Multiple sequence alignment - TraesCS2A01G328000

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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 TraesCS2A01G328000 chr2A 100.000 3687 0 0 1 3687 559665275 559668961 0.000000e+00 6809.0
1 TraesCS2A01G328000 chr2A 95.801 762 30 2 1 760 559652794 559653555 0.000000e+00 1229.0
2 TraesCS2A01G328000 chr2A 78.486 502 66 29 2891 3373 738800714 738801192 1.300000e-74 291.0
3 TraesCS2A01G328000 chr2B 89.277 1231 105 13 1926 3142 512350862 512352079 0.000000e+00 1517.0
4 TraesCS2A01G328000 chr2B 87.154 1191 108 27 1925 3095 504776315 504775150 0.000000e+00 1310.0
5 TraesCS2A01G328000 chr2B 94.910 609 25 3 759 1365 512347263 512347867 0.000000e+00 948.0
6 TraesCS2A01G328000 chr2B 89.365 630 33 13 759 1368 504777396 504776781 0.000000e+00 761.0
7 TraesCS2A01G328000 chr2B 86.643 569 48 9 3146 3687 504775150 504774583 4.070000e-169 604.0
8 TraesCS2A01G328000 chr2B 85.589 569 47 21 3122 3687 512353469 512354005 6.910000e-157 564.0
9 TraesCS2A01G328000 chr2B 83.726 467 55 9 1415 1876 504776780 504776330 4.400000e-114 422.0
10 TraesCS2A01G328000 chr2B 85.285 333 43 3 1544 1876 512350520 512350846 4.560000e-89 339.0
11 TraesCS2A01G328000 chr2B 75.635 197 31 15 582 770 46240512 46240325 8.490000e-12 82.4
12 TraesCS2A01G328000 chr2D 89.483 1122 88 13 759 1876 427955815 427954720 0.000000e+00 1391.0
13 TraesCS2A01G328000 chr2D 88.297 957 80 19 1925 2867 427954705 427953767 0.000000e+00 1118.0
14 TraesCS2A01G328000 chr2D 88.781 517 27 5 2891 3380 427953659 427953147 4.070000e-169 604.0
15 TraesCS2A01G328000 chr2D 83.601 311 18 12 3378 3687 427953124 427952846 1.020000e-65 261.0
16 TraesCS2A01G328000 chr2D 91.139 79 7 0 2984 3062 196724072 196724150 1.400000e-19 108.0
17 TraesCS2A01G328000 chr3D 89.399 566 50 9 1 561 283543724 283544284 0.000000e+00 704.0
18 TraesCS2A01G328000 chr3D 88.850 565 53 10 1 560 283535568 283536127 0.000000e+00 686.0
19 TraesCS2A01G328000 chr3D 72.769 437 92 26 337 760 307909182 307908760 5.000000e-24 122.0
20 TraesCS2A01G328000 chr5A 79.630 594 75 25 2792 3373 113587226 113586667 5.780000e-103 385.0
21 TraesCS2A01G328000 chr6A 83.092 414 45 14 2792 3198 79407332 79406937 1.630000e-93 353.0
22 TraesCS2A01G328000 chr5D 88.776 294 24 4 4 288 370201906 370201613 5.860000e-93 351.0
23 TraesCS2A01G328000 chr5D 88.095 294 26 4 4 288 370250255 370249962 1.270000e-89 340.0
24 TraesCS2A01G328000 chr5D 71.882 441 98 24 328 759 24230358 24229935 1.810000e-18 104.0
25 TraesCS2A01G328000 chr7B 87.119 295 27 6 4 288 87033469 87033176 1.280000e-84 324.0
26 TraesCS2A01G328000 chr4D 86.824 296 29 2 3 289 295986928 295987222 4.590000e-84 322.0
27 TraesCS2A01G328000 chr4D 72.170 424 93 24 348 759 228296299 228295889 5.040000e-19 106.0
28 TraesCS2A01G328000 chr4D 72.104 423 93 24 348 759 228306126 228306534 1.810000e-18 104.0
29 TraesCS2A01G328000 chr4D 71.946 442 93 30 328 755 3193654 3193230 2.340000e-17 100.0
30 TraesCS2A01G328000 chr1A 85.324 293 33 5 6 288 382088288 382088580 1.000000e-75 294.0
31 TraesCS2A01G328000 chr6D 86.822 258 26 6 6 260 447639611 447639863 7.800000e-72 281.0
32 TraesCS2A01G328000 chr6D 72.748 444 94 26 328 759 257670624 257671052 1.390000e-24 124.0
33 TraesCS2A01G328000 chr6D 76.884 199 32 13 569 760 301061522 301061331 2.340000e-17 100.0
34 TraesCS2A01G328000 chr6D 77.005 187 27 12 583 760 147409069 147408890 3.920000e-15 93.5
35 TraesCS2A01G328000 chr7A 83.832 167 20 6 596 760 448372836 448372675 6.380000e-33 152.0
36 TraesCS2A01G328000 chr7A 82.209 163 20 7 598 759 228328894 228329048 8.310000e-27 132.0
37 TraesCS2A01G328000 chr7D 76.163 172 31 9 594 761 214997273 214997108 8.490000e-12 82.4
38 TraesCS2A01G328000 chr7D 75.543 184 32 12 584 760 408403259 408403436 1.100000e-10 78.7
39 TraesCS2A01G328000 chr3B 76.364 165 29 10 599 759 201413710 201413868 3.050000e-11 80.5


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 TraesCS2A01G328000 chr2A 559665275 559668961 3686 False 6809.00 6809 100.00000 1 3687 1 chr2A.!!$F2 3686
