Multiple sequence alignment - TraesCS3D01G215300

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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 TraesCS3D01G215300 chr3D 100.000 4647 0 0 1 4647 291232704 291228058 0.000000e+00 8582.0
1 TraesCS3D01G215300 chr3D 94.167 240 13 1 4252 4490 598874105 598873866 9.500000e-97 364.0
2 TraesCS3D01G215300 chr3D 97.917 48 1 0 1956 2003 247881573 247881620 2.980000e-12 84.2
3 TraesCS3D01G215300 chr3D 97.619 42 0 1 4215 4256 265075505 265075465 2.320000e-08 71.3
4 TraesCS3D01G215300 chr3D 97.561 41 0 1 4216 4256 598874203 598874164 8.340000e-08 69.4
5 TraesCS3D01G215300 chr3A 93.918 2121 103 16 2092 4194 384199873 384197761 0.000000e+00 3179.0
6 TraesCS3D01G215300 chr3A 93.172 1157 44 13 811 1957 384201125 384199994 0.000000e+00 1666.0
7 TraesCS3D01G215300 chr3A 91.463 82 4 1 2013 2091 384199994 384199913 4.920000e-20 110.0
8 TraesCS3D01G215300 chr3A 97.917 48 1 0 1956 2003 256236276 256236323 2.980000e-12 84.2
9 TraesCS3D01G215300 chr3B 95.383 1971 77 7 1 1957 384334431 384332461 0.000000e+00 3123.0
10 TraesCS3D01G215300 chr3B 92.090 2048 129 17 2092 4117 384332340 384330304 0.000000e+00 2854.0
11 TraesCS3D01G215300 chr3B 95.477 398 16 2 4252 4647 384315256 384314859 6.560000e-178 634.0
12 TraesCS3D01G215300 chr3B 96.591 88 3 0 4108 4195 384317077 384316990 3.750000e-31 147.0
13 TraesCS3D01G215300 chr3B 90.244 82 5 1 2013 2091 384332461 384332380 2.290000e-18 104.0
14 TraesCS3D01G215300 chr4A 95.000 240 11 1 4252 4490 73815453 73815692 4.390000e-100 375.0
15 TraesCS3D01G215300 chr4A 81.000 100 14 4 507 604 620879329 620879233 1.790000e-09 75.0
16 TraesCS3D01G215300 chr2A 95.000 240 11 1 4252 4490 335835351 335835590 4.390000e-100 375.0
17 TraesCS3D01G215300 chr2A 97.959 49 1 0 1955 2003 775526419 775526467 8.280000e-13 86.1
18 TraesCS3D01G215300 chr7D 94.583 240 12 1 4252 4490 231599769 231599530 2.040000e-98 370.0
19 TraesCS3D01G215300 chr7D 98.101 158 3 0 4490 4647 578990518 578990361 4.580000e-70 276.0
20 TraesCS3D01G215300 chr5B 94.583 240 12 1 4252 4490 609898408 609898647 2.040000e-98 370.0
21 TraesCS3D01G215300 chr5B 97.561 41 0 1 4216 4256 609898310 609898349 8.340000e-08 69.4
22 TraesCS3D01G215300 chr1D 94.583 240 12 1 4252 4490 254401407 254401168 2.040000e-98 370.0
23 TraesCS3D01G215300 chr1D 97.561 41 0 1 4216 4256 99346731 99346692 8.340000e-08 69.4
24 TraesCS3D01G215300 chr1D 97.561 41 0 1 4216 4256 254401505 254401466 8.340000e-08 69.4
25 TraesCS3D01G215300 chr1D 97.561 41 0 1 4216 4256 487312748 487312787 8.340000e-08 69.4
26 TraesCS3D01G215300 chr5D 94.167 240 13 1 4252 4490 503282593 503282354 9.500000e-97 364.0
27 TraesCS3D01G215300 chr5D 93.750 240 14 1 4252 4490 483808293 483808532 4.420000e-95 359.0
28 TraesCS3D01G215300 chr5D 97.561 41 0 1 4216 4256 483808195 483808234 8.340000e-08 69.4
29 TraesCS3D01G215300 chr5D 97.561 41 0 1 4216 4256 503282691 503282652 8.340000e-08 69.4
30 TraesCS3D01G215300 chr5D 89.362 47 3 1 555 601 345038717 345038673 1.810000e-04 58.4
31 TraesCS3D01G215300 chr7B 98.101 158 3 0 4490 4647 742937234 742937077 4.580000e-70 276.0
32 TraesCS3D01G215300 chr7A 98.101 158 3 0 4490 4647 60096446 60096603 4.580000e-70 276.0
33 TraesCS3D01G215300 chr7A 87.234 47 6 0 555 601 547642737 547642691 2.000000e-03 54.7
34 TraesCS3D01G215300 chr6B 98.101 158 3 0 4490 4647 128890231 128890388 4.580000e-70 276.0
35 TraesCS3D01G215300 chr6B 97.917 48 1 0 1956 2003 278674613 278674660 2.980000e-12 84.2
36 TraesCS3D01G215300 chr2D 98.101 158 3 0 4490 4647 39704259 39704416 4.580000e-70 276.0
37 TraesCS3D01G215300 chr2D 96.154 52 2 0 1955 2006 649145946 649145895 8.280000e-13 86.1
38 TraesCS3D01G215300 chr1B 98.101 158 3 0 4490 4647 49817598 49817441 4.580000e-70 276.0
