.00 0.00 5.19
1266 1672 0.586802 GTGTTTTCTCCACTGACGCC 59.413 55.000 0.00 0.00 0.00 5.68
1267 1673 0.534203 TGTTTTCTCCACTGACGCCC 60.534 55.000 0.00 0.00 0.00 6.13
1268 1674 0.534203 GTTTTCTCCACTGACGCCCA 60.534 55.000 0.00 0.00 0.00 5.36
1269 1675 0.181587 TTTTCTCCACTGACGCCCAA 59.818 50.000 0.00 0.00 0.00 4.12
1270 1676 0.181587 TTTCTCCACTGACGCCCAAA 59.818 50.000 0.00 0.00 0.00 3.28
1271 1677 0.534203 TTCTCCACTGACGCCCAAAC 60.534 55.000 0.00 0.00 0.00 2.93
1275 1720 1.101049 CCACTGACGCCCAAACTGTT 61.101 55.000 0.00 0.00 0.00 3.16
1278 1723 2.032030 CACTGACGCCCAAACTGTTTAG 60.032 50.000 5.31 0.00 0.00 1.85
1279 1724 1.535462 CTGACGCCCAAACTGTTTAGG 59.465 52.381 12.58 12.58 0.00 2.69
1284 1729 3.196039 ACGCCCAAACTGTTTAGGTTTTT 59.804 39.130 17.06 0.00 35.09 1.94
1312 1757 2.695359 TGGTTCTTCCATGCTACGAAC 58.305 47.619 0.00 6.96 41.93 3.95
1315 1760 0.459585 TCTTCCATGCTACGAACGCC 60.460 55.000 0.00 0.00 0.00 5.68
1369 1822 1.939980 GGGGGTGTTACTCTGAGTCT 58.060 55.000 14.62 0.00 0.00 3.24
1370 1823 1.826096 GGGGGTGTTACTCTGAGTCTC 59.174 57.143 14.62 9.13 0.00 3.36
1371 1824 2.557901 GGGGGTGTTACTCTGAGTCTCT 60.558 54.545 14.62 0.00 0.00 3.10
1372 1825 2.494073 GGGGTGTTACTCTGAGTCTCTG 59.506 54.545 14.62 0.50 0.00 3.35
1373 1826 3.422796 GGGTGTTACTCTGAGTCTCTGA 58.577 50.000 14.62 8.92 0.00 3.27
1376 1829 5.247084 GGTGTTACTCTGAGTCTCTGACTA 58.753 45.833 14.62 0.00 43.53 2.59
1378 1831 6.207025 GGTGTTACTCTGAGTCTCTGACTAAA 59.793 42.308 14.62 0.00 43.53 1.85
1379 1832 7.094118 GGTGTTACTCTGAGTCTCTGACTAAAT 60.094 40.741 14.62 0.00 43.53 1.40
1380 1833 8.301002 GTGTTACTCTGAGTCTCTGACTAAATT 58.699 37.037 14.62 0.00 43.53 1.82
1384 1837 7.488322 ACTCTGAGTCTCTGACTAAATTATGC 58.512 38.462 4.06 0.00 43.53 3.14
1385 1838 7.341769 ACTCTGAGTCTCTGACTAAATTATGCT 59.658 37.037 4.06 0.00 43.53 3.79
1386 1839 7.711846 TCTGAGTCTCTGACTAAATTATGCTC 58.288 38.462 5.38 0.00 43.53 4.26
1387 1840 6.810911 TGAGTCTCTGACTAAATTATGCTCC 58.189 40.000 0.65 0.00 43.53 4.70
1388 1841 6.381133 TGAGTCTCTGACTAAATTATGCTCCA 59.619 38.462 0.65 0.00 43.53 3.86
1389 1842 7.070447 TGAGTCTCTGACTAAATTATGCTCCAT 59.930 37.037 0.65 0.00 43.53 3.41
1390 1843 7.800092 AGTCTCTGACTAAATTATGCTCCATT 58.200 34.615 0.00 0.00 41.51 3.16
1393 1846 6.899089 TCTGACTAAATTATGCTCCATTCCA 58.101 36.000 0.00 0.00 0.00 3.53
1396 1849 5.699143 ACTAAATTATGCTCCATTCCAGCT 58.301 37.500 0.00 0.00 37.79 4.24
1421 1874 5.413833 GCAGAATCATCCAAGAAGAAAGACA 59.586 40.000 0.00 0.00 0.00 3.41
1453 1906 1.409381 GGCCTTCTCCTTCCAGGATTG 60.409 57.143 0.00 0.00 44.81 2.67
