Multiple sequence alignment - TraesCS7D01G082500

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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 TraesCS7D01G082500 chr7D 100.000 2910 0 0 1 2910 49380177 49383086 0.000000e+00 5374.0
1 TraesCS7D01G082500 chr7D 87.601 371 31 6 1359 1714 49635923 49636293 1.610000e-112 416.0
2 TraesCS7D01G082500 chr7D 83.372 433 56 12 1805 2233 47763104 47762684 1.260000e-103 387.0
3 TraesCS7D01G082500 chr7D 81.008 516 56 19 2073 2561 49636707 49637207 3.540000e-99 372.0
4 TraesCS7D01G082500 chr7D 81.321 439 60 14 1810 2240 48347702 48348126 1.290000e-88 337.0
5 TraesCS7D01G082500 chr7D 83.221 298 39 5 2622 2909 45430006 45430302 2.220000e-66 263.0
6 TraesCS7D01G082500 chr7D 84.762 210 21 5 1846 2051 49636515 49636717 1.770000e-47 200.0
7 TraesCS7D01G082500 chr7D 100.000 86 0 0 1722 1807 177106860 177106945 3.000000e-35 159.0
8 TraesCS7D01G082500 chr7D 100.000 85 0 0 1722 1806 169823371 169823455 1.080000e-34 158.0
9 TraesCS7D01G082500 chr7D 92.308 104 7 1 1718 1820 529689601 529689704 2.340000e-31 147.0
10 TraesCS7D01G082500 chr7D 76.016 246 51 7 135 375 567538505 567538747 1.420000e-23 121.0
11 TraesCS7D01G082500 chr7A 89.819 1768 94 22 1 1723 52277916 52279642 0.000000e+00 2189.0
12 TraesCS7D01G082500 chr7A 90.625 672 36 11 2251 2909 52280302 52280959 0.000000e+00 867.0
13 TraesCS7D01G082500 chr7A 92.810 459 15 6 1805 2255 52279641 52280089 0.000000e+00 649.0
14 TraesCS7D01G082500 chr7A 78.224 822 116 36 1806 2597 52387747 52388535 4.390000e-128 468.0
15 TraesCS7D01G082500 chr7A 83.649 422 56 10 1814 2233 50369694 50369284 4.550000e-103 385.0
16 TraesCS7D01G082500 chr7A 84.946 372 38 6 999 1354 52386913 52387282 7.670000e-96 361.0
17 TraesCS7D01G082500 chr7A 85.801 331 35 8 1357 1676 52387328 52387657 9.990000e-90 340.0
18 TraesCS7D01G082500 chr7A 79.912 453 61 18 842 1288 50389277 50388849 3.640000e-79 305.0
19 TraesCS7D01G082500 chr7A 84.615 286 28 11 2637 2909 13431253 13431535 1.330000e-68 270.0
20 TraesCS7D01G082500 chr7A 89.809 157 15 1 1506 1661 50388493 50388337 1.770000e-47 200.0
21 TraesCS7D01G082500 chr7A 85.321 109 7 2 2133 2240 51077785 51077885 1.430000e-18 104.0
22 TraesCS7D01G082500 chr7A 85.321 109 7 2 2133 2240 51124434 51124534 1.430000e-18 104.0
23 TraesCS7D01G082500 chr4A 89.509 896 65 13 460 1341 663985608 663986488 0.000000e+00 1107.0
24 TraesCS7D01G082500 chr4A 93.223 546 20 8 1805 2341 663986942 663987479 0.000000e+00 787.0
25 TraesCS7D01G082500 chr4A 79.556 675 102 21 1948 2597 664154337 664155000 1.590000e-122 449.0
26 TraesCS7D01G082500 chr4A 86.423 383 29 6 1357 1723 663986568 663986943 5.840000e-107 398.0
27 TraesCS7D01G082500 chr4A 85.054 368 41 4 999 1354 664153150 664153515 2.130000e-96 363.0
28 TraesCS7D01G082500 chr4A 84.940 332 36 2 1357 1688 664153556 664153873 1.010000e-84 324.0
29 TraesCS7D01G082500 chr4A 76.821 302 49 9 63 363 710252253 710251972 1.810000e-32 150.0
30 TraesCS7D01G082500 chr4A 88.462 52 5 1 64 115 411555747 411555797 8.710000e-06 62.1
31 TraesCS7D01G082500 chr4B 86.195 297 29 6 2625 2909 647310578 647310282 7.830000e-81 311.0
32 TraesCS7D01G082500 chr4B 82.331 266 35 9 2654 2909 437152201 437152464 1.360000e-53 220.0
33 TraesCS7D01G082500 chr4B 94.792 96 4 1 1714 1809 29662597 29662503 6.500000e-32 148.0
34 TraesCS7D01G082500 chr6D 86.364 286 27 6 2634 2909 84299986 84300269 4.710000e-78 302.0
35 TraesCS7D01G082500 chr6D 100.000 86 0 0 1722 1807 17316711 17316626 3.000000e-35 159.0
36 TraesCS7D01G082500 chr2A 83.077 325 38 10 2596 2909 14489916 14489598 2.210000e-71 279.0
37 TraesCS7D01G082500 chr2A 83.103 290 35 9 2632 2909 667686120 667686407 4.810000e-63 252.0
38 TraesCS7D01G082500 chr1D 84.192 291 33 8 2629 2909 393548028 393548315 1.330000e-68 270.0