39 TraesCS3D01G215300 chr1B 98.101 158 3 0 4490 4647 583550061 583549904 4.580000e-70 276.0
40 TraesCS3D01G215300 chr1B 98.101 158 3 0 4490 4647 638739452 638739609 4.580000e-70 276.0
41 TraesCS3D01G215300 chr1B 79.798 396 58 15 3533 3919 26125041 26125423 7.660000e-68 268.0
42 TraesCS3D01G215300 chr2B 96.154 52 2 0 1955 2006 785136313 785136262 8.280000e-13 86.1
43 TraesCS3D01G215300 chr2B 93.478 46 3 0 555 600 417254209 417254164 8.340000e-08 69.4
44 TraesCS3D01G215300 chr6D 97.917 48 1 0 1956 2003 155601961 155602008 2.980000e-12 84.2
45 TraesCS3D01G215300 chr6D 97.561 41 0 1 4216 4256 45516176 45516215 8.340000e-08 69.4
46 TraesCS3D01G215300 chr6A 97.917 48 1 0 1956 2003 209391341 209391388 2.980000e-12 84.2
47 TraesCS3D01G215300 chr6A 97.917 48 1 0 1956 2003 480647889 480647936 2.980000e-12 84.2
48 TraesCS3D01G215300 chr1A 87.037 54 6 1 553 606 546238527 546238579 5.020000e-05 60.2


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 TraesCS3D01G215300 chr3D 291228058 291232704 4646 True 8582.000000 8582 100.000000 1 4647 1 chr3D.!!$R2 4646
1 TraesCS3D01G215300 chr3A 384197761 384201125 3364 True 1651.666667 3179 92.851000 811 4194 3 chr3A.!!$R1 3383
2 TraesCS3D01G215300 chr3B 384330304 384334431 4127 True 2027.000000 3123 92.572333 1 4117 3 chr3B.!!$R2 4116
3 TraesCS3D01G215300 chr3B 384314859 384317077 2218 True 390.500000 634 96.034000 4108 4647 2 chr3B.!!$R1 539

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
634 636 0.034756 GGCCGCCAAAGTCCATTTTT 59.965 50.0 3.91 0.0 0.00 1.94 F
2295 2359 0.543277 AGCGCATCCATTTCCTCTCA 59.457 50.0 11.47 0.0 0.00 3.27 F
2567 2635 0.401738 CAGGGAGCTGGTTCCTTGAA 59.598 55.0 3.32 0.0 44.68 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2340 2404 0.244721 GCACATTCCAGCCCTGTTTC 59.755 55.000 0.00 0.0 0.00 2.78 R
3264 3339 1.404391 GCAATGCTCATTCACCAGAGG 59.596 52.381 0.00 0.0 32.54 3.69 R
3952 4041 2.288948 TGCAAATTCCATGTGCTTGACC 60.289 45.455 6.77 0.0 39.09 4.02 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
23 24 1.299976 CTAGCCCGCCCAAAGAACT 59.700 57.895 0.00 0.00 0.00 3.01
92 93 9.717942 GAATTGTGTCTTCTTCCTATATGCTAT 57.282 33.333 0.00 0.00 0.00 2.97
113 114 6.529125 GCTATTGATGTGTTCACAATTGAAGG 59.471 38.462 13.59 1.26 42.60 3.46
119 120 4.044426 GTGTTCACAATTGAAGGTCTTGC 58.956 43.478 13.59 0.00 42.60 4.01
195 196 4.143009 GCCGAATCTGTTTCTCAAGAAGTC 60.143 45.833 0.00 0.00 35.21 3.01
196 197 4.090642 CCGAATCTGTTTCTCAAGAAGTCG 59.909 45.833 0.00 0.00 35.21 4.18
245 247 2.241176 GTGGGACCCATTGAGGACAATA 59.759 50.000 18.51 0.00 43.76 1.90
262 264 8.370493 AGGACAATATATGTTGATTGTTCTCG 57.630 34.615 17.96 0.00 45.00 4.04
270 272 5.681337 TGTTGATTGTTCTCGTATTGCAA 57.319 34.783 0.00 0.00 0.00 4.08
282 284 2.923020 CGTATTGCAAAAGGAATGCCAC 59.077 45.455 1.71 0.00 43.16 5.01
285 287 4.888326 ATTGCAAAAGGAATGCCACTTA 57.112 36.364 1.71 0.00 43.16 2.24
286 288 3.658757 TGCAAAAGGAATGCCACTTAC 57.341 42.857 0.00 0.00 43.16 2.34
289 291 3.564511 CAAAAGGAATGCCACTTACGTG 58.435 45.455 0.00 0.00 40.89 4.49
299 301 1.429463 CACTTACGTGGTTCCTGAGC 58.571 55.000 0.00 0.00 37.50 4.26
307 309 2.480416 CGTGGTTCCTGAGCTAGCTAAG 60.480 54.545 21.01 21.01 0.00 2.18
319 321 7.650104 CCTGAGCTAGCTAAGTTTAGTTATCAC 59.350 40.741 24.91 5.31 33.32 3.06
357 359 7.181125 CCCTCCTAGTGCTATATTTAGACCATT 59.819 40.741 0.00 0.00 0.00 3.16
417 419 2.917713 TGCCACAATGGTAATCCCTT 57.082 45.000 0.00 0.00 40.46 3.95
489 491 2.161855 CCTCCTCATCTCATCTCCTCG 58.838 57.143 0.00 0.00 0.00 4.63
490 492 2.161855 CTCCTCATCTCATCTCCTCGG 58.838 57.143 0.00 0.00 0.00 4.63
494 496 3.492309 CCTCATCTCATCTCCTCGGTTTG 60.492 52.174 0.00 0.00 0.00 2.93
506 508 2.825532 CCTCGGTTTGGGTTTCATTGAT 59.174 45.455 0.00 0.00 0.00 2.57
513 515 5.700832 GGTTTGGGTTTCATTGATTTTCCTC 59.299 40.000 0.00 0.00 0.00 3.71