1 TraesCS2A01G328000 chr2A 559652794 559653555 761 False 1229.00 1229 95.80100 1 760 1 chr2A.!!$F1 759
2 TraesCS2A01G328000 chr2B 512347263 512354005 6742 False 842.00 1517 88.76525 759 3687 4 chr2B.!!$F1 2928
3 TraesCS2A01G328000 chr2B 504774583 504777396 2813 True 774.25 1310 86.72200 759 3687 4 chr2B.!!$R2 2928
4 TraesCS2A01G328000 chr2D 427952846 427955815 2969 True 843.50 1391 87.54050 759 3687 4 chr2D.!!$R1 2928
5 TraesCS2A01G328000 chr3D 283543724 283544284 560 False 704.00 704 89.39900 1 561 1 chr3D.!!$F2 560
6 TraesCS2A01G328000 chr3D 283535568 283536127 559 False 686.00 686 88.85000 1 560 1 chr3D.!!$F1 559
7 TraesCS2A01G328000 chr5A 113586667 113587226 559 True 385.00 385 79.63000 2792 3373 1 chr5A.!!$R1 581

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
768 772 1.450025 GGGCGTTACAAGAAGGAAGG 58.550 55.0 0.0 0.0 0.00 3.46 F
1632 4184 0.535335 GGCCACTTATGAGTCACCGA 59.465 55.0 0.0 0.0 32.54 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1876 4431 0.102844 TGAAAAGGCAGCACAACAGC 59.897 50.0 0.00 0.0 0.0 4.40 R
3502 7713 0.249657 GGGCGCTGGATCTAGTTCAG 60.250 60.0 7.64 0.0 0.0 3.02 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
154 156 3.830755 GCTAGGATTAGTCGATGGGGTAA 59.169 47.826 0.00 0.00 0.00 2.85
460 462 7.709182 ACAAAAAGTTTGGCACCTAGATAAAAC 59.291 33.333 5.76 0.00 0.00 2.43
598 601 6.817641 TGCTTTGGGATTATTGCAATACTTTG 59.182 34.615 18.70 5.62 35.85 2.77
680 683 6.077197 TGAATTCAATTTGTAACGAAGCGAG 58.923 36.000 5.45 0.00 0.00 5.03
681 684 5.856126 ATTCAATTTGTAACGAAGCGAGA 57.144 34.783 0.00 0.00 0.00 4.04
715 719 6.112734 AGAAGTAATTGCGATGACATGGTAA 58.887 36.000 4.13 3.63 0.00 2.85
738 742 3.967332 TTAGTGGGTGGTTACTGTAGC 57.033 47.619 0.00 0.00 0.00 3.58
750 754 6.423001 GTGGTTACTGTAGCTTAATTATCCGG 59.577 42.308 0.00 0.00 0.00 5.14
761 765 3.547054 AATTATCCGGGCGTTACAAGA 57.453 42.857 0.00 0.00 0.00 3.02
768 772 1.450025 GGGCGTTACAAGAAGGAAGG 58.550 55.000 0.00 0.00 0.00 3.46
1048 1071 2.606519 ACCGCCTAGCCACTTCCA 60.607 61.111 0.00 0.00 0.00 3.53
1317 1340 2.421529 CCTGGCACTCAAGGTATAACCC 60.422 54.545 0.00 0.00 39.75 4.11
1320 1343 3.279434 GGCACTCAAGGTATAACCCAAG 58.721 50.000 0.00 0.00 39.75 3.61
1321 1344 2.683362 GCACTCAAGGTATAACCCAAGC 59.317 50.000 0.00 0.00 39.75 4.01
1332 1355 1.386525 AACCCAAGCTGTGTGTGCAG 61.387 55.000 0.00 0.00 39.37 4.41
1365 1389 5.294552 GCAGAGTGTATTAGTTGGGATTCAC 59.705 44.000 0.00 0.00 0.00 3.18
1377 1401 7.410120 AGTTGGGATTCACAGGATTTTAATC 57.590 36.000 0.00 0.00 34.66 1.75
1378 1402 7.184862 AGTTGGGATTCACAGGATTTTAATCT 58.815 34.615 2.77 0.00 35.73 2.40
1379 1403 7.123247 AGTTGGGATTCACAGGATTTTAATCTG 59.877 37.037 2.77 0.00 35.73 2.90
1380 1404 6.730447 TGGGATTCACAGGATTTTAATCTGA 58.270 36.000 2.77 0.00 35.73 3.27
1381 1405 6.830324 TGGGATTCACAGGATTTTAATCTGAG 59.170 38.462 2.77 0.00 35.73 3.35
1382 1406 6.238869 GGGATTCACAGGATTTTAATCTGAGC 60.239 42.308 2.77 0.00 35.73 4.26
1385 1410 4.943705 TCACAGGATTTTAATCTGAGCACC 59.056 41.667 2.77 0.00 35.73 5.01
1389 1414 6.267471 ACAGGATTTTAATCTGAGCACCAAAA 59.733 34.615 2.77 0.00 35.73 2.44
1397 1422 5.886960 ATCTGAGCACCAAAATTACTGAC 57.113 39.130 0.00 0.00 0.00 3.51
1398 1423 3.745975 TCTGAGCACCAAAATTACTGACG 59.254 43.478 0.00 0.00 0.00 4.35
1421 1446 8.081208 ACGATTCAGCTAGATATTTTCACATG 57.919 34.615 0.00 0.00 0.00 3.21
1464 1492 3.937079 CTCACAGTTGCTGATTATGAGCA 59.063 43.478 1.50 1.50 44.75 4.26
1471 1499 4.160642 TGCTGATTATGAGCATTCCTGT 57.839 40.909 1.50 0.00 41.56 4.00
1478 1506 9.445878 CTGATTATGAGCATTCCTGTACATTAT 57.554 33.333 0.00 0.00 0.00 1.28
1489 1517 5.473273 TCCTGTACATTATGGTGGATAGGT 58.527 41.667 0.00 0.00 40.96 3.08
1490 1518 5.908831 TCCTGTACATTATGGTGGATAGGTT 59.091 40.000 0.00 0.00 40.96 3.50
1491 1519 5.997746 CCTGTACATTATGGTGGATAGGTTG 59.002 44.000 0.00 0.00 36.76 3.77
1492 1520 6.409234 CCTGTACATTATGGTGGATAGGTTGT 60.409 42.308 0.00 0.00 36.76 3.32