39 TraesCS7D01G082500 chr1D 87.248 149 17 2 98 244 193783732 193783584 4.990000e-38 169.0
40 TraesCS7D01G082500 chr1D 97.802 91 2 0 1722 1812 337065189 337065279 1.080000e-34 158.0
41 TraesCS7D01G082500 chr1D 77.366 243 45 9 135 371 338076782 338076544 5.060000e-28 135.0
42 TraesCS7D01G082500 chr1B 82.803 314 38 9 2601 2902 671525608 671525299 1.720000e-67 267.0
43 TraesCS7D01G082500 chr2B 81.659 229 34 8 63 286 93106687 93106912 1.780000e-42 183.0
44 TraesCS7D01G082500 chr4D 77.313 335 51 9 63 375 303846979 303847310 1.070000e-39 174.0
45 TraesCS7D01G082500 chr4D 90.000 110 10 1 1708 1816 7759868 7759977 1.090000e-29 141.0
46 TraesCS7D01G082500 chr2D 85.714 154 19 3 63 214 561825580 561825732 3.000000e-35 159.0
47 TraesCS7D01G082500 chr2D 79.039 229 35 10 66 289 378899548 378899328 8.400000e-31 145.0
48 TraesCS7D01G082500 chr3D 95.000 100 3 2 1722 1820 157035739 157035641 3.880000e-34 156.0
49 TraesCS7D01G082500 chr5D 93.939 99 6 0 1721 1819 431293824 431293726 1.810000e-32 150.0
50 TraesCS7D01G082500 chr5D 87.500 112 14 0 1000 1111 329796631 329796520 2.350000e-26 130.0
51 TraesCS7D01G082500 chr5A 87.500 112 14 0 1000 1111 426903901 426904012 2.350000e-26 130.0
52 TraesCS7D01G082500 chr5B 88.660 97 10 1 1000 1096 382909954 382909859 1.830000e-22 117.0
53 TraesCS7D01G082500 chr7B 73.968 315 69 12 66 375 498545375 498545069 6.590000e-22 115.0
54 TraesCS7D01G082500 chrUn 84.404 109 8 5 2133 2240 380998392 380998492 6.640000e-17 99.0
55 TraesCS7D01G082500 chr1A 89.855 69 7 0 1 69 70039079 70039011 3.990000e-14 89.8
56 TraesCS7D01G082500 chr3A 78.519 135 17 9 76 209 112408223 112408100 8.650000e-11 78.7
57 TraesCS7D01G082500 chr3B 95.556 45 2 0 1 45 475272475 475272431 4.020000e-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 TraesCS7D01G082500 chr7D 49380177 49383086 2909 False 5374.000000 5374 100.000000 1 2910 1 chr7D.!!$F3 2909
1 TraesCS7D01G082500 chr7D 49635923 49637207 1284 False 329.333333 416 84.457000 1359 2561 3 chr7D.!!$F8 1202
2 TraesCS7D01G082500 chr7A 52277916 52280959 3043 False 1235.000000 2189 91.084667 1 2909 3 chr7A.!!$F4 2908
3 TraesCS7D01G082500 chr7A 52386913 52388535 1622 False 389.666667 468 82.990333 999 2597 3 chr7A.!!$F5 1598
4 TraesCS7D01G082500 chr7A 50388337 50389277 940 True 252.500000 305 84.860500 842 1661 2 chr7A.!!$R2 819
5 TraesCS7D01G082500 chr4A 663985608 663987479 1871 False 764.000000 1107 89.718333 460 2341 3 chr4A.!!$F2 1881
6 TraesCS7D01G082500 chr4A 664153150 664155000 1850 False 378.666667 449 83.183333 999 2597 3 chr4A.!!$F3 1598

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
379 382 0.107214 TTGGGGATGCCTTTAGAGCG 60.107 55.0 2.19 0.0 0.0 5.03 F
1738 2011 0.042131 AATACTCCCTCCGTCCCACA 59.958 55.0 0.00 0.0 0.0 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1790 2063 0.033405 CTTCTACTCCCTCCGTCCCA 60.033 60.0 0.00 0.00 0.0 4.37 R
2760 3788 0.445043 GTGGCCCACGTACGAAAATC 59.555 55.0 24.41 8.82 0.0 2.17 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
25 26 6.294473 TCACCATTTTTGTTTATGTGGCATT 58.706 32.000 0.00 0.00 0.00 3.56
37 40 9.232473 TGTTTATGTGGCATTTATGTTACTACA 57.768 29.630 0.00 0.00 38.95 2.74
58 61 9.854668 ACTACATATGTTACTCTCACTATGACT 57.145 33.333 14.77 0.00 0.00 3.41
67 70 8.511321 GTTACTCTCACTATGACTATCCTCATG 58.489 40.741 0.00 0.00 32.86 3.07
83 86 0.533755 CATGGCCGGAGATGAGGAAC 60.534 60.000 5.05 0.00 0.00 3.62
108 111 4.452455 GGTGCCGGTGATCATTTAGATTAG 59.548 45.833 1.90 0.00 37.00 1.73
143 146 2.867855 AAGAGCCGAACGAGCACCA 61.868 57.895 0.00 0.00 0.00 4.17
191 194 9.612620 GAAATCCGTCATGTTTATATGAAATCC 57.387 33.333 0.00 0.00 38.69 3.01
192 195 6.779115 TCCGTCATGTTTATATGAAATCCG 57.221 37.500 0.00 0.00 38.69 4.18
193 196 6.285224 TCCGTCATGTTTATATGAAATCCGT 58.715 36.000 0.00 0.00 38.69 4.69