621 623 8.442384 CAATAAATATTGATTTAATTGGCCGCC 58.558 33.333 1.04 1.04 44.40 6.13
634 636 0.034756 GGCCGCCAAAGTCCATTTTT 59.965 50.000 3.91 0.00 0.00 1.94
640 642 5.043248 CCGCCAAAGTCCATTTTTGATATC 58.957 41.667 0.00 0.00 37.65 1.63
702 704 9.765795 GTGAATGAGTATAAAGTACTTATGCCT 57.234 33.333 8.92 3.15 34.15 4.75
711 713 2.027561 AGTACTTATGCCTCCGTTGCAA 60.028 45.455 0.00 0.00 42.92 4.08
825 830 1.027357 GCATGCCTTCCTACCATGTG 58.973 55.000 6.36 0.00 38.79 3.21
1272 1281 1.078214 CGAGCAGGAGAATGGCCAA 60.078 57.895 10.96 0.00 0.00 4.52
1527 1536 0.733150 GGTATTTGTCTCGGGCTTGC 59.267 55.000 0.00 0.00 0.00 4.01
1547 1556 6.477688 GCTTGCTAATGTGCATGATAAACATT 59.522 34.615 15.92 15.92 44.49 2.71
1548 1557 7.516155 GCTTGCTAATGTGCATGATAAACATTG 60.516 37.037 18.78 12.90 42.79 2.82
1615 1624 5.241506 TCTGTTTTAGGTGGCAATTTGAGAG 59.758 40.000 0.00 0.00 0.00 3.20
1627 1636 5.269313 GCAATTTGAGAGCTGTATTGTAGC 58.731 41.667 0.00 0.00 41.43 3.58
1653 1662 7.925483 CAGAAAACCATTGAGGAACAAATAACA 59.075 33.333 0.00 0.00 42.03 2.41
1665 1674 9.941664 GAGGAACAAATAACATGATTAGTGATG 57.058 33.333 0.00 0.00 0.00 3.07
1744 1753 6.682746 AGTTGATCTGTAAGTGTACTCTGTG 58.317 40.000 0.00 0.00 33.76 3.66
1747 1756 3.143728 TCTGTAAGTGTACTCTGTGCGA 58.856 45.455 0.00 0.00 33.76 5.10
1805 1814 4.181309 TGGTGTTTCTTGGTTTGTGTTC 57.819 40.909 0.00 0.00 0.00 3.18
1843 1858 8.723942 ATGTTCTTAGTAGCAAGTAGGATTTG 57.276 34.615 0.00 0.00 0.00 2.32
1845 1860 7.817962 TGTTCTTAGTAGCAAGTAGGATTTGAC 59.182 37.037 0.00 0.00 0.00 3.18
1846 1861 6.875076 TCTTAGTAGCAAGTAGGATTTGACC 58.125 40.000 0.00 0.00 0.00 4.02
1847 1862 6.668283 TCTTAGTAGCAAGTAGGATTTGACCT 59.332 38.462 0.00 0.00 43.32 3.85
1848 1863 7.837689 TCTTAGTAGCAAGTAGGATTTGACCTA 59.162 37.037 0.00 0.00 41.00 3.08
1849 1864 6.472686 AGTAGCAAGTAGGATTTGACCTAG 57.527 41.667 0.00 0.00 42.29 3.02
1850 1865 5.958987 AGTAGCAAGTAGGATTTGACCTAGT 59.041 40.000 0.00 0.00 44.99 2.57
1851 1866 5.346181 AGCAAGTAGGATTTGACCTAGTC 57.654 43.478 0.00 0.00 43.06 2.59
1868 1886 7.824289 TGACCTAGTCTGAAATACTGGAAAATG 59.176 37.037 0.00 0.00 33.15 2.32
1886 1904 6.418057 AAAATGATGGACTTGCAGGTTTAA 57.582 33.333 1.80 0.00 0.00 1.52
1890 1908 3.658757 TGGACTTGCAGGTTTAATTGC 57.341 42.857 1.80 1.42 40.67 3.56
1893 1911 4.217550 TGGACTTGCAGGTTTAATTGCTAC 59.782 41.667 1.80 0.00 40.87 3.58
1899 1917 4.755629 TGCAGGTTTAATTGCTACGTTGTA 59.244 37.500 0.00 0.00 40.87 2.41
1960 1978 7.998753 GTGTGTTACACTTAGGATATACACC 57.001 40.000 16.79 0.00 45.27 4.16
1961 1979 6.982724 GTGTGTTACACTTAGGATATACACCC 59.017 42.308 16.79 0.00 45.27 4.61
1962 1980 6.899075 TGTGTTACACTTAGGATATACACCCT 59.101 38.462 16.79 0.00 35.10 4.34
1963 1981 7.069085 TGTGTTACACTTAGGATATACACCCTC 59.931 40.741 16.79 0.00 35.10 4.30
1964 1982 7.287235 GTGTTACACTTAGGATATACACCCTCT 59.713 40.741 8.41 0.00 34.11 3.69
1965 1983 7.287005 TGTTACACTTAGGATATACACCCTCTG 59.713 40.741 0.00 0.00 34.11 3.35
1966 1984 5.778542 ACACTTAGGATATACACCCTCTGT 58.221 41.667 0.00 0.00 36.82 3.41
1967 1985 6.203072 ACACTTAGGATATACACCCTCTGTT 58.797 40.000 0.00 0.00 33.91 3.16
1968 1986 6.324254 ACACTTAGGATATACACCCTCTGTTC 59.676 42.308 0.00 0.00 33.91 3.18
1969 1987 6.323996 CACTTAGGATATACACCCTCTGTTCA 59.676 42.308 0.00 0.00 33.91 3.18
1970 1988 7.015682 CACTTAGGATATACACCCTCTGTTCAT 59.984 40.741 0.00 0.00 33.91 2.57
1971 1989 8.232412 ACTTAGGATATACACCCTCTGTTCATA 58.768 37.037 0.00 0.00 33.91 2.15
1972 1990 9.090103 CTTAGGATATACACCCTCTGTTCATAA 57.910 37.037 0.00 0.00 33.91 1.90
1973 1991 7.931015 AGGATATACACCCTCTGTTCATAAA 57.069 36.000 0.00 0.00 33.91 1.40
1974 1992 8.511748 AGGATATACACCCTCTGTTCATAAAT 57.488 34.615 0.00 0.00 33.91 1.40
1975 1993 9.615660 AGGATATACACCCTCTGTTCATAAATA 57.384 33.333 0.00 0.00 33.91 1.40
1982 2000 7.926555 ACACCCTCTGTTCATAAATATAAGACG 59.073 37.037 0.00 0.00 0.00 4.18
