Multiple sequence alignment - TraesCS1D01G050000

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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 TraesCS1D01G050000 chr1D 100.000 2631 0 0 1 2631 30109330 30106700 0.000000e+00 4859.0
1 TraesCS1D01G050000 chr1D 85.978 271 35 3 1 269 255283004 255283273 1.190000e-73 287.0
2 TraesCS1D01G050000 chr1B 86.159 2572 167 89 42 2537 48348112 48345654 0.000000e+00 2603.0
3 TraesCS1D01G050000 chr1B 85.755 702 40 26 1238 1930 48323078 48322428 0.000000e+00 688.0
4 TraesCS1D01G050000 chr1B 87.973 582 44 14 1958 2530 48317886 48317322 0.000000e+00 664.0
5 TraesCS1D01G050000 chr1B 88.645 546 30 15 1238 1782 48284770 48284256 1.030000e-178 636.0
6 TraesCS1D01G050000 chr1B 89.119 386 24 4 871 1242 48317059 48316678 5.130000e-127 464.0
7 TraesCS1D01G050000 chr1B 88.283 367 22 5 890 1242 48345396 48345037 1.130000e-113 420.0
8 TraesCS1D01G050000 chr1A 90.567 1357 71 24 605 1934 30197879 30196553 0.000000e+00 1744.0
9 TraesCS1D01G050000 chr1A 85.668 307 35 8 228 527 30198181 30197877 5.470000e-82 315.0
10 TraesCS1D01G050000 chr1A 92.982 114 8 0 1280 1393 30214126 30214013 1.620000e-37 167.0
11 TraesCS1D01G050000 chrUn 88.305 590 43 14 1958 2538 361535365 361535937 0.000000e+00 684.0
12 TraesCS1D01G050000 chrUn 88.176 592 40 17 1958 2538 361537426 361537998 0.000000e+00 678.0
13 TraesCS1D01G050000 chrUn 85.281 693 39 24 1238 1918 278435483 278436124 0.000000e+00 656.0
14 TraesCS1D01G050000 chrUn 88.645 546 30 15 1238 1782 225709827 225710341 1.030000e-178 636.0
15 TraesCS1D01G050000 chrUn 85.020 494 34 18 1449 1930 383505227 383504762 1.430000e-127 466.0
16 TraesCS1D01G050000 chrUn 92.208 154 12 0 1089 1242 440056195 440056042 4.410000e-53 219.0
17 TraesCS1D01G050000 chrUn 100.000 28 0 0 336 363 98280907 98280934 5.000000e-03 52.8
18 TraesCS1D01G050000 chr6A 85.938 256 32 2 11 266 65147260 65147009 1.200000e-68 270.0
19 TraesCS1D01G050000 chr3D 90.674 193 18 0 67 259 39118938 39119130 9.340000e-65 257.0
20 TraesCS1D01G050000 chr3D 100.000 28 0 0 2604 2631 274344303 274344276 5.000000e-03 52.8
21 TraesCS1D01G050000 chr5B 80.682 264 33 10 1 262 707142185 707142432 3.460000e-44 189.0
22 TraesCS1D01G050000 chr5B 87.952 83 7 3 181 261 707138525 707138444 7.750000e-16 95.3
23 TraesCS1D01G050000 chr7B 83.133 166 27 1 101 266 446200486 446200322 1.630000e-32 150.0
24 TraesCS1D01G050000 chr7B 94.444 36 2 0 2596 2631 732597532 732597567 3.660000e-04 56.5
25 TraesCS1D01G050000 chr7B 92.105 38 3 0 2594 2631 677057542 677057579 1.000000e-03 54.7
26 TraesCS1D01G050000 chr7B 100.000 28 0 0 336 363 685069868 685069895 5.000000e-03 52.8
27 TraesCS1D01G050000 chr4B 77.698 278 41 10 14 277 142722351 142722081 1.630000e-32 150.0
28 TraesCS1D01G050000 chr4B 97.059 34 1 0 336 369 22846443 22846476 1.020000e-04 58.4
29 TraesCS1D01G050000 chr2B 97.059 34 1 0 336 369 539337563 539337596 1.020000e-04 58.4
30 TraesCS1D01G050000 chr2D 92.308 39 2 1 336 374 571649880 571649917 1.000000e-03 54.7
31 TraesCS1D01G050000 chr4A 100.000 28 0 0 336 363 546610298 546610325 5.000000e-03 52.8
32 TraesCS1D01G050000 chr4A 100.000 28 0 0 336 363 546636365 546636392 5.000000e-03 52.8


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 TraesCS1D01G050000 chr1D 30106700 30109330 2630 True 4859.0 4859 100.0000 1 2631 1 chr1D.!!$R1 2630
1 TraesCS1D01G050000 chr1B 48345037 48348112 3075 True 1511.5 2603 87.2210 42 2537 2 chr1B.!!$R4 2495
2 TraesCS1D01G050000 chr1B 48322428 48323078 650 True 688.0 688 85.7550 1238 1930 1 chr1B.!!$R2 692
3 TraesCS1D01G050000 chr1B 48284256 48284770 514 True 636.0 636 88.6450 1238 1782 1 chr1B.!!$R1 544
4 TraesCS1D01G050000 chr1B 48316678 48317886 1208 True 564.0 664 88.5460 871 2530 2 chr1B.!!$R3 1659