194 197 6.422701 TCCGTCATGTTTATATGAAATCCGTC 59.577 38.462 0.00 0.00 38.69 4.79
195 198 6.201997 CCGTCATGTTTATATGAAATCCGTCA 59.798 38.462 0.00 0.00 38.69 4.35
196 199 7.095229 CCGTCATGTTTATATGAAATCCGTCAT 60.095 37.037 0.00 0.00 38.69 3.06
197 200 8.282592 CGTCATGTTTATATGAAATCCGTCATT 58.717 33.333 0.00 0.00 38.69 2.57
198 201 9.950680 GTCATGTTTATATGAAATCCGTCATTT 57.049 29.630 0.00 0.00 38.69 2.32
210 213 9.877137 TGAAATCCGTCATTTTTATATGAATCG 57.123 29.630 0.00 0.00 36.37 3.34
222 225 1.113788 ATGAATCGGCCCATGTTTGG 58.886 50.000 0.00 0.00 43.23 3.28
278 281 2.396590 ATGTGTACGGCTAAGGTTGG 57.603 50.000 0.00 0.00 0.00 3.77
289 292 0.704076 TAAGGTTGGATGGCAGCCTT 59.296 50.000 23.96 16.85 43.87 4.35
291 294 1.304381 GGTTGGATGGCAGCCTTCA 60.304 57.895 23.96 12.55 30.42 3.02
293 296 0.322816 GTTGGATGGCAGCCTTCAGA 60.323 55.000 23.96 12.30 30.42 3.27
298 301 0.627451 ATGGCAGCCTTCAGAATCCA 59.373 50.000 14.15 0.00 0.00 3.41
300 303 1.030457 GGCAGCCTTCAGAATCCATG 58.970 55.000 3.29 0.00 0.00 3.66
306 309 2.283298 CCTTCAGAATCCATGTCCACG 58.717 52.381 0.00 0.00 0.00 4.94
310 313 0.541863 AGAATCCATGTCCACGGACC 59.458 55.000 13.60 0.00 43.97 4.46
312 315 2.252072 AATCCATGTCCACGGACCGG 62.252 60.000 20.00 13.41 43.97 5.28
314 317 2.434185 CATGTCCACGGACCGGTG 60.434 66.667 14.63 13.49 43.97 4.94
342 345 3.791539 GCACACAGATGCGAGAGG 58.208 61.111 0.00 0.00 35.50 3.69
347 350 3.785486 CACACAGATGCGAGAGGAAATA 58.215 45.455 0.00 0.00 32.68 1.40
351 354 2.740981 CAGATGCGAGAGGAAATATGCC 59.259 50.000 0.00 0.00 32.68 4.40
354 357 0.249911 GCGAGAGGAAATATGCCGGT 60.250 55.000 1.90 0.00 0.00 5.28
362 365 1.711060 AAATATGCCGGTCGCCGTTG 61.711 55.000 15.38 4.38 46.80 4.10
375 378 1.384222 GCCGTTGGGGATGCCTTTAG 61.384 60.000 2.19 0.00 38.47 1.85
379 382 0.107214 TTGGGGATGCCTTTAGAGCG 60.107 55.000 2.19 0.00 0.00 5.03
384 387 1.869767 GGATGCCTTTAGAGCGACATG 59.130 52.381 0.00 0.00 0.00 3.21
387 390 1.486310 TGCCTTTAGAGCGACATGGAT 59.514 47.619 0.00 0.00 0.00 3.41
390 393 3.126831 CCTTTAGAGCGACATGGATGAC 58.873 50.000 0.00 0.00 0.00 3.06
402 408 2.583024 TGGATGACCATTGCAACTCA 57.417 45.000 0.00 3.32 41.77 3.41
441 447 4.098914 TGTTTCTTCTTACCACATGGCT 57.901 40.909 0.00 0.00 39.32 4.75
469 488 8.028938 ACAAAAGATCCCAATATTGTTTCTTCG 58.971 33.333 14.25 13.64 0.00 3.79
476 495 5.526111 CCCAATATTGTTTCTTCGTCGGTAT 59.474 40.000 14.25 0.00 0.00 2.73
510 529 1.200020 CTCCATTTCAGCCGTGGAAAC 59.800 52.381 0.00 0.00 41.21 2.78
667 695 4.087892 CCCCACTGCTGGAGACGG 62.088 72.222 2.24 2.83 40.55 4.79
680 708 1.541233 GGAGACGGCATAGATGGTTGG 60.541 57.143 0.00 0.00 0.00 3.77
716 744 1.540146 GCATTGGTGGACACAAAACCC 60.540 52.381 4.69 0.00 32.70 4.11
717 745 2.038659 CATTGGTGGACACAAAACCCT 58.961 47.619 4.69 0.00 32.70 4.34
718 746 2.239681 TTGGTGGACACAAAACCCTT 57.760 45.000 4.69 0.00 32.70 3.95
719 747 1.479709 TGGTGGACACAAAACCCTTG 58.520 50.000 4.69 0.00 32.70 3.61
840 870 0.268869 ATCCCCATCCACCTCTGCTA 59.731 55.000 0.00 0.00 0.00 3.49
967 1002 1.364626 CGGCGACACGTCTAGGTAGT 61.365 60.000 0.00 0.00 0.00 2.73
1179 1220 1.039068 CATCTCTCTCGGTGCCATCT 58.961 55.000 0.00 0.00 0.00 2.90
1266 1307 1.280421 CCTCCTCCTCTGTTTCTTGGG 59.720 57.143 0.00 0.00 0.00 4.12
1291 1336 2.075761 CGGTGATTTCCGTTCGGTC 58.924 57.895 11.04 2.63 44.77 4.79
1292 1337 0.389426 CGGTGATTTCCGTTCGGTCT 60.389 55.000 11.04 0.00 44.77 3.85
1452 1594 6.478512 TTTGCTGTTTAACCTGAAATTCCT 57.521 33.333 0.00 0.00 0.00 3.36
1526 1734 4.785453 GGCTGGAGGGCGTTCAGG 62.785 72.222 16.74 0.00 0.00 3.86
1630 1839 1.300775 TTTAAACGTCGCCCTCGCA 60.301 52.632 0.00 0.00 35.26 5.10
1670 1939 3.254166 GCACCATACCAATGATGATCCAC 59.746 47.826 0.00 0.00 34.84 4.02
1724 1997 8.868522 TCTGACCAATCATTCAGAAAAATACT 57.131 30.769 0.00 0.00 44.19 2.12
1725 1998 8.950210 TCTGACCAATCATTCAGAAAAATACTC 58.050 33.333 0.00 0.00 44.19 2.59