1983 2001 7.926555 CACCCTCTGTTCATAAATATAAGACGT 59.073 37.037 0.00 0.00 0.00 4.34
1984 2002 8.483758 ACCCTCTGTTCATAAATATAAGACGTT 58.516 33.333 0.00 0.00 0.00 3.99
1985 2003 9.326413 CCCTCTGTTCATAAATATAAGACGTTT 57.674 33.333 0.00 0.00 0.00 3.60
1989 2007 9.221775 CTGTTCATAAATATAAGACGTTTTGGC 57.778 33.333 0.83 0.00 0.00 4.52
1990 2008 8.731605 TGTTCATAAATATAAGACGTTTTGGCA 58.268 29.630 0.83 0.00 0.00 4.92
1991 2009 9.221775 GTTCATAAATATAAGACGTTTTGGCAG 57.778 33.333 0.83 0.00 0.00 4.85
1992 2010 8.500753 TCATAAATATAAGACGTTTTGGCAGT 57.499 30.769 0.83 0.00 0.00 4.40
1993 2011 8.952278 TCATAAATATAAGACGTTTTGGCAGTT 58.048 29.630 0.83 0.00 0.00 3.16
1994 2012 9.221775 CATAAATATAAGACGTTTTGGCAGTTC 57.778 33.333 0.83 0.00 0.00 3.01
1995 2013 6.811253 AATATAAGACGTTTTGGCAGTTCA 57.189 33.333 0.83 0.00 0.00 3.18
1996 2014 6.811253 ATATAAGACGTTTTGGCAGTTCAA 57.189 33.333 0.83 0.00 0.00 2.69
1997 2015 5.705609 ATAAGACGTTTTGGCAGTTCAAT 57.294 34.783 0.83 0.00 0.00 2.57
1998 2016 4.385358 AAGACGTTTTGGCAGTTCAATT 57.615 36.364 0.00 0.00 0.00 2.32
1999 2017 4.385358 AGACGTTTTGGCAGTTCAATTT 57.615 36.364 0.00 0.00 0.00 1.82
2000 2018 5.508200 AGACGTTTTGGCAGTTCAATTTA 57.492 34.783 0.00 0.00 0.00 1.40
2001 2019 5.897050 AGACGTTTTGGCAGTTCAATTTAA 58.103 33.333 0.00 0.00 0.00 1.52
2002 2020 6.334202 AGACGTTTTGGCAGTTCAATTTAAA 58.666 32.000 0.00 0.00 0.00 1.52
2003 2021 6.814146 AGACGTTTTGGCAGTTCAATTTAAAA 59.186 30.769 0.00 0.00 0.00 1.52
2004 2022 7.494298 AGACGTTTTGGCAGTTCAATTTAAAAT 59.506 29.630 0.00 0.00 0.00 1.82
2005 2023 7.405769 ACGTTTTGGCAGTTCAATTTAAAATG 58.594 30.769 0.00 0.00 0.00 2.32
2006 2024 7.065204 ACGTTTTGGCAGTTCAATTTAAAATGT 59.935 29.630 3.27 0.00 33.46 2.71
2007 2025 7.582319 CGTTTTGGCAGTTCAATTTAAAATGTC 59.418 33.333 3.27 0.00 0.00 3.06
2008 2026 8.611757 GTTTTGGCAGTTCAATTTAAAATGTCT 58.388 29.630 3.27 1.65 28.48 3.41
2009 2027 8.729805 TTTGGCAGTTCAATTTAAAATGTCTT 57.270 26.923 3.27 0.00 28.48 3.01
2010 2028 9.823647 TTTGGCAGTTCAATTTAAAATGTCTTA 57.176 25.926 3.27 0.00 28.48 2.10
2011 2029 8.810652 TGGCAGTTCAATTTAAAATGTCTTAC 57.189 30.769 3.27 0.00 28.48 2.34
2012 2030 8.417106 TGGCAGTTCAATTTAAAATGTCTTACA 58.583 29.630 3.27 3.27 28.48 2.41
2054 2072 0.886490 GGTGAACTCAGGTGTGGCAG 60.886 60.000 0.00 0.00 0.00 4.85
2086 2107 1.401552 TGCGTGCCTTCATTATCTTGC 59.598 47.619 0.00 0.00 0.00 4.01
2153 2213 1.763968 TATATGCGGAGGAGGATCGG 58.236 55.000 0.00 0.00 34.37 4.18
2155 2215 0.894184 TATGCGGAGGAGGATCGGTC 60.894 60.000 0.00 0.00 34.37 4.79
2189 2249 4.312443 AGCAAATGCAGTTCATCCTTTTG 58.688 39.130 8.28 0.00 45.16 2.44
2199 2259 4.889409 AGTTCATCCTTTTGTTGCTCTTGA 59.111 37.500 0.00 0.00 0.00 3.02
2206 2266 4.276678 CCTTTTGTTGCTCTTGAGTGATCA 59.723 41.667 0.00 0.00 0.00 2.92
2214 2274 4.814771 TGCTCTTGAGTGATCATTAGCATG 59.185 41.667 8.78 0.00 34.78 4.06
2235 2295 7.941238 AGCATGCATCTTATTTGGTTATCTACT 59.059 33.333 21.98 0.00 0.00 2.57
2278 2342 3.545703 AGATAAAGGGTGTGCACATAGC 58.454 45.455 24.69 13.50 45.96 2.97
2291 2355 2.224606 CACATAGCGCATCCATTTCCT 58.775 47.619 11.47 0.00 0.00 3.36
2294 2358 2.533266 TAGCGCATCCATTTCCTCTC 57.467 50.000 11.47 0.00 0.00 3.20
2295 2359 0.543277 AGCGCATCCATTTCCTCTCA 59.457 50.000 11.47 0.00 0.00 3.27
2300 2364 2.611292 GCATCCATTTCCTCTCAGTTCG 59.389 50.000 0.00 0.00 0.00 3.95
2314 2378 4.929808 TCTCAGTTCGTAAGGAAATTGAGC 59.070 41.667 13.44 0.00 42.56 4.26
2328 2392 5.860716 GGAAATTGAGCTGTTTCTTGCTAAG 59.139 40.000 12.76 0.00 39.91 2.18
2329 2393 3.904136 TTGAGCTGTTTCTTGCTAAGC 57.096 42.857 0.00 0.00 39.91 3.09
2336 2400 1.129437 GTTTCTTGCTAAGCTCCTGCG 59.871 52.381 0.00 0.00 45.42 5.18
2340 2404 1.014044 TTGCTAAGCTCCTGCGTTCG 61.014 55.000 0.00 0.00 45.42 3.95
2376 2440 6.318648 GGAATGTGCTCATTACCTTTCATACA 59.681 38.462 13.66 0.00 43.33 2.29
2440 2504 7.394016 TGTACAATGTGGATCAGACATAAACT 58.606 34.615 9.38 0.00 32.74 2.66
