Multiple sequence alignment - TraesCS7D01G049900

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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 TraesCS7D01G049900 chr7D 100.000 3495 0 0 1 3495 25405912 25402418 0.000000e+00 6455.0
1 TraesCS7D01G049900 chr7A 88.948 1692 117 28 1321 2970 26421342 26419679 0.000000e+00 2025.0
2 TraesCS7D01G049900 chr7A 86.393 463 28 15 2952 3381 26419515 26419055 1.140000e-129 473.0
3 TraesCS7D01G049900 chr7A 89.803 304 12 6 613 900 26422379 26422079 4.260000e-99 372.0
4 TraesCS7D01G049900 chr7A 95.238 126 5 1 3370 3495 26419002 26418878 7.650000e-47 198.0
5 TraesCS7D01G049900 chr7A 97.872 47 0 1 1182 1227 26421481 26421435 2.890000e-11 80.5
6 TraesCS7D01G049900 chr7A 94.595 37 1 1 1666 1702 646101502 646101467 4.870000e-04 56.5
7 TraesCS7D01G049900 chr4A 90.016 1272 91 15 1321 2584 709899153 709897910 0.000000e+00 1613.0
8 TraesCS7D01G049900 chr4A 90.806 794 34 19 2621 3381 709897829 709897042 0.000000e+00 1026.0
9 TraesCS7D01G049900 chr4A 86.078 510 22 14 626 1099 709900065 709899569 1.450000e-138 503.0
10 TraesCS7D01G049900 chr4A 83.051 590 48 16 1 549 709900791 709900213 4.050000e-134 488.0
11 TraesCS7D01G049900 chr4A 97.458 118 3 0 3378 3495 709896996 709896879 5.920000e-48 202.0
12 TraesCS7D01G049900 chr3D 86.743 875 101 10 1761 2620 582027663 582028537 0.000000e+00 959.0
13 TraesCS7D01G049900 chr3D 80.447 1028 143 40 1597 2587 582134152 582133146 0.000000e+00 732.0
14 TraesCS7D01G049900 chr3D 82.589 649 70 20 1958 2584 582131920 582131293 1.850000e-147 532.0
15 TraesCS7D01G049900 chr3B 85.633 877 95 16 1773 2622 779536412 779535540 0.000000e+00 893.0
16 TraesCS7D01G049900 chr3B 81.006 895 124 29 1715 2575 779362588 779363470 0.000000e+00 669.0
17 TraesCS7D01G049900 chr3B 88.018 434 49 3 2157 2588 779364498 779364930 8.650000e-141 510.0
18 TraesCS7D01G049900 chr1D 97.222 36 1 0 1664 1699 309565036 309565001 1.050000e-05 62.1
19 TraesCS7D01G049900 chr5B 100.000 31 0 0 1664 1694 142660096 142660126 1.350000e-04 58.4
20 TraesCS7D01G049900 chr3A 94.737 38 0 2 1664 1700 556668834 556668798 1.350000e-04 58.4
21 TraesCS7D01G049900 chr1A 100.000 31 0 0 1664 1694 119761877 119761847 1.350000e-04 58.4
22 TraesCS7D01G049900 chr1A 94.595 37 0 2 1664 1698 232100618 232100582 4.870000e-04 56.5
23 TraesCS7D01G049900 chr7B 94.595 37 0 1 1664 1698 362085145 362085109 4.870000e-04 56.5
24 TraesCS7D01G049900 chr5D 97.059 34 0 1 1664 1697 432461645 432461677 4.870000e-04 56.5
25 TraesCS7D01G049900 chr2D 100.000 30 0 0 1664 1693 641605327 641605356 4.870000e-04 56.5


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 TraesCS7D01G049900 chr7D 25402418 25405912 3494 True 6455.0 6455 100.0000 1 3495 1 chr7D.!!$R1 3494
1 TraesCS7D01G049900 chr7A 26418878 26422379 3501 True 629.7 2025 91.6508 613 3495 5 chr7A.!!$R2 2882
2 TraesCS7D01G049900 chr4A 709896879 709900791 3912 True 766.4 1613 89.4818 1 3495 5 chr4A.!!$R1 3494
3 TraesCS7D01G049900 chr3D 582027663 582028537 874 False 959.0 959 86.7430 1761 2620 1 chr3D.!!$F1 859
4 TraesCS7D01G049900 chr3D 582131293 582134152 2859 True 632.0 732 81.5180 1597 2587 2 chr3D.!!$R1 990
5 TraesCS7D01G049900 chr3B 779535540 779536412 872 True 893.0 893 85.6330 1773 2622 1 chr3B.!!$R1 849
6 TraesCS7D01G049900 chr3B 779362588 779364930 2342 False 589.5 669 84.5120 1715 2588 2 chr3B.!!$F1 873

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
237 255 0.108186 GAGCGGACATGTCATGTGGA 60.108 55.0 26.47 0.0 45.03 4.02 F
413 453 1.111116 CGCCTGGATGCCATTTCCAT 61.111 55.0 0.00 0.0 42.26 3.41 F
1299 1850 0.179078 GCTGCAGTCCTCTCTCATGG 60.179 60.0 16.64 0.0 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1082 1269 0.179045 GCACGGCATCCTCTTACCAT 60.179 55.0 0.00 0.0 0.00 3.55 R
1593 2203 0.326264 AGAACAAGGCTAGGGCACTG 59.674 55.0 0.00 0.0 40.87 3.66 R