1522 1975 4.050934 ATGACACGCTCGCCGACA 62.051 61.111 2.37 0.00 41.02 4.35
1630 2083 1.064685 AGGCTGAAATCCGGGGTAAAG 60.065 52.381 0.00 0.00 0.00 1.85
1643 2111 0.314935 GGTAAAGGACGTCGACACCA 59.685 55.000 24.11 7.20 0.00 4.17
1726 2194 3.878358 GCCTCGGCCTTCCTCTAT 58.122 61.111 0.00 0.00 34.56 1.98
2244 2712 0.822532 CTGGGCATTCAGATCAGGGC 60.823 60.000 0.00 0.00 36.93 5.19
2314 2782 1.290324 GTGCACCTCTCAAGAGCGA 59.710 57.895 5.22 0.00 40.75 4.93
2611 3097 4.047059 GGCTGGTCGACGTTCGGA 62.047 66.667 9.92 0.00 40.88 4.55
2678 3164 2.678934 CGGAGGACCAGAACCCGA 60.679 66.667 0.00 0.00 42.49 5.14
2764 3250 0.756294 TCGAGTGCACCAGGAAAGAA 59.244 50.000 14.63 0.00 0.00 2.52
2785 3271 1.315690 TCGACAAACTCCTCGACACT 58.684 50.000 0.00 0.00 34.04 3.55
2786 3272 2.497138 TCGACAAACTCCTCGACACTA 58.503 47.619 0.00 0.00 34.04 2.74
2812 3298 4.101448 GTGCCTCATGTCCGGGCT 62.101 66.667 7.97 0.00 45.45 5.19
2888 3374 5.530519 TGTGTAGAATTTTCGATCACAGC 57.469 39.130 11.21 0.00 34.70 4.40
2899 3385 2.488937 TCGATCACAGCTTACACCGTAA 59.511 45.455 0.00 0.00 0.00 3.18
2900 3386 3.129813 TCGATCACAGCTTACACCGTAAT 59.870 43.478 0.00 0.00 0.00 1.89
2903 3389 3.247442 TCACAGCTTACACCGTAATTCG 58.753 45.455 0.00 0.00 39.52 3.34
2904 3390 2.991190 CACAGCTTACACCGTAATTCGT 59.009 45.455 0.00 0.00 37.94 3.85
2905 3391 2.991190 ACAGCTTACACCGTAATTCGTG 59.009 45.455 0.00 0.00 37.94 4.35
2907 3393 3.303495 CAGCTTACACCGTAATTCGTGAG 59.697 47.826 7.11 0.00 37.94 3.51
2908 3394 3.192001 AGCTTACACCGTAATTCGTGAGA 59.808 43.478 7.11 0.00 37.94 3.27
2938 7098 2.997315 CGCAGGGTGGTGGAGAGA 60.997 66.667 0.00 0.00 0.00 3.10
2942 7102 1.059913 CAGGGTGGTGGAGAGAAAGT 58.940 55.000 0.00 0.00 0.00 2.66
3071 7233 3.764434 CAGAAGCCAGAACTACCTGAGTA 59.236 47.826 0.00 0.00 37.44 2.59
3175 7341 7.362401 GCATTAAGTTGATTCAATGGTCAGTCT 60.362 37.037 1.78 0.00 0.00 3.24
3212 7378 3.570975 GTCAAGTTTCCCATTAACCGGTT 59.429 43.478 25.64 25.64 0.00 4.44
3257 7425 3.227948 CCCGAAATTTTGTTACCGTTCG 58.772 45.455 4.72 0.00 38.02 3.95
3262 7430 6.344390 CCGAAATTTTGTTACCGTTCGAAAAG 60.344 38.462 0.00 0.00 40.06 2.27
3318 7488 2.179267 CAGTCGTGCTCGCAGCTA 59.821 61.111 2.69 0.00 42.97 3.32
3401 7574 4.027572 GCAGTTTGCACTAACAACTTGA 57.972 40.909 4.19 0.00 44.26 3.02
3431 7604 5.918576 GGCAACTTTGTGTATGTTAAAGGTC 59.081 40.000 0.00 0.00 36.11 3.85
3526 7704 5.452078 AACTGAAATTTCCAAGATTCGCA 57.548 34.783 15.48 0.00 0.00 5.10
3532 7710 6.206634 TGAAATTTCCAAGATTCGCAGTTACT 59.793 34.615 15.48 0.00 0.00 2.24
3551 7729 0.752376 TGGTTTCACCGACCCCAAAC 60.752 55.000 0.00 0.00 42.58 2.93