1493 1521 7.202056 CCTGTACATTATGGTGGATAGGTTGTA 60.202 40.741 0.00 0.00 36.76 2.41
1494 1522 8.270137 TGTACATTATGGTGGATAGGTTGTAT 57.730 34.615 0.00 0.00 0.00 2.29
1495 1523 9.382307 TGTACATTATGGTGGATAGGTTGTATA 57.618 33.333 0.00 0.00 0.00 1.47
1496 1524 9.649167 GTACATTATGGTGGATAGGTTGTATAC 57.351 37.037 0.00 0.00 0.00 1.47
1525 1553 2.019984 CTAGCCTGCTCCACCAATTTC 58.980 52.381 0.00 0.00 0.00 2.17
1535 1563 2.560542 TCCACCAATTTCCACCGATTTG 59.439 45.455 0.00 0.00 0.00 2.32
1542 4094 5.125417 CCAATTTCCACCGATTTGTCACTAT 59.875 40.000 0.00 0.00 0.00 2.12
1562 4114 7.232941 TCACTATAGGAAACCTAGGCTATTCAC 59.767 40.741 9.30 5.94 39.70 3.18
1575 4127 3.746492 GGCTATTCACGAACTGTCTGTTT 59.254 43.478 0.00 0.00 39.30 2.83
1585 4137 5.475909 ACGAACTGTCTGTTTAGATCACCTA 59.524 40.000 0.00 0.00 39.30 3.08
1590 4142 6.213600 ACTGTCTGTTTAGATCACCTACCATT 59.786 38.462 0.00 0.00 34.94 3.16
1594 4146 6.878923 TCTGTTTAGATCACCTACCATTGTTG 59.121 38.462 0.00 0.00 0.00 3.33
1610 4162 3.916359 TGTTGGGAAACAGTCTGTACA 57.084 42.857 5.77 2.86 0.00 2.90
1630 4182 1.279271 ACTGGCCACTTATGAGTCACC 59.721 52.381 0.00 0.00 32.54 4.02
1632 4184 0.535335 GGCCACTTATGAGTCACCGA 59.465 55.000 0.00 0.00 32.54 4.69
1638 4190 2.619177 ACTTATGAGTCACCGATCTCCG 59.381 50.000 0.00 0.00 38.18 4.63
1655 4207 1.269448 TCCGAATTGTTCCTGCTTTGC 59.731 47.619 0.00 0.00 0.00 3.68
1660 4212 1.999648 TTGTTCCTGCTTTGCTCCAT 58.000 45.000 0.00 0.00 0.00 3.41
1670 4222 3.056678 TGCTTTGCTCCATACCAATGTTG 60.057 43.478 0.00 0.00 0.00 3.33
1699 4251 1.845627 ATGGCTGCAGTAGGTGTGCT 61.846 55.000 16.64 0.00 41.78 4.40
1714 4269 6.491714 AGGTGTGCTATAGATGACATTTCT 57.508 37.500 3.21 0.78 0.00 2.52
1715 4270 6.520272 AGGTGTGCTATAGATGACATTTCTC 58.480 40.000 3.21 0.00 0.00 2.87
1718 4273 7.254590 GGTGTGCTATAGATGACATTTCTCAAC 60.255 40.741 3.21 0.00 0.00 3.18
1727 4282 5.497464 TGACATTTCTCAACCATACCAGA 57.503 39.130 0.00 0.00 0.00 3.86
1733 4288 4.553330 TCTCAACCATACCAGAAGGAAC 57.447 45.455 0.00 0.00 38.69 3.62
1749 4304 5.762218 AGAAGGAACAAATCTGTGAAGTGAG 59.238 40.000 0.00 0.00 35.37 3.51
1801 4356 8.023128 TCTTGCAACAAGAATCTTAAATAGCAC 58.977 33.333 7.54 0.00 0.00 4.40
1806 4361 9.180678 CAACAAGAATCTTAAATAGCACGTTTT 57.819 29.630 0.00 0.00 0.00 2.43
1808 4363 9.394477 ACAAGAATCTTAAATAGCACGTTTTTC 57.606 29.630 0.00 0.00 0.00 2.29
1820 4375 9.865321 AATAGCACGTTTTTCTTACTCTACATA 57.135 29.630 0.00 0.00 0.00 2.29
1822 4377 8.015409 AGCACGTTTTTCTTACTCTACATAAC 57.985 34.615 0.00 0.00 0.00 1.89
1828 4383 9.474249 GTTTTTCTTACTCTACATAACGAATGC 57.526 33.333 0.00 0.00 39.39 3.56
1838 4393 0.986270 TAACGAATGCTGTACGTGCG 59.014 50.000 0.00 0.00 42.55 5.34
1853 4408 4.742438 ACGTGCGAAATTTACATGAGTT 57.258 36.364 16.06 0.00 0.00 3.01
1876 4431 3.824414 AAATTTTAGTCGAGCAACCGG 57.176 42.857 0.00 0.00 0.00 5.28
1888 4443 3.595758 AACCGGCTGTTGTGCTGC 61.596 61.111 0.00 0.00 40.72 5.25
1894 4449 2.890941 GCTGTTGTGCTGCCTTTTC 58.109 52.632 0.00 0.00 36.24 2.29
1895 4450 0.102844 GCTGTTGTGCTGCCTTTTCA 59.897 50.000 0.00 0.00 36.24 2.69
1896 4451 1.269936 GCTGTTGTGCTGCCTTTTCAT 60.270 47.619 0.00 0.00 36.24 2.57
1897 4452 2.669364 CTGTTGTGCTGCCTTTTCATC 58.331 47.619 0.00 0.00 0.00 2.92
1898 4453 2.030371 TGTTGTGCTGCCTTTTCATCA 58.970 42.857 0.00 0.00 0.00 3.07
1899 4454 2.429971 TGTTGTGCTGCCTTTTCATCAA 59.570 40.909 0.00 0.00 0.00 2.57
1900 4455 3.054878 GTTGTGCTGCCTTTTCATCAAG 58.945 45.455 0.00 0.00 0.00 3.02
1901 4456 2.585330 TGTGCTGCCTTTTCATCAAGA 58.415 42.857 0.00 0.00 0.00 3.02
1902 4457 2.957680 TGTGCTGCCTTTTCATCAAGAA 59.042 40.909 0.00 0.00 0.00 2.52
1903 4458 3.005050 TGTGCTGCCTTTTCATCAAGAAG 59.995 43.478 0.00 0.00 37.57 2.85
1904 4459 3.254166 GTGCTGCCTTTTCATCAAGAAGA 59.746 43.478 0.00 0.00 37.57 2.87
1905 4460 3.890756 TGCTGCCTTTTCATCAAGAAGAA 59.109 39.130 0.00 0.00 37.57 2.52
1906 4461 4.233005 GCTGCCTTTTCATCAAGAAGAAC 58.767 43.478 0.00 0.00 37.57 3.01
1907 4462 4.470462 CTGCCTTTTCATCAAGAAGAACG 58.530 43.478 0.00 0.00 37.57 3.95
1908 4463 3.253188 TGCCTTTTCATCAAGAAGAACGG 59.747 43.478 0.00 0.00 37.57 4.44