5 TraesCS1D01G050000 chr1A 30196553 30198181 1628 True 1029.5 1744 88.1175 228 1934 2 chr1A.!!$R2 1706
6 TraesCS1D01G050000 chrUn 361535365 361537998 2633 False 681.0 684 88.2405 1958 2538 2 chrUn.!!$F4 580
7 TraesCS1D01G050000 chrUn 278435483 278436124 641 False 656.0 656 85.2810 1238 1918 1 chrUn.!!$F3 680
8 TraesCS1D01G050000 chrUn 225709827 225710341 514 False 636.0 636 88.6450 1238 1782 1 chrUn.!!$F2 544

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
634 655 0.030638 AAACATGTTGCAGTCACGCC 59.969 50.0 12.82 0.0 0.0 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2464 2596 0.031178 GCATTATTTGGCCGGCTCAG 59.969 55.0 28.56 10.38 0.0 3.35 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
23 24 0.458543 AGCAACGACGCTCTACCATG 60.459 55.000 0.00 0.00 37.91 3.66
24 25 1.999051 CAACGACGCTCTACCATGC 59.001 57.895 0.00 0.00 0.00 4.06
26 27 1.100510 AACGACGCTCTACCATGCTA 58.899 50.000 0.00 0.00 0.00 3.49
28 29 1.001268 ACGACGCTCTACCATGCTATG 60.001 52.381 0.00 0.00 0.00 2.23
29 30 1.423395 GACGCTCTACCATGCTATGC 58.577 55.000 0.00 0.00 0.00 3.14
30 31 0.319040 ACGCTCTACCATGCTATGCG 60.319 55.000 13.69 13.69 46.02 4.73
31 32 0.319040 CGCTCTACCATGCTATGCGT 60.319 55.000 0.00 0.00 37.62 5.24
32 33 1.423395 GCTCTACCATGCTATGCGTC 58.577 55.000 0.00 0.00 0.00 5.19
33 34 1.691127 CTCTACCATGCTATGCGTCG 58.309 55.000 0.00 0.00 0.00 5.12
34 35 0.313987 TCTACCATGCTATGCGTCGG 59.686 55.000 0.00 0.00 0.00 4.79
35 36 1.284982 CTACCATGCTATGCGTCGGC 61.285 60.000 0.00 0.00 40.52 5.54
36 37 3.705638 CCATGCTATGCGTCGGCG 61.706 66.667 4.29 4.29 44.10 6.46
37 38 2.658268 CATGCTATGCGTCGGCGA 60.658 61.111 16.53 4.99 44.10 5.54
40 41 3.323136 GCTATGCGTCGGCGACTG 61.323 66.667 33.90 27.14 44.10 3.51
42 43 1.939785 CTATGCGTCGGCGACTGAC 60.940 63.158 33.90 23.80 44.10 3.51
43 44 2.592623 CTATGCGTCGGCGACTGACA 62.593 60.000 33.90 27.91 44.10 3.58
44 45 2.592623 TATGCGTCGGCGACTGACAG 62.593 60.000 33.90 20.72 44.10 3.51
45 46 4.702081 GCGTCGGCGACTGACAGT 62.702 66.667 33.90 8.12 41.33 3.55
46 47 2.050351 CGTCGGCGACTGACAGTT 60.050 61.111 33.90 0.00 41.33 3.16
47 48 2.365068 CGTCGGCGACTGACAGTTG 61.365 63.158 33.90 17.31 41.33 3.16
48 49 2.022129 GTCGGCGACTGACAGTTGG 61.022 63.158 31.15 12.78 35.11 3.77
109 110 3.867493 CGTATTCTCACAGTCATGCATGT 59.133 43.478 25.43 5.65 0.00 3.21
171 172 4.100035 TGACCATATGTGAGGTTCAGCTAG 59.900 45.833 1.24 0.00 38.50 3.42
179 180 1.821753 GAGGTTCAGCTAGACAGAGCA 59.178 52.381 0.00 0.00 45.43 4.26
180 181 2.232452 GAGGTTCAGCTAGACAGAGCAA 59.768 50.000 0.00 0.00 45.43 3.91
191 192 2.298163 AGACAGAGCAAGGCAAAAATGG 59.702 45.455 0.00 0.00 0.00 3.16
200 201 1.490069 AGGCAAAAATGGGCACAAGTT 59.510 42.857 0.00 0.00 0.00 2.66
212 213 1.534729 CACAAGTTAGAGGGTTGGGC 58.465 55.000 0.00 0.00 0.00 5.36
232 233 4.695928 GGGCAAAACTGAGTAGAACTAAGG 59.304 45.833 0.00 0.00 30.56 2.69
235 236 6.655425 GGCAAAACTGAGTAGAACTAAGGAAT 59.345 38.462 0.00 0.00 30.56 3.01
252 253 4.477249 AGGAATGGAGGGCATGAAAATAG 58.523 43.478 0.00 0.00 0.00 1.73
259 260 5.143369 GGAGGGCATGAAAATAGAAATCCT 58.857 41.667 0.00 0.00 0.00 3.24
290 292 2.255252 GCATCCCAACGTGCACAC 59.745 61.111 18.64 0.00 40.94 3.82
350 353 4.882427 TCGATCCAAACTAAAACCACAACA 59.118 37.500 0.00 0.00 0.00 3.33
409 412 5.444481 GCACACGTCATTTTATTTTCCATGC 60.444 40.000 0.00 0.00 0.00 4.06
428 435 3.807553 TGCTCTTCTTCATGTGTCACAA 58.192 40.909 10.28 0.00 0.00 3.33
511 528 1.002430 TGCTCAATCTTCACGGAAGCT 59.998 47.619 8.32 0.00 39.29 3.74
521 538 1.014564 CACGGAAGCTCGGGTTTCTC 61.015 60.000 11.89 1.44 33.96 2.87
531 548 3.259064 CTCGGGTTTCTCGAAGCAATTA 58.741 45.455 0.00 0.00 37.48 1.40
532 549 2.997986 TCGGGTTTCTCGAAGCAATTAC 59.002 45.455 0.00 0.00 37.48 1.89
537 554 5.236695 GGGTTTCTCGAAGCAATTACTATCC 59.763 44.000 0.00 0.00 37.48 2.59
538 555 5.236695 GGTTTCTCGAAGCAATTACTATCCC 59.763 44.000 0.00 0.00 35.81 3.85