2474 2539 4.018050 AGGTAGGAGAATCAAATGGCTTGT 60.018 41.667 0.00 0.00 36.25 3.16
2475 2540 4.096984 GGTAGGAGAATCAAATGGCTTGTG 59.903 45.833 0.00 0.00 36.25 3.33
2482 2547 3.042871 TCAAATGGCTTGTGGAAATGC 57.957 42.857 0.00 0.00 36.34 3.56
2483 2548 2.633967 TCAAATGGCTTGTGGAAATGCT 59.366 40.909 0.00 0.00 36.34 3.79
2484 2549 3.831333 TCAAATGGCTTGTGGAAATGCTA 59.169 39.130 0.00 0.00 36.34 3.49
2485 2550 3.874392 AATGGCTTGTGGAAATGCTAC 57.126 42.857 0.00 0.00 0.00 3.58
2493 2560 6.704050 GGCTTGTGGAAATGCTACTTTAAAAA 59.296 34.615 0.00 0.00 0.00 1.94
2550 2618 1.267806 CAAACACTGCCTGCTTACCAG 59.732 52.381 0.00 0.00 41.41 4.00
2567 2635 0.401738 CAGGGAGCTGGTTCCTTGAA 59.598 55.000 3.32 0.00 44.68 2.69
2580 2648 9.899226 GCTGGTTCCTTGAATAATGAATTATAC 57.101 33.333 0.00 0.00 32.91 1.47
2620 2688 1.201647 CACTGCAAGAAATCAGCCAGG 59.798 52.381 0.00 0.00 37.43 4.45
2645 2713 6.702329 CACCTCCATCTACCTTACAATATCC 58.298 44.000 0.00 0.00 0.00 2.59
2692 2760 8.887717 GGCTCTTTATAGGCATATGTTAGAATG 58.112 37.037 4.29 4.52 41.51 2.67
2698 2766 5.972107 AGGCATATGTTAGAATGATTGGC 57.028 39.130 4.29 0.00 0.00 4.52
2718 2786 3.366883 GGCGCAGTTATGGATTTGTGAAA 60.367 43.478 10.83 0.00 0.00 2.69
2719 2787 4.423732 GCGCAGTTATGGATTTGTGAAAT 58.576 39.130 0.30 0.00 0.00 2.17
2725 2793 8.196771 GCAGTTATGGATTTGTGAAATAATGGA 58.803 33.333 0.00 0.00 0.00 3.41
2738 2806 7.450014 TGTGAAATAATGGAAATGTGGTACTGT 59.550 33.333 0.00 0.00 0.00 3.55
2753 2821 1.242076 ACTGTGAATCTGTTGGCTGC 58.758 50.000 0.00 0.00 0.00 5.25
2939 3014 4.703575 AGCATGTATACCAATGATGCATCC 59.296 41.667 23.67 6.71 41.56 3.51
2942 3017 6.350696 GCATGTATACCAATGATGCATCCATT 60.351 38.462 23.67 18.40 39.39 3.16
2956 3031 7.497579 TGATGCATCCATTTTACGTAACACTAT 59.502 33.333 23.67 0.00 0.00 2.12
2957 3032 7.618502 TGCATCCATTTTACGTAACACTATT 57.381 32.000 7.70 0.00 0.00 1.73
2987 3062 6.959639 TGCTAAATTGAAAAGTTCTCCAGT 57.040 33.333 0.00 0.00 34.98 4.00
3032 3107 2.695147 GGCCCAAACCCTAGATCATTTG 59.305 50.000 0.00 0.00 32.89 2.32
3059 3134 3.587797 ATTTCTTCAGCATGCCAGTTG 57.412 42.857 15.66 6.16 34.76 3.16
3064 3139 1.527034 TCAGCATGCCAGTTGTCTTC 58.473 50.000 15.66 0.00 34.76 2.87
3255 3330 6.445357 TCAGTGTACGCTGAACTTGATATA 57.555 37.500 31.63 9.47 41.93 0.86
3264 3339 7.519002 ACGCTGAACTTGATATACTGAAAAAC 58.481 34.615 0.00 0.00 0.00 2.43
3514 3592 1.207329 GTGGACCTAAGCGAGTTGGAT 59.793 52.381 0.00 0.00 0.00 3.41
3952 4041 6.590292 AGGATTGTGTACGTGATTTTCTAGTG 59.410 38.462 0.00 0.00 0.00 2.74
4069 4160 6.681729 TCCTGGTAAAGTTCTAGTTCACAT 57.318 37.500 0.00 0.00 0.00 3.21
4103 4194 3.515502 AGTAGCCTGCACTCACAAATCTA 59.484 43.478 0.00 0.00 0.00 1.98
4336 6106 6.035843 TCTTTGATGTTCAGCAAAACAACTC 58.964 36.000 15.21 3.73 42.10 3.01
4337 6107 5.581126 TTGATGTTCAGCAAAACAACTCT 57.419 34.783 7.84 0.00 42.10 3.24
4338 6108 5.581126 TGATGTTCAGCAAAACAACTCTT 57.419 34.783 7.84 0.00 42.10 2.85
4405 6179 8.102676 TGGATATTATGTGTATCAATGACCTGG 58.897 37.037 0.00 0.00 31.61 4.45
4432 6206 9.542462 TCAACCCTCTTAATTAATCATTAGACG 57.458 33.333 0.00 0.00 0.00 4.18
4539 6314 9.840427 GCCATCATATTAGCAAATAAACGTATT 57.160 29.630 0.00 0.00 31.44 1.89
4616 6391 1.218316 CTAACGGCAGTGGGACTCC 59.782 63.158 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.282462 CAGTTCTTTGGGCGGGCT 60.282 61.111 0.26 0.00 0.00 5.19
23 24 2.289072 GCTATCTCTAAGAATGGCCGCA 60.289 50.000 0.00 0.00 0.00 5.69
51 52 7.745015 AGACACAATTCAATGCAATAAAATGC 58.255 30.769 0.00 0.00 46.58 3.56
64 65 8.049117 AGCATATAGGAAGAAGACACAATTCAA 58.951 33.333 0.00 0.00 0.00 2.69
65 66 7.568349 AGCATATAGGAAGAAGACACAATTCA 58.432 34.615 0.00 0.00 0.00 2.57
66 67 9.717942 ATAGCATATAGGAAGAAGACACAATTC 57.282 33.333 0.00 0.00 0.00 2.17
92 93 5.593909 AGACCTTCAATTGTGAACACATCAA 59.406 36.000 8.46 0.00 40.50 2.57
