Multiple sequence alignment - TraesCS7B01G276300

Loading Multiple Alignment...

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 TraesCS7B01G276300 chr7B 100.000 2539 0 0 1 2539 505569039 505566501 0.000000e+00 4689.0
1 TraesCS7B01G276300 chr7B 84.330 619 55 15 946 1540 505475844 505475244 3.670000e-158 568.0
2 TraesCS7B01G276300 chr7B 84.663 163 23 2 2104 2265 19251583 19251422 7.270000e-36 161.0
3 TraesCS7B01G276300 chr7D 90.184 1793 117 26 1 1747 479742712 479740933 0.000000e+00 2281.0
4 TraesCS7B01G276300 chr7D 88.668 653 62 6 1887 2538 479740927 479740286 0.000000e+00 785.0
5 TraesCS7B01G276300 chr7D 85.138 545 42 13 946 1462 479724263 479723730 2.890000e-144 521.0
6 TraesCS7B01G276300 chr7D 90.291 206 14 1 1 200 479744604 479744399 5.390000e-67 265.0
7 TraesCS7B01G276300 chr7D 96.610 118 4 0 1744 1861 123785073 123784956 1.990000e-46 196.0
8 TraesCS7B01G276300 chr7A 84.615 1287 118 46 228 1452 515008849 515010117 0.000000e+00 1206.0
9 TraesCS7B01G276300 chr7A 81.864 601 58 27 946 1503 515034634 515035226 2.300000e-125 459.0
10 TraesCS7B01G276300 chr7A 85.185 162 21 3 2103 2262 158339642 158339802 2.020000e-36 163.0
11 TraesCS7B01G276300 chr7A 83.544 158 13 7 1485 1636 515010192 515010342 4.410000e-28 135.0
12 TraesCS7B01G276300 chr5B 94.030 134 8 0 1744 1877 70795771 70795638 1.190000e-48 204.0
13 TraesCS7B01G276300 chr5B 87.349 166 20 1 2104 2268 276947206 276947041 3.330000e-44 189.0
14 TraesCS7B01G276300 chr5D 96.694 121 4 0 1744 1864 445698092 445698212 4.280000e-48 202.0
15 TraesCS7B01G276300 chr5D 95.968 124 4 1 1744 1867 464292749 464292871 1.540000e-47 200.0
16 TraesCS7B01G276300 chr5D 90.588 85 6 2 2368 2451 398100740 398100657 7.430000e-21 111.0
17 TraesCS7B01G276300 chr2D 96.000 125 4 1 1744 1867 70463999 70463875 4.280000e-48 202.0
18 TraesCS7B01G276300 chrUn 93.382 136 6 3 1744 1876 33028293 33028158 5.540000e-47 198.0
19 TraesCS7B01G276300 chr6B 95.868 121 5 0 1742 1862 448665733 448665613 1.990000e-46 196.0
20 TraesCS7B01G276300 chr4D 92.481 133 9 1 1733 1864 52629718 52629850 3.330000e-44 189.0
21 TraesCS7B01G276300 chr4A 92.424 132 10 0 1739 1870 658949236 658949105 3.330000e-44 189.0
22 TraesCS7B01G276300 chr4A 80.000 190 20 11 2264 2451 112641440 112641613 9.540000e-25 124.0
23 TraesCS7B01G276300 chr5A 85.890 163 21 2 2104 2265 540725901 540725740 3.360000e-39 172.0
24 TraesCS7B01G276300 chr3A 86.335 161 19 3 2104 2262 554607923 554608082 3.360000e-39 172.0
25 TraesCS7B01G276300 chr3A 84.211 171 23 3 2094 2260 719775351 719775521 2.020000e-36 163.0
26 TraesCS7B01G276300 chr3B 85.890 163 19 4 2103 2262 237499011 237499172 1.210000e-38 171.0