1727 2000 7.122650 TGACCAATCATTCAGAAAAATACTCCC 59.877 37.037 0.00 0.00 0.00 4.30
1729 2002 7.340487 ACCAATCATTCAGAAAAATACTCCCTC 59.660 37.037 0.00 0.00 0.00 4.30
1730 2003 7.201857 CCAATCATTCAGAAAAATACTCCCTCC 60.202 40.741 0.00 0.00 0.00 4.30
1731 2004 5.428253 TCATTCAGAAAAATACTCCCTCCG 58.572 41.667 0.00 0.00 0.00 4.63
1732 2005 4.903045 TTCAGAAAAATACTCCCTCCGT 57.097 40.909 0.00 0.00 0.00 4.69
1733 2006 4.467198 TCAGAAAAATACTCCCTCCGTC 57.533 45.455 0.00 0.00 0.00 4.79
1734 2007 3.197116 TCAGAAAAATACTCCCTCCGTCC 59.803 47.826 0.00 0.00 0.00 4.79
1735 2008 2.504585 AGAAAAATACTCCCTCCGTCCC 59.495 50.000 0.00 0.00 0.00 4.46
1736 2009 1.961133 AAAATACTCCCTCCGTCCCA 58.039 50.000 0.00 0.00 0.00 4.37
1737 2010 1.201424 AAATACTCCCTCCGTCCCAC 58.799 55.000 0.00 0.00 0.00 4.61
1738 2011 0.042131 AATACTCCCTCCGTCCCACA 59.958 55.000 0.00 0.00 0.00 4.17
1739 2012 0.042131 ATACTCCCTCCGTCCCACAA 59.958 55.000 0.00 0.00 0.00 3.33
1740 2013 0.042131 TACTCCCTCCGTCCCACAAT 59.958 55.000 0.00 0.00 0.00 2.71
1741 2014 0.042131 ACTCCCTCCGTCCCACAATA 59.958 55.000 0.00 0.00 0.00 1.90
1742 2015 1.344087 ACTCCCTCCGTCCCACAATAT 60.344 52.381 0.00 0.00 0.00 1.28
1743 2016 2.090943 ACTCCCTCCGTCCCACAATATA 60.091 50.000 0.00 0.00 0.00 0.86
1744 2017 2.969950 CTCCCTCCGTCCCACAATATAA 59.030 50.000 0.00 0.00 0.00 0.98
1745 2018 2.969950 TCCCTCCGTCCCACAATATAAG 59.030 50.000 0.00 0.00 0.00 1.73
1746 2019 2.969950 CCCTCCGTCCCACAATATAAGA 59.030 50.000 0.00 0.00 0.00 2.10
1747 2020 3.006967 CCCTCCGTCCCACAATATAAGAG 59.993 52.174 0.00 0.00 0.00 2.85
1748 2021 3.555168 CCTCCGTCCCACAATATAAGAGC 60.555 52.174 0.00 0.00 0.00 4.09
1749 2022 2.035449 TCCGTCCCACAATATAAGAGCG 59.965 50.000 0.00 0.00 0.00 5.03
1750 2023 2.223971 CCGTCCCACAATATAAGAGCGT 60.224 50.000 0.00 0.00 0.00 5.07
1751 2024 3.454375 CGTCCCACAATATAAGAGCGTT 58.546 45.455 0.00 0.00 0.00 4.84
1752 2025 3.869246 CGTCCCACAATATAAGAGCGTTT 59.131 43.478 0.00 0.00 0.00 3.60
1753 2026 4.331717 CGTCCCACAATATAAGAGCGTTTT 59.668 41.667 0.00 0.00 0.00 2.43
1754 2027 5.163794 CGTCCCACAATATAAGAGCGTTTTT 60.164 40.000 0.00 0.00 0.00 1.94
1755 2028 6.027749 GTCCCACAATATAAGAGCGTTTTTG 58.972 40.000 0.00 0.00 0.00 2.44
1756 2029 5.941058 TCCCACAATATAAGAGCGTTTTTGA 59.059 36.000 0.00 0.00 0.00 2.69
1757 2030 6.027749 CCCACAATATAAGAGCGTTTTTGAC 58.972 40.000 0.00 0.00 0.00 3.18
1758 2031 6.348950 CCCACAATATAAGAGCGTTTTTGACA 60.349 38.462 0.00 0.00 0.00 3.58
1759 2032 6.523201 CCACAATATAAGAGCGTTTTTGACAC 59.477 38.462 0.00 0.00 0.00 3.67
1760 2033 7.298122 CACAATATAAGAGCGTTTTTGACACT 58.702 34.615 0.00 0.00 0.00 3.55
1761 2034 8.440059 CACAATATAAGAGCGTTTTTGACACTA 58.560 33.333 0.00 0.00 0.00 2.74
1762 2035 8.995220 ACAATATAAGAGCGTTTTTGACACTAA 58.005 29.630 0.00 0.00 0.00 2.24
1763 2036 9.988350 CAATATAAGAGCGTTTTTGACACTAAT 57.012 29.630 0.00 0.00 0.00 1.73
1764 2037 9.988350 AATATAAGAGCGTTTTTGACACTAATG 57.012 29.630 0.00 0.00 0.00 1.90
1765 2038 5.751243 AAGAGCGTTTTTGACACTAATGT 57.249 34.783 0.00 0.00 43.71 2.71
1766 2039 6.854496 AAGAGCGTTTTTGACACTAATGTA 57.146 33.333 0.00 0.00 39.95 2.29
1767 2040 6.467723 AGAGCGTTTTTGACACTAATGTAG 57.532 37.500 0.00 0.00 39.95 2.74
1768 2041 5.989777 AGAGCGTTTTTGACACTAATGTAGT 59.010 36.000 0.00 0.00 39.95 2.73
1796 2069 6.780706 AAAACGCTCTTATATTATGGGACG 57.219 37.500 0.00 0.00 0.00 4.79
1797 2070 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
1798 2071 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
1799 2072 4.158025 ACGCTCTTATATTATGGGACGGAG 59.842 45.833 0.00 0.00 0.00 4.63
1800 2073 4.440250 CGCTCTTATATTATGGGACGGAGG 60.440 50.000 0.00 0.00 0.00 4.30
1801 2074 4.141914 GCTCTTATATTATGGGACGGAGGG 60.142 50.000 0.00 0.00 0.00 4.30
1802 2075 5.269991 CTCTTATATTATGGGACGGAGGGA 58.730 45.833 0.00 0.00 0.00 4.20
1803 2076 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