93 94 5.132502 AGACCTTCAATTGTGAACACATCA 58.867 37.500 8.46 0.00 41.52 3.07
133 134 5.885912 GTCCTAGAGAATTGGCCAATTGTTA 59.114 40.000 41.25 28.19 40.77 2.41
245 247 7.552458 TGCAATACGAGAACAATCAACATAT 57.448 32.000 0.00 0.00 0.00 1.78
262 264 4.192429 AGTGGCATTCCTTTTGCAATAC 57.808 40.909 0.00 0.00 41.95 1.89
285 287 0.900647 AGCTAGCTCAGGAACCACGT 60.901 55.000 12.68 0.00 0.00 4.49
286 288 1.103803 TAGCTAGCTCAGGAACCACG 58.896 55.000 23.26 0.00 0.00 4.94
289 291 3.897141 AACTTAGCTAGCTCAGGAACC 57.103 47.619 25.76 0.00 0.00 3.62
295 297 8.063200 TGTGATAACTAAACTTAGCTAGCTCA 57.937 34.615 23.26 9.92 34.09 4.26
319 321 5.104735 AGCACTAGGAGGGTCTCTTTTATTG 60.105 44.000 0.00 0.00 0.00 1.90
489 491 5.620206 AGGAAAATCAATGAAACCCAAACC 58.380 37.500 0.00 0.00 0.00 3.27
490 492 5.700832 GGAGGAAAATCAATGAAACCCAAAC 59.299 40.000 0.00 0.00 0.00 2.93
494 496 4.322725 GGTGGAGGAAAATCAATGAAACCC 60.323 45.833 0.00 0.00 0.00 4.11
680 682 7.232941 ACGGAGGCATAAGTACTTTATACTCAT 59.767 37.037 14.49 6.79 37.03 2.90
702 704 1.528129 TGCATGTGTATTGCAACGGA 58.472 45.000 0.00 0.00 46.48 4.69
825 830 1.144936 CCTGAATGGAGAGCCCGTC 59.855 63.158 0.00 0.00 38.35 4.79
1272 1281 2.264794 CGCTTGTTACCGCCCTCT 59.735 61.111 0.00 0.00 0.00 3.69
1281 1290 1.154093 CGAGACGAGGCGCTTGTTA 60.154 57.895 7.64 0.00 0.00 2.41
1527 1536 8.914328 TGTTCAATGTTTATCATGCACATTAG 57.086 30.769 10.28 7.15 38.75 1.73
1547 1556 5.192927 CAACCCCAGCTATCTAAATGTTCA 58.807 41.667 0.00 0.00 0.00 3.18
1548 1557 4.580580 CCAACCCCAGCTATCTAAATGTTC 59.419 45.833 0.00 0.00 0.00 3.18
1615 1624 5.567138 ATGGTTTTCTGCTACAATACAGC 57.433 39.130 0.00 0.00 39.56 4.40
1627 1636 7.925483 TGTTATTTGTTCCTCAATGGTTTTCTG 59.075 33.333 0.00 0.00 35.84 3.02
1653 1662 6.040166 GGCACCTTCAAATCATCACTAATCAT 59.960 38.462 0.00 0.00 0.00 2.45
1665 1674 5.138125 TCAATCAAAGGCACCTTCAAATC 57.862 39.130 1.61 0.00 34.84 2.17
1744 1753 1.672145 GGTAGGAAACACTGTCCTCGC 60.672 57.143 0.00 0.00 42.02 5.03
1805 1814 9.065871 GCTACTAAGAACATTAGCAAAACAATG 57.934 33.333 0.00 0.00 37.49 2.82
1843 1858 8.041323 TCATTTTCCAGTATTTCAGACTAGGTC 58.959 37.037 0.00 0.00 0.00 3.85
1845 1860 8.834465 CATCATTTTCCAGTATTTCAGACTAGG 58.166 37.037 0.00 0.00 0.00 3.02
1846 1861 8.834465 CCATCATTTTCCAGTATTTCAGACTAG 58.166 37.037 0.00 0.00 0.00 2.57
1847 1862 8.548025 TCCATCATTTTCCAGTATTTCAGACTA 58.452 33.333 0.00 0.00 0.00 2.59
1848 1863 7.337942 GTCCATCATTTTCCAGTATTTCAGACT 59.662 37.037 0.00 0.00 0.00 3.24
1849 1864 7.337942 AGTCCATCATTTTCCAGTATTTCAGAC 59.662 37.037 0.00 0.00 0.00 3.51
1850 1865 7.405292 AGTCCATCATTTTCCAGTATTTCAGA 58.595 34.615 0.00 0.00 0.00 3.27
1851 1866 7.636150 AGTCCATCATTTTCCAGTATTTCAG 57.364 36.000 0.00 0.00 0.00 3.02
1868 1886 4.082026 AGCAATTAAACCTGCAAGTCCATC 60.082 41.667 9.42 0.00 41.17 3.51
1886 1904 9.204570 GTCCATTAGAATATACAACGTAGCAAT 57.795 33.333 0.00 0.00 0.00 3.56
1893 1911 8.750298 AGGGATAGTCCATTAGAATATACAACG 58.250 37.037 0.00 0.00 38.00 4.10
1899 1917 8.980832 ACTGAAGGGATAGTCCATTAGAATAT 57.019 34.615 0.00 0.00 41.11 1.28
1957 1975 7.926555 ACGTCTTATATTTATGAACAGAGGGTG 59.073 37.037 0.00 0.00 0.00 4.61
1958 1976 8.019656 ACGTCTTATATTTATGAACAGAGGGT 57.980 34.615 0.00 0.00 0.00 4.34
1959 1977 8.888579 AACGTCTTATATTTATGAACAGAGGG 57.111 34.615 0.00 0.00 0.00 4.30
1963 1981 9.221775 GCCAAAACGTCTTATATTTATGAACAG 57.778 33.333 0.00 0.00 0.00 3.16
1964 1982 8.731605 TGCCAAAACGTCTTATATTTATGAACA 58.268 29.630 0.00 0.00 0.00 3.18
1965 1983 9.221775 CTGCCAAAACGTCTTATATTTATGAAC 57.778 33.333 0.00 0.00 0.00 3.18
1966 1984 8.952278 ACTGCCAAAACGTCTTATATTTATGAA 58.048 29.630 0.00 0.00 0.00 2.57
1967 1985 8.500753 ACTGCCAAAACGTCTTATATTTATGA 57.499 30.769 0.00 0.00 0.00 2.15
1968 1986 9.221775 GAACTGCCAAAACGTCTTATATTTATG 57.778 33.333 0.00 0.00 0.00 1.90
1969 1987 8.952278 TGAACTGCCAAAACGTCTTATATTTAT 58.048 29.630 0.00 0.00 0.00 1.40