1909 4464 3.502211 GCCTTTTCATCAAGAAGAACGGA 59.498 43.478 6.70 0.00 37.57 4.69
1910 4465 4.378874 GCCTTTTCATCAAGAAGAACGGAG 60.379 45.833 6.70 0.00 37.57 4.63
1911 4466 4.997395 CCTTTTCATCAAGAAGAACGGAGA 59.003 41.667 0.00 0.00 37.57 3.71
1912 4467 5.106908 CCTTTTCATCAAGAAGAACGGAGAC 60.107 44.000 0.00 0.00 37.57 3.36
1913 4468 4.600692 TTCATCAAGAAGAACGGAGACA 57.399 40.909 0.00 0.00 0.00 3.41
1914 4469 3.914312 TCATCAAGAAGAACGGAGACAC 58.086 45.455 0.00 0.00 0.00 3.67
1915 4470 3.574396 TCATCAAGAAGAACGGAGACACT 59.426 43.478 0.00 0.00 0.00 3.55
1916 4471 4.765339 TCATCAAGAAGAACGGAGACACTA 59.235 41.667 0.00 0.00 0.00 2.74
1917 4472 4.768130 TCAAGAAGAACGGAGACACTAG 57.232 45.455 0.00 0.00 0.00 2.57
1918 4473 4.142790 TCAAGAAGAACGGAGACACTAGT 58.857 43.478 0.00 0.00 0.00 2.57
1919 4474 4.583489 TCAAGAAGAACGGAGACACTAGTT 59.417 41.667 0.00 0.00 0.00 2.24
1920 4475 4.506886 AGAAGAACGGAGACACTAGTTG 57.493 45.455 0.00 0.00 0.00 3.16
1921 4476 2.726832 AGAACGGAGACACTAGTTGC 57.273 50.000 0.00 0.00 0.00 4.17
1922 4477 1.961394 AGAACGGAGACACTAGTTGCA 59.039 47.619 0.00 0.00 0.00 4.08
1923 4478 2.563179 AGAACGGAGACACTAGTTGCAT 59.437 45.455 0.00 0.00 0.00 3.96
1935 4490 2.877097 AGTTGCATGTGGTGGTCATA 57.123 45.000 0.00 0.00 0.00 2.15
1938 4493 4.854173 AGTTGCATGTGGTGGTCATATTA 58.146 39.130 0.00 0.00 0.00 0.98
1955 4510 6.649141 GTCATATTATTAGACCGAACATGCCA 59.351 38.462 0.00 0.00 0.00 4.92
1962 4517 1.066303 GACCGAACATGCCAAAACACA 59.934 47.619 0.00 0.00 0.00 3.72
1968 4527 4.492247 CGAACATGCCAAAACACACAAAAG 60.492 41.667 0.00 0.00 0.00 2.27
1970 4529 4.768583 ACATGCCAAAACACACAAAAGAT 58.231 34.783 0.00 0.00 0.00 2.40
1971 4530 5.911752 ACATGCCAAAACACACAAAAGATA 58.088 33.333 0.00 0.00 0.00 1.98
1979 4538 9.878599 CCAAAACACACAAAAGATACTAACTAG 57.121 33.333 0.00 0.00 0.00 2.57
1999 4558 1.665679 GTGATATTGCGTCCCACACAG 59.334 52.381 0.00 0.00 0.00 3.66
2000 4559 1.277842 TGATATTGCGTCCCACACAGT 59.722 47.619 0.00 0.00 0.00 3.55
2005 4564 2.972505 CGTCCCACACAGTGTGCC 60.973 66.667 26.03 15.09 46.51 5.01
2041 4606 1.389609 GGGCCTGCTGGTCATGAATG 61.390 60.000 16.72 0.00 40.42 2.67
2050 4615 5.202765 TGCTGGTCATGAATGGTGATAATT 58.797 37.500 0.00 0.00 0.00 1.40
2062 4627 6.639632 ATGGTGATAATTCATTGGCAGTAC 57.360 37.500 0.00 0.00 33.56 2.73
2069 4634 1.002624 CATTGGCAGTACACGGGGT 60.003 57.895 0.00 0.00 0.00 4.95
2071 4636 0.985760 ATTGGCAGTACACGGGGTTA 59.014 50.000 0.00 0.00 0.00 2.85
2074 4639 1.547472 GGCAGTACACGGGGTTACCT 61.547 60.000 0.00 0.00 36.97 3.08
2075 4640 0.322648 GCAGTACACGGGGTTACCTT 59.677 55.000 0.00 0.00 36.97 3.50
2079 4645 4.436332 CAGTACACGGGGTTACCTTAATC 58.564 47.826 0.00 0.00 36.97 1.75
2102 4668 2.831526 AGTCTGTTGTTGTTGCCCTTTT 59.168 40.909 0.00 0.00 0.00 2.27
2111 4677 6.031751 TGTTGTTGCCCTTTTACCATTATC 57.968 37.500 0.00 0.00 0.00 1.75
2113 4679 6.212388 TGTTGTTGCCCTTTTACCATTATCAT 59.788 34.615 0.00 0.00 0.00 2.45
2114 4680 7.397476 TGTTGTTGCCCTTTTACCATTATCATA 59.603 33.333 0.00 0.00 0.00 2.15
2115 4681 8.421002 GTTGTTGCCCTTTTACCATTATCATAT 58.579 33.333 0.00 0.00 0.00 1.78
2120 4686 8.986991 TGCCCTTTTACCATTATCATATGTTTT 58.013 29.630 1.90 0.00 0.00 2.43
2150 4717 5.221601 TGCTTTCTTTTGGGTATTTGCATGA 60.222 36.000 0.00 0.00 0.00 3.07
2160 4727 6.629128 TGGGTATTTGCATGACAATTTACTG 58.371 36.000 0.00 0.00 38.31 2.74
2161 4728 5.519927 GGGTATTTGCATGACAATTTACTGC 59.480 40.000 0.00 0.00 38.31 4.40
2162 4729 6.098679 GGTATTTGCATGACAATTTACTGCA 58.901 36.000 0.00 0.00 40.79 4.41
2170 4737 8.198778 TGCATGACAATTTACTGCATATTCATT 58.801 29.630 0.00 0.00 37.88 2.57
2181 4755 7.161773 ACTGCATATTCATTAGCACAGTTTT 57.838 32.000 0.00 0.00 33.56 2.43
2302 4885 6.550938 TGTCATCTATGTCAGGTCTTTGAT 57.449 37.500 0.00 0.00 0.00 2.57
2374 4957 6.283694 TGATCTTATTACAGTGCTTGCTAGG 58.716 40.000 0.00 0.00 0.00 3.02
2566 5149 6.530120 TGACAGGACAACATACATAACACTT 58.470 36.000 0.00 0.00 0.00 3.16
2643 5226 2.704572 AGCAGAAAGTGACTATGGTGC 58.295 47.619 0.00 0.00 0.00 5.01