1804 2077 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
1814 2087 3.822167 GGACGGAGGGAGTAGAAGATAAG 59.178 52.174 0.00 0.00 0.00 1.73
1815 2088 4.446023 GGACGGAGGGAGTAGAAGATAAGA 60.446 50.000 0.00 0.00 0.00 2.10
1817 2090 4.888823 ACGGAGGGAGTAGAAGATAAGAAC 59.111 45.833 0.00 0.00 0.00 3.01
1818 2091 4.888239 CGGAGGGAGTAGAAGATAAGAACA 59.112 45.833 0.00 0.00 0.00 3.18
1819 2092 5.536916 CGGAGGGAGTAGAAGATAAGAACAT 59.463 44.000 0.00 0.00 0.00 2.71
1820 2093 6.715718 CGGAGGGAGTAGAAGATAAGAACATA 59.284 42.308 0.00 0.00 0.00 2.29
1937 2694 2.940410 ACGCCCAAGGTACGAAATAATG 59.060 45.455 5.88 0.00 0.00 1.90
1942 2699 4.519213 CCAAGGTACGAAATAATGGACCA 58.481 43.478 0.00 0.00 0.00 4.02
1959 2716 1.315690 CCAATGCCGATGAAGCAGAT 58.684 50.000 0.00 0.00 44.90 2.90
1993 2750 0.393132 TGTTTGAGGCCGTGTGTTCA 60.393 50.000 0.00 0.00 0.00 3.18
2047 2807 5.539582 TCGTTGTGTTAATTAGATGCACC 57.460 39.130 0.00 0.00 0.00 5.01
2082 2845 0.177141 TATGTAGTTGTGCGCCCCTC 59.823 55.000 4.18 0.00 0.00 4.30
2152 2931 2.696989 TCGAGATGTGTTGCCATCAT 57.303 45.000 4.20 0.00 43.00 2.45
2236 3026 7.538678 GTGTTCAATCATGCTTCGTTTTCTTAT 59.461 33.333 0.00 0.00 0.00 1.73
2246 3036 8.894409 TGCTTCGTTTTCTTATTATCATTGTG 57.106 30.769 0.00 0.00 0.00 3.33
2365 3388 2.114411 GGTCGGGTCTTTTGGGCA 59.886 61.111 0.00 0.00 0.00 5.36
2367 3390 0.034863 GGTCGGGTCTTTTGGGCATA 60.035 55.000 0.00 0.00 0.00 3.14
2369 3392 1.471287 GTCGGGTCTTTTGGGCATAAC 59.529 52.381 0.00 0.00 0.00 1.89
2399 3423 6.885922 ACTGCGAAAATAAGTTACCCTCTAT 58.114 36.000 0.00 0.00 0.00 1.98
2596 3624 9.300681 TCACCATTTTTCTCTACTTTCATGAAT 57.699 29.630 9.40 0.00 0.00 2.57
2597 3625 9.565213 CACCATTTTTCTCTACTTTCATGAATC 57.435 33.333 9.40 0.00 0.00 2.52
2598 3626 9.525826 ACCATTTTTCTCTACTTTCATGAATCT 57.474 29.630 9.40 0.00 0.00 2.40
2697 3725 0.594110 TTTTTCATCCGTTCACCGCC 59.406 50.000 0.00 0.00 34.38 6.13
2705 3733 1.491563 CGTTCACCGCCGAAAAGAG 59.508 57.895 0.00 0.00 0.00 2.85
2718 3746 4.444388 GCCGAAAAGAGTTTTTGTCAATCC 59.556 41.667 0.00 0.00 36.66 3.01
2722 3750 5.438761 AAAGAGTTTTTGTCAATCCGAGG 57.561 39.130 0.00 0.00 0.00 4.63
2760 3788 9.113838 TCTAATGCCTTTATCTGCTAGAAAAAG 57.886 33.333 0.00 0.00 0.00 2.27
2778 3807 0.322322 AGATTTTCGTACGTGGGCCA 59.678 50.000 16.05 0.00 0.00 5.36
2820 3850 3.193479 CCAGCCCACTTATTTTTCTGTCC 59.807 47.826 0.00 0.00 0.00 4.02
2822 3852 4.463891 CAGCCCACTTATTTTTCTGTCCAT 59.536 41.667 0.00 0.00 0.00 3.41
2828 3866 7.384932 CCCACTTATTTTTCTGTCCATGAAAAC 59.615 37.037 0.00 0.00 41.32 2.43
2838 3876 7.687941 TCTGTCCATGAAAACTCTATTTTCC 57.312 36.000 9.09 0.00 37.55 3.13
2844 3882 5.356882 TGAAAACTCTATTTTCCGCACTG 57.643 39.130 9.09 0.00 37.55 3.66
2858 3896 2.355717 GCACTGGGCGATAGATAGTC 57.644 55.000 0.00 0.00 39.76 2.59
2862 3900 3.570125 CACTGGGCGATAGATAGTCAGAA 59.430 47.826 0.00 0.00 39.76 3.02
2863 3901 4.219507 CACTGGGCGATAGATAGTCAGAAT 59.780 45.833 0.00 0.00 39.76 2.40
2867 3905 4.859798 GGGCGATAGATAGTCAGAATTTCG 59.140 45.833 0.00 0.00 39.76 3.46
2870 3908 5.402568 GCGATAGATAGTCAGAATTTCGCAA 59.597 40.000 8.41 0.00 46.15 4.85
2874 3912 5.734720 AGATAGTCAGAATTTCGCAAAGGA 58.265 37.500 0.00 0.00 0.00 3.36
2903 3941 2.065483 TGGGCTTGCCCATTTTTCC 58.935 52.632 27.73 1.46 34.56 3.13
2909 3947 3.004629 GGCTTGCCCATTTTTCCTTTTTG 59.995 43.478 0.00 0.00 0.00 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 8.728833 ACATAAATGCCACATAAACAAAAATGG 58.271 29.630 0.00 0.00 0.00 3.16
41 44 8.511321 CATGAGGATAGTCATAGTGAGAGTAAC 58.489 40.741 0.00 0.00 35.30 2.50
48 51 3.834813 GGCCATGAGGATAGTCATAGTGA 59.165 47.826 0.00 0.00 35.30 3.41
58 61 1.203174 TCATCTCCGGCCATGAGGATA 60.203 52.381 16.94 2.63 35.75 2.59
67 70 2.107141 CGTTCCTCATCTCCGGCC 59.893 66.667 0.00 0.00 0.00 6.13
83 86 7.979069 TAATCTAAATGATCACCGGCACCCG 62.979 48.000 0.00 0.00 39.67 5.28