3231 6070 0.460987 GAGAGATGGGCCACTTGTCG 60.461 60.0 9.28 0.0 0.00 4.35 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
84 85 5.689383 TGTTTGAACTCTTATGACTTGGC 57.311 39.130 0.00 0.00 0.00 4.52
86 87 5.470098 TGTTTGAACTCTTATGACTTGGCTC 59.530 40.000 0.00 0.00 0.00 4.70
130 148 9.401058 CTCTAAAACACTAGAAAATCCCATCAT 57.599 33.333 0.00 0.00 0.00 2.45
150 168 6.037786 TCATCGTGGAGAATAAACTTGTCT 57.962 37.500 0.00 0.00 0.00 3.41
168 186 8.608844 ACTTGTCTCCCGATATTAATCAAATC 57.391 34.615 0.00 0.00 31.93 2.17
173 191 6.650807 TCTCCCGATATTAATCAAATCAGCAC 59.349 38.462 0.00 0.00 31.93 4.40
176 194 5.082059 CGATATTAATCAAATCAGCACGGC 58.918 41.667 0.00 0.00 31.93 5.68
180 198 2.257286 ATCAAATCAGCACGGCGCAC 62.257 55.000 10.83 0.00 46.13 5.34
181 199 2.669569 AAATCAGCACGGCGCACT 60.670 55.556 10.83 0.36 46.13 4.40
182 200 1.375396 AAATCAGCACGGCGCACTA 60.375 52.632 10.83 0.00 46.13 2.74
183 201 1.635663 AAATCAGCACGGCGCACTAC 61.636 55.000 10.83 0.00 46.13 2.73
184 202 2.779951 AATCAGCACGGCGCACTACA 62.780 55.000 10.83 0.00 46.13 2.74
185 203 2.779951 ATCAGCACGGCGCACTACAA 62.780 55.000 10.83 0.00 46.13 2.41
186 204 2.280524 AGCACGGCGCACTACAAA 60.281 55.556 10.83 0.00 46.13 2.83
187 205 1.671054 AGCACGGCGCACTACAAAT 60.671 52.632 10.83 0.00 46.13 2.32
195 213 3.544048 CGGCGCACTACAAATCTACAATG 60.544 47.826 10.83 0.00 0.00 2.82
200 218 5.390885 CGCACTACAAATCTACAATGCAAGT 60.391 40.000 0.00 0.00 0.00 3.16
211 229 4.737855 ACAATGCAAGTACCTAGACGAT 57.262 40.909 0.00 0.00 0.00 3.73
237 255 0.108186 GAGCGGACATGTCATGTGGA 60.108 55.000 26.47 0.00 45.03 4.02
264 282 4.228567 TTGCACTCCCACGTCGCA 62.229 61.111 0.00 0.00 0.00 5.10
270 288 4.351938 TCCCACGTCGCAACTCCG 62.352 66.667 0.00 0.00 0.00 4.63
279 297 4.373116 GCAACTCCGCCTCCGACA 62.373 66.667 0.00 0.00 36.29 4.35
296 314 3.492656 CCGACACTCTTTCACCTCTTGAA 60.493 47.826 0.00 0.00 42.83 2.69
300 318 6.570571 CGACACTCTTTCACCTCTTGAAGATA 60.571 42.308 0.00 0.00 45.22 1.98
312 348 9.775854 CACCTCTTGAAGATACATATCATTTCT 57.224 33.333 0.00 0.00 35.17 2.52
362 402 4.819105 TTTGGAATAGAAGAGGCGAGAA 57.181 40.909 0.00 0.00 0.00 2.87
365 405 5.160607 TGGAATAGAAGAGGCGAGAAAAA 57.839 39.130 0.00 0.00 0.00 1.94
366 406 5.745227 TGGAATAGAAGAGGCGAGAAAAAT 58.255 37.500 0.00 0.00 0.00 1.82
367 407 6.884832 TGGAATAGAAGAGGCGAGAAAAATA 58.115 36.000 0.00 0.00 0.00 1.40
368 408 7.509546 TGGAATAGAAGAGGCGAGAAAAATAT 58.490 34.615 0.00 0.00 0.00 1.28
369 409 7.657761 TGGAATAGAAGAGGCGAGAAAAATATC 59.342 37.037 0.00 0.00 0.00 1.63
380 420 4.503991 CGAGAAAAATATCAGGGGAGAGGG 60.504 50.000 0.00 0.00 0.00 4.30
381 421 3.724209 AGAAAAATATCAGGGGAGAGGGG 59.276 47.826 0.00 0.00 0.00 4.79
382 422 2.140098 AAATATCAGGGGAGAGGGGG 57.860 55.000 0.00 0.00 0.00 5.40
384 424 1.689124 ATATCAGGGGAGAGGGGGCA 61.689 60.000 0.00 0.00 0.00 5.36
386 426 3.415087 CAGGGGAGAGGGGGCAAG 61.415 72.222 0.00 0.00 0.00 4.01
394 434 4.129148 AGGGGGCAAGGCGGATTC 62.129 66.667 0.00 0.00 0.00 2.52
413 453 1.111116 CGCCTGGATGCCATTTCCAT 61.111 55.000 0.00 0.00 42.26 3.41
415 455 2.532843 GCCTGGATGCCATTTCCATAT 58.467 47.619 0.00 0.00 42.26 1.78
421 461 7.325694 CCTGGATGCCATTTCCATATATTTTC 58.674 38.462 0.00 0.00 42.26 2.29
422 462 7.243604 TGGATGCCATTTCCATATATTTTCC 57.756 36.000 0.00 0.00 38.35 3.13
449 489 4.406456 TGCCTTTGGTTGATGTGTCTATT 58.594 39.130 0.00 0.00 0.00 1.73
457 497 3.998913 TGATGTGTCTATTGCTTCCCA 57.001 42.857 0.00 0.00 0.00 4.37
477 517 6.895782 TCCCAACTTCTTCTTTTCTTGACTA 58.104 36.000 0.00 0.00 0.00 2.59
526 566 5.655893 AAATGTCAAAATCAAAAGCCGTG 57.344 34.783 0.00 0.00 0.00 4.94
528 568 4.377839 TGTCAAAATCAAAAGCCGTGAA 57.622 36.364 0.00 0.00 0.00 3.18
531 571 5.461737 TGTCAAAATCAAAAGCCGTGAATTC 59.538 36.000 0.00 0.00 0.00 2.17
532 572 5.461737 GTCAAAATCAAAAGCCGTGAATTCA 59.538 36.000 3.38 3.38 0.00 2.57
533 573 5.461737 TCAAAATCAAAAGCCGTGAATTCAC 59.538 36.000 25.68 25.68 43.15 3.18