3584 7763 4.984205 ACGAGAACGAGAGAAATAACCTC 58.016 43.478 0.00 0.00 42.66 3.85
3662 7842 8.437575 CCTTGTTAGGGGTATACAGAACATATT 58.562 37.037 5.01 0.00 37.94 1.28
3698 8098 3.262420 CACCCGTCCATCTTAACAAGAG 58.738 50.000 0.00 0.00 41.61 2.85
3699 8099 2.904434 ACCCGTCCATCTTAACAAGAGT 59.096 45.455 0.00 0.00 41.61 3.24
3700 8100 4.081862 CACCCGTCCATCTTAACAAGAGTA 60.082 45.833 0.00 0.00 41.61 2.59
3701 8101 4.529377 ACCCGTCCATCTTAACAAGAGTAA 59.471 41.667 0.00 0.00 41.61 2.24
3702 8102 5.189145 ACCCGTCCATCTTAACAAGAGTAAT 59.811 40.000 0.00 0.00 41.61 1.89
3703 8103 5.523916 CCCGTCCATCTTAACAAGAGTAATG 59.476 44.000 0.00 0.00 41.61 1.90
3832 8247 7.839680 GGGGACCTATGATTTACATCATTTT 57.160 36.000 9.56 0.00 46.57 1.82
3833 8248 8.250143 GGGGACCTATGATTTACATCATTTTT 57.750 34.615 9.56 0.00 46.57 1.94
3854 8269 4.652679 TTTTAGAAAAGGAGGAGGACCC 57.347 45.455 0.00 0.00 36.73 4.46
3855 8270 2.265526 TAGAAAAGGAGGAGGACCCC 57.734 55.000 0.00 0.00 36.73 4.95
3856 8271 0.550393 AGAAAAGGAGGAGGACCCCC 60.550 60.000 0.00 0.00 36.73 5.40
3857 8272 1.911702 GAAAAGGAGGAGGACCCCCG 61.912 65.000 0.00 0.00 37.58 5.73
3858 8273 3.945064 AAAGGAGGAGGACCCCCGG 62.945 68.421 0.00 0.00 37.58 5.73
3864 8279 4.426313 GAGGACCCCCGGCCTTTG 62.426 72.222 0.00 0.00 37.58 2.77
3867 8282 4.759205 GACCCCCGGCCTTTGCAT 62.759 66.667 0.00 0.00 40.13 3.96
3868 8283 4.759205 ACCCCCGGCCTTTGCATC 62.759 66.667 0.00 0.00 40.13 3.91
3869 8284 4.447342 CCCCCGGCCTTTGCATCT 62.447 66.667 0.00 0.00 40.13 2.90
3870 8285 3.142838 CCCCGGCCTTTGCATCTG 61.143 66.667 0.00 0.00 40.13 2.90
3871 8286 3.142838 CCCGGCCTTTGCATCTGG 61.143 66.667 0.00 0.00 40.13 3.86
3872 8287 3.142838 CCGGCCTTTGCATCTGGG 61.143 66.667 0.00 0.00 40.13 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 60 9.309516 CTGATATTGCACTTTTTGAAATATGCT 57.690 29.630 2.73 0.00 43.96 3.79
75 78 4.924462 TGCACACAATTTGCACTGATATTG 59.076 37.500 0.00 0.00 45.06 1.90
118 122 8.466798 TGGAACACTTTAAGAAGAAAGAAAAGG 58.533 33.333 0.00 0.00 38.48 3.11
199 217 4.270008 ACAGTTCTGGCATTGGTATTACC 58.730 43.478 5.87 5.87 39.22 2.85
215 233 8.460831 AATGAACAAACACAGTAAAACAGTTC 57.539 30.769 0.00 0.00 34.89 3.01
218 236 8.633075 ATGAATGAACAAACACAGTAAAACAG 57.367 30.769 0.00 0.00 0.00 3.16
305 325 7.174080 TGTGAACTGCTGCATTAGTACATAAAA 59.826 33.333 1.31 0.00 0.00 1.52
314 334 3.251729 ACACTTGTGAACTGCTGCATTAG 59.748 43.478 1.31 0.00 0.00 1.73
315 335 3.213506 ACACTTGTGAACTGCTGCATTA 58.786 40.909 1.31 0.00 0.00 1.90
318 338 2.323968 TACACTTGTGAACTGCTGCA 57.676 45.000 7.83 0.88 0.00 4.41