108 111 5.122396 CGGCTCTTGAGGCATAATTAATACC 59.878 44.000 21.16 0.00 0.00 2.73
165 168 9.612620 GGATTTCATATAAACATGACGGATTTC 57.387 33.333 0.00 0.00 34.69 2.17
170 173 6.201997 TGACGGATTTCATATAAACATGACGG 59.798 38.462 0.00 0.00 34.69 4.79
190 193 5.390613 GGCCGATTCATATAAAAATGACGG 58.609 41.667 10.05 10.05 43.30 4.79
191 194 5.049060 TGGGCCGATTCATATAAAAATGACG 60.049 40.000 0.00 0.00 35.63 4.35
192 195 6.325919 TGGGCCGATTCATATAAAAATGAC 57.674 37.500 0.00 0.00 35.63 3.06
193 196 6.493115 ACATGGGCCGATTCATATAAAAATGA 59.507 34.615 0.00 0.00 34.07 2.57
194 197 6.690530 ACATGGGCCGATTCATATAAAAATG 58.309 36.000 0.00 0.00 0.00 2.32
195 198 6.916360 ACATGGGCCGATTCATATAAAAAT 57.084 33.333 0.00 0.00 0.00 1.82
196 199 6.723298 AACATGGGCCGATTCATATAAAAA 57.277 33.333 0.00 0.00 0.00 1.94
197 200 6.462207 CCAAACATGGGCCGATTCATATAAAA 60.462 38.462 0.00 0.00 0.00 1.52
198 201 5.010516 CCAAACATGGGCCGATTCATATAAA 59.989 40.000 0.00 0.00 0.00 1.40
199 202 4.522405 CCAAACATGGGCCGATTCATATAA 59.478 41.667 0.00 0.00 0.00 0.98
200 203 4.078537 CCAAACATGGGCCGATTCATATA 58.921 43.478 0.00 0.00 0.00 0.86
201 204 2.892852 CCAAACATGGGCCGATTCATAT 59.107 45.455 0.00 0.00 0.00 1.78
202 205 2.092158 TCCAAACATGGGCCGATTCATA 60.092 45.455 0.00 0.00 0.00 2.15
203 206 1.113788 CCAAACATGGGCCGATTCAT 58.886 50.000 0.00 0.00 0.00 2.57
204 207 0.038890 TCCAAACATGGGCCGATTCA 59.961 50.000 0.00 0.00 0.00 2.57
205 208 1.067516 CATCCAAACATGGGCCGATTC 59.932 52.381 0.00 0.00 0.00 2.52
206 209 1.113788 CATCCAAACATGGGCCGATT 58.886 50.000 0.00 0.00 0.00 3.34
207 210 0.258484 TCATCCAAACATGGGCCGAT 59.742 50.000 0.00 0.00 0.00 4.18
208 211 0.038890 TTCATCCAAACATGGGCCGA 59.961 50.000 0.00 0.00 0.00 5.54
209 212 1.113788 ATTCATCCAAACATGGGCCG 58.886 50.000 0.00 0.00 0.00 6.13
210 213 3.055240 TGAAATTCATCCAAACATGGGCC 60.055 43.478 0.00 0.00 0.00 5.80
234 237 4.806247 TCAAACACTTTTGCAATAAACCGG 59.194 37.500 0.00 0.00 41.78 5.28
237 240 8.997960 CACATTTCAAACACTTTTGCAATAAAC 58.002 29.630 0.00 0.00 41.78 2.01
241 244 6.740411 ACACATTTCAAACACTTTTGCAAT 57.260 29.167 0.00 0.00 41.78 3.56
263 266 1.949465 CCATCCAACCTTAGCCGTAC 58.051 55.000 0.00 0.00 0.00 3.67
278 281 1.316651 GGATTCTGAAGGCTGCCATC 58.683 55.000 22.65 19.44 0.00 3.51
289 292 1.567357 TCCGTGGACATGGATTCTGA 58.433 50.000 9.14 0.00 41.36 3.27
298 301 4.388499 GCACCGGTCCGTGGACAT 62.388 66.667 20.02 2.89 46.20 3.06
328 331 3.186001 GCATATTTCCTCTCGCATCTGTG 59.814 47.826 0.00 0.00 0.00 3.66
342 345 2.935955 CGGCGACCGGCATATTTC 59.064 61.111 15.89 0.00 44.15 2.17
362 365 0.533085 GTCGCTCTAAAGGCATCCCC 60.533 60.000 0.00 0.00 0.00 4.81
371 374 2.499693 TGGTCATCCATGTCGCTCTAAA 59.500 45.455 0.00 0.00 39.03 1.85
384 387 2.557924 TGTTGAGTTGCAATGGTCATCC 59.442 45.455 0.59 1.80 39.03 3.51
387 390 1.680735 GGTGTTGAGTTGCAATGGTCA 59.319 47.619 0.59 3.60 39.03 4.02
390 393 1.955778 TCTGGTGTTGAGTTGCAATGG 59.044 47.619 0.59 0.00 39.03 3.16
402 408 1.765314 ACAAGTGAGAGCTCTGGTGTT 59.235 47.619 23.91 6.18 0.00 3.32
476 495 1.105167 ATGGAGGACGACGCGGATAA 61.105 55.000 12.47 0.00 0.00 1.75
484 503 1.084370 CGGCTGAAATGGAGGACGAC 61.084 60.000 0.00 0.00 0.00 4.34
667 695 2.418368 TGACCACCAACCATCTATGC 57.582 50.000 0.00 0.00 0.00 3.14
680 708 2.513897 GCCGGCTACCATGACCAC 60.514 66.667 22.15 0.00 0.00 4.16
718 746 1.622811 GCATTTGATGGGTTGGGAACA 59.377 47.619 0.00 0.00 39.83 3.18
719 747 1.622811 TGCATTTGATGGGTTGGGAAC 59.377 47.619 0.00 0.00 0.00 3.62
752 780 1.590525 GACGACGTGGAGTGTTGCA 60.591 57.895 4.58 0.00 0.00 4.08
1179 1220 1.308069 GCAAGGAGCTTGATTCGCCA 61.308 55.000 0.00 0.00 43.42 5.69
1266 1307 4.542075 GGAAATCACCGGGAGAGC 57.458 61.111 6.32 0.00 0.00 4.09
1274 1319 1.730612 GAAGACCGAACGGAAATCACC 59.269 52.381 20.14 0.41 38.96 4.02
1288 1333 3.570550 ACTACACAGAGTCACAGAAGACC 59.429 47.826 0.00 0.00 39.34 3.85