539 556 4.602340 TCTCGAAGCAATTACTATCCCC 57.398 45.455 0.00 0.00 0.00 4.81
582 603 2.340721 TCCAAATTTCCCTTGCCCAT 57.659 45.000 0.00 0.00 0.00 4.00
600 621 4.438200 GCCCATTCACAACGGTTATTACTG 60.438 45.833 0.00 0.00 36.67 2.74
602 623 4.394920 CCATTCACAACGGTTATTACTGCT 59.605 41.667 0.00 0.00 33.73 4.24
603 624 5.447279 CCATTCACAACGGTTATTACTGCTC 60.447 44.000 0.00 0.00 33.73 4.26
623 644 2.425312 TCAGCCACACGAAAAACATGTT 59.575 40.909 4.92 4.92 0.00 2.71
632 653 2.463653 CGAAAAACATGTTGCAGTCACG 59.536 45.455 12.82 7.81 0.00 4.35
634 655 0.030638 AAACATGTTGCAGTCACGCC 59.969 50.000 12.82 0.00 0.00 5.68
635 656 0.819259 AACATGTTGCAGTCACGCCT 60.819 50.000 11.07 0.00 0.00 5.52
636 657 1.208358 CATGTTGCAGTCACGCCTG 59.792 57.895 0.00 0.00 35.49 4.85
637 658 1.071299 ATGTTGCAGTCACGCCTGA 59.929 52.632 1.88 0.00 34.23 3.86
638 659 1.230635 ATGTTGCAGTCACGCCTGAC 61.231 55.000 7.67 7.67 46.50 3.51
681 706 2.948979 TCTCTTCAAACACGCCAAACAT 59.051 40.909 0.00 0.00 0.00 2.71
775 800 1.820519 ACGTAGTTGTTGATAGCCCGA 59.179 47.619 0.00 0.00 37.78 5.14
789 814 5.710099 TGATAGCCCGAGTTTTCTTTTCAAT 59.290 36.000 0.00 0.00 0.00 2.57
969 1017 2.954989 CACCTACAGAGAGCAGCTATCA 59.045 50.000 19.19 0.00 0.00 2.15
974 1042 2.892852 ACAGAGAGCAGCTATCATCCTC 59.107 50.000 19.19 8.93 0.00 3.71
1031 1099 3.503363 GGTGACGATGCTGGCAGC 61.503 66.667 31.91 31.91 42.82 5.25
1314 1403 2.356313 CAGTGCGGCGTCAAGACT 60.356 61.111 9.37 0.20 0.00 3.24
1471 1560 1.199789 TGGTGAAAGTTCATGATGCGC 59.800 47.619 0.00 0.00 39.73 6.09
1679 1778 3.006323 GCCTCTTCTTCTTGTCAGTCAGA 59.994 47.826 0.00 0.00 0.00 3.27
1693 1792 3.440522 TCAGTCAGACAGTAGTGATTCCG 59.559 47.826 4.09 0.00 0.00 4.30
1746 1857 0.248580 AATTGGCGCGCATACATGTG 60.249 50.000 34.42 0.00 41.07 3.21
1747 1858 1.094650 ATTGGCGCGCATACATGTGA 61.095 50.000 34.42 6.92 40.61 3.58
1748 1859 1.094650 TTGGCGCGCATACATGTGAT 61.095 50.000 34.42 0.00 40.61 3.06
1749 1860 0.249657 TGGCGCGCATACATGTGATA 60.250 50.000 34.42 0.46 40.61 2.15
1750 1861 1.078709 GGCGCGCATACATGTGATAT 58.921 50.000 34.42 0.00 40.61 1.63
1751 1862 1.201954 GGCGCGCATACATGTGATATG 60.202 52.381 34.42 5.63 40.61 1.78
1782 1893 2.092158 TCCATGGCCGATTCCATTTGTA 60.092 45.455 6.96 0.00 44.04 2.41
1783 1894 2.692557 CCATGGCCGATTCCATTTGTAA 59.307 45.455 0.00 0.00 44.04 2.41
1785 1896 4.202243 CCATGGCCGATTCCATTTGTAATT 60.202 41.667 0.00 0.00 44.04 1.40
1786 1897 5.358922 CATGGCCGATTCCATTTGTAATTT 58.641 37.500 0.00 0.00 44.04 1.82
1787 1898 4.753233 TGGCCGATTCCATTTGTAATTTG 58.247 39.130 0.00 0.00 0.00 2.32
1799 1910 6.361214 CCATTTGTAATTTGTTGTACCGTGAC 59.639 38.462 0.00 0.00 0.00 3.67
1800 1911 6.432607 TTTGTAATTTGTTGTACCGTGACA 57.567 33.333 0.00 0.00 0.00 3.58
1802 1913 5.991568 TGTAATTTGTTGTACCGTGACATG 58.008 37.500 0.00 0.00 0.00 3.21
1803 1914 3.552604 ATTTGTTGTACCGTGACATGC 57.447 42.857 0.00 0.00 0.00 4.06
1804 1915 1.954927 TTGTTGTACCGTGACATGCA 58.045 45.000 0.00 0.00 0.00 3.96
1805 1916 2.177394 TGTTGTACCGTGACATGCAT 57.823 45.000 0.00 0.00 0.00 3.96
1806 1917 2.073056 TGTTGTACCGTGACATGCATC 58.927 47.619 0.00 0.00 0.00 3.91
1807 1918 2.073056 GTTGTACCGTGACATGCATCA 58.927 47.619 0.00 0.00 0.00 3.07
1808 1919 2.008752 TGTACCGTGACATGCATCAG 57.991 50.000 0.00 0.00 0.00 2.90
1809 1920 0.652592 GTACCGTGACATGCATCAGC 59.347 55.000 0.00 0.00 42.57 4.26
1810 1921 0.536724 TACCGTGACATGCATCAGCT 59.463 50.000 0.00 0.00 42.74 4.24
1811 1922 0.321919 ACCGTGACATGCATCAGCTT 60.322 50.000 0.00 0.00 42.74 3.74
1812 1923 1.066215 ACCGTGACATGCATCAGCTTA 60.066 47.619 0.00 0.00 42.74 3.09
1813 1924 2.216046 CCGTGACATGCATCAGCTTAT 58.784 47.619 0.00 0.00 42.74 1.73
1814 1925 2.222678 CCGTGACATGCATCAGCTTATC 59.777 50.000 0.00 0.00 42.74 1.75
1815 1926 3.129109 CGTGACATGCATCAGCTTATCT 58.871 45.455 0.00 0.00 42.74 1.98