27 TraesCS7B01G276300 chr6D 85.276 163 19 4 2106 2265 81743416 81743256 2.020000e-36 163.0
28 TraesCS7B01G276300 chr1B 82.787 122 21 0 2383 2504 121835322 121835201 2.670000e-20 110.0
29 TraesCS7B01G276300 chr2A 83.051 118 17 1 2424 2538 335179728 335179845 1.240000e-18 104.0
30 TraesCS7B01G276300 chr2A 80.153 131 24 2 2368 2497 753245558 753245429 2.080000e-16 97.1
31 TraesCS7B01G276300 chr2B 88.158 76 6 3 2264 2338 134513703 134513776 1.250000e-13 87.9


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 TraesCS7B01G276300 chr7B 505566501 505569039 2538 True 4689.000000 4689 100.000000 1 2539 1 chr7B.!!$R3 2538
1 TraesCS7B01G276300 chr7B 505475244 505475844 600 True 568.000000 568 84.330000 946 1540 1 chr7B.!!$R2 594
2 TraesCS7B01G276300 chr7D 479740286 479744604 4318 True 1110.333333 2281 89.714333 1 2538 3 chr7D.!!$R3 2537
3 TraesCS7B01G276300 chr7D 479723730 479724263 533 True 521.000000 521 85.138000 946 1462 1 chr7D.!!$R2 516
4 TraesCS7B01G276300 chr7A 515008849 515010342 1493 False 670.500000 1206 84.079500 228 1636 2 chr7A.!!$F3 1408
5 TraesCS7B01G276300 chr7A 515034634 515035226 592 False 459.000000 459 81.864000 946 1503 1 chr7A.!!$F2 557

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
246 2152 0.611896 CAACCACCCCTGATTGGACC 60.612 60.0 0.0 0.0 38.35 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1828 3935 0.030369 CCGGAAATACTCGTCGGAGG 59.97 60.0 0.0 0.0 44.93 4.3 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
104 105 6.152661 CCACTTATGCCCAAACAAAGAATCTA 59.847 38.462 0.00 0.00 0.00 1.98
134 2040 1.961793 TGCACTCAAAGTAAGCCGTT 58.038 45.000 0.00 0.00 0.00 4.44
144 2050 2.504367 AGTAAGCCGTTGATTTGTGCT 58.496 42.857 0.00 0.00 0.00 4.40
145 2051 2.226437 AGTAAGCCGTTGATTTGTGCTG 59.774 45.455 0.00 0.00 31.55 4.41
164 2070 4.971125 GTCGCCTATCGCCTGGCC 62.971 72.222 14.12 0.00 45.90 5.36
177 2083 1.819632 CTGGCCATCGGGTAACTGC 60.820 63.158 5.51 0.00 45.18 4.40
192 2098 5.002464 GTAACTGCGAATTACCACTAGGA 57.998 43.478 0.00 0.00 38.69 2.94
199 2105 4.985409 GCGAATTACCACTAGGAGATGAAG 59.015 45.833 0.00 0.00 38.69 3.02
205 2111 1.127343 ACTAGGAGATGAAGCCCTGC 58.873 55.000 0.00 0.00 0.00 4.85
206 2112 1.343884 ACTAGGAGATGAAGCCCTGCT 60.344 52.381 0.00 0.00 42.56 4.24
213 2119 0.761802 ATGAAGCCCTGCTAGTAGCC 59.238 55.000 19.41 3.92 41.51 3.93
222 2128 1.082886 GCTAGTAGCCGAGTACGCG 60.083 63.158 12.41 12.41 34.48 6.01
226 2132 1.303309 AGTAGCCGAGTACGCGTAAT 58.697 50.000 22.44 21.35 38.29 1.89
246 2152 0.611896 CAACCACCCCTGATTGGACC 60.612 60.000 0.00 0.00 38.35 4.46
268 2182 4.343814 CCTGTTTGGGTGTTGGTTAAAGAT 59.656 41.667 0.00 0.00 0.00 2.40