1289 1334 4.541779 CACTACACAGAGTCACAGAAGAC 58.458 47.826 0.00 0.00 38.81 3.01
1291 1336 3.005261 AGCACTACACAGAGTCACAGAAG 59.995 47.826 0.00 0.00 0.00 2.85
1292 1337 2.959030 AGCACTACACAGAGTCACAGAA 59.041 45.455 0.00 0.00 0.00 3.02
1354 1426 3.181967 CGCGCTCGAGGGACAAAG 61.182 66.667 31.36 12.98 38.10 2.77
1524 1732 0.753111 GCCATCTTGGATTTCCGCCT 60.753 55.000 0.00 0.00 40.96 5.52
1526 1734 1.037030 TGGCCATCTTGGATTTCCGC 61.037 55.000 0.00 0.00 40.96 5.54
1630 1839 0.035630 GCAAGGAGCATGGAGTGAGT 60.036 55.000 0.00 0.00 44.79 3.41
1670 1939 6.999272 AGTATCCAGTAGGTAGTATCTGTGTG 59.001 42.308 0.00 0.00 35.89 3.82
1723 1996 1.424638 ATATTGTGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
1724 1997 2.779429 TATATTGTGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
1725 1998 2.969950 TCTTATATTGTGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
1727 2000 3.654414 GCTCTTATATTGTGGGACGGAG 58.346 50.000 0.00 0.00 0.00 4.63
1729 2002 2.223971 ACGCTCTTATATTGTGGGACGG 60.224 50.000 0.00 0.00 0.00 4.79
1730 2003 3.093717 ACGCTCTTATATTGTGGGACG 57.906 47.619 0.00 0.00 0.00 4.79
1731 2004 5.813080 AAAACGCTCTTATATTGTGGGAC 57.187 39.130 0.00 0.00 0.00 4.46
1732 2005 5.941058 TCAAAAACGCTCTTATATTGTGGGA 59.059 36.000 0.00 0.00 0.00 4.37
1733 2006 6.027749 GTCAAAAACGCTCTTATATTGTGGG 58.972 40.000 0.00 0.00 0.00 4.61
1734 2007 6.523201 GTGTCAAAAACGCTCTTATATTGTGG 59.477 38.462 0.00 0.00 35.42 4.17
1735 2008 7.298122 AGTGTCAAAAACGCTCTTATATTGTG 58.702 34.615 0.00 0.00 45.69 3.33
1736 2009 7.435068 AGTGTCAAAAACGCTCTTATATTGT 57.565 32.000 0.00 0.00 45.69 2.71
1737 2010 9.988350 ATTAGTGTCAAAAACGCTCTTATATTG 57.012 29.630 0.00 0.00 45.69 1.90
1738 2011 9.988350 CATTAGTGTCAAAAACGCTCTTATATT 57.012 29.630 0.00 0.00 45.69 1.28
1739 2012 9.162764 ACATTAGTGTCAAAAACGCTCTTATAT 57.837 29.630 0.00 0.00 45.69 0.86
1740 2013 8.542497 ACATTAGTGTCAAAAACGCTCTTATA 57.458 30.769 0.00 0.00 45.69 0.98
1741 2014 7.435068 ACATTAGTGTCAAAAACGCTCTTAT 57.565 32.000 0.00 0.00 45.69 1.73
1742 2015 6.854496 ACATTAGTGTCAAAAACGCTCTTA 57.146 33.333 0.00 0.00 45.69 2.10
1743 2016 5.751243 ACATTAGTGTCAAAAACGCTCTT 57.249 34.783 0.00 0.00 45.69 2.85
1744 2017 5.989777 ACTACATTAGTGTCAAAAACGCTCT 59.010 36.000 0.00 0.00 45.69 4.09
1745 2018 6.071463 CACTACATTAGTGTCAAAAACGCTC 58.929 40.000 5.34 0.00 45.69 5.03
1772 2045 6.204108 CCGTCCCATAATATAAGAGCGTTTTT 59.796 38.462 0.00 0.00 0.00 1.94
1773 2046 5.699458 CCGTCCCATAATATAAGAGCGTTTT 59.301 40.000 0.00 0.00 0.00 2.43
1774 2047 5.011329 TCCGTCCCATAATATAAGAGCGTTT 59.989 40.000 0.00 0.00 0.00 3.60
1775 2048 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
1776 2049 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
1777 2050 4.440250 CCTCCGTCCCATAATATAAGAGCG 60.440 50.000 0.00 0.00 0.00 5.03
1778 2051 4.141914 CCCTCCGTCCCATAATATAAGAGC 60.142 50.000 0.00 0.00 0.00 4.09
1779 2052 5.269991 TCCCTCCGTCCCATAATATAAGAG 58.730 45.833 0.00 0.00 0.00 2.85
1780 2053 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
1781 2054 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
1782 2055 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
1783 2056 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
1784 2057 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1785 2058 3.659195 TCTACTCCCTCCGTCCCATAATA 59.341 47.826 0.00 0.00 0.00 0.98
1786 2059 2.449730 TCTACTCCCTCCGTCCCATAAT 59.550 50.000 0.00 0.00 0.00 1.28
1787 2060 1.854939 TCTACTCCCTCCGTCCCATAA 59.145 52.381 0.00 0.00 0.00 1.90
1788 2061 1.526315 TCTACTCCCTCCGTCCCATA 58.474 55.000 0.00 0.00 0.00 2.74
1789 2062 0.635009 TTCTACTCCCTCCGTCCCAT 59.365 55.000 0.00 0.00 0.00 4.00
1790 2063 0.033405 CTTCTACTCCCTCCGTCCCA 60.033 60.000 0.00 0.00 0.00 4.37
1791 2064 0.258194 TCTTCTACTCCCTCCGTCCC 59.742 60.000 0.00 0.00 0.00 4.46