2723 5306 2.620115 CAGGATGTTGTATGGCCATGTC 59.380 50.000 29.04 20.14 0.00 3.06
2732 5315 1.987807 ATGGCCATGTCGGAAGGGAG 61.988 60.000 20.04 0.00 36.56 4.30
2735 5318 1.141881 CCATGTCGGAAGGGAGTCG 59.858 63.158 0.00 0.00 36.56 4.18
2739 5322 1.619654 TGTCGGAAGGGAGTCGTTTA 58.380 50.000 0.00 0.00 0.00 2.01
2741 5324 2.094390 TGTCGGAAGGGAGTCGTTTATG 60.094 50.000 0.00 0.00 0.00 1.90
2746 5329 4.182339 GGAAGGGAGTCGTTTATGAAGTC 58.818 47.826 0.00 0.00 0.00 3.01
2850 5436 8.730948 TGAGTTACTAGTACCATTATCTACCCT 58.269 37.037 0.91 0.00 0.00 4.34
2895 5577 2.671070 GCTACCTCCAGGCTGCAA 59.329 61.111 9.56 0.00 39.32 4.08
2900 5582 2.037136 CCTCCAGGCTGCAACTTCG 61.037 63.158 9.56 0.00 0.00 3.79
2952 5636 6.846325 ACTTGTTAGTTTTTCCTTCGAGAG 57.154 37.500 0.00 0.00 0.00 3.20
2980 5664 8.146479 TCTCTGTGTATAATCAATCACATTGC 57.854 34.615 0.00 0.00 39.51 3.56
2982 5666 9.264719 CTCTGTGTATAATCAATCACATTGCTA 57.735 33.333 0.00 0.00 39.51 3.49
2989 5673 8.969260 ATAATCAATCACATTGCTACTTCTGA 57.031 30.769 0.00 0.00 40.05 3.27
3133 5868 5.543507 AAGATGTCTTACAGCTATCTGGG 57.456 43.478 0.00 0.00 45.10 4.45
3269 7435 4.020128 GGAACATTCCTACCAACTCTCACT 60.020 45.833 3.24 0.00 44.11 3.41
3297 7465 4.001618 AGTTTCTCCACTTTCAGAGAGC 57.998 45.455 0.00 0.00 40.13 4.09
3305 7473 1.811359 ACTTTCAGAGAGCAATGCAGC 59.189 47.619 8.35 0.00 0.00 5.25
3339 7510 4.270245 TCCATGGAAGGCAAATCAAAAC 57.730 40.909 13.46 0.00 0.00 2.43
3343 7517 4.070630 TGGAAGGCAAATCAAAACCTTG 57.929 40.909 0.00 0.00 42.54 3.61
3345 7519 2.549064 AGGCAAATCAAAACCTTGGC 57.451 45.000 0.00 0.00 43.78 4.52
3435 7645 2.229062 TCAAACGAGACCTCTGCTACAG 59.771 50.000 0.00 0.00 0.00 2.74
3502 7713 4.899239 CCTGGGCGCATCCGAGTC 62.899 72.222 10.83 0.00 38.86 3.36
3515 7726 3.646736 TCCGAGTCTGAACTAGATCCA 57.353 47.619 0.00 0.00 37.83 3.41
3552 7763 3.971109 TTCTCCGCCTCGCTCGAGA 62.971 63.158 18.75 0.00 44.53 4.04
3554 7765 4.779966 TCCGCCTCGCTCGAGAGT 62.780 66.667 18.75 0.00 44.53 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
90 91 3.717294 GCCTCTTTCTCCCCCGCA 61.717 66.667 0.00 0.00 0.00 5.69
664 667 5.668558 AAAAGTCTCGCTTCGTTACAAAT 57.331 34.783 0.00 0.00 36.17 2.32
715 719 4.323257 GCTACAGTAACCACCCACTAATGT 60.323 45.833 0.00 0.00 0.00 2.71
738 742 5.051816 TCTTGTAACGCCCGGATAATTAAG 58.948 41.667 0.73 0.00 0.00 1.85
750 754 1.002773 TCCCTTCCTTCTTGTAACGCC 59.997 52.381 0.00 0.00 0.00 5.68
761 765 2.034221 GCCGCACTTCCCTTCCTT 59.966 61.111 0.00 0.00 0.00 3.36
768 772 1.398390 CACTATTTGAGCCGCACTTCC 59.602 52.381 0.00 0.00 0.00 3.46
1042 1065 4.250305 AACAGCGGCGGTGGAAGT 62.250 61.111 37.59 18.19 35.13 3.01
1317 1340 1.262417 CAGTACTGCACACACAGCTTG 59.738 52.381 10.54 0.00 41.60 4.01
1320 1343 1.230635 CCCAGTACTGCACACACAGC 61.231 60.000 17.86 0.00 41.60 4.40
1321 1344 0.392706 TCCCAGTACTGCACACACAG 59.607 55.000 17.86 1.00 43.59 3.66
1332 1355 4.645588 ACTAATACACTCTGCTCCCAGTAC 59.354 45.833 0.00 0.00 40.09 2.73
1365 1389 5.902613 TTGGTGCTCAGATTAAAATCCTG 57.097 39.130 0.00 0.00 36.04 3.86
1377 1401 3.745975 TCGTCAGTAATTTTGGTGCTCAG 59.254 43.478 0.00 0.00 0.00 3.35
1378 1402 3.734463 TCGTCAGTAATTTTGGTGCTCA 58.266 40.909 0.00 0.00 0.00 4.26
1379 1403 4.946784 ATCGTCAGTAATTTTGGTGCTC 57.053 40.909 0.00 0.00 0.00 4.26
1380 1404 4.759693 TGAATCGTCAGTAATTTTGGTGCT 59.240 37.500 0.00 0.00 0.00 4.40
1381 1405 5.041951 TGAATCGTCAGTAATTTTGGTGC 57.958 39.130 0.00 0.00 0.00 5.01
1397 1422 7.172190 ACCATGTGAAAATATCTAGCTGAATCG 59.828 37.037 0.00 0.00 0.00 3.34
1398 1423 8.388484 ACCATGTGAAAATATCTAGCTGAATC 57.612 34.615 0.00 0.00 0.00 2.52
1408 1433 7.864379 CAGGCTAATCAACCATGTGAAAATATC 59.136 37.037 0.00 0.00 0.00 1.63
1421 1446 4.324267 AGTACACAACAGGCTAATCAACC 58.676 43.478 0.00 0.00 0.00 3.77
1464 1492 6.562608 ACCTATCCACCATAATGTACAGGAAT 59.437 38.462 0.33 0.00 0.00 3.01
1471 1499 9.610104 AGTATACAACCTATCCACCATAATGTA 57.390 33.333 5.50 0.00 0.00 2.29
1478 1506 7.924358 ATACAAGTATACAACCTATCCACCA 57.076 36.000 5.50 0.00 0.00 4.17