538 578 5.355596 TCAAAAGCCGTGAATTCACAAAAT 58.644 33.333 32.06 16.21 46.75 1.82
543 583 5.640732 AGCCGTGAATTCACAAAATATCAC 58.359 37.500 32.06 13.50 46.75 3.06
595 734 5.592587 TTTTGAGGGGTTCTATCCTTTCA 57.407 39.130 0.00 0.00 32.74 2.69
596 735 5.796502 TTTGAGGGGTTCTATCCTTTCAT 57.203 39.130 0.00 0.00 32.74 2.57
740 886 2.434884 CAGTAGCCAGGCCACACG 60.435 66.667 13.00 0.00 0.00 4.49
1128 1315 3.004862 CCGGTACATTGTTTAGTCCCAC 58.995 50.000 0.00 0.00 0.00 4.61
1135 1322 0.390603 TGTTTAGTCCCACATCGCCG 60.391 55.000 0.00 0.00 0.00 6.46
1142 1329 1.078708 CCCACATCGCCGGTTTACT 60.079 57.895 1.90 0.00 0.00 2.24
1180 1718 7.117812 CCGTTTTATAAGGCTCGACATGATAAT 59.882 37.037 0.00 0.00 0.00 1.28
1216 1754 6.099269 ACAAGTTTCTAACAGAACCAGGTAGA 59.901 38.462 0.00 0.00 33.26 2.59
1250 1801 1.796151 CGCGTGCATCCTGTTTCAT 59.204 52.632 0.00 0.00 0.00 2.57
1254 1805 2.351641 GCGTGCATCCTGTTTCATTTCA 60.352 45.455 0.00 0.00 0.00 2.69
1286 1837 2.289945 ACCTCTAGTTGAAAGGCTGCAG 60.290 50.000 10.11 10.11 33.21 4.41
1287 1838 2.289945 CCTCTAGTTGAAAGGCTGCAGT 60.290 50.000 16.64 0.00 0.00 4.40
1288 1839 2.999355 CTCTAGTTGAAAGGCTGCAGTC 59.001 50.000 11.28 11.28 0.00 3.51
1289 1840 2.079925 CTAGTTGAAAGGCTGCAGTCC 58.920 52.381 16.31 16.49 0.00 3.85
1290 1841 0.475906 AGTTGAAAGGCTGCAGTCCT 59.524 50.000 16.31 18.57 34.90 3.85
1291 1842 0.877743 GTTGAAAGGCTGCAGTCCTC 59.122 55.000 24.11 17.68 32.45 3.71
1293 1844 0.322975 TGAAAGGCTGCAGTCCTCTC 59.677 55.000 24.11 21.10 32.45 3.20
1294 1845 0.612744 GAAAGGCTGCAGTCCTCTCT 59.387 55.000 24.11 14.67 32.45 3.10
1295 1846 0.612744 AAAGGCTGCAGTCCTCTCTC 59.387 55.000 24.11 3.04 32.45 3.20
1296 1847 0.543883 AAGGCTGCAGTCCTCTCTCA 60.544 55.000 24.11 0.00 32.45 3.27
1297 1848 0.325484 AGGCTGCAGTCCTCTCTCAT 60.325 55.000 16.31 0.00 0.00 2.90
1299 1850 0.179078 GCTGCAGTCCTCTCTCATGG 60.179 60.000 16.64 0.00 0.00 3.66
1301 1852 1.136695 CTGCAGTCCTCTCTCATGGTC 59.863 57.143 5.25 0.00 0.00 4.02
1302 1853 1.189752 GCAGTCCTCTCTCATGGTCA 58.810 55.000 0.00 0.00 0.00 4.02
1303 1854 1.761784 GCAGTCCTCTCTCATGGTCAT 59.238 52.381 0.00 0.00 0.00 3.06
1304 1855 2.170187 GCAGTCCTCTCTCATGGTCATT 59.830 50.000 0.00 0.00 0.00 2.57
1305 1856 3.370315 GCAGTCCTCTCTCATGGTCATTT 60.370 47.826 0.00 0.00 0.00 2.32
1306 1857 4.841422 CAGTCCTCTCTCATGGTCATTTT 58.159 43.478 0.00 0.00 0.00 1.82
1307 1858 5.627735 GCAGTCCTCTCTCATGGTCATTTTA 60.628 44.000 0.00 0.00 0.00 1.52
1308 1859 6.590068 CAGTCCTCTCTCATGGTCATTTTAT 58.410 40.000 0.00 0.00 0.00 1.40
1309 1860 7.052873 CAGTCCTCTCTCATGGTCATTTTATT 58.947 38.462 0.00 0.00 0.00 1.40
1310 1861 7.555554 CAGTCCTCTCTCATGGTCATTTTATTT 59.444 37.037 0.00 0.00 0.00 1.40
1312 1863 8.743714 GTCCTCTCTCATGGTCATTTTATTTTT 58.256 33.333 0.00 0.00 0.00 1.94
1313 1864 8.960591 TCCTCTCTCATGGTCATTTTATTTTTC 58.039 33.333 0.00 0.00 0.00 2.29
1317 1868 9.525409 CTCTCATGGTCATTTTATTTTTCATCC 57.475 33.333 0.00 0.00 0.00 3.51
1318 1869 9.033711 TCTCATGGTCATTTTATTTTTCATCCA 57.966 29.630 0.00 0.00 0.00 3.41
1319 1870 9.826574 CTCATGGTCATTTTATTTTTCATCCAT 57.173 29.630 0.00 0.00 33.09 3.41
1346 1948 5.203528 ACATAAATCTAGTGGGCATTGCTT 58.796 37.500 8.82 0.00 0.00 3.91
1354 1956 0.630673 TGGGCATTGCTTATCCTGGT 59.369 50.000 8.82 0.00 0.00 4.00
1360 1963 5.163311 GGGCATTGCTTATCCTGGTTAATTT 60.163 40.000 8.82 0.00 0.00 1.82
1361 1964 5.754890 GGCATTGCTTATCCTGGTTAATTTG 59.245 40.000 8.82 0.00 0.00 2.32
1362 1965 5.754890 GCATTGCTTATCCTGGTTAATTTGG 59.245 40.000 0.16 0.00 0.00 3.28
1372 1975 4.502431 CCTGGTTAATTTGGGGTGTGAAAC 60.502 45.833 0.00 0.00 37.35 2.78
1403 2008 7.725844 AGTCCTCTCTCATGGTTATTTTGTTTT 59.274 33.333 0.00 0.00 0.00 2.43
1513 2119 4.613437 AGGCCATAATTCCTCATGTTTGT 58.387 39.130 5.01 0.00 0.00 2.83
1516 2122 4.601019 CCATAATTCCTCATGTTTGTCGC 58.399 43.478 0.00 0.00 0.00 5.19
1536 2146 4.035909 TCGCAACACCTCCTTCTTTTAAAC 59.964 41.667 0.00 0.00 0.00 2.01