270 2184 4.956700 TGTTTGGGTGTTGGTTAAAGATCA 59.043 37.500 0.00 0.00 0.00 2.92
275 2189 3.435671 GGTGTTGGTTAAAGATCACCTCG 59.564 47.826 11.42 0.00 41.14 4.63
301 2215 0.798776 CACTGGTTTCGTCCTCATGC 59.201 55.000 0.00 0.00 0.00 4.06
420 2338 1.620323 GTTTCAGCCAGGCAAGGAAAT 59.380 47.619 21.71 0.00 31.90 2.17
428 2349 2.093341 CCAGGCAAGGAAATGAAATGGG 60.093 50.000 0.00 0.00 0.00 4.00
459 2380 2.943033 AGAAAGATAAAACGCCGATGGG 59.057 45.455 0.00 0.00 0.00 4.00
566 2494 4.323477 TCCCCCGCCAACAAGTCG 62.323 66.667 0.00 0.00 0.00 4.18
571 2499 2.034879 CCGCCAACAAGTCGCATCT 61.035 57.895 0.00 0.00 0.00 2.90
633 2561 1.525718 ATGCCAAACTCATGCGTGCA 61.526 50.000 0.00 0.00 0.00 4.57
650 2578 3.124466 CGTGCACATAAAAAGGACATCGA 59.876 43.478 18.64 0.00 0.00 3.59
683 2630 6.640518 TCCTGGAGAAATGTACAATACAGTC 58.359 40.000 0.00 0.00 42.77 3.51
804 2778 1.969103 GCACAGCGGAGAAATTTGTC 58.031 50.000 6.79 6.79 0.00 3.18
805 2779 1.401539 GCACAGCGGAGAAATTTGTCC 60.402 52.381 21.62 21.62 37.27 4.02
806 2780 1.200020 CACAGCGGAGAAATTTGTCCC 59.800 52.381 24.48 17.89 37.33 4.46
845 2819 1.819288 TCTTAGCTTCACCACGAGAGG 59.181 52.381 0.00 0.00 0.00 3.69
1056 3034 2.671177 CGTTCAGAGGCAGCAACCG 61.671 63.158 0.00 0.00 33.69 4.44
1066 3062 1.355210 CAGCAACCGAACACACACC 59.645 57.895 0.00 0.00 0.00 4.16
1206 3229 1.001020 TACCCGCGGTACAGGAAGA 60.001 57.895 26.12 0.00 37.09 2.87
1406 3440 2.125753 CGCCTGGCAGAGACTGAC 60.126 66.667 20.29 0.00 40.49 3.51
1435 3472 1.147473 CAGCAGCAACATCACGTACA 58.853 50.000 0.00 0.00 0.00 2.90
1463 3511 4.703645 TGTATGAAGAAGACCTCGTGAG 57.296 45.455 0.00 0.00 0.00 3.51
1516 3617 9.360093 CTAATCGTAATCTCCAATTCTCCATAC 57.640 37.037 0.00 0.00 0.00 2.39
1576 3683 4.580167 TGGAAGAAGGTGTTGTTTCTGATG 59.420 41.667 0.00 0.00 34.09 3.07
1593 3700 7.520119 TTCTGATGTTCATACGTGTAATGTC 57.480 36.000 0.00 0.00 37.25 3.06
1600 3707 4.239304 TCATACGTGTAATGTCGTGCTTT 58.761 39.130 0.00 0.00 40.50 3.51
1604 3711 3.427528 ACGTGTAATGTCGTGCTTTGTAG 59.572 43.478 0.00 0.00 38.85 2.74
1605 3712 3.671459 CGTGTAATGTCGTGCTTTGTAGA 59.329 43.478 0.00 0.00 0.00 2.59
1606 3713 4.201494 CGTGTAATGTCGTGCTTTGTAGAG 60.201 45.833 0.00 0.00 0.00 2.43
1621 3728 3.264947 TGTAGAGTATGTACGTGCGACT 58.735 45.455 10.14 10.14 37.73 4.18
1627 3734 4.103357 AGTATGTACGTGCGACTTTGATC 58.897 43.478 0.00 0.00 0.00 2.92
1638 3745 2.412847 CGACTTTGATCCGTTTTGCTCC 60.413 50.000 0.00 0.00 0.00 4.70
1640 3747 0.239879 TTTGATCCGTTTTGCTCCGC 59.760 50.000 0.00 0.00 0.00 5.54
1650 3757 1.509644 TTTGCTCCGCAGTTCTGCAG 61.510 55.000 21.89 7.63 40.61 4.41
1654 3761 1.294659 CTCCGCAGTTCTGCAGTTCC 61.295 60.000 21.89 2.74 34.41 3.62