427 448 5.653769 AGGTGCATGCTTCATTATGTTAACT 59.346 36.000 20.33 0.00 0.00 2.24
465 486 2.405892 AACATGTTTCAGTCAAGCGC 57.594 45.000 4.92 0.00 0.00 5.92
495 516 7.396540 ACTGAAAACAAGATTTGAGTCAGTT 57.603 32.000 14.73 0.00 41.75 3.16
502 523 3.004315 GCGGGACTGAAAACAAGATTTGA 59.996 43.478 0.00 0.00 0.00 2.69
602 627 1.138047 CCGACGTTCGATGTAGCACC 61.138 60.000 8.63 0.00 43.74 5.01
605 630 1.138047 CCACCGACGTTCGATGTAGC 61.138 60.000 8.63 0.00 43.74 3.58
633 667 3.188100 CGATGGAAGCGCTGCGAA 61.188 61.111 28.07 0.00 40.80 4.70
686 720 2.095059 GCTGGTTCAATCGTTTGCTCAT 60.095 45.455 1.18 0.00 32.61 2.90
743 1136 2.674852 GTTAGCCTAGTTGGTTAACGGC 59.325 50.000 12.93 10.85 46.99 5.68
761 1154 1.323412 AACCGCAAGTTGCCATGTTA 58.677 45.000 21.84 0.00 41.12 2.41
767 1160 0.517316 CAGAGTAACCGCAAGTTGCC 59.483 55.000 21.84 7.57 41.61 4.52
768 1161 0.517316 CCAGAGTAACCGCAAGTTGC 59.483 55.000 18.18 18.18 39.67 4.17
769 1162 0.517316 GCCAGAGTAACCGCAAGTTG 59.483 55.000 0.00 0.00 39.67 3.16
770 1163 0.949105 CGCCAGAGTAACCGCAAGTT 60.949 55.000 0.00 0.00 42.83 2.66
771 1164 1.374252 CGCCAGAGTAACCGCAAGT 60.374 57.895 0.00 0.00 0.00 3.16
772 1165 2.740714 GCGCCAGAGTAACCGCAAG 61.741 63.158 0.00 0.00 45.21 4.01
773 1166 2.740826 GCGCCAGAGTAACCGCAA 60.741 61.111 0.00 0.00 45.21 4.85
775 1168 4.752879 TGGCGCCAGAGTAACCGC 62.753 66.667 29.03 0.00 45.15 5.68
776 1169 2.047655 TTGGCGCCAGAGTAACCG 60.048 61.111 30.75 0.00 0.00 4.44
813 1206 1.052124 TGAGTTGACCGTCCCAAGGT 61.052 55.000 0.00 0.00 46.16 3.50
814 1207 0.324943 ATGAGTTGACCGTCCCAAGG 59.675 55.000 0.00 0.00 0.00 3.61
815 1208 1.001974 TGATGAGTTGACCGTCCCAAG 59.998 52.381 0.00 0.00 0.00 3.61
847 1240 8.386606 GTGTAGATTTGCTTTTCAGATCTGTAG 58.613 37.037 21.92 17.25 43.85 2.74
860 1260 5.807520 CAGTAGATCGTGTGTAGATTTGCTT 59.192 40.000 0.00 0.00 0.00 3.91
863 1263 8.746751 CAATACAGTAGATCGTGTGTAGATTTG 58.253 37.037 8.24 5.68 0.00 2.32
887 1291 8.073167 CAGTGTTTGCAATGTACTAACATACAA 58.927 33.333 0.00 0.00 45.79 2.41
889 1293 7.021196 CCAGTGTTTGCAATGTACTAACATAC 58.979 38.462 0.00 0.00 45.79 2.39
891 1295 7.417342 AAACCAGTGTTTGCAATGTACTAACAT 60.417 33.333 0.00 0.00 44.30 2.71
892 1296 4.884744 ACCAGTGTTTGCAATGTACTAACA 59.115 37.500 0.00 0.00 38.86 2.41
893 1297 5.432885 ACCAGTGTTTGCAATGTACTAAC 57.567 39.130 0.00 0.00 38.86 2.34
933 1338 4.392138 AGCTATGCGACCTTAAGTGAAAAC 59.608 41.667 0.97 0.00 0.00 2.43
934 1339 4.575885 AGCTATGCGACCTTAAGTGAAAA 58.424 39.130 0.97 0.00 0.00 2.29
949 1354 1.876322 CAGTGGCTTCCTAGCTATGC 58.124 55.000 0.00 0.00 46.90 3.14