1816 1927 4.301628 CGTGACATGCATCAGCTTATCTA 58.698 43.478 0.00 0.00 42.74 1.98
1817 1928 4.149571 CGTGACATGCATCAGCTTATCTAC 59.850 45.833 0.00 0.00 42.74 2.59
1818 1929 5.295950 GTGACATGCATCAGCTTATCTACT 58.704 41.667 0.00 0.00 42.74 2.57
1821 1932 5.922053 ACATGCATCAGCTTATCTACTTGA 58.078 37.500 0.00 0.00 42.74 3.02
1848 1959 8.809159 TGATTCATTGTTGCTTTTCGAATAAA 57.191 26.923 0.00 0.00 0.00 1.40
1849 1960 8.698854 TGATTCATTGTTGCTTTTCGAATAAAC 58.301 29.630 0.00 2.49 0.00 2.01
1851 1962 8.586570 TTCATTGTTGCTTTTCGAATAAACAT 57.413 26.923 0.00 0.00 0.00 2.71
1908 2026 4.142403 GCTTGGGAATTTTCGATCATGTGA 60.142 41.667 0.00 0.00 0.00 3.58
1911 2029 5.893687 TGGGAATTTTCGATCATGTGATTG 58.106 37.500 4.19 4.19 37.30 2.67
1954 2082 2.064014 GAACGTGCCGCTTAAGTACTT 58.936 47.619 13.68 13.68 0.00 2.24
1956 2084 2.599659 ACGTGCCGCTTAAGTACTTAC 58.400 47.619 14.96 3.76 0.00 2.34
1957 2085 2.229784 ACGTGCCGCTTAAGTACTTACT 59.770 45.455 14.96 0.00 38.39 2.24
1958 2086 3.440173 ACGTGCCGCTTAAGTACTTACTA 59.560 43.478 14.96 0.94 34.99 1.82
1960 2088 4.201851 CGTGCCGCTTAAGTACTTACTAGA 60.202 45.833 14.96 0.00 34.99 2.43
1961 2089 5.033507 GTGCCGCTTAAGTACTTACTAGAC 58.966 45.833 14.96 6.10 34.99 2.59
1962 2090 4.946157 TGCCGCTTAAGTACTTACTAGACT 59.054 41.667 14.96 0.00 34.99 3.24
1964 2092 6.259608 TGCCGCTTAAGTACTTACTAGACTAG 59.740 42.308 14.96 8.00 34.99 2.57
1965 2093 6.481644 GCCGCTTAAGTACTTACTAGACTAGA 59.518 42.308 14.96 0.00 34.99 2.43
1966 2094 7.011857 GCCGCTTAAGTACTTACTAGACTAGAA 59.988 40.741 14.96 5.54 34.99 2.10
1967 2095 9.054922 CCGCTTAAGTACTTACTAGACTAGAAT 57.945 37.037 14.96 0.00 34.99 2.40
2001 2129 2.153057 CGTTTTTGCGAAAGGCTTAAGC 59.847 45.455 19.53 19.53 44.05 3.09
2002 2130 2.044888 TTTTGCGAAAGGCTTAAGCG 57.955 45.000 20.80 14.67 44.05 4.68
2132 2261 1.693062 TGCAGGGCAACATTTGAACAT 59.307 42.857 0.00 0.00 34.76 2.71
2135 2264 2.481185 CAGGGCAACATTTGAACATTGC 59.519 45.455 0.00 0.00 45.34 3.56
2142 2271 6.361899 GCAACATTTGAACATTGCGTATTTT 58.638 32.000 0.00 0.00 38.21 1.82
2147 2276 6.746104 TTTGAACATTGCGTATTTTGAGTG 57.254 33.333 0.00 0.00 0.00 3.51
2151 2280 6.416455 TGAACATTGCGTATTTTGAGTGAAAC 59.584 34.615 0.00 0.00 0.00 2.78
2167 2296 3.367025 GTGAAACCGTTCGATAACTCTGG 59.633 47.826 0.00 0.00 36.46 3.86
2181 2310 8.038351 TCGATAACTCTGGTGAAAATTGTGATA 58.962 33.333 0.00 0.00 0.00 2.15
2201 2330 5.302568 TGATATTCTTTTCCATCACCCATGC 59.697 40.000 0.00 0.00 0.00 4.06
2207 2336 3.448093 TTCCATCACCCATGCAGTAAA 57.552 42.857 0.00 0.00 0.00 2.01
2208 2337 3.448093 TCCATCACCCATGCAGTAAAA 57.552 42.857 0.00 0.00 0.00 1.52
2277 2406 8.706322 AACTTCCTATTCAAGCCTTTAAGAAA 57.294 30.769 0.00 0.00 0.00 2.52
2284 2416 5.767816 TCAAGCCTTTAAGAAAACCACTC 57.232 39.130 0.00 0.00 0.00 3.51
2334 2466 8.840833 ACCAAAGTAAACACTGAAACAAAATT 57.159 26.923 0.00 0.00 0.00 1.82
2365 2497 8.462016 TCAAAGAAAACCAAGAAGAAGAAGAAG 58.538 33.333 0.00 0.00 0.00 2.85
2368 2500 8.581253 AGAAAACCAAGAAGAAGAAGAAGAAA 57.419 30.769 0.00 0.00 0.00 2.52
2369 2501 8.681806 AGAAAACCAAGAAGAAGAAGAAGAAAG 58.318 33.333 0.00 0.00 0.00 2.62
2370 2502 6.951062 AACCAAGAAGAAGAAGAAGAAAGG 57.049 37.500 0.00 0.00 0.00 3.11
2371 2503 6.253946 ACCAAGAAGAAGAAGAAGAAAGGA 57.746 37.500 0.00 0.00 0.00 3.36
2372 2504 6.663734 ACCAAGAAGAAGAAGAAGAAAGGAA 58.336 36.000 0.00 0.00 0.00 3.36
2373 2505 6.544197 ACCAAGAAGAAGAAGAAGAAAGGAAC 59.456 38.462 0.00 0.00 0.00 3.62
2374 2506 6.016693 CCAAGAAGAAGAAGAAGAAAGGAACC 60.017 42.308 0.00 0.00 0.00 3.62
2375 2507 5.301555 AGAAGAAGAAGAAGAAAGGAACCG 58.698 41.667 0.00 0.00 0.00 4.44
2378 2510 3.686916 AGAAGAAGAAAGGAACCGGAG 57.313 47.619 9.46 0.00 0.00 4.63
2410 2542 5.972935 AGGAAACCGAAAAACACAAGAAAT 58.027 33.333 0.00 0.00 0.00 2.17
2416 2548 6.631962 ACCGAAAAACACAAGAAATACCAAA 58.368 32.000 0.00 0.00 0.00 3.28