1792 2065 2.368311 ATCTTCTACTCCCTCCGTCC 57.632 55.000 0.00 0.00 0.00 4.79
1793 2066 4.716794 TCTTATCTTCTACTCCCTCCGTC 58.283 47.826 0.00 0.00 0.00 4.79
1794 2067 4.792513 TCTTATCTTCTACTCCCTCCGT 57.207 45.455 0.00 0.00 0.00 4.69
1795 2068 4.888239 TGTTCTTATCTTCTACTCCCTCCG 59.112 45.833 0.00 0.00 0.00 4.63
1796 2069 6.987403 ATGTTCTTATCTTCTACTCCCTCC 57.013 41.667 0.00 0.00 0.00 4.30
1797 2070 9.921637 CATTATGTTCTTATCTTCTACTCCCTC 57.078 37.037 0.00 0.00 0.00 4.30
1798 2071 8.875168 CCATTATGTTCTTATCTTCTACTCCCT 58.125 37.037 0.00 0.00 0.00 4.20
1799 2072 7.604545 GCCATTATGTTCTTATCTTCTACTCCC 59.395 40.741 0.00 0.00 0.00 4.30
1800 2073 8.150945 TGCCATTATGTTCTTATCTTCTACTCC 58.849 37.037 0.00 0.00 0.00 3.85
1801 2074 9.202273 CTGCCATTATGTTCTTATCTTCTACTC 57.798 37.037 0.00 0.00 0.00 2.59
1802 2075 8.928448 TCTGCCATTATGTTCTTATCTTCTACT 58.072 33.333 0.00 0.00 0.00 2.57
1803 2076 8.983724 GTCTGCCATTATGTTCTTATCTTCTAC 58.016 37.037 0.00 0.00 0.00 2.59
1804 2077 7.867909 CGTCTGCCATTATGTTCTTATCTTCTA 59.132 37.037 0.00 0.00 0.00 2.10
1814 2087 3.006940 TGAACCGTCTGCCATTATGTTC 58.993 45.455 0.00 0.00 33.15 3.18
1815 2088 2.747446 GTGAACCGTCTGCCATTATGTT 59.253 45.455 0.00 0.00 0.00 2.71
1817 2090 1.670811 GGTGAACCGTCTGCCATTATG 59.329 52.381 0.00 0.00 0.00 1.90
1818 2091 2.038387 GGTGAACCGTCTGCCATTAT 57.962 50.000 0.00 0.00 0.00 1.28
1819 2092 3.543884 GGTGAACCGTCTGCCATTA 57.456 52.632 0.00 0.00 0.00 1.90
1820 2093 4.397348 GGTGAACCGTCTGCCATT 57.603 55.556 0.00 0.00 0.00 3.16
1937 2694 1.031571 TGCTTCATCGGCATTGGTCC 61.032 55.000 0.00 0.00 34.56 4.46
1942 2699 2.219458 CTCATCTGCTTCATCGGCATT 58.781 47.619 0.00 0.00 39.07 3.56
1959 2716 2.158827 TCAAACACACCAGCTAAGCTCA 60.159 45.455 0.00 0.00 36.40 4.26
2015 2772 9.911138 TCTAATTAACACAACGATTACACAGTA 57.089 29.630 0.00 0.00 0.00 2.74
2016 2773 8.821147 TCTAATTAACACAACGATTACACAGT 57.179 30.769 0.00 0.00 0.00 3.55
2082 2845 0.729116 CACATACTTTCGCAGCCCAG 59.271 55.000 0.00 0.00 0.00 4.45
2152 2931 1.760086 CACACCAAAAGGTGCCCCA 60.760 57.895 14.19 0.00 42.99 4.96
2236 3026 9.171877 TCAATTACAGTACATGCACAATGATAA 57.828 29.630 0.00 0.00 38.72 1.75
2246 3036 6.538742 ACATGGTACTCAATTACAGTACATGC 59.461 38.462 20.60 9.94 45.58 4.06
2365 3388 2.172851 TTTTCGCAGTCACCCGTTAT 57.827 45.000 0.00 0.00 0.00 1.89
2367 3390 2.172851 TATTTTCGCAGTCACCCGTT 57.827 45.000 0.00 0.00 0.00 4.44
2369 3392 2.073816 ACTTATTTTCGCAGTCACCCG 58.926 47.619 0.00 0.00 0.00 5.28
2551 3578 5.106197 TGGTGATGAATCTTGAAAATGTCCG 60.106 40.000 0.00 0.00 0.00 4.79
2687 3715 6.998476 AAAAACTCTTTTCGGCGGTGAACG 62.998 45.833 7.21 0.00 36.42 3.95
2697 3725 5.507077 TCGGATTGACAAAAACTCTTTTCG 58.493 37.500 0.00 0.00 32.24 3.46
2705 3733 2.621526 ACCACCTCGGATTGACAAAAAC 59.378 45.455 0.00 0.00 38.63 2.43
2718 3746 5.465724 GGCATTAGAATTTAGTACCACCTCG 59.534 44.000 0.00 0.00 0.00 4.63
2760 3788 0.445043 GTGGCCCACGTACGAAAATC 59.555 55.000 24.41 8.82 0.00 2.17
2820 3850 5.796935 CAGTGCGGAAAATAGAGTTTTCATG 59.203 40.000 13.34 7.58 39.48 3.07
2822 3852 4.215399 CCAGTGCGGAAAATAGAGTTTTCA 59.785 41.667 13.34 0.00 39.48 2.69
2828 3866 1.017387 GCCCAGTGCGGAAAATAGAG 58.983 55.000 2.14 0.00 36.56 2.43
2844 3882 4.859798 CGAAATTCTGACTATCTATCGCCC 59.140 45.833 0.00 0.00 0.00 6.13
2852 3890 6.610741 ATCCTTTGCGAAATTCTGACTATC 57.389 37.500 0.00 0.00 0.00 2.08
2858 3896 5.309323 TGGTTATCCTTTGCGAAATTCTG 57.691 39.130 0.00 0.00 34.23 3.02
2862 3900 7.209475 CCATTATTGGTTATCCTTTGCGAAAT 58.791 34.615 0.00 0.00 38.30 2.17
2863 3901 6.406400 CCCATTATTGGTTATCCTTTGCGAAA 60.406 38.462 3.08 0.00 41.91 3.46
2867 3905 4.344968 AGCCCATTATTGGTTATCCTTTGC 59.655 41.667 3.08 0.00 41.91 3.68
2870 3908 4.344968 GCAAGCCCATTATTGGTTATCCTT 59.655 41.667 3.08 0.00 41.91 3.36


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

AutoCloner maintained by Alex Coulton.