1660 3767 0.888619 AGTTCTGCAGTTCCGATCGA 59.111 50.000 18.66 0.00 0.00 3.59
1674 3781 1.372582 GATCGATTTGCACAGGCTCA 58.627 50.000 0.00 0.00 41.91 4.26
1684 3791 0.539051 CACAGGCTCAAGGGTCCTAG 59.461 60.000 0.00 0.00 0.00 3.02
1722 3829 4.576216 TGTCTTCTGAGTTCTGACAGTC 57.424 45.455 1.59 0.00 33.45 3.51
1728 3835 7.168469 GTCTTCTGAGTTCTGACAGTCTTTAAC 59.832 40.741 1.59 3.95 35.84 2.01
1729 3836 6.716934 TCTGAGTTCTGACAGTCTTTAACT 57.283 37.500 12.71 12.71 39.44 2.24
1730 3837 6.740110 TCTGAGTTCTGACAGTCTTTAACTC 58.260 40.000 23.03 23.03 41.89 3.01
1731 3838 5.520632 TGAGTTCTGACAGTCTTTAACTCG 58.479 41.667 23.57 0.00 43.55 4.18
1747 3854 2.611518 ACTCGTGCATGCTTTCTACTC 58.388 47.619 20.33 0.00 0.00 2.59
1749 3856 1.009829 CGTGCATGCTTTCTACTCCC 58.990 55.000 20.33 0.00 0.00 4.30
1750 3857 1.406069 CGTGCATGCTTTCTACTCCCT 60.406 52.381 20.33 0.00 0.00 4.20
1752 3859 1.210478 TGCATGCTTTCTACTCCCTCC 59.790 52.381 20.33 0.00 0.00 4.30
1753 3860 1.808133 GCATGCTTTCTACTCCCTCCG 60.808 57.143 11.37 0.00 0.00 4.63
1754 3861 1.482593 CATGCTTTCTACTCCCTCCGT 59.517 52.381 0.00 0.00 0.00 4.69
1755 3862 1.183549 TGCTTTCTACTCCCTCCGTC 58.816 55.000 0.00 0.00 0.00 4.79
1756 3863 1.183549 GCTTTCTACTCCCTCCGTCA 58.816 55.000 0.00 0.00 0.00 4.35
1757 3864 1.549170 GCTTTCTACTCCCTCCGTCAA 59.451 52.381 0.00 0.00 0.00 3.18
1758 3865 2.417515 GCTTTCTACTCCCTCCGTCAAG 60.418 54.545 0.00 0.00 0.00 3.02
1759 3866 2.893215 TTCTACTCCCTCCGTCAAGA 57.107 50.000 0.00 0.00 0.00 3.02
1760 3867 2.893215 TCTACTCCCTCCGTCAAGAA 57.107 50.000 0.00 0.00 0.00 2.52
1761 3868 3.165087 TCTACTCCCTCCGTCAAGAAA 57.835 47.619 0.00 0.00 0.00 2.52
1762 3869 3.709587 TCTACTCCCTCCGTCAAGAAAT 58.290 45.455 0.00 0.00 0.00 2.17
1763 3870 4.863548 TCTACTCCCTCCGTCAAGAAATA 58.136 43.478 0.00 0.00 0.00 1.40
1764 3871 3.889520 ACTCCCTCCGTCAAGAAATAC 57.110 47.619 0.00 0.00 0.00 1.89
1765 3872 3.442076 ACTCCCTCCGTCAAGAAATACT 58.558 45.455 0.00 0.00 0.00 2.12
1766 3873 3.838903 ACTCCCTCCGTCAAGAAATACTT 59.161 43.478 0.00 0.00 39.70 2.24
1803 3910 8.638685 GCATAAAAATGAATGCATGTAGAACT 57.361 30.769 0.00 0.00 46.19 3.01
1804 3911 9.734620 GCATAAAAATGAATGCATGTAGAACTA 57.265 29.630 0.00 0.00 46.19 2.24
1832 3939 6.865834 ACATCTAGATACATCCATTCCTCC 57.134 41.667 4.54 0.00 0.00 4.30
1833 3940 5.420421 ACATCTAGATACATCCATTCCTCCG 59.580 44.000 4.54 0.00 0.00 4.63
1834 3941 5.256806 TCTAGATACATCCATTCCTCCGA 57.743 43.478 0.00 0.00 0.00 4.55
1835 3942 5.010933 TCTAGATACATCCATTCCTCCGAC 58.989 45.833 0.00 0.00 0.00 4.79
1836 3943 2.558795 AGATACATCCATTCCTCCGACG 59.441 50.000 0.00 0.00 0.00 5.12