1539 2149 5.067283 GCAACACCTCCTTCTTTTAAACTCA 59.933 40.000 0.00 0.00 0.00 3.41
1556 2166 1.375396 CATTTGCCGACGAGTGGGA 60.375 57.895 8.49 0.00 0.00 4.37
1570 2180 1.685765 TGGGACCATCTCTCCACGG 60.686 63.158 0.00 0.00 0.00 4.94
1575 2185 1.032657 ACCATCTCTCCACGGTCTCG 61.033 60.000 0.00 0.00 43.02 4.04
1626 2240 5.187772 AGCCTTGTTCTGATGTAGTATCACA 59.812 40.000 0.00 0.00 0.00 3.58
1640 2254 5.391312 AGTATCACAAGATTTTGCAACCC 57.609 39.130 0.00 0.00 37.85 4.11
1641 2255 5.079643 AGTATCACAAGATTTTGCAACCCT 58.920 37.500 0.00 0.00 37.85 4.34
1642 2256 4.525912 ATCACAAGATTTTGCAACCCTC 57.474 40.909 0.00 0.00 37.85 4.30
1643 2257 3.565307 TCACAAGATTTTGCAACCCTCT 58.435 40.909 0.00 0.00 37.85 3.69
1644 2258 3.569701 TCACAAGATTTTGCAACCCTCTC 59.430 43.478 0.00 0.00 37.85 3.20
1652 2269 2.604912 TGCAACCCTCTCTCTGTCTA 57.395 50.000 0.00 0.00 0.00 2.59
1663 2280 6.071108 CCCTCTCTCTGTCTATCTTTTGTTGA 60.071 42.308 0.00 0.00 0.00 3.18
1665 2282 6.382608 TCTCTCTGTCTATCTTTTGTTGACG 58.617 40.000 0.00 0.00 0.00 4.35
1666 2283 4.923871 TCTCTGTCTATCTTTTGTTGACGC 59.076 41.667 0.00 0.00 0.00 5.19
1667 2284 4.883083 TCTGTCTATCTTTTGTTGACGCT 58.117 39.130 0.00 0.00 0.00 5.07
1668 2285 4.923871 TCTGTCTATCTTTTGTTGACGCTC 59.076 41.667 0.00 0.00 0.00 5.03
1669 2286 4.883083 TGTCTATCTTTTGTTGACGCTCT 58.117 39.130 0.00 0.00 0.00 4.09
1670 2287 5.297547 TGTCTATCTTTTGTTGACGCTCTT 58.702 37.500 0.00 0.00 0.00 2.85
1671 2288 6.452242 TGTCTATCTTTTGTTGACGCTCTTA 58.548 36.000 0.00 0.00 0.00 2.10
1672 2289 7.097192 TGTCTATCTTTTGTTGACGCTCTTAT 58.903 34.615 0.00 0.00 0.00 1.73
1673 2290 8.248253 TGTCTATCTTTTGTTGACGCTCTTATA 58.752 33.333 0.00 0.00 0.00 0.98
1674 2291 9.250624 GTCTATCTTTTGTTGACGCTCTTATAT 57.749 33.333 0.00 0.00 0.00 0.86
1675 2292 9.817809 TCTATCTTTTGTTGACGCTCTTATATT 57.182 29.630 0.00 0.00 0.00 1.28
1679 2296 8.826710 TCTTTTGTTGACGCTCTTATATTATGG 58.173 33.333 0.00 0.00 0.00 2.74
1680 2297 7.490962 TTTGTTGACGCTCTTATATTATGGG 57.509 36.000 0.00 0.00 0.00 4.00
1681 2298 6.413783 TGTTGACGCTCTTATATTATGGGA 57.586 37.500 0.00 0.00 0.00 4.37
1682 2299 6.220930 TGTTGACGCTCTTATATTATGGGAC 58.779 40.000 0.00 0.00 0.00 4.46
1683 2300 5.055642 TGACGCTCTTATATTATGGGACG 57.944 43.478 0.00 0.00 0.00 4.79
1684 2301 4.082408 TGACGCTCTTATATTATGGGACGG 60.082 45.833 0.00 0.00 0.00 4.79
1685 2302 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
1686 2303 4.525487 ACGCTCTTATATTATGGGACGGAA 59.475 41.667 0.00 0.00 0.00 4.30
1687 2304 5.103000 CGCTCTTATATTATGGGACGGAAG 58.897 45.833 0.00 0.00 0.00 3.46
1688 2305 5.420409 GCTCTTATATTATGGGACGGAAGG 58.580 45.833 0.00 0.00 0.00 3.46
1689 2306 5.187186 GCTCTTATATTATGGGACGGAAGGA 59.813 44.000 0.00 0.00 0.00 3.36
1743 2381 9.903682 AATGTAGATTCTGTTTGAACTTGAATG 57.096 29.630 15.02 0.00 37.52 2.67
1838 2490 2.765135 AGATGATGACTCCTGGTGTGAG 59.235 50.000 6.07 0.00 35.92 3.51
1957 2625 9.184062 CAATGGTTATTGATTAATCATGAACCG 57.816 33.333 32.05 23.41 45.53 4.44
2151 2828 7.338449 GGTTACTAGGTAAATTGCATTTCTGGA 59.662 37.037 0.00 0.00 33.82 3.86
2155 2832 3.366883 GGTAAATTGCATTTCTGGACGCA 60.367 43.478 0.00 0.00 33.82 5.24
2201 4768 4.892433 AGTTCCTCTTGTGTCATTCTCAG 58.108 43.478 0.00 0.00 0.00 3.35
2209 4776 8.824781 CCTCTTGTGTCATTCTCAGTTATTATG 58.175 37.037 0.00 0.00 0.00 1.90
2216 4783 9.513906 TGTCATTCTCAGTTATTATGTTTTCCA 57.486 29.630 0.00 0.00 0.00 3.53
2286 4853 0.110644 GAAAAGTTGCTGCTCGACGG 60.111 55.000 0.00 0.00 34.17 4.79
2310 4877 3.433615 CAGCGTAGAGGAAAACTTGAAGG 59.566 47.826 0.00 0.00 0.00 3.46
2440 5007 7.778382 ACAATTACAAAGGACCTTCTACTGTTT 59.222 33.333 13.23 2.31 0.00 2.83
2584 5154 9.606631 GAGTCTTCTGAAGGATGTAATTGTAAT 57.393 33.333 16.83 0.00 0.00 1.89
2585 5155 9.606631 AGTCTTCTGAAGGATGTAATTGTAATC 57.393 33.333 16.83 0.00 0.00 1.75
2586 5156 9.383519 GTCTTCTGAAGGATGTAATTGTAATCA 57.616 33.333 16.83 0.00 0.00 2.57