1970 1988 8.325421 TGAACTGCCAAAACGTCTTATATTTA 57.675 30.769 0.00 0.00 0.00 1.40
1971 1989 7.209471 TGAACTGCCAAAACGTCTTATATTT 57.791 32.000 0.00 0.00 0.00 1.40
1972 1990 6.811253 TGAACTGCCAAAACGTCTTATATT 57.189 33.333 0.00 0.00 0.00 1.28
1973 1991 6.811253 TTGAACTGCCAAAACGTCTTATAT 57.189 33.333 0.00 0.00 0.00 0.86
1974 1992 6.811253 ATTGAACTGCCAAAACGTCTTATA 57.189 33.333 0.00 0.00 0.00 0.98
1975 1993 5.705609 ATTGAACTGCCAAAACGTCTTAT 57.294 34.783 0.00 0.00 0.00 1.73
1976 1994 5.508200 AATTGAACTGCCAAAACGTCTTA 57.492 34.783 0.00 0.00 0.00 2.10
1977 1995 4.385358 AATTGAACTGCCAAAACGTCTT 57.615 36.364 0.00 0.00 0.00 3.01
1978 1996 4.385358 AAATTGAACTGCCAAAACGTCT 57.615 36.364 0.00 0.00 0.00 4.18
1979 1997 6.576551 TTTAAATTGAACTGCCAAAACGTC 57.423 33.333 0.00 0.00 0.00 4.34
1980 1998 6.969828 TTTTAAATTGAACTGCCAAAACGT 57.030 29.167 0.00 0.00 0.00 3.99
1981 1999 7.405769 ACATTTTAAATTGAACTGCCAAAACG 58.594 30.769 15.19 0.00 0.00 3.60
1982 2000 8.611757 AGACATTTTAAATTGAACTGCCAAAAC 58.388 29.630 15.19 0.00 0.00 2.43
1983 2001 8.729805 AGACATTTTAAATTGAACTGCCAAAA 57.270 26.923 15.19 0.00 0.00 2.44
1984 2002 8.729805 AAGACATTTTAAATTGAACTGCCAAA 57.270 26.923 15.19 0.00 0.00 3.28
1985 2003 9.255304 GTAAGACATTTTAAATTGAACTGCCAA 57.745 29.630 15.19 0.00 0.00 4.52
1986 2004 8.417106 TGTAAGACATTTTAAATTGAACTGCCA 58.583 29.630 15.19 10.77 0.00 4.92
1987 2005 8.810652 TGTAAGACATTTTAAATTGAACTGCC 57.189 30.769 15.19 9.10 0.00 4.85
2003 2021 8.199449 CCCATTTGCTGATAAAATGTAAGACAT 58.801 33.333 7.79 0.00 41.42 3.06
2004 2022 7.546358 CCCATTTGCTGATAAAATGTAAGACA 58.454 34.615 7.79 0.00 41.42 3.41
2005 2023 6.476706 GCCCATTTGCTGATAAAATGTAAGAC 59.523 38.462 7.79 0.00 41.42 3.01
2006 2024 6.154192 TGCCCATTTGCTGATAAAATGTAAGA 59.846 34.615 7.79 0.00 41.42 2.10
2007 2025 6.256321 GTGCCCATTTGCTGATAAAATGTAAG 59.744 38.462 7.79 0.00 41.42 2.34
2008 2026 6.070881 AGTGCCCATTTGCTGATAAAATGTAA 60.071 34.615 7.79 0.00 41.42 2.41
2009 2027 5.421693 AGTGCCCATTTGCTGATAAAATGTA 59.578 36.000 7.79 0.00 41.42 2.29
2010 2028 4.223477 AGTGCCCATTTGCTGATAAAATGT 59.777 37.500 7.79 0.00 41.42 2.71
2011 2029 4.569162 CAGTGCCCATTTGCTGATAAAATG 59.431 41.667 2.60 2.60 42.24 2.32
2012 2030 4.383335 CCAGTGCCCATTTGCTGATAAAAT 60.383 41.667 0.00 0.00 0.00 1.82
2054 2072 1.208642 GGCACGCAACAGACTTTTGC 61.209 55.000 15.00 15.00 44.94 3.68
2069 2090 4.970662 TCTTGCAAGATAATGAAGGCAC 57.029 40.909 25.16 0.00 0.00 5.01
2070 2091 4.581824 GGATCTTGCAAGATAATGAAGGCA 59.418 41.667 35.74 9.98 45.39 4.75
2086 2107 3.672808 AGAGCTTGTCACTTGGATCTTG 58.327 45.455 0.00 0.00 0.00 3.02
2131 2191 3.017442 CGATCCTCCTCCGCATATAAGA 58.983 50.000 0.00 0.00 0.00 2.10
2137 2197 2.123251 ACCGATCCTCCTCCGCAT 60.123 61.111 0.00 0.00 0.00 4.73
2141 2201 1.123928 ATGTTGACCGATCCTCCTCC 58.876 55.000 0.00 0.00 0.00 4.30
2153 2213 2.222007 TTTGCTTGCACCATGTTGAC 57.778 45.000 0.00 0.00 0.00 3.18
2155 2215 1.195900 GCATTTGCTTGCACCATGTTG 59.804 47.619 12.69 0.00 42.31 3.33
2189 2249 4.633126 TGCTAATGATCACTCAAGAGCAAC 59.367 41.667 0.00 0.00 44.10 4.17
2199 2259 7.997773 AATAAGATGCATGCTAATGATCACT 57.002 32.000 20.33 6.97 35.67 3.41
2206 2266 9.305555 AGATAACCAAATAAGATGCATGCTAAT 57.694 29.630 20.33 4.48 0.00 1.73
2214 2274 9.331282 AGACAAGTAGATAACCAAATAAGATGC 57.669 33.333 0.00 0.00 0.00 3.91
2261 2321 1.586154 GCGCTATGTGCACACCCTTT 61.586 55.000 24.37 8.59 43.06 3.11
2278 2342 2.322355 ACTGAGAGGAAATGGATGCG 57.678 50.000 0.00 0.00 0.00 4.73
2291 2355 4.929808 GCTCAATTTCCTTACGAACTGAGA 59.070 41.667 11.97 0.00 40.28 3.27
2294 2358 4.452455 ACAGCTCAATTTCCTTACGAACTG 59.548 41.667 0.00 0.00 0.00 3.16
2295 2359 4.642429 ACAGCTCAATTTCCTTACGAACT 58.358 39.130 0.00 0.00 0.00 3.01
2300 2364 5.631096 GCAAGAAACAGCTCAATTTCCTTAC 59.369 40.000 9.85 0.00 35.77 2.34