1837 3944 2.061509 TACATCCATTCCTCCGACGA 57.938 50.000 0.00 0.00 0.00 4.20
1838 3945 0.747255 ACATCCATTCCTCCGACGAG 59.253 55.000 0.00 0.00 35.72 4.18
1839 3946 0.747255 CATCCATTCCTCCGACGAGT 59.253 55.000 0.00 0.00 33.93 4.18
1840 3947 1.954382 CATCCATTCCTCCGACGAGTA 59.046 52.381 0.00 0.00 33.93 2.59
1841 3948 2.359981 TCCATTCCTCCGACGAGTAT 57.640 50.000 0.00 0.00 33.93 2.12
1842 3949 2.662866 TCCATTCCTCCGACGAGTATT 58.337 47.619 0.00 0.00 33.93 1.89
1843 3950 3.028850 TCCATTCCTCCGACGAGTATTT 58.971 45.455 0.00 0.00 33.93 1.40
1844 3951 3.067742 TCCATTCCTCCGACGAGTATTTC 59.932 47.826 0.00 0.00 33.93 2.17
1845 3952 3.381949 CATTCCTCCGACGAGTATTTCC 58.618 50.000 0.00 0.00 33.93 3.13
1846 3953 1.019673 TCCTCCGACGAGTATTTCCG 58.980 55.000 0.00 0.00 33.93 4.30
1847 3954 0.030369 CCTCCGACGAGTATTTCCGG 59.970 60.000 0.00 0.00 41.36 5.14
1848 3955 1.019673 CTCCGACGAGTATTTCCGGA 58.980 55.000 0.00 0.00 45.74 5.14
1849 3956 0.734889 TCCGACGAGTATTTCCGGAC 59.265 55.000 1.83 0.00 43.47 4.79
1850 3957 0.590732 CCGACGAGTATTTCCGGACG 60.591 60.000 1.83 5.89 42.49 4.79
1851 3958 0.590732 CGACGAGTATTTCCGGACGG 60.591 60.000 1.83 3.96 0.00 4.79
1852 3959 0.734889 GACGAGTATTTCCGGACGGA 59.265 55.000 1.83 9.76 43.52 4.69
1853 3960 0.737219 ACGAGTATTTCCGGACGGAG 59.263 55.000 13.64 3.15 46.06 4.63
1854 3961 0.030369 CGAGTATTTCCGGACGGAGG 59.970 60.000 13.64 0.00 46.06 4.30
1855 3962 0.388294 GAGTATTTCCGGACGGAGGG 59.612 60.000 13.64 0.00 46.06 4.30
1856 3963 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
1857 3964 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
1858 3965 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
1859 3966 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
1860 3967 0.967380 TTTCCGGACGGAGGGAGTAC 60.967 60.000 13.64 0.00 46.06 2.73
1861 3968 1.856539 TTCCGGACGGAGGGAGTACT 61.857 60.000 13.64 0.00 46.06 2.73
1862 3969 1.379576 CCGGACGGAGGGAGTACTT 60.380 63.158 4.40 0.00 37.50 2.24
1863 3970 1.664321 CCGGACGGAGGGAGTACTTG 61.664 65.000 4.40 0.00 37.50 3.16
1864 3971 1.516423 GGACGGAGGGAGTACTTGC 59.484 63.158 0.00 0.00 0.00 4.01
1865 3972 0.971447 GGACGGAGGGAGTACTTGCT 60.971 60.000 0.00 0.00 0.00 3.91
1866 3973 0.896226 GACGGAGGGAGTACTTGCTT 59.104 55.000 0.00 0.00 0.00 3.91
1867 3974 0.896226 ACGGAGGGAGTACTTGCTTC 59.104 55.000 0.00 0.00 0.00 3.86
1868 3975 0.179134 CGGAGGGAGTACTTGCTTCG 60.179 60.000 0.00 0.00 0.00 3.79
1869 3976 1.183549 GGAGGGAGTACTTGCTTCGA 58.816 55.000 0.00 0.00 0.00 3.71
1870 3977 1.135053 GGAGGGAGTACTTGCTTCGAC 60.135 57.143 0.00 0.00 0.00 4.20
1871 3978 0.896226 AGGGAGTACTTGCTTCGACC 59.104 55.000 0.00 0.00 0.00 4.79