975 1380 2.224548 GGGTTAGCTTTCAGTGACACCT 60.225 50.000 0.84 0.00 0.00 4.00
976 1381 2.152016 GGGTTAGCTTTCAGTGACACC 58.848 52.381 0.84 0.00 0.00 4.16
977 1382 2.808543 CTGGGTTAGCTTTCAGTGACAC 59.191 50.000 0.00 0.00 0.00 3.67
978 1383 2.224523 CCTGGGTTAGCTTTCAGTGACA 60.225 50.000 0.00 0.00 0.00 3.58
979 1384 2.038557 TCCTGGGTTAGCTTTCAGTGAC 59.961 50.000 0.00 0.00 0.00 3.67
980 1385 2.334977 TCCTGGGTTAGCTTTCAGTGA 58.665 47.619 0.00 0.00 0.00 3.41
981 1386 2.859165 TCCTGGGTTAGCTTTCAGTG 57.141 50.000 0.00 0.00 0.00 3.66
982 1387 2.025887 CCATCCTGGGTTAGCTTTCAGT 60.026 50.000 0.00 0.00 32.67 3.41
983 1388 2.239654 TCCATCCTGGGTTAGCTTTCAG 59.760 50.000 0.00 0.00 38.32 3.02
984 1389 2.026262 GTCCATCCTGGGTTAGCTTTCA 60.026 50.000 0.00 0.00 38.32 2.69
985 1390 2.026262 TGTCCATCCTGGGTTAGCTTTC 60.026 50.000 0.00 0.00 38.32 2.62
998 1404 1.820519 TGCTGCATTTCTTGTCCATCC 59.179 47.619 0.00 0.00 0.00 3.51
1059 1465 4.090057 GCCTTCTTCGCCGTGCAC 62.090 66.667 6.82 6.82 0.00 4.57
1067 1473 1.811679 GCCTTCTCCGCCTTCTTCG 60.812 63.158 0.00 0.00 0.00 3.79
1135 1541 2.251409 ATCGTCATGATCAAGGCCAG 57.749 50.000 5.01 0.00 28.49 4.85
1233 1639 9.026074 GTGGAGAAAACACGAAAATTTCAATTA 57.974 29.630 6.53 0.00 35.91 1.40
1234 1640 7.763985 AGTGGAGAAAACACGAAAATTTCAATT 59.236 29.630 6.53 0.00 43.41 2.32
1235 1641 7.222611 CAGTGGAGAAAACACGAAAATTTCAAT 59.777 33.333 6.53 0.00 43.41 2.57
1236 1642 6.529829 CAGTGGAGAAAACACGAAAATTTCAA 59.470 34.615 6.53 0.00 43.41 2.69
1237 1643 6.033341 CAGTGGAGAAAACACGAAAATTTCA 58.967 36.000 6.53 0.00 43.41 2.69
1240 1646 5.578776 GTCAGTGGAGAAAACACGAAAATT 58.421 37.500 0.00 0.00 43.41 1.82
1241 1647 4.260620 CGTCAGTGGAGAAAACACGAAAAT 60.261 41.667 0.00 0.00 43.41 1.82
1242 1648 3.062909 CGTCAGTGGAGAAAACACGAAAA 59.937 43.478 0.00 0.00 43.41 2.29
1243 1649 2.605818 CGTCAGTGGAGAAAACACGAAA 59.394 45.455 0.00 0.00 43.41 3.46
1244 1650 2.198406 CGTCAGTGGAGAAAACACGAA 58.802 47.619 0.00 0.00 43.41 3.85
1246 1652 0.232303 GCGTCAGTGGAGAAAACACG 59.768 55.000 0.00 0.00 43.41 4.49
1247 1653 0.586802 GGCGTCAGTGGAGAAAACAC 59.413 55.000 0.00 0.00 39.10 3.32
1249 1655 0.534203 TGGGCGTCAGTGGAGAAAAC 60.534 55.000 0.00 0.00 0.00 2.43
1250 1656 0.181587 TTGGGCGTCAGTGGAGAAAA 59.818 50.000 0.00 0.00 0.00 2.29
1251 1657 0.181587 TTTGGGCGTCAGTGGAGAAA 59.818 50.000 0.00 0.00 0.00 2.52
1252 1658 0.534203 GTTTGGGCGTCAGTGGAGAA 60.534 55.000 0.00 0.00 0.00 2.87
1253 1659 1.070786 GTTTGGGCGTCAGTGGAGA 59.929 57.895 0.00 0.00 0.00 3.71
1254 1660 1.071471 AGTTTGGGCGTCAGTGGAG 59.929 57.895 0.00 0.00 0.00 3.86