2314 2378 2.161211 GCAGGAGCTTAGCAAGAAACAG 59.839 50.000 7.07 0.00 37.91 3.16
2328 2392 1.493311 CTGTTTCGAACGCAGGAGC 59.507 57.895 16.82 0.00 37.42 4.70
2336 2400 1.200020 CATTCCAGCCCTGTTTCGAAC 59.800 52.381 0.00 0.00 0.00 3.95
2340 2404 0.244721 GCACATTCCAGCCCTGTTTC 59.755 55.000 0.00 0.00 0.00 2.78
2347 2411 1.678101 GGTAATGAGCACATTCCAGCC 59.322 52.381 12.87 7.98 44.34 4.85
2376 2440 8.082242 GGTCAGCAAATTAATCAGTTTAGTGTT 58.918 33.333 0.00 0.00 0.00 3.32
2385 2449 6.204359 GCACATAGGTCAGCAAATTAATCAG 58.796 40.000 0.00 0.00 0.00 2.90
2394 2458 1.482182 AGATCGCACATAGGTCAGCAA 59.518 47.619 0.00 0.00 0.00 3.91
2474 2539 9.039870 CACAATGTTTTTAAAGTAGCATTTCCA 57.960 29.630 0.70 0.00 0.00 3.53
2475 2540 9.255304 TCACAATGTTTTTAAAGTAGCATTTCC 57.745 29.630 0.70 0.00 0.00 3.13
2507 2574 3.095332 TGCTGCTAACATCAGAGAGAGT 58.905 45.455 0.00 0.00 33.54 3.24
2509 2576 2.159128 GCTGCTGCTAACATCAGAGAGA 60.159 50.000 8.53 0.00 41.58 3.10
2510 2577 2.203401 GCTGCTGCTAACATCAGAGAG 58.797 52.381 8.53 0.00 41.58 3.20
2539 2606 1.222936 CAGCTCCCTGGTAAGCAGG 59.777 63.158 17.45 0.00 41.06 4.85
2550 2618 3.366052 TTATTCAAGGAACCAGCTCCC 57.634 47.619 0.00 0.00 35.95 4.30
2580 2648 5.352569 CAGTGAGCTAGAAAACCCAAGTATG 59.647 44.000 0.00 0.00 0.00 2.39
2620 2688 3.906720 TTGTAAGGTAGATGGAGGTGC 57.093 47.619 0.00 0.00 0.00 5.01
2645 2713 4.035208 GCCATATAGGGTCAGTTTTCAACG 59.965 45.833 5.15 0.00 38.09 4.10
2680 2748 5.065914 ACTGCGCCAATCATTCTAACATAT 58.934 37.500 4.18 0.00 0.00 1.78
2692 2760 3.181487 ACAAATCCATAACTGCGCCAATC 60.181 43.478 4.18 0.00 0.00 2.67
2694 2762 2.094803 CACAAATCCATAACTGCGCCAA 60.095 45.455 4.18 0.00 0.00 4.52
2698 2766 7.167968 CCATTATTTCACAAATCCATAACTGCG 59.832 37.037 0.00 0.00 32.38 5.18
2718 2786 8.055181 AGATTCACAGTACCACATTTCCATTAT 58.945 33.333 0.00 0.00 0.00 1.28
2719 2787 7.336679 CAGATTCACAGTACCACATTTCCATTA 59.663 37.037 0.00 0.00 0.00 1.90
2725 2793 5.241506 CCAACAGATTCACAGTACCACATTT 59.758 40.000 0.00 0.00 0.00 2.32
2738 2806 1.999648 AAAGGCAGCCAACAGATTCA 58.000 45.000 15.80 0.00 0.00 2.57
2812 2880 4.438336 GGTGCTCTCATGAATGTCACATTG 60.438 45.833 8.05 0.00 0.00 2.82
2942 3017 8.101654 AGCATTCCAAAATAGTGTTACGTAAA 57.898 30.769 10.11 0.00 0.00 2.01
2956 3031 9.612066 AGAACTTTTCAATTTAGCATTCCAAAA 57.388 25.926 0.00 0.00 0.00 2.44
2957 3032 9.260002 GAGAACTTTTCAATTTAGCATTCCAAA 57.740 29.630 0.00 0.00 0.00 3.28
3032 3107 3.681417 GGCATGCTGAAGAAATTGTTTCC 59.319 43.478 18.92 0.00 40.54 3.13
3048 3123 1.180029 ATGGAAGACAACTGGCATGC 58.820 50.000 9.90 9.90 0.00 4.06
3255 3330 4.792068 TCATTCACCAGAGGTTTTTCAGT 58.208 39.130 0.00 0.00 31.02 3.41
3264 3339 1.404391 GCAATGCTCATTCACCAGAGG 59.596 52.381 0.00 0.00 32.54 3.69
3765 3851 3.714798 TCCTCAGGTAAAACAGTGGTCTT 59.285 43.478 0.00 0.00 0.00 3.01
3890 3976 3.061322 CGGATTGTCAACAGGTAAACGA 58.939 45.455 0.00 0.00 0.00 3.85
3952 4041 2.288948 TGCAAATTCCATGTGCTTGACC 60.289 45.455 6.77 0.00 39.09 4.02
4018 4109 7.116075 AGCAATATTGGTGCAAATACTTGAT 57.884 32.000 18.95 0.00 44.74 2.57
4069 4160 2.646930 CAGGCTACTTGGATGCATCAA 58.353 47.619 27.25 15.01 0.00 2.57
4258 6028 5.159273 TCTAAAAATGCCAAACCCAATCC 57.841 39.130 0.00 0.00 0.00 3.01
4389 6163 3.689649 GGTTGACCAGGTCATTGATACAC 59.310 47.826 23.56 15.44 42.40 2.90
4390 6164 3.308117 GGGTTGACCAGGTCATTGATACA 60.308 47.826 23.56 3.25 42.40 2.29
4432 6206 5.826208 TCAACCCTTTCCTGTTTCTTAGTTC 59.174 40.000 0.00 0.00 0.00 3.01
4438 6213 7.010160 TCATTTATCAACCCTTTCCTGTTTCT 58.990 34.615 0.00 0.00 0.00 2.52
4440 6215 7.454380 TGATCATTTATCAACCCTTTCCTGTTT 59.546 33.333 0.00 0.00 41.75 2.83
4496 6271 4.406326 TGATGGCCGGTCATAGTTTAGTAA 59.594 41.667 24.18 0.00 0.00 2.24
4539 6314 5.064558 TGTTTTCGTGCATTAAGGTTAGGA 58.935 37.500 0.00 0.00 0.00 2.94


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

AutoCloner maintained by Alex Coulton.