1872 3979 0.606604 GGGAGTACTTGCTTCGACCA 59.393 55.000 0.00 0.00 0.00 4.02
1873 3980 1.207329 GGGAGTACTTGCTTCGACCAT 59.793 52.381 0.00 0.00 0.00 3.55
1874 3981 2.429610 GGGAGTACTTGCTTCGACCATA 59.570 50.000 0.00 0.00 0.00 2.74
1875 3982 3.118884 GGGAGTACTTGCTTCGACCATAA 60.119 47.826 0.00 0.00 0.00 1.90
1876 3983 4.443034 GGGAGTACTTGCTTCGACCATAAT 60.443 45.833 0.00 0.00 0.00 1.28
1877 3984 4.745620 GGAGTACTTGCTTCGACCATAATC 59.254 45.833 0.00 0.00 0.00 1.75
1878 3985 5.339008 AGTACTTGCTTCGACCATAATCA 57.661 39.130 0.00 0.00 0.00 2.57
1879 3986 5.352284 AGTACTTGCTTCGACCATAATCAG 58.648 41.667 0.00 0.00 0.00 2.90
1880 3987 3.535561 ACTTGCTTCGACCATAATCAGG 58.464 45.455 0.00 0.00 0.00 3.86
1881 3988 3.197766 ACTTGCTTCGACCATAATCAGGA 59.802 43.478 0.00 0.00 0.00 3.86
1882 3989 3.904800 TGCTTCGACCATAATCAGGAA 57.095 42.857 0.00 0.00 0.00 3.36
1883 3990 3.531538 TGCTTCGACCATAATCAGGAAC 58.468 45.455 0.00 0.00 0.00 3.62
1884 3991 3.197766 TGCTTCGACCATAATCAGGAACT 59.802 43.478 0.00 0.00 43.88 3.01
1885 3992 4.404394 TGCTTCGACCATAATCAGGAACTA 59.596 41.667 0.00 0.00 36.02 2.24
1894 4001 6.180472 CCATAATCAGGAACTACACCACTTT 58.820 40.000 0.00 0.00 36.02 2.66
1907 4014 4.484912 ACACCACTTTTATTGGGGCTAAA 58.515 39.130 0.00 0.00 41.83 1.85
1913 4020 6.156519 CACTTTTATTGGGGCTAAACTGTTC 58.843 40.000 0.00 0.00 0.00 3.18
1918 4025 4.717279 TTGGGGCTAAACTGTTCTTAGT 57.283 40.909 0.00 0.00 0.00 2.24
1923 4030 5.046807 GGGGCTAAACTGTTCTTAGTAGTGA 60.047 44.000 0.00 0.00 0.00 3.41
1924 4031 6.351966 GGGGCTAAACTGTTCTTAGTAGTGAT 60.352 42.308 0.00 0.00 0.00 3.06
1925 4032 7.147776 GGGGCTAAACTGTTCTTAGTAGTGATA 60.148 40.741 0.00 0.00 0.00 2.15
1931 4038 7.997773 ACTGTTCTTAGTAGTGATAGTGTCA 57.002 36.000 0.00 0.00 0.00 3.58
1967 4074 4.822036 AGCAACTCTAGCAGATACGTAG 57.178 45.455 0.08 0.00 0.00 3.51
1970 4077 4.971220 GCAACTCTAGCAGATACGTAGAAC 59.029 45.833 0.08 0.00 0.00 3.01
1975 4082 2.736347 AGCAGATACGTAGAACACCCT 58.264 47.619 0.08 0.00 0.00 4.34
2012 4119 4.668289 CTGTCGTTTTACAGTTTTTGCCT 58.332 39.130 0.00 0.00 41.63 4.75
2017 4124 5.299782 TCGTTTTACAGTTTTTGCCTGGTAT 59.700 36.000 0.00 0.00 34.16 2.73
2020 4127 7.648510 CGTTTTACAGTTTTTGCCTGGTATTTA 59.351 33.333 0.00 0.00 34.16 1.40
2023 4130 3.917985 CAGTTTTTGCCTGGTATTTACGC 59.082 43.478 0.00 0.00 0.00 4.42
2034 4141 4.964593 TGGTATTTACGCTTTCCCCTATC 58.035 43.478 0.00 0.00 0.00 2.08
2052 4159 0.100325 TCGCACAAAAGCAGTTGGTG 59.900 50.000 3.81 3.81 32.50 4.17
2075 4182 2.963498 GTGAAACTTCAGCGGTAACC 57.037 50.000 0.00 0.00 37.98 2.85
2086 4193 4.075682 TCAGCGGTAACCAAATTTCATCA 58.924 39.130 0.00 0.00 0.00 3.07
2088 4195 4.799949 CAGCGGTAACCAAATTTCATCATG 59.200 41.667 0.00 0.00 0.00 3.07