2417 2549 6.754675 ACCGAAAAACACAAGAAATACCAAAG 59.245 34.615 0.00 0.00 0.00 2.77
2418 2550 6.975772 CCGAAAAACACAAGAAATACCAAAGA 59.024 34.615 0.00 0.00 0.00 2.52
2419 2551 7.489757 CCGAAAAACACAAGAAATACCAAAGAA 59.510 33.333 0.00 0.00 0.00 2.52
2420 2552 8.865001 CGAAAAACACAAGAAATACCAAAGAAA 58.135 29.630 0.00 0.00 0.00 2.52
2421 2553 9.967245 GAAAAACACAAGAAATACCAAAGAAAC 57.033 29.630 0.00 0.00 0.00 2.78
2422 2554 8.487313 AAAACACAAGAAATACCAAAGAAACC 57.513 30.769 0.00 0.00 0.00 3.27
2423 2555 6.783708 ACACAAGAAATACCAAAGAAACCA 57.216 33.333 0.00 0.00 0.00 3.67
2424 2556 7.176589 ACACAAGAAATACCAAAGAAACCAA 57.823 32.000 0.00 0.00 0.00 3.67
2425 2557 7.791029 ACACAAGAAATACCAAAGAAACCAAT 58.209 30.769 0.00 0.00 0.00 3.16
2464 2596 7.924103 AATAGTCAAAACAATTTCACGGAAC 57.076 32.000 0.00 0.00 0.00 3.62
2467 2599 5.124776 AGTCAAAACAATTTCACGGAACTGA 59.875 36.000 0.00 0.00 0.00 3.41
2485 2617 1.076044 AGCCGGCCAAATAATGCCT 60.076 52.632 26.15 0.00 45.71 4.75
2488 2620 1.463553 CCGGCCAAATAATGCCTCCC 61.464 60.000 2.24 0.00 45.71 4.30
2490 2622 1.332195 GGCCAAATAATGCCTCCCTC 58.668 55.000 0.00 0.00 44.46 4.30
2547 2683 2.287829 GACCTCCTCATTGGTCGGT 58.712 57.895 0.00 0.00 42.51 4.69
2563 2699 0.250553 CGGTCCCAGCACCTTAAACA 60.251 55.000 0.00 0.00 33.77 2.83
2564 2700 1.534729 GGTCCCAGCACCTTAAACAG 58.465 55.000 0.00 0.00 33.08 3.16
2581 2717 8.053355 CCTTAAACAGAAGGGAGGTAAACATAT 58.947 37.037 0.00 0.00 42.12 1.78
2586 2722 3.753294 AGGGAGGTAAACATATGCTCG 57.247 47.619 1.58 0.00 0.00 5.03
2587 2723 2.143925 GGGAGGTAAACATATGCTCGC 58.856 52.381 1.58 5.69 0.00 5.03
2588 2724 1.792949 GGAGGTAAACATATGCTCGCG 59.207 52.381 0.00 0.00 0.00 5.87
2591 3699 0.718220 GTAAACATATGCTCGCGCGC 60.718 55.000 27.95 23.91 39.65 6.86
2592 3700 0.874175 TAAACATATGCTCGCGCGCT 60.874 50.000 30.48 12.77 39.65 5.92
2595 3703 1.010797 CATATGCTCGCGCGCTTTT 60.011 52.632 30.48 12.59 39.65 2.27
2597 3705 1.705337 ATATGCTCGCGCGCTTTTGT 61.705 50.000 30.48 14.52 39.65 2.83
2601 3709 3.911155 CTCGCGCGCTTTTGTGTCC 62.911 63.158 30.48 0.00 0.00 4.02
2605 3713 2.713154 GCGCTTTTGTGTCCGTGT 59.287 55.556 0.00 0.00 0.00 4.49
2608 3716 1.462791 CGCTTTTGTGTCCGTGTTTC 58.537 50.000 0.00 0.00 0.00 2.78
2610 3718 2.450160 GCTTTTGTGTCCGTGTTTCAG 58.550 47.619 0.00 0.00 0.00 3.02
2615 3723 1.338294 TGTGTCCGTGTTTCAGTGTGT 60.338 47.619 0.00 0.00 0.00 3.72
2616 3724 1.735571 GTGTCCGTGTTTCAGTGTGTT 59.264 47.619 0.00 0.00 0.00 3.32
2617 3725 2.160813 GTGTCCGTGTTTCAGTGTGTTT 59.839 45.455 0.00 0.00 0.00 2.83
2618 3726 2.160615 TGTCCGTGTTTCAGTGTGTTTG 59.839 45.455 0.00 0.00 0.00 2.93
2619 3727 2.160813 GTCCGTGTTTCAGTGTGTTTGT 59.839 45.455 0.00 0.00 0.00 2.83
2620 3728 3.371591 GTCCGTGTTTCAGTGTGTTTGTA 59.628 43.478 0.00 0.00 0.00 2.41
2621 3729 4.001652 TCCGTGTTTCAGTGTGTTTGTAA 58.998 39.130 0.00 0.00 0.00 2.41
2622 3730 4.093703 TCCGTGTTTCAGTGTGTTTGTAAG 59.906 41.667 0.00 0.00 0.00 2.34
2625 3733 4.157105 GTGTTTCAGTGTGTTTGTAAGGGT 59.843 41.667 0.00 0.00 0.00 4.34
2626 3734 4.396790 TGTTTCAGTGTGTTTGTAAGGGTC 59.603 41.667 0.00 0.00 0.00 4.46
2627 3735 3.916359 TCAGTGTGTTTGTAAGGGTCA 57.084 42.857 0.00 0.00 0.00 4.02
2628 3736 4.223556 TCAGTGTGTTTGTAAGGGTCAA 57.776 40.909 0.00 0.00 0.00 3.18
2629 3737 3.942748 TCAGTGTGTTTGTAAGGGTCAAC 59.057 43.478 0.00 0.00 0.00 3.18
2630 3738 3.945285 CAGTGTGTTTGTAAGGGTCAACT 59.055 43.478 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.999051 CATGGTAGAGCGTCGTTGC 59.001 57.895 0.00 0.00 0.00 4.17
6 7 0.458543 AGCATGGTAGAGCGTCGTTG 60.459 55.000 0.00 0.00 35.48 4.10
8 9 1.001268 CATAGCATGGTAGAGCGTCGT 60.001 52.381 10.82 0.00 35.48 4.34
9 10 1.691127 CATAGCATGGTAGAGCGTCG 58.309 55.000 10.82 0.00 35.48 5.12
10 11 1.423395 GCATAGCATGGTAGAGCGTC 58.577 55.000 10.82 0.00 35.48 5.19
12 13 2.438906 CGCATAGCATGGTAGAGCG 58.561 57.895 28.10 28.10 37.68 5.03