1255 1661 1.227823 CAGTTTGGGCGTCAGTGGA 60.228 57.895 0.00 0.00 0.00 4.02
1256 1662 1.101049 AACAGTTTGGGCGTCAGTGG 61.101 55.000 0.00 0.00 0.00 4.00
1257 1663 0.738389 AAACAGTTTGGGCGTCAGTG 59.262 50.000 0.00 0.00 0.00 3.66
1258 1664 2.218603 CTAAACAGTTTGGGCGTCAGT 58.781 47.619 8.93 0.00 0.00 3.41
1259 1665 1.535462 CCTAAACAGTTTGGGCGTCAG 59.465 52.381 14.98 0.00 34.40 3.51
1261 1667 1.601166 ACCTAAACAGTTTGGGCGTC 58.399 50.000 24.62 0.00 44.36 5.19
1262 1668 2.061509 AACCTAAACAGTTTGGGCGT 57.938 45.000 24.62 12.64 44.36 5.68
1263 1669 3.446310 AAAACCTAAACAGTTTGGGCG 57.554 42.857 24.62 6.28 44.36 6.13
1264 1670 6.517605 TGATAAAAACCTAAACAGTTTGGGC 58.482 36.000 24.62 9.87 44.36 5.36
1265 1671 7.722363 ACTGATAAAAACCTAAACAGTTTGGG 58.278 34.615 23.42 23.42 45.80 4.12
1269 1675 8.755028 ACCAAACTGATAAAAACCTAAACAGTT 58.245 29.630 0.00 0.00 44.93 3.16
1270 1676 8.301252 ACCAAACTGATAAAAACCTAAACAGT 57.699 30.769 0.00 0.00 38.48 3.55
1271 1677 9.244799 GAACCAAACTGATAAAAACCTAAACAG 57.755 33.333 0.00 0.00 0.00 3.16
1275 1720 8.635328 GGAAGAACCAAACTGATAAAAACCTAA 58.365 33.333 0.00 0.00 38.79 2.69
1278 1723 6.811954 TGGAAGAACCAAACTGATAAAAACC 58.188 36.000 0.00 0.00 46.75 3.27
1300 1745 3.261951 CGGGCGTTCGTAGCATGG 61.262 66.667 0.00 0.00 36.08 3.66
1312 1757 3.118454 CTAGTGCAACCACGGGCG 61.118 66.667 0.00 0.00 46.62 6.13
1350 1803 1.826096 GAGACTCAGAGTAACACCCCC 59.174 57.143 2.00 0.00 0.00 5.40
1351 1804 2.494073 CAGAGACTCAGAGTAACACCCC 59.506 54.545 2.00 0.00 0.00 4.95
1352 1805 3.191791 GTCAGAGACTCAGAGTAACACCC 59.808 52.174 2.00 0.00 0.00 4.61
1362 1815 6.922957 GGAGCATAATTTAGTCAGAGACTCAG 59.077 42.308 5.02 0.00 42.40 3.35
1365 1818 6.798427 TGGAGCATAATTTAGTCAGAGACT 57.202 37.500 4.93 4.93 45.54 3.24
1366 1819 7.172361 GGAATGGAGCATAATTTAGTCAGAGAC 59.828 40.741 0.00 0.00 0.00 3.36
1369 1822 6.899089 TGGAATGGAGCATAATTTAGTCAGA 58.101 36.000 0.00 0.00 0.00 3.27
1370 1823 6.293845 GCTGGAATGGAGCATAATTTAGTCAG 60.294 42.308 0.00 0.00 36.40 3.51
1371 1824 5.532406 GCTGGAATGGAGCATAATTTAGTCA 59.468 40.000 0.00 0.00 36.40 3.41
1372 1825 5.767168 AGCTGGAATGGAGCATAATTTAGTC 59.233 40.000 0.00 0.00 39.05 2.59
1373 1826 5.533903 CAGCTGGAATGGAGCATAATTTAGT 59.466 40.000 5.57 0.00 39.05 2.24
1376 1829 3.069158 GCAGCTGGAATGGAGCATAATTT 59.931 43.478 17.12 0.00 39.05 1.82
1378 1831 2.236766 GCAGCTGGAATGGAGCATAAT 58.763 47.619 17.12 0.00 39.05 1.28
1379 1832 1.064537 TGCAGCTGGAATGGAGCATAA 60.065 47.619 17.12 0.00 39.05 1.90
1380 1833 0.547553 TGCAGCTGGAATGGAGCATA 59.452 50.000 17.12 0.00 39.05 3.14