1489 1517 7.792032 AGCAGGCTAGAAATACAAGTATACAA 58.208 34.615 5.50 0.00 0.00 2.41
1490 1518 7.361457 AGCAGGCTAGAAATACAAGTATACA 57.639 36.000 5.50 0.00 0.00 2.29
1491 1519 6.869388 GGAGCAGGCTAGAAATACAAGTATAC 59.131 42.308 0.00 0.00 0.00 1.47
1492 1520 6.553476 TGGAGCAGGCTAGAAATACAAGTATA 59.447 38.462 0.00 0.00 0.00 1.47
1493 1521 5.366768 TGGAGCAGGCTAGAAATACAAGTAT 59.633 40.000 0.00 0.00 0.00 2.12
1494 1522 4.714802 TGGAGCAGGCTAGAAATACAAGTA 59.285 41.667 0.00 0.00 0.00 2.24
1495 1523 3.519510 TGGAGCAGGCTAGAAATACAAGT 59.480 43.478 0.00 0.00 0.00 3.16
1496 1524 3.873952 GTGGAGCAGGCTAGAAATACAAG 59.126 47.826 0.00 0.00 0.00 3.16
1525 1553 4.665833 TCCTATAGTGACAAATCGGTGG 57.334 45.455 0.00 0.00 0.00 4.61
1535 1563 7.232941 TGAATAGCCTAGGTTTCCTATAGTGAC 59.767 40.741 11.31 0.00 35.36 3.67
1542 4094 4.539726 TCGTGAATAGCCTAGGTTTCCTA 58.460 43.478 11.31 3.40 34.61 2.94
1562 4114 4.810790 AGGTGATCTAAACAGACAGTTCG 58.189 43.478 0.00 0.00 40.26 3.95
1575 4127 4.367166 TCCCAACAATGGTAGGTGATCTA 58.633 43.478 0.00 0.00 46.01 1.98
1585 4137 2.958355 CAGACTGTTTCCCAACAATGGT 59.042 45.455 0.00 0.00 46.01 3.55
1590 4142 3.199071 AGTGTACAGACTGTTTCCCAACA 59.801 43.478 14.50 7.96 40.82 3.33
1594 4146 2.767505 CCAGTGTACAGACTGTTTCCC 58.232 52.381 14.50 0.00 41.65 3.97
1604 4156 3.055819 ACTCATAAGTGGCCAGTGTACAG 60.056 47.826 15.51 10.75 33.32 2.74
1610 4162 1.279271 GGTGACTCATAAGTGGCCAGT 59.721 52.381 5.11 6.41 35.28 4.00
1630 4182 1.594862 GCAGGAACAATTCGGAGATCG 59.405 52.381 0.00 0.00 35.04 3.69
1632 4184 3.356529 AAGCAGGAACAATTCGGAGAT 57.643 42.857 0.00 0.00 35.04 2.75
1638 4190 2.297033 TGGAGCAAAGCAGGAACAATTC 59.703 45.455 0.00 0.00 0.00 2.17
1670 4222 3.855689 ACTGCAGCCATACAATGAAAC 57.144 42.857 15.27 0.00 0.00 2.78
1678 4230 1.656652 CACACCTACTGCAGCCATAC 58.343 55.000 15.27 0.00 0.00 2.39
1699 4251 8.933653 TGGTATGGTTGAGAAATGTCATCTATA 58.066 33.333 0.00 0.00 0.00 1.31
1714 4269 4.715534 TTGTTCCTTCTGGTATGGTTGA 57.284 40.909 0.00 0.00 34.23 3.18
1715 4270 5.711976 AGATTTGTTCCTTCTGGTATGGTTG 59.288 40.000 0.00 0.00 34.23 3.77
1718 4273 5.124457 CACAGATTTGTTCCTTCTGGTATGG 59.876 44.000 4.40 0.00 40.92 2.74
1727 4282 4.823989 CCTCACTTCACAGATTTGTTCCTT 59.176 41.667 0.00 0.00 34.62 3.36
1733 4288 5.335426 CCACATTCCTCACTTCACAGATTTG 60.335 44.000 0.00 0.00 0.00 2.32
1749 4304 7.074653 TGATAAGGAACTATACCCACATTCC 57.925 40.000 0.00 0.00 38.49 3.01
1801 4356 9.671521 CATTCGTTATGTAGAGTAAGAAAAACG 57.328 33.333 0.00 0.00 38.70 3.60
1806 4361 7.544622 ACAGCATTCGTTATGTAGAGTAAGAA 58.455 34.615 0.00 0.00 36.57 2.52
1808 4363 7.111732 CGTACAGCATTCGTTATGTAGAGTAAG 59.888 40.741 0.00 0.00 36.57 2.34
1812 4367 5.171516 CACGTACAGCATTCGTTATGTAGAG 59.828 44.000 0.00 0.00 36.57 2.43
1820 4375 0.665068 TCGCACGTACAGCATTCGTT 60.665 50.000 7.90 0.00 35.62 3.85
1822 4377 0.436913 TTTCGCACGTACAGCATTCG 59.563 50.000 7.90 0.00 0.00 3.34
1828 4383 5.163992 ACTCATGTAAATTTCGCACGTACAG 60.164 40.000 0.00 0.00 0.00 2.74
1853 4408 5.006941 GCCGGTTGCTCGACTAAAATTTATA 59.993 40.000 1.90 0.00 36.87 0.98
1876 4431 0.102844 TGAAAAGGCAGCACAACAGC 59.897 50.000 0.00 0.00 0.00 4.40
1878 4433 2.030371 TGATGAAAAGGCAGCACAACA 58.970 42.857 0.00 0.00 0.00 3.33
1879 4434 2.798976 TGATGAAAAGGCAGCACAAC 57.201 45.000 0.00 0.00 0.00 3.32
1880 4435 2.957680 TCTTGATGAAAAGGCAGCACAA 59.042 40.909 0.00 0.00 33.38 3.33
1882 4437 3.254166 TCTTCTTGATGAAAAGGCAGCAC 59.746 43.478 0.00 0.00 33.38 4.40
1883 4438 3.489355 TCTTCTTGATGAAAAGGCAGCA 58.511 40.909 0.00 0.00 33.79 4.41
1884 4439 4.233005 GTTCTTCTTGATGAAAAGGCAGC 58.767 43.478 1.38 0.00 33.79 5.25
1885 4440 4.470462 CGTTCTTCTTGATGAAAAGGCAG 58.530 43.478 1.38 0.00 33.79 4.85
1886 4441 3.253188 CCGTTCTTCTTGATGAAAAGGCA 59.747 43.478 1.38 0.00 33.79 4.75
1888 4443 4.997395 TCTCCGTTCTTCTTGATGAAAAGG 59.003 41.667 11.88 11.88 33.79 3.11
1889 4444 5.466728 TGTCTCCGTTCTTCTTGATGAAAAG 59.533 40.000 1.38 1.51 33.79 2.27
1890 4445 5.236478 GTGTCTCCGTTCTTCTTGATGAAAA 59.764 40.000 1.38 0.00 33.79 2.29