13 14 1.423395 GACGCATAGCATGGTAGAGC 58.577 55.000 17.46 17.46 0.00 4.09
14 15 1.667177 CCGACGCATAGCATGGTAGAG 60.667 57.143 10.82 6.77 0.00 2.43
16 17 1.284982 GCCGACGCATAGCATGGTAG 61.285 60.000 10.82 4.22 34.03 3.18
19 20 3.705638 CGCCGACGCATAGCATGG 61.706 66.667 0.00 0.00 34.03 3.66
20 21 2.658268 TCGCCGACGCATAGCATG 60.658 61.111 0.00 0.00 39.84 4.06
23 24 3.323136 CAGTCGCCGACGCATAGC 61.323 66.667 12.13 0.00 37.67 2.97
24 25 1.939785 GTCAGTCGCCGACGCATAG 60.940 63.158 12.13 1.26 37.67 2.23
26 27 3.971453 CTGTCAGTCGCCGACGCAT 62.971 63.158 12.13 0.00 37.67 4.73
28 29 4.702081 ACTGTCAGTCGCCGACGC 62.702 66.667 12.13 7.05 37.67 5.19
29 30 2.050351 AACTGTCAGTCGCCGACG 60.050 61.111 12.13 7.15 37.67 5.12
30 31 2.022129 CCAACTGTCAGTCGCCGAC 61.022 63.158 9.71 9.71 0.00 4.79
31 32 2.338620 CCAACTGTCAGTCGCCGA 59.661 61.111 5.82 0.00 0.00 5.54
32 33 3.414700 GCCAACTGTCAGTCGCCG 61.415 66.667 5.82 0.00 0.00 6.46
33 34 2.031163 AGCCAACTGTCAGTCGCC 59.969 61.111 17.23 5.36 0.00 5.54
34 35 1.300931 TCAGCCAACTGTCAGTCGC 60.301 57.895 5.82 11.07 44.77 5.19
35 36 0.032678 AGTCAGCCAACTGTCAGTCG 59.967 55.000 5.82 0.00 44.77 4.18
36 37 1.069204 TCAGTCAGCCAACTGTCAGTC 59.931 52.381 5.82 0.00 45.57 3.51
37 38 1.123077 TCAGTCAGCCAACTGTCAGT 58.877 50.000 13.93 0.00 45.57 3.41
40 41 1.802960 CACATCAGTCAGCCAACTGTC 59.197 52.381 13.93 0.00 45.57 3.51
42 43 1.162698 CCACATCAGTCAGCCAACTG 58.837 55.000 9.29 9.29 46.54 3.16
43 44 0.607489 GCCACATCAGTCAGCCAACT 60.607 55.000 0.00 0.00 0.00 3.16
44 45 1.589716 GGCCACATCAGTCAGCCAAC 61.590 60.000 0.00 0.00 41.67 3.77
45 46 1.303561 GGCCACATCAGTCAGCCAA 60.304 57.895 0.00 0.00 41.67 4.52
46 47 2.352422 GGCCACATCAGTCAGCCA 59.648 61.111 0.00 0.00 41.67 4.75
47 48 2.238847 TACGGCCACATCAGTCAGCC 62.239 60.000 2.24 0.00 39.67 4.85
48 49 1.084370 GTACGGCCACATCAGTCAGC 61.084 60.000 2.24 0.00 0.00 4.26
49 50 0.532573 AGTACGGCCACATCAGTCAG 59.467 55.000 2.24 0.00 0.00 3.51
89 90 5.519927 CGTTACATGCATGACTGTGAGAATA 59.480 40.000 32.75 7.91 0.00 1.75
133 134 7.117956 CACATATGGTCAAATGCAACATTTTCA 59.882 33.333 7.80 3.69 0.00 2.69
171 172 2.611224 CCCATTTTTGCCTTGCTCTGTC 60.611 50.000 0.00 0.00 0.00 3.51
179 180 1.490069 ACTTGTGCCCATTTTTGCCTT 59.510 42.857 0.00 0.00 0.00 4.35
180 181 1.130777 ACTTGTGCCCATTTTTGCCT 58.869 45.000 0.00 0.00 0.00 4.75
191 192 1.534729 CCAACCCTCTAACTTGTGCC 58.465 55.000 0.00 0.00 0.00 5.01
200 201 1.777878 TCAGTTTTGCCCAACCCTCTA 59.222 47.619 0.00 0.00 0.00 2.43
212 213 7.878127 TCCATTCCTTAGTTCTACTCAGTTTTG 59.122 37.037 0.00 0.00 0.00 2.44
232 233 6.469782 TTTCTATTTTCATGCCCTCCATTC 57.530 37.500 0.00 0.00 29.71 2.67
235 236 4.895297 GGATTTCTATTTTCATGCCCTCCA 59.105 41.667 0.00 0.00 0.00 3.86
299 302 3.181169 ATAATTTCCCGCGCGCTGC 62.181 57.895 30.48 10.17 41.47 5.25
302 305 0.163146 GTAGATAATTTCCCGCGCGC 59.837 55.000 27.36 23.91 0.00 6.86
303 306 1.719780 GAGTAGATAATTTCCCGCGCG 59.280 52.381 25.67 25.67 0.00 6.86
363 366 8.103305 TGTGCTCTTACTTTTGATTATCCTCTT 58.897 33.333 0.00 0.00 0.00 2.85
409 412 4.576053 TGGTTTGTGACACATGAAGAAGAG 59.424 41.667 9.55 0.00 0.00 2.85
428 435 7.176589 TGACCTGTTCTTTTTATTTGTGGTT 57.823 32.000 0.00 0.00 0.00 3.67
511 528 2.178912 AATTGCTTCGAGAAACCCGA 57.821 45.000 0.00 0.00 0.00 5.14
537 554 1.417890 ACTCTTGATGAATAGCGGGGG 59.582 52.381 0.00 0.00 0.00 5.40
538 555 2.918712 ACTCTTGATGAATAGCGGGG 57.081 50.000 0.00 0.00 0.00 5.73
539 556 5.601662 TCTTTACTCTTGATGAATAGCGGG 58.398 41.667 0.00 0.00 0.00 6.13
547 568 8.960591 GGAAATTTGGATCTTTACTCTTGATGA 58.039 33.333 0.00 0.00 0.00 2.92
572 593 1.586028 CGTTGTGAATGGGCAAGGG 59.414 57.895 0.00 0.00 0.00 3.95
582 603 4.633175 TGAGCAGTAATAACCGTTGTGAA 58.367 39.130 0.00 0.00 0.00 3.18
600 621 0.380378 TGTTTTTCGTGTGGCTGAGC 59.620 50.000 0.00 0.00 0.00 4.26