2762 5376 4.421948 GGACAGTCTGGATACTTGTTACG 58.578 47.826 4.53 0.00 37.61 3.18
2828 5442 7.628769 AAGTTTTGAAACATTCTGGCATTTT 57.371 28.000 9.08 0.00 41.30 1.82
2830 5444 6.598850 AGTTTTGAAACATTCTGGCATTTTGT 59.401 30.769 9.08 0.00 41.30 2.83
2834 5448 7.655236 TGAAACATTCTGGCATTTTGTAATG 57.345 32.000 0.00 0.00 43.28 1.90
2919 5534 9.731819 CCTCTCATCTCATTTGTTTTTCATATG 57.268 33.333 0.00 0.00 37.02 1.78
2920 5535 9.731819 CTCTCATCTCATTTGTTTTTCATATGG 57.268 33.333 2.13 0.00 36.57 2.74
2936 5555 4.665009 TCATATGGAAGGAGCAATTACCCT 59.335 41.667 2.13 0.00 0.00 4.34
2938 5557 3.825908 TGGAAGGAGCAATTACCCTTT 57.174 42.857 0.00 0.00 40.14 3.11
3024 5832 0.524862 CAGTGTGCTTGGATTCCTGC 59.475 55.000 3.95 9.00 0.00 4.85
3204 6040 1.236616 TGCAGTCCTCATGTTTGCCG 61.237 55.000 0.00 0.00 33.98 5.69
3228 6067 2.550180 GCACCTCCTTTCAAAGTCACTC 59.450 50.000 0.00 0.00 0.00 3.51
3231 6070 1.801178 CTCCTTTCAAAGTCACTCGCC 59.199 52.381 0.00 0.00 0.00 5.54
3270 6110 1.668419 CATGATCCCCACCGTCTTTC 58.332 55.000 0.00 0.00 0.00 2.62
3285 6126 4.095782 CCGTCTTTCTTTTTCTGTGGTTCA 59.904 41.667 0.00 0.00 0.00 3.18
3337 6179 0.539438 CAACCCTGCTTTGCCCAGTA 60.539 55.000 0.00 0.00 0.00 2.74
3373 6218 7.977789 AACCTTTGGTTAATATTTTGCCAAG 57.022 32.000 13.83 9.03 44.94 3.61
3374 6219 7.073457 ACCTTTGGTTAATATTTTGCCAAGT 57.927 32.000 13.83 9.44 39.89 3.16
3375 6220 7.158697 ACCTTTGGTTAATATTTTGCCAAGTC 58.841 34.615 13.83 0.00 39.89 3.01
3376 6221 7.158021 CCTTTGGTTAATATTTTGCCAAGTCA 58.842 34.615 13.83 4.40 39.89 3.41
3394 6299 5.972107 AGTCAAACTGGATTTTCATGGAG 57.028 39.130 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 7.333174 TCATTTTCACAGCGAACTATAACATCA 59.667 33.333 0.00 0.00 31.73 3.07
79 80 7.718753 AGAAATGGATAATCAACTAGAGCCAAG 59.281 37.037 0.00 0.00 0.00 3.61
80 81 7.577303 AGAAATGGATAATCAACTAGAGCCAA 58.423 34.615 0.00 0.00 0.00 4.52
81 82 7.071698 AGAGAAATGGATAATCAACTAGAGCCA 59.928 37.037 0.00 0.00 0.00 4.75
150 168 5.408299 CGTGCTGATTTGATTAATATCGGGA 59.592 40.000 7.37 2.77 33.23 5.14
154 172 5.082059 CGCCGTGCTGATTTGATTAATATC 58.918 41.667 0.00 0.00 0.00 1.63
168 186 1.911293 ATTTGTAGTGCGCCGTGCTG 61.911 55.000 4.18 0.00 46.63 4.41
173 191 1.635844 TGTAGATTTGTAGTGCGCCG 58.364 50.000 4.18 0.00 0.00 6.46
176 194 4.598406 TGCATTGTAGATTTGTAGTGCG 57.402 40.909 0.00 0.00 34.28 5.34
180 198 7.849804 AGGTACTTGCATTGTAGATTTGTAG 57.150 36.000 0.00 0.00 27.25 2.74
181 199 8.755028 TCTAGGTACTTGCATTGTAGATTTGTA 58.245 33.333 0.00 0.00 41.75 2.41
182 200 7.549488 GTCTAGGTACTTGCATTGTAGATTTGT 59.451 37.037 0.00 0.00 41.75 2.83
183 201 7.254117 CGTCTAGGTACTTGCATTGTAGATTTG 60.254 40.741 0.00 0.00 41.75 2.32
184 202 6.757010 CGTCTAGGTACTTGCATTGTAGATTT 59.243 38.462 0.00 0.00 41.75 2.17
185 203 6.096423 TCGTCTAGGTACTTGCATTGTAGATT 59.904 38.462 0.00 0.00 41.75 2.40
186 204 5.593095 TCGTCTAGGTACTTGCATTGTAGAT 59.407 40.000 0.00 0.00 41.75 1.98
187 205 4.945543 TCGTCTAGGTACTTGCATTGTAGA 59.054 41.667 0.00 0.00 41.75 2.59
195 213 2.733517 GCTCATCGTCTAGGTACTTGC 58.266 52.381 0.00 0.00 41.75 4.01
211 229 2.125952 CATGTCCGCTCACGCTCA 60.126 61.111 0.00 0.00 38.22 4.26
216 234 0.723414 CACATGACATGTCCGCTCAC 59.277 55.000 22.85 0.00 42.70 3.51
229 247 1.065410 AACAGGGGTGGTCCACATGA 61.065 55.000 23.48 0.00 40.18 3.07
237 255 2.515901 GAGTGCAACAGGGGTGGT 59.484 61.111 0.00 0.00 41.43 4.16
264 282 2.600769 AGTGTCGGAGGCGGAGTT 60.601 61.111 0.00 0.00 28.88 3.01
270 288 0.670854 GGTGAAAGAGTGTCGGAGGC 60.671 60.000 0.00 0.00 0.00 4.70
273 291 1.996798 AGAGGTGAAAGAGTGTCGGA 58.003 50.000 0.00 0.00 0.00 4.55
279 297 6.672266 TGTATCTTCAAGAGGTGAAAGAGT 57.328 37.500 0.00 0.00 45.67 3.24
300 318 9.911788 AAATCAGTACTCCAAGAAATGATATGT 57.088 29.630 0.00 0.00 0.00 2.29
312 348 9.396022 GAGGAAAATATGAAATCAGTACTCCAA 57.604 33.333 0.00 0.00 0.00 3.53
342 382 4.819105 TTTCTCGCCTCTTCTATTCCAA 57.181 40.909 0.00 0.00 0.00 3.53