1382 1835 1.378119 CTGCAGCTGGAATGGAGCA 60.378 57.895 17.12 3.15 39.05 4.26
1383 1836 0.679002 TTCTGCAGCTGGAATGGAGC 60.679 55.000 17.12 0.00 36.20 4.70
1384 1837 1.948145 GATTCTGCAGCTGGAATGGAG 59.052 52.381 19.15 4.25 37.45 3.86
1385 1838 1.282738 TGATTCTGCAGCTGGAATGGA 59.717 47.619 19.15 7.18 33.05 3.41
1386 1839 1.758936 TGATTCTGCAGCTGGAATGG 58.241 50.000 19.15 4.94 33.05 3.16
1387 1840 2.293677 GGATGATTCTGCAGCTGGAATG 59.706 50.000 19.15 5.63 33.05 2.67
1388 1841 2.092049 TGGATGATTCTGCAGCTGGAAT 60.092 45.455 17.12 16.16 35.23 3.01
1389 1842 1.282738 TGGATGATTCTGCAGCTGGAA 59.717 47.619 17.12 11.80 0.00 3.53
1390 1843 0.913924 TGGATGATTCTGCAGCTGGA 59.086 50.000 17.12 12.70 0.00 3.86
1393 1846 3.054582 TCTTCTTGGATGATTCTGCAGCT 60.055 43.478 9.47 0.00 0.00 4.24
1396 1849 5.413833 GTCTTTCTTCTTGGATGATTCTGCA 59.586 40.000 0.00 0.00 0.00 4.41
1421 1874 1.000866 GAAGGCCCCCAAGAAGCAT 59.999 57.895 0.00 0.00 0.00 3.79
1429 1882 2.614013 GGAAGGAGAAGGCCCCCA 60.614 66.667 0.00 0.00 0.00 4.96
1522 1975 1.793134 GCCGGTCGATGAGATACGGT 61.793 60.000 1.90 0.00 46.78 4.83
1643 2111 2.105128 GTAGCTGCAGCCGTCGAT 59.895 61.111 34.39 17.78 43.38 3.59
1726 2194 4.758251 CGGTCGGTGAGCATGGCA 62.758 66.667 0.00 0.00 0.00 4.92
2503 2989 0.108138 GGAACATACGCTGGTGCTCT 60.108 55.000 0.00 0.00 36.97 4.09
2611 3097 3.122250 GAGAGCGGTGCCGACGTAT 62.122 63.158 15.45 0.00 42.83 3.06
2740 3226 1.557099 TCCTGGTGCACTCGAAGTAT 58.443 50.000 17.98 0.00 0.00 2.12
2785 3271 3.388024 GGACATGAGGCACCAGATTACTA 59.612 47.826 0.00 0.00 0.00 1.82
2786 3272 2.171448 GGACATGAGGCACCAGATTACT 59.829 50.000 0.00 0.00 0.00 2.24
2812 3298 1.522668 CCCAAGACATGTCTTCGCAA 58.477 50.000 33.24 0.00 46.13 4.85
2899 3385 4.613622 CGGAAAAACATGCTTCTCACGAAT 60.614 41.667 0.00 0.00 0.00 3.34
2900 3386 3.303725 CGGAAAAACATGCTTCTCACGAA 60.304 43.478 0.00 0.00 0.00 3.85
2903 3389 2.287547 TGCGGAAAAACATGCTTCTCAC 60.288 45.455 0.00 0.00 0.00 3.51
2904 3390 1.952990 TGCGGAAAAACATGCTTCTCA 59.047 42.857 0.00 0.00 0.00 3.27
2905 3391 2.589014 CTGCGGAAAAACATGCTTCTC 58.411 47.619 0.00 0.00 0.00 2.87
2907 3393 1.669795 CCCTGCGGAAAAACATGCTTC 60.670 52.381 0.00 0.00 0.00 3.86
2908 3394 0.318120 CCCTGCGGAAAAACATGCTT 59.682 50.000 0.00 0.00 0.00 3.91
2910 3396 0.667184 CACCCTGCGGAAAAACATGC 60.667 55.000 0.00 0.00 0.00 4.06
2911 3397 0.038343 CCACCCTGCGGAAAAACATG 60.038 55.000 0.00 0.00 0.00 3.21
2920 7080 4.087892 CTCTCCACCACCCTGCGG 62.088 72.222 0.00 0.00 0.00 5.69
2930 7090 0.884704 TTGCGGCACTTTCTCTCCAC 60.885 55.000 0.05 0.00 0.00 4.02
2931 7091 0.179032 TTTGCGGCACTTTCTCTCCA 60.179 50.000 0.05 0.00 0.00 3.86