602 623 2.020720 ACATGTTTTTCGTGTGGCTGA 58.979 42.857 0.00 0.00 43.67 4.26
603 624 2.490328 ACATGTTTTTCGTGTGGCTG 57.510 45.000 0.00 0.00 43.67 4.85
641 662 0.739813 ATTAGCAACGGTCTGACGCC 60.740 55.000 1.07 0.00 37.37 5.68
645 666 3.509967 TGAAGAGATTAGCAACGGTCTGA 59.490 43.478 0.00 0.00 0.00 3.27
648 673 4.451096 TGTTTGAAGAGATTAGCAACGGTC 59.549 41.667 0.00 0.00 0.00 4.79
681 706 2.032528 CAGGTGGCTCGGCTTTGA 59.967 61.111 0.00 0.00 0.00 2.69
712 737 4.179298 GTTGGGTGGTACGTAGAATCTTC 58.821 47.826 0.00 0.00 0.00 2.87
789 814 3.073798 TGGTGAGCTGAATTTTCCTACCA 59.926 43.478 0.00 0.00 33.65 3.25
974 1042 4.013267 TGCTCCTCTTTCTTCCTTGAAG 57.987 45.455 0.00 0.00 40.65 3.02
1161 1250 1.446792 CGAGCAGCACGACTTGGAT 60.447 57.895 6.34 0.00 0.00 3.41
1471 1560 1.369625 GGTCAGTACCGCAATTCAGG 58.630 55.000 0.00 0.00 35.62 3.86
1679 1778 4.866508 TCTCAAACGGAATCACTACTGT 57.133 40.909 0.00 0.00 0.00 3.55
1693 1792 9.367444 CGAACCCCAGTATATATAATCTCAAAC 57.633 37.037 0.00 0.00 0.00 2.93
1746 1857 3.181503 GCCATGGATCACATTCGCATATC 60.182 47.826 18.40 0.00 37.84 1.63
1747 1858 2.751259 GCCATGGATCACATTCGCATAT 59.249 45.455 18.40 0.00 37.84 1.78
1748 1859 2.153645 GCCATGGATCACATTCGCATA 58.846 47.619 18.40 0.00 37.84 3.14
1749 1860 0.956633 GCCATGGATCACATTCGCAT 59.043 50.000 18.40 0.00 37.84 4.73
1750 1861 1.102809 GGCCATGGATCACATTCGCA 61.103 55.000 18.40 0.00 37.84 5.10
1751 1862 1.656441 GGCCATGGATCACATTCGC 59.344 57.895 18.40 0.00 37.84 4.70
1752 1863 0.532640 TCGGCCATGGATCACATTCG 60.533 55.000 18.40 5.49 37.84 3.34
1782 1893 3.316588 TGCATGTCACGGTACAACAAATT 59.683 39.130 0.00 0.00 32.02 1.82
1783 1894 2.881513 TGCATGTCACGGTACAACAAAT 59.118 40.909 0.00 0.00 32.02 2.32
1785 1896 1.954927 TGCATGTCACGGTACAACAA 58.045 45.000 0.00 0.00 32.02 2.83
1786 1897 2.073056 GATGCATGTCACGGTACAACA 58.927 47.619 2.46 0.00 32.02 3.33
1787 1898 2.073056 TGATGCATGTCACGGTACAAC 58.927 47.619 2.46 0.00 32.02 3.32
1799 1910 7.172703 TCAATCAAGTAGATAAGCTGATGCATG 59.827 37.037 2.46 0.00 37.58 4.06
1800 1911 7.222161 TCAATCAAGTAGATAAGCTGATGCAT 58.778 34.615 0.00 0.00 37.58 3.96
1802 1913 7.670009 ATCAATCAAGTAGATAAGCTGATGC 57.330 36.000 0.00 0.00 35.39 3.91
1803 1914 9.269453 TGAATCAATCAAGTAGATAAGCTGATG 57.731 33.333 0.00 0.00 33.12 3.07
1805 1916 9.842775 AATGAATCAATCAAGTAGATAAGCTGA 57.157 29.630 0.00 0.00 42.54 4.26
1806 1917 9.880064 CAATGAATCAATCAAGTAGATAAGCTG 57.120 33.333 0.00 0.00 42.54 4.24
1807 1918 9.624373 ACAATGAATCAATCAAGTAGATAAGCT 57.376 29.630 0.00 0.00 42.54 3.74
1811 1922 9.399797 AGCAACAATGAATCAATCAAGTAGATA 57.600 29.630 0.00 0.00 42.54 1.98
1812 1923 8.289939 AGCAACAATGAATCAATCAAGTAGAT 57.710 30.769 0.00 0.00 42.54 1.98
1813 1924 7.692460 AGCAACAATGAATCAATCAAGTAGA 57.308 32.000 0.00 0.00 42.54 2.59
1814 1925 8.752766 AAAGCAACAATGAATCAATCAAGTAG 57.247 30.769 0.00 0.00 42.54 2.57
1815 1926 9.195411 GAAAAGCAACAATGAATCAATCAAGTA 57.805 29.630 0.00 0.00 42.54 2.24
1816 1927 7.095940 CGAAAAGCAACAATGAATCAATCAAGT 60.096 33.333 0.00 0.00 42.54 3.16
1817 1928 7.115236 TCGAAAAGCAACAATGAATCAATCAAG 59.885 33.333 0.00 0.00 42.54 3.02
1818 1929 6.922407 TCGAAAAGCAACAATGAATCAATCAA 59.078 30.769 0.00 0.00 42.54 2.57
1821 1932 7.894376 ATTCGAAAAGCAACAATGAATCAAT 57.106 28.000 0.00 0.00 0.00 2.57
1877 1994 0.178947 AAATTCCCAAGCCCGGTTCA 60.179 50.000 0.00 0.00 0.00 3.18
1908 2026 2.880890 AGAAGTTGAAGCGAGCAACAAT 59.119 40.909 17.37 8.81 46.05 2.71
1911 2029 2.349912 GGAAGAAGTTGAAGCGAGCAAC 60.350 50.000 10.18 10.18 44.46 4.17
1980 2108 2.153057 GCTTAAGCCTTTCGCAAAAACG 59.847 45.455 17.00 0.00 41.38 3.60
1981 2109 2.153057 CGCTTAAGCCTTTCGCAAAAAC 59.847 45.455 21.53 0.00 41.38 2.43
2001 2129 2.040213 GACCGTGCATCATTCTGGCG 62.040 60.000 0.00 0.00 0.00 5.69
2002 2130 0.745845 AGACCGTGCATCATTCTGGC 60.746 55.000 0.00 0.00 0.00 4.85