343 383 4.819105 TTTTCTCGCCTCTTCTATTCCA 57.181 40.909 0.00 0.00 0.00 3.53
362 402 2.433031 CCCCCTCTCCCCTGATATTTT 58.567 52.381 0.00 0.00 0.00 1.82
365 405 1.162085 GCCCCCTCTCCCCTGATAT 59.838 63.158 0.00 0.00 0.00 1.63
366 406 1.908637 TTGCCCCCTCTCCCCTGATA 61.909 60.000 0.00 0.00 0.00 2.15
367 407 3.287954 TTGCCCCCTCTCCCCTGAT 62.288 63.158 0.00 0.00 0.00 2.90
368 408 3.950861 CTTGCCCCCTCTCCCCTGA 62.951 68.421 0.00 0.00 0.00 3.86
369 409 3.415087 CTTGCCCCCTCTCCCCTG 61.415 72.222 0.00 0.00 0.00 4.45
422 462 1.079073 ATCAACCAAAGGCAGGGGG 59.921 57.895 0.00 0.00 0.00 5.40
426 466 2.233271 AGACACATCAACCAAAGGCAG 58.767 47.619 0.00 0.00 0.00 4.85
429 469 4.460382 AGCAATAGACACATCAACCAAAGG 59.540 41.667 0.00 0.00 0.00 3.11
435 475 4.009675 TGGGAAGCAATAGACACATCAAC 58.990 43.478 0.00 0.00 0.00 3.18
449 489 4.536765 AGAAAAGAAGAAGTTGGGAAGCA 58.463 39.130 0.00 0.00 0.00 3.91
506 546 4.582701 TCACGGCTTTTGATTTTGACAT 57.417 36.364 0.00 0.00 0.00 3.06
507 547 4.377839 TTCACGGCTTTTGATTTTGACA 57.622 36.364 0.00 0.00 0.00 3.58
508 548 5.461737 TGAATTCACGGCTTTTGATTTTGAC 59.538 36.000 3.38 0.00 0.00 3.18
510 550 5.669122 GTGAATTCACGGCTTTTGATTTTG 58.331 37.500 22.09 0.00 37.10 2.44
572 711 5.959512 TGAAAGGATAGAACCCCTCAAAAA 58.040 37.500 0.00 0.00 31.17 1.94
573 712 5.592587 TGAAAGGATAGAACCCCTCAAAA 57.407 39.130 0.00 0.00 31.17 2.44
574 713 5.796502 ATGAAAGGATAGAACCCCTCAAA 57.203 39.130 0.00 0.00 31.17 2.69
650 789 2.603075 AATTCAGGCCCAACAAGCTA 57.397 45.000 0.00 0.00 0.00 3.32
1081 1268 1.586422 CACGGCATCCTCTTACCATG 58.414 55.000 0.00 0.00 0.00 3.66
1082 1269 0.179045 GCACGGCATCCTCTTACCAT 60.179 55.000 0.00 0.00 0.00 3.55
1108 1295 3.666274 TGTGGGACTAAACAATGTACCG 58.334 45.455 0.00 0.00 39.99 4.02
1115 1302 1.816074 GGCGATGTGGGACTAAACAA 58.184 50.000 0.00 0.00 0.00 2.83
1128 1315 3.098555 GCCAGTAAACCGGCGATG 58.901 61.111 9.30 0.00 38.82 3.84
1135 1322 3.759550 CGGAAAACGCCAGTAAACC 57.240 52.632 0.00 0.00 34.82 3.27
1163 1350 8.535335 AGTGATATAATTATCATGTCGAGCCTT 58.465 33.333 0.00 0.00 44.53 4.35
1165 1352 7.976175 TGAGTGATATAATTATCATGTCGAGCC 59.024 37.037 0.00 0.00 44.53 4.70
1216 1754 2.125512 CGCGCTGGCCTAAGAACT 60.126 61.111 5.56 0.00 35.02 3.01
1250 1801 8.920174 TCAACTAGAGGTTAATCGGATATGAAA 58.080 33.333 0.00 0.00 36.23 2.69
1254 1805 8.368668 CCTTTCAACTAGAGGTTAATCGGATAT 58.631 37.037 0.00 0.00 36.23 1.63
1271 1822 0.475906 AGGACTGCAGCCTTTCAACT 59.524 50.000 20.03 3.26 29.44 3.16
1286 1837 7.872113 AAATAAAATGACCATGAGAGAGGAC 57.128 36.000 0.00 0.00 0.00 3.85
1287 1838 8.884124 AAAAATAAAATGACCATGAGAGAGGA 57.116 30.769 0.00 0.00 0.00 3.71
1288 1839 8.742777 TGAAAAATAAAATGACCATGAGAGAGG 58.257 33.333 0.00 0.00 0.00 3.69
1291 1842 9.525409 GGATGAAAAATAAAATGACCATGAGAG 57.475 33.333 0.00 0.00 0.00 3.20
1293 1844 9.826574 ATGGATGAAAAATAAAATGACCATGAG 57.173 29.630 0.00 0.00 33.93 2.90
1312 1863 8.542926 CCCACTAGATTTATGTCATATGGATGA 58.457 37.037 2.13 0.00 39.88 2.92
1313 1864 7.281774 GCCCACTAGATTTATGTCATATGGATG 59.718 40.741 2.13 0.00 0.00 3.51
1315 1866 6.272090 TGCCCACTAGATTTATGTCATATGGA 59.728 38.462 2.13 0.00 0.00 3.41
1316 1867 6.475504 TGCCCACTAGATTTATGTCATATGG 58.524 40.000 2.13 0.00 0.00 2.74
1317 1868 8.456471 CAATGCCCACTAGATTTATGTCATATG 58.544 37.037 0.00 0.00 0.00 1.78
1318 1869 7.121759 GCAATGCCCACTAGATTTATGTCATAT 59.878 37.037 0.00 0.00 0.00 1.78
1319 1870 6.430925 GCAATGCCCACTAGATTTATGTCATA 59.569 38.462 0.00 0.00 0.00 2.15
1335 1937 0.630673 ACCAGGATAAGCAATGCCCA 59.369 50.000 0.00 0.00 0.00 5.36
1346 1948 4.292571 TCACACCCCAAATTAACCAGGATA 59.707 41.667 0.00 0.00 0.00 2.59
1354 1956 4.469945 TGGTTGTTTCACACCCCAAATTAA 59.530 37.500 0.00 0.00 28.32 1.40
1360 1963 0.333312 ACTGGTTGTTTCACACCCCA 59.667 50.000 0.00 0.00 28.32 4.96
1361 1964 1.029681 GACTGGTTGTTTCACACCCC 58.970 55.000 0.00 0.00 28.32 4.95