1891 4446 4.750098 GTGTCTCCGTTCTTCTTGATGAAA 59.250 41.667 1.38 0.00 33.79 2.69
1892 4447 4.039245 AGTGTCTCCGTTCTTCTTGATGAA 59.961 41.667 0.00 0.00 0.00 2.57
1893 4448 3.574396 AGTGTCTCCGTTCTTCTTGATGA 59.426 43.478 0.00 0.00 0.00 2.92
1894 4449 3.919216 AGTGTCTCCGTTCTTCTTGATG 58.081 45.455 0.00 0.00 0.00 3.07
1895 4450 4.767928 ACTAGTGTCTCCGTTCTTCTTGAT 59.232 41.667 0.00 0.00 0.00 2.57
1896 4451 4.142790 ACTAGTGTCTCCGTTCTTCTTGA 58.857 43.478 0.00 0.00 0.00 3.02
1897 4452 4.506886 ACTAGTGTCTCCGTTCTTCTTG 57.493 45.455 0.00 0.00 0.00 3.02
1898 4453 4.796618 GCAACTAGTGTCTCCGTTCTTCTT 60.797 45.833 0.00 0.00 0.00 2.52
1899 4454 3.305471 GCAACTAGTGTCTCCGTTCTTCT 60.305 47.826 0.00 0.00 0.00 2.85
1900 4455 2.987821 GCAACTAGTGTCTCCGTTCTTC 59.012 50.000 0.00 0.00 0.00 2.87
1901 4456 2.364324 TGCAACTAGTGTCTCCGTTCTT 59.636 45.455 0.00 0.00 0.00 2.52
1902 4457 1.961394 TGCAACTAGTGTCTCCGTTCT 59.039 47.619 0.00 0.00 0.00 3.01
1903 4458 2.433868 TGCAACTAGTGTCTCCGTTC 57.566 50.000 0.00 0.00 0.00 3.95
1904 4459 2.037251 ACATGCAACTAGTGTCTCCGTT 59.963 45.455 0.00 0.00 0.00 4.44
1905 4460 1.618837 ACATGCAACTAGTGTCTCCGT 59.381 47.619 0.00 0.00 0.00 4.69
1906 4461 1.995484 CACATGCAACTAGTGTCTCCG 59.005 52.381 0.00 0.00 0.00 4.63
1907 4462 2.289694 ACCACATGCAACTAGTGTCTCC 60.290 50.000 0.00 0.00 0.00 3.71
1908 4463 2.738846 CACCACATGCAACTAGTGTCTC 59.261 50.000 0.00 0.00 0.00 3.36
1909 4464 2.550855 CCACCACATGCAACTAGTGTCT 60.551 50.000 0.00 0.00 0.00 3.41
1910 4465 1.806542 CCACCACATGCAACTAGTGTC 59.193 52.381 0.00 0.00 0.00 3.67
1911 4466 1.142870 ACCACCACATGCAACTAGTGT 59.857 47.619 0.00 0.00 0.00 3.55
1912 4467 1.806542 GACCACCACATGCAACTAGTG 59.193 52.381 0.00 0.00 0.00 2.74
1913 4468 1.419762 TGACCACCACATGCAACTAGT 59.580 47.619 0.00 0.00 0.00 2.57
1914 4469 2.183478 TGACCACCACATGCAACTAG 57.817 50.000 0.00 0.00 0.00 2.57
1915 4470 2.877097 ATGACCACCACATGCAACTA 57.123 45.000 0.00 0.00 0.00 2.24
1916 4471 2.877097 TATGACCACCACATGCAACT 57.123 45.000 0.00 0.00 0.00 3.16
1917 4472 5.772825 ATAATATGACCACCACATGCAAC 57.227 39.130 0.00 0.00 0.00 4.17
1918 4473 7.228507 GTCTAATAATATGACCACCACATGCAA 59.771 37.037 0.00 0.00 0.00 4.08
1919 4474 6.710295 GTCTAATAATATGACCACCACATGCA 59.290 38.462 0.00 0.00 0.00 3.96
1920 4475 6.149474 GGTCTAATAATATGACCACCACATGC 59.851 42.308 6.52 0.00 46.79 4.06
1921 4476 7.672983 GGTCTAATAATATGACCACCACATG 57.327 40.000 6.52 0.00 46.79 3.21
1935 4490 6.151985 TGTTTTGGCATGTTCGGTCTAATAAT 59.848 34.615 0.00 0.00 0.00 1.28
1938 4493 3.823873 TGTTTTGGCATGTTCGGTCTAAT 59.176 39.130 0.00 0.00 0.00 1.73
1945 4500 2.200792 TGTGTGTTTTGGCATGTTCG 57.799 45.000 0.00 0.00 0.00 3.95
1968 4527 7.028361 GGGACGCAATATCACTAGTTAGTATC 58.972 42.308 0.00 0.00 34.13 2.24
1970 4529 5.829391 TGGGACGCAATATCACTAGTTAGTA 59.171 40.000 0.00 0.00 34.13 1.82
1971 4530 4.647853 TGGGACGCAATATCACTAGTTAGT 59.352 41.667 0.00 0.00 36.90 2.24
2017 4576 4.154347 GACCAGCAGGCCCTCTCG 62.154 72.222 0.00 0.00 39.06 4.04
2018 4577 2.373707 ATGACCAGCAGGCCCTCTC 61.374 63.158 0.00 0.00 39.06 3.20
2019 4578 2.285969 ATGACCAGCAGGCCCTCT 60.286 61.111 0.00 0.00 39.06 3.69
2020 4579 2.124403 CATGACCAGCAGGCCCTC 60.124 66.667 0.00 0.00 39.06 4.30
2021 4580 1.578215 ATTCATGACCAGCAGGCCCT 61.578 55.000 0.00 0.00 39.06 5.19
2022 4581 1.076485 ATTCATGACCAGCAGGCCC 60.076 57.895 0.00 0.00 39.06 5.80
2023 4582 1.389609 CCATTCATGACCAGCAGGCC 61.390 60.000 0.00 0.00 39.06 5.19
2041 4606 5.504010 CGTGTACTGCCAATGAATTATCACC 60.504 44.000 0.00 0.00 38.69 4.02
2050 4615 1.298340 CCCCGTGTACTGCCAATGA 59.702 57.895 0.00 0.00 0.00 2.57
2062 4627 4.648307 AGACTAGATTAAGGTAACCCCGTG 59.352 45.833 0.00 0.00 38.74 4.94
2069 4634 9.268268 CAACAACAACAGACTAGATTAAGGTAA 57.732 33.333 0.00 0.00 0.00 2.85
2071 4636 6.204882 GCAACAACAACAGACTAGATTAAGGT 59.795 38.462 0.00 0.00 0.00 3.50
2074 4639 5.472137 GGGCAACAACAACAGACTAGATTAA 59.528 40.000 0.00 0.00 39.74 1.40
2075 4640 5.001232 GGGCAACAACAACAGACTAGATTA 58.999 41.667 0.00 0.00 39.74 1.75