2121 2250 6.922957 ACTCAAAATACGCAATGTTCAAATGT 59.077 30.769 0.00 0.00 0.00 2.71
2132 2261 3.312973 ACGGTTTCACTCAAAATACGCAA 59.687 39.130 0.00 0.00 0.00 4.85
2135 2264 4.084952 TCGAACGGTTTCACTCAAAATACG 60.085 41.667 0.00 0.00 0.00 3.06
2142 2271 4.022589 AGAGTTATCGAACGGTTTCACTCA 60.023 41.667 15.21 0.00 40.76 3.41
2147 2276 3.367025 CACCAGAGTTATCGAACGGTTTC 59.633 47.826 0.00 0.00 40.76 2.78
2151 2280 2.933495 TCACCAGAGTTATCGAACGG 57.067 50.000 0.00 0.00 40.76 4.44
2181 2310 3.443052 TGCATGGGTGATGGAAAAGAAT 58.557 40.909 0.00 0.00 31.99 2.40
2208 2337 3.662759 TTGTCCCTCTGACCAGTTTTT 57.337 42.857 0.00 0.00 43.78 1.94
2284 2416 6.755461 TTTTATTTGTGCACAATTACACGG 57.245 33.333 31.48 0.00 39.71 4.94
2340 2472 8.462016 TCTTCTTCTTCTTCTTGGTTTTCTTTG 58.538 33.333 0.00 0.00 0.00 2.77
2396 2528 8.941977 GGTTTCTTTGGTATTTCTTGTGTTTTT 58.058 29.630 0.00 0.00 0.00 1.94
2400 2532 6.783708 TGGTTTCTTTGGTATTTCTTGTGT 57.216 33.333 0.00 0.00 0.00 3.72
2410 2542 7.976734 CACTGTTTTACATTGGTTTCTTTGGTA 59.023 33.333 0.00 0.00 0.00 3.25
2416 2548 6.783708 TTCCACTGTTTTACATTGGTTTCT 57.216 33.333 13.68 0.00 45.75 2.52
2417 2549 7.835634 TTTTCCACTGTTTTACATTGGTTTC 57.164 32.000 13.68 0.00 45.75 2.78
2418 2550 9.541143 CTATTTTCCACTGTTTTACATTGGTTT 57.459 29.630 13.68 3.59 45.75 3.27
2419 2551 8.700973 ACTATTTTCCACTGTTTTACATTGGTT 58.299 29.630 13.68 3.85 45.75 3.67
2420 2552 8.245195 ACTATTTTCCACTGTTTTACATTGGT 57.755 30.769 13.68 0.95 45.75 3.67
2421 2553 8.356657 TGACTATTTTCCACTGTTTTACATTGG 58.643 33.333 9.25 9.25 46.62 3.16
2422 2554 9.743057 TTGACTATTTTCCACTGTTTTACATTG 57.257 29.630 0.00 0.00 0.00 2.82
2425 2557 9.575783 GTTTTGACTATTTTCCACTGTTTTACA 57.424 29.630 0.00 0.00 0.00 2.41
2464 2596 0.031178 GCATTATTTGGCCGGCTCAG 59.969 55.000 28.56 10.38 0.00 3.35
2467 2599 3.537388 GGCATTATTTGGCCGGCT 58.463 55.556 28.56 9.11 44.92 5.52
2485 2617 0.543277 TTACGTCTCGCCTAGAGGGA 59.457 55.000 0.00 0.00 46.82 4.20
2497 2629 4.514441 CCTGTACCGAGACATATTACGTCT 59.486 45.833 0.00 0.00 46.32 4.18
2538 2674 2.351276 GTGCTGGGACCGACCAAT 59.649 61.111 0.00 0.00 40.68 3.16
2539 2675 3.948719 GGTGCTGGGACCGACCAA 61.949 66.667 0.00 0.00 40.68 3.67
2540 2676 4.954118 AGGTGCTGGGACCGACCA 62.954 66.667 5.67 0.00 41.35 4.02
2541 2677 1.833787 TTAAGGTGCTGGGACCGACC 61.834 60.000 5.67 0.00 41.35 4.79
2542 2678 0.035739 TTTAAGGTGCTGGGACCGAC 59.964 55.000 5.67 0.00 41.35 4.79
2543 2679 0.035739 GTTTAAGGTGCTGGGACCGA 59.964 55.000 5.67 0.00 41.35 4.69
2544 2680 0.250553 TGTTTAAGGTGCTGGGACCG 60.251 55.000 5.67 0.00 41.35 4.79
2545 2681 1.073284 TCTGTTTAAGGTGCTGGGACC 59.927 52.381 2.99 2.99 36.09 4.46
2546 2682 2.561478 TCTGTTTAAGGTGCTGGGAC 57.439 50.000 0.00 0.00 0.00 4.46
2547 2683 2.224769 CCTTCTGTTTAAGGTGCTGGGA 60.225 50.000 0.00 0.00 41.06 4.37
2563 2699 4.202264 CGAGCATATGTTTACCTCCCTTCT 60.202 45.833 4.29 0.00 0.00 2.85
2564 2700 4.058817 CGAGCATATGTTTACCTCCCTTC 58.941 47.826 4.29 0.00 0.00 3.46
2586 2722 4.307908 ACGGACACAAAAGCGCGC 62.308 61.111 26.66 26.66 0.00 6.86
2587 2723 2.425124 CACGGACACAAAAGCGCG 60.425 61.111 0.00 0.00 0.00 6.86
2588 2724 0.524604 AAACACGGACACAAAAGCGC 60.525 50.000 0.00 0.00 0.00 5.92
2591 3699 3.119990 ACACTGAAACACGGACACAAAAG 60.120 43.478 0.00 0.00 0.00 2.27
2592 3700 2.814919 ACACTGAAACACGGACACAAAA 59.185 40.909 0.00 0.00 0.00 2.44
2595 3703 1.338294 ACACACTGAAACACGGACACA 60.338 47.619 0.00 0.00 0.00 3.72
2597 3705 2.102070 AACACACTGAAACACGGACA 57.898 45.000 0.00 0.00 0.00 4.02
2601 3709 4.339429 CCTTACAAACACACTGAAACACG 58.661 43.478 0.00 0.00 0.00 4.49
2605 3713 4.590918 TGACCCTTACAAACACACTGAAA 58.409 39.130 0.00 0.00 0.00 2.69
2608 3716 3.945285 AGTTGACCCTTACAAACACACTG 59.055 43.478 0.00 0.00 0.00 3.66


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

AutoCloner maintained by Alex Coulton.