2933 7093 4.159120 GTTTATTTGCGGCACTTTCTCTC 58.841 43.478 0.05 0.00 0.00 3.20
2934 7094 3.568007 TGTTTATTTGCGGCACTTTCTCT 59.432 39.130 0.05 0.00 0.00 3.10
2935 7095 3.896122 TGTTTATTTGCGGCACTTTCTC 58.104 40.909 0.05 0.00 0.00 2.87
2936 7096 4.314740 TTGTTTATTTGCGGCACTTTCT 57.685 36.364 0.05 0.00 0.00 2.52
2938 7098 3.186205 GCATTGTTTATTTGCGGCACTTT 59.814 39.130 0.05 0.00 0.00 2.66
2942 7102 2.445565 TGCATTGTTTATTTGCGGCA 57.554 40.000 0.00 0.00 39.23 5.69
3034 7194 4.721776 TGGCTTCTGGGTCACTTAGATAAT 59.278 41.667 0.00 0.00 0.00 1.28
3071 7233 1.810151 AGCCACGCAAATACACGAATT 59.190 42.857 0.00 0.00 0.00 2.17
3144 7307 8.121305 ACCATTGAATCAACTTAATGCTACAA 57.879 30.769 0.00 0.00 31.03 2.41
3202 7368 9.268113 CGAATTTCGGATAACCAACCGGTTAAT 62.268 40.741 21.79 11.24 46.70 1.40
3238 7406 6.195060 ACTTTTCGAACGGTAACAAAATTTCG 59.805 34.615 0.00 0.00 37.72 3.46
3262 7430 9.168353 GCACCATTTTCATGTTTAAATTCAAAC 57.832 29.630 0.00 0.00 38.60 2.93
3287 7455 1.131126 ACGACTGCTACATTGCAATGC 59.869 47.619 33.94 22.94 42.83 3.56
3333 7503 4.138290 TGTTCAAAACCTCCTTATCGCAA 58.862 39.130 0.00 0.00 0.00 4.85
3401 7574 5.726980 ACATACACAAAGTTGCCATTGAT 57.273 34.783 0.00 0.00 0.00 2.57
3562 7741 4.437121 CGAGGTTATTTCTCTCGTTCTCGT 60.437 45.833 0.00 0.00 43.51 4.18
3702 8102 9.913310 TGTCACAATTATCATTATTTCCTACCA 57.087 29.630 0.00 0.00 0.00 3.25
3789 8204 4.136796 CCCCTTTCTGCGATGATATTCAA 58.863 43.478 0.00 0.00 0.00 2.69
3832 8247 4.202641 GGGGTCCTCCTCCTTTTCTAAAAA 60.203 45.833 0.00 0.00 35.33 1.94
3833 8248 3.332783 GGGGTCCTCCTCCTTTTCTAAAA 59.667 47.826 0.00 0.00 35.33 1.52
3834 8249 2.917600 GGGGTCCTCCTCCTTTTCTAAA 59.082 50.000 0.00 0.00 35.33 1.85
3835 8250 2.558974 GGGGTCCTCCTCCTTTTCTAA 58.441 52.381 0.00 0.00 35.33 2.10
3836 8251 2.265526 GGGGTCCTCCTCCTTTTCTA 57.734 55.000 0.00 0.00 35.33 2.10
3837 8252 3.106441 GGGGTCCTCCTCCTTTTCT 57.894 57.895 0.00 0.00 35.33 2.52
3847 8262 4.426313 CAAAGGCCGGGGGTCCTC 62.426 72.222 2.18 0.00 30.95 3.71
3850 8265 4.759205 ATGCAAAGGCCGGGGGTC 62.759 66.667 2.18 0.00 40.13 4.46
3851 8266 4.759205 GATGCAAAGGCCGGGGGT 62.759 66.667 2.18 0.00 40.13 4.95
3852 8267 4.447342 AGATGCAAAGGCCGGGGG 62.447 66.667 2.18 0.00 40.13 5.40
3853 8268 3.142838 CAGATGCAAAGGCCGGGG 61.143 66.667 2.18 0.00 40.13 5.73
3854 8269 3.142838 CCAGATGCAAAGGCCGGG 61.143 66.667 2.18 0.00 40.13 5.73
3855 8270 3.142838 CCCAGATGCAAAGGCCGG 61.143 66.667 0.00 0.00 40.13 6.13


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

AutoCloner maintained by Alex Coulton.