2079 4645 2.851195 AGGGCAACAACAACAGACTAG 58.149 47.619 0.00 0.00 39.74 2.57
2113 4679 9.050601 CCCAAAAGAAAGCATTTACAAAACATA 57.949 29.630 0.00 0.00 39.27 2.29
2114 4680 7.555914 ACCCAAAAGAAAGCATTTACAAAACAT 59.444 29.630 0.00 0.00 39.27 2.71
2115 4681 6.881602 ACCCAAAAGAAAGCATTTACAAAACA 59.118 30.769 0.00 0.00 39.27 2.83
2120 4686 7.172361 GCAAATACCCAAAAGAAAGCATTTACA 59.828 33.333 0.00 0.00 39.27 2.41
2131 4697 5.798125 TTGTCATGCAAATACCCAAAAGA 57.202 34.783 0.00 0.00 33.53 2.52
2150 4717 8.685427 TGTGCTAATGAATATGCAGTAAATTGT 58.315 29.630 0.00 0.00 36.03 2.71
2170 4737 8.560355 TGCAGATAAGAATAAAAACTGTGCTA 57.440 30.769 0.00 0.00 0.00 3.49
2201 4783 8.248945 GCTTGCCAGCATCATCTATTAATTAAT 58.751 33.333 14.86 14.86 46.49 1.40
2202 4784 7.596494 GCTTGCCAGCATCATCTATTAATTAA 58.404 34.615 4.63 0.00 46.49 1.40
2203 4785 7.149569 GCTTGCCAGCATCATCTATTAATTA 57.850 36.000 4.63 0.00 46.49 1.40
2204 4786 6.022163 GCTTGCCAGCATCATCTATTAATT 57.978 37.500 4.63 0.00 46.49 1.40
2236 4818 3.565482 TGCATTTCTCAGTTCCAGTCAAC 59.435 43.478 0.00 0.00 0.00 3.18
2302 4885 2.354103 CCAGTGCTCCTTTCGAATCTCA 60.354 50.000 0.00 0.00 0.00 3.27
2374 4957 1.555533 ACCTCGGACCTCAATCCTTTC 59.444 52.381 0.00 0.00 36.52 2.62
2566 5149 2.879103 GGGATTCAAGACCCTTGACA 57.121 50.000 8.72 2.53 42.56 3.58
2643 5226 1.338200 CGTCAAAGAAGTCCCAGAGGG 60.338 57.143 0.00 0.00 46.11 4.30
2723 5306 2.953466 TCATAAACGACTCCCTTCCG 57.047 50.000 0.00 0.00 0.00 4.30
2732 5315 8.269424 CACTGCATAATAGACTTCATAAACGAC 58.731 37.037 0.00 0.00 0.00 4.34
2739 5322 9.319143 GTTCTAACACTGCATAATAGACTTCAT 57.681 33.333 0.00 0.00 0.00 2.57
2741 5324 8.703604 TGTTCTAACACTGCATAATAGACTTC 57.296 34.615 0.00 0.00 33.17 3.01
2746 5329 8.877808 TCATCTGTTCTAACACTGCATAATAG 57.122 34.615 0.00 0.00 34.70 1.73
2863 5449 3.770388 GAGGTAGCCCTTCTTTACTGAGT 59.230 47.826 0.00 0.00 42.86 3.41
2864 5450 3.133183 GGAGGTAGCCCTTCTTTACTGAG 59.867 52.174 0.00 0.00 42.86 3.35
2865 5451 3.105283 GGAGGTAGCCCTTCTTTACTGA 58.895 50.000 0.00 0.00 42.86 3.41
2866 5452 2.838202 TGGAGGTAGCCCTTCTTTACTG 59.162 50.000 0.00 0.00 42.86 2.74
2900 5582 6.931840 ACTCCTAGAGAAAAACATGAACTGAC 59.068 38.462 0.00 0.00 33.32 3.51
2952 5636 8.668510 ATGTGATTGATTATACACAGAGAACC 57.331 34.615 0.00 0.00 44.39 3.62
2980 5664 6.584184 CAGTGTGACTGTACATTCAGAAGTAG 59.416 42.308 15.52 3.08 41.19 2.57
2982 5666 5.069119 TCAGTGTGACTGTACATTCAGAAGT 59.931 40.000 15.52 7.95 46.03 3.01
3042 5726 7.715265 ACGTAGCCATTTATACTGAAATGAG 57.285 36.000 9.82 2.92 45.70 2.90
3055 5739 2.161609 GCAAGCAAGTACGTAGCCATTT 59.838 45.455 0.00 0.00 0.00 2.32
3269 7435 6.411376 TCTGAAAGTGGAGAAACTTGTACAA 58.589 36.000 8.28 8.28 40.28 2.41
3297 7465 0.318869 TTTCGTTGGCAGCTGCATTG 60.319 50.000 37.63 23.84 44.36 2.82
3305 7473 1.818060 TCCATGGATTTTCGTTGGCAG 59.182 47.619 11.44 0.00 0.00 4.85
3339 7510 1.370414 CAGCAAACGTTCGCCAAGG 60.370 57.895 7.78 0.00 0.00 3.61
3343 7517 3.660111 AGCCAGCAAACGTTCGCC 61.660 61.111 7.78 0.00 0.00 5.54
3345 7519 2.427410 GCAGCCAGCAAACGTTCG 60.427 61.111 0.00 0.00 44.79 3.95
3446 7656 1.225376 TGAACAACTAAGCGCCCACG 61.225 55.000 2.29 0.00 44.07 4.94
3447 7657 0.517316 CTGAACAACTAAGCGCCCAC 59.483 55.000 2.29 0.00 0.00 4.61
3448 7658 0.394938 TCTGAACAACTAAGCGCCCA 59.605 50.000 2.29 0.00 0.00 5.36
3449 7659 1.666189 GATCTGAACAACTAAGCGCCC 59.334 52.381 2.29 0.00 0.00 6.13
3451 7661 4.142816 ACATTGATCTGAACAACTAAGCGC 60.143 41.667 0.00 0.00 0.00 5.92
3452 7662 5.536554 ACATTGATCTGAACAACTAAGCG 57.463 39.130 2.28 0.00 0.00 4.68
3453 7663 5.348724 TCGACATTGATCTGAACAACTAAGC 59.651 40.000 2.28 0.00 0.00 3.09
3454 7664 6.951256 TCGACATTGATCTGAACAACTAAG 57.049 37.500 2.28 0.00 0.00 2.18
3501 7712 0.747255 GGCGCTGGATCTAGTTCAGA 59.253 55.000 7.64 0.00 37.79 3.27
3502 7713 0.249657 GGGCGCTGGATCTAGTTCAG 60.250 60.000 7.64 0.00 0.00 3.02
3569 7789 2.847234 AAGCCGGTGGTCACTCCA 60.847 61.111 1.90 0.00 45.01 3.86


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

AutoCloner maintained by Alex Coulton.