1362 1965 1.029681 GGACTGGTTGTTTCACACCC 58.970 55.000 0.00 0.00 30.44 4.61
1372 1975 1.905215 ACCATGAGAGAGGACTGGTTG 59.095 52.381 0.00 0.00 36.86 3.77
1377 1980 6.380079 ACAAAATAACCATGAGAGAGGACT 57.620 37.500 0.00 0.00 0.00 3.85
1382 1987 9.912634 GATGAAAAACAAAATAACCATGAGAGA 57.087 29.630 0.00 0.00 0.00 3.10
1403 2008 5.134661 TGCATAGATCAGCAAATGGATGAA 58.865 37.500 5.21 0.00 46.46 2.57
1464 2070 1.160137 AATCGGCTTCAGTGTTCTGC 58.840 50.000 0.00 0.00 41.10 4.26
1465 2071 5.551760 ATTTAATCGGCTTCAGTGTTCTG 57.448 39.130 0.00 0.00 42.54 3.02
1468 2074 5.705609 ACAATTTAATCGGCTTCAGTGTT 57.294 34.783 0.00 0.00 0.00 3.32
1473 2079 3.630312 GGCCTACAATTTAATCGGCTTCA 59.370 43.478 0.00 0.00 37.66 3.02
1474 2080 3.630312 TGGCCTACAATTTAATCGGCTTC 59.370 43.478 3.32 0.00 37.66 3.86
1513 2119 2.341846 AAAAGAAGGAGGTGTTGCGA 57.658 45.000 0.00 0.00 0.00 5.10
1516 2122 6.693315 TGAGTTTAAAAGAAGGAGGTGTTG 57.307 37.500 0.00 0.00 0.00 3.33
1536 2146 1.361668 CCCACTCGTCGGCAAATGAG 61.362 60.000 5.50 5.50 38.11 2.90
1539 2149 1.375523 GTCCCACTCGTCGGCAAAT 60.376 57.895 0.00 0.00 0.00 2.32
1556 2166 1.032657 CGAGACCGTGGAGAGATGGT 61.033 60.000 0.00 0.00 37.99 3.55
1570 2180 1.070289 ACAGAAAAGGGTGGTCGAGAC 59.930 52.381 0.00 0.00 0.00 3.36
1579 2189 1.109323 GCACTGCCACAGAAAAGGGT 61.109 55.000 0.78 0.00 35.18 4.34
1580 2190 1.662044 GCACTGCCACAGAAAAGGG 59.338 57.895 0.78 0.00 35.18 3.95
1593 2203 0.326264 AGAACAAGGCTAGGGCACTG 59.674 55.000 0.00 0.00 40.87 3.66
1626 2240 4.077822 CAGAGAGAGGGTTGCAAAATCTT 58.922 43.478 0.00 0.00 0.00 2.40
1640 2254 6.526325 CGTCAACAAAAGATAGACAGAGAGAG 59.474 42.308 0.00 0.00 0.00 3.20
1641 2255 6.382608 CGTCAACAAAAGATAGACAGAGAGA 58.617 40.000 0.00 0.00 0.00 3.10
1642 2256 5.061560 GCGTCAACAAAAGATAGACAGAGAG 59.938 44.000 0.00 0.00 0.00 3.20
1643 2257 4.923871 GCGTCAACAAAAGATAGACAGAGA 59.076 41.667 0.00 0.00 0.00 3.10
1644 2258 4.926238 AGCGTCAACAAAAGATAGACAGAG 59.074 41.667 0.00 0.00 0.00 3.35
1663 2280 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
1665 2282 5.187186 TCCTTCCGTCCCATAATATAAGAGC 59.813 44.000 0.00 0.00 0.00 4.09
1666 2283 6.437793 ACTCCTTCCGTCCCATAATATAAGAG 59.562 42.308 0.00 0.00 0.00 2.85
1667 2284 6.320518 ACTCCTTCCGTCCCATAATATAAGA 58.679 40.000 0.00 0.00 0.00 2.10
1668 2285 6.607004 ACTCCTTCCGTCCCATAATATAAG 57.393 41.667 0.00 0.00 0.00 1.73
1669 2286 7.676893 ACATACTCCTTCCGTCCCATAATATAA 59.323 37.037 0.00 0.00 0.00 0.98
1670 2287 7.186972 ACATACTCCTTCCGTCCCATAATATA 58.813 38.462 0.00 0.00 0.00 0.86
1671 2288 6.023603 ACATACTCCTTCCGTCCCATAATAT 58.976 40.000 0.00 0.00 0.00 1.28
1672 2289 5.399991 ACATACTCCTTCCGTCCCATAATA 58.600 41.667 0.00 0.00 0.00 0.98
1673 2290 4.232091 ACATACTCCTTCCGTCCCATAAT 58.768 43.478 0.00 0.00 0.00 1.28
1674 2291 3.649843 ACATACTCCTTCCGTCCCATAA 58.350 45.455 0.00 0.00 0.00 1.90
1675 2292 3.323774 ACATACTCCTTCCGTCCCATA 57.676 47.619 0.00 0.00 0.00 2.74
1676 2293 2.176247 ACATACTCCTTCCGTCCCAT 57.824 50.000 0.00 0.00 0.00 4.00
1677 2294 1.946984 AACATACTCCTTCCGTCCCA 58.053 50.000 0.00 0.00 0.00 4.37
1678 2295 3.029570 AGTAACATACTCCTTCCGTCCC 58.970 50.000 0.00 0.00 32.47 4.46
1679 2296 4.430908 CAAGTAACATACTCCTTCCGTCC 58.569 47.826 0.00 0.00 38.26 4.79
1680 2297 4.159135 TCCAAGTAACATACTCCTTCCGTC 59.841 45.833 0.00 0.00 38.26 4.79
1681 2298 4.091549 TCCAAGTAACATACTCCTTCCGT 58.908 43.478 0.00 0.00 38.26 4.69
1682 2299 4.730949 TCCAAGTAACATACTCCTTCCG 57.269 45.455 0.00 0.00 38.26 4.30
1683 2300 7.120923 TGTATCCAAGTAACATACTCCTTCC 57.879 40.000 0.00 0.00 38.26 3.46
1684 2301 7.783042 ACTGTATCCAAGTAACATACTCCTTC 58.217 38.462 0.00 0.00 38.26 3.46
1685 2302 7.735326 ACTGTATCCAAGTAACATACTCCTT 57.265 36.000 0.00 0.00 38.26 3.36
1686 2303 7.735326 AACTGTATCCAAGTAACATACTCCT 57.265 36.000 0.00 0.00 38.26 3.69
1687 2304 8.258708 AGAAACTGTATCCAAGTAACATACTCC 58.741 37.037 0.00 0.00 38.26 3.85
1743 2381 4.094590 GCTGTGATCATATGGAATGCTAGC 59.905 45.833 8.10 8.10 0.00 3.42
1758 2396 5.048083 TGGTGGAAAACAATTAGCTGTGATC 60.048 40.000 0.00 0.00 0.00 2.92
1838 2490 1.556911 TGTCCTGGAGAATCTGAAGCC 59.443 52.381 0.00 0.00 33.73 4.35
1955 2623 2.551887 TGGACATCACACAAATTCACGG 59.448 45.455 0.00 0.00 0.00 4.94
1957 2625 6.534793 ACTTTTTGGACATCACACAAATTCAC 59.465 34.615 0.00 0.00 34.47 3.18
2151 2828 5.646606 ACAAGAAAACTGTTATTTGTGCGT 58.353 33.333 13.10 0.00 0.00 5.24
2201 4768 9.705290 AGGACAACAAATGGAAAACATAATAAC 57.295 29.630 0.00 0.00 39.40 1.89
2209 4776 5.006649 GCTTGAAGGACAACAAATGGAAAAC 59.993 40.000 0.00 0.00 34.56 2.43
2216 4783 3.491447 GCACTGCTTGAAGGACAACAAAT 60.491 43.478 0.00 0.00 34.56 2.32
2286 4853 1.464997 CAAGTTTTCCTCTACGCTGGC 59.535 52.381 0.00 0.00 0.00 4.85
2440 5007 0.527113 CATCAGGGCATTCGTGCAAA 59.473 50.000 2.61 0.00 36.33 3.68
2455 5022 7.216494 TCAACTCTTCACTAACATGAACATCA 58.784 34.615 0.00 0.00 34.84 3.07
2584 5154 7.054124 GGGTGACACCATAAAGAAAGATATGA 58.946 38.462 25.75 0.00 41.02 2.15
2585 5155 7.056635 AGGGTGACACCATAAAGAAAGATATG 58.943 38.462 25.75 0.00 41.02 1.78
2586 5156 7.213178 AGGGTGACACCATAAAGAAAGATAT 57.787 36.000 25.75 0.00 41.02 1.63
2587 5157 6.636454 AGGGTGACACCATAAAGAAAGATA 57.364 37.500 25.75 0.00 41.02 1.98
2588 5158 5.520748 AGGGTGACACCATAAAGAAAGAT 57.479 39.130 25.75 0.00 41.02 2.40
2589 5159 4.993705 AGGGTGACACCATAAAGAAAGA 57.006 40.909 25.75 0.00 41.02 2.52
2590 5160 5.770162 AGAAAGGGTGACACCATAAAGAAAG 59.230 40.000 25.75 0.00 41.02 2.62
2762 5376 2.165234 TCTAGTGATGTCTGCACTGAGC 59.835 50.000 0.00 0.00 45.52 4.26
2828 5442 0.964860 ACCGCATTGCCAGCATTACA 60.965 50.000 2.41 0.00 0.00 2.41
2830 5444 1.879380 GATACCGCATTGCCAGCATTA 59.121 47.619 2.41 0.00 0.00 1.90
2834 5448 0.868406 GTAGATACCGCATTGCCAGC 59.132 55.000 2.41 0.00 0.00 4.85
2838 5452 5.047847 TCTTAACTGTAGATACCGCATTGC 58.952 41.667 0.00 0.00 0.00 3.56
2874 5489 8.722480 TGAGAGGTTTCATCAAATATGTACTG 57.278 34.615 0.00 0.00 0.00 2.74
2946 5565 7.709182 AGCCTTTCAACCAAGTGTTAATTAAAC 59.291 33.333 0.00 1.56 34.69 2.01
2948 5567 7.206687 CAGCCTTTCAACCAAGTGTTAATTAA 58.793 34.615 0.00 0.00 34.69 1.40
2950 5569 5.600696 CAGCCTTTCAACCAAGTGTTAATT 58.399 37.500 0.00 0.00 34.69 1.40
3024 5832 9.458727 AGGATCAGCAATATATGTAGAAAATGG 57.541 33.333 0.00 0.00 0.00 3.16
3089 5906 9.382275 AGCAAATGGATGATAAACAAAATAACC 57.618 29.630 0.00 0.00 0.00 2.85
3129 5965 4.512944 GTGTTCTGCATCTGAAGACTGAAA 59.487 41.667 7.08 0.00 34.52 2.69
3204 6040 3.498777 GTGACTTTGAAAGGAGGTGCTAC 59.501 47.826 10.02 0.00 0.00 3.58
3213 6052 0.512952 CGGCGAGTGACTTTGAAAGG 59.487 55.000 10.02 0.00 0.00 3.11
3231 6070 0.460987 GAGAGATGGGCCACTTGTCG 60.461 60.000 9.28 0.00 0.00 4.35
3365 6210 4.751767 AAATCCAGTTTGACTTGGCAAA 57.248 36.364 0.00 0.00 35.54 3.68
3366 6211 4.161189 TGAAAATCCAGTTTGACTTGGCAA 59.839 37.500 0.00 0.00 0.00 4.52
3367 6212 3.703556 TGAAAATCCAGTTTGACTTGGCA 59.296 39.130 0.00 0.00 0.00 4.92
3368 6213 4.320608 TGAAAATCCAGTTTGACTTGGC 57.679 40.909 0.00 0.00 0.00 4.52
3369 6214 5.010922 TCCATGAAAATCCAGTTTGACTTGG 59.989 40.000 0.00 0.00 35.74 3.61
3370 6215 6.088016 TCCATGAAAATCCAGTTTGACTTG 57.912 37.500 0.00 0.00 0.00 3.16
3371 6216 5.279156 GCTCCATGAAAATCCAGTTTGACTT 60.279 40.000 0.00 0.00 0.00 3.01
3372 6217 4.219288 GCTCCATGAAAATCCAGTTTGACT 59.781 41.667 0.00 0.00 0.00 3.41
3373 6218 4.022068 TGCTCCATGAAAATCCAGTTTGAC 60.022 41.667 0.00 0.00 0.00 3.18
3374 6219 4.151121 TGCTCCATGAAAATCCAGTTTGA 58.849 39.130 0.00 0.00 0.00 2.69
3375 6220 4.524316 TGCTCCATGAAAATCCAGTTTG 57.476 40.909 0.00 0.00 0.00 2.93
3376 6221 4.529377 ACATGCTCCATGAAAATCCAGTTT 59.471 37.500 11.78 0.00 43.81 2.66
3394 6299 3.061295 CGATAACACAGTCTGTCACATGC 59.939 47.826 1.37 0.00 30.29 4.06


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

AutoCloner maintained by Alex Coulton.