2089 4196 3.551485 GCGGTAACCAAATTTCATCATGC 59.449 43.478 0.00 0.00 0.00 4.06
2149 4256 7.386848 GGGAAATTAATTTCATCATGCATCCAG 59.613 37.037 31.78 0.00 46.03 3.86
2193 4300 9.494271 TGTGAATGCTGATATTTTCTCCTATAC 57.506 33.333 0.00 0.00 0.00 1.47
2291 4399 6.650120 ACCCTATGTCCTGTTTGTATTGTAG 58.350 40.000 0.00 0.00 0.00 2.74
2302 4410 7.121168 CCTGTTTGTATTGTAGTGATTGTGGAT 59.879 37.037 0.00 0.00 0.00 3.41
2303 4411 9.161629 CTGTTTGTATTGTAGTGATTGTGGATA 57.838 33.333 0.00 0.00 0.00 2.59
2309 4417 7.633018 ATTGTAGTGATTGTGGATAGGGTAT 57.367 36.000 0.00 0.00 0.00 2.73
2316 4424 7.891183 AGTGATTGTGGATAGGGTATAGAGTAG 59.109 40.741 0.00 0.00 0.00 2.57
2419 4527 5.410355 TGGCCTCGGGTTATATAATGTAC 57.590 43.478 3.32 0.00 0.00 2.90
2420 4528 5.088730 TGGCCTCGGGTTATATAATGTACT 58.911 41.667 3.32 0.00 0.00 2.73
2425 4533 7.201803 GCCTCGGGTTATATAATGTACTAGAGG 60.202 44.444 16.77 16.77 41.19 3.69
2437 4545 9.839185 ATAATGTACTAGAGGCCTAGGATTTAA 57.161 33.333 14.75 0.00 45.19 1.52
2439 4547 7.983166 TGTACTAGAGGCCTAGGATTTAAAA 57.017 36.000 14.75 0.00 45.19 1.52
2448 4556 5.590663 GGCCTAGGATTTAAAAGAGTCCTTG 59.409 44.000 14.75 10.46 41.22 3.61
2458 4566 0.601311 AGAGTCCTTGTCTTGTGCGC 60.601 55.000 0.00 0.00 0.00 6.09
2470 4578 3.281341 CTTGTGCGCCAAGTTTTATGA 57.719 42.857 22.75 0.00 44.64 2.15
2477 4585 5.405269 GTGCGCCAAGTTTTATGAAATCTTT 59.595 36.000 4.18 0.00 0.00 2.52
2483 4591 9.691362 GCCAAGTTTTATGAAATCTTTCTTGTA 57.309 29.630 4.46 0.00 38.02 2.41
2494 4602 9.878667 TGAAATCTTTCTTGTATACGTAATGGA 57.121 29.630 0.00 0.00 38.02 3.41
2496 4604 9.886132 AAATCTTTCTTGTATACGTAATGGACT 57.114 29.630 0.00 0.00 0.00 3.85
2505 4613 2.726821 ACGTAATGGACTACCCGAAGA 58.273 47.619 0.00 0.00 37.93 2.87
2506 4614 3.294214 ACGTAATGGACTACCCGAAGAT 58.706 45.455 0.00 0.00 37.93 2.40
2510 4618 0.325296 TGGACTACCCGAAGATGCCT 60.325 55.000 0.00 0.00 37.93 4.75
2520 4628 3.463944 CCGAAGATGCCTAATTAACCGT 58.536 45.455 0.00 0.00 0.00 4.83
2524 4632 5.924254 CGAAGATGCCTAATTAACCGTCATA 59.076 40.000 6.89 0.00 0.00 2.15
2538 4646 1.049289 GTCATAGGGTTCCTCGGCCT 61.049 60.000 0.00 0.00 34.61 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.808540 CCTTGCCACATAAATTTCATCACAG 59.191 40.000 0.00 0.00 0.00 3.66
12 13 5.452356 CCCTCCTTGCCACATAAATTTCATC 60.452 44.000 0.00 0.00 0.00 2.92
61 62 1.954146 GCTCGGTGCACAAAGACGA 60.954 57.895 20.43 16.28 42.31 4.20
104 105 8.337532 GCTTACTTTGAGTGCAAATTCAAATTT 58.662 29.630 17.46 12.32 42.66 1.82
117 118 4.749245 AATCAACGGCTTACTTTGAGTG 57.251 40.909 0.00 0.00 32.91 3.51
134 2040 0.534877 AGGCGACACAGCACAAATCA 60.535 50.000 0.00 0.00 39.27 2.57
164 2070 2.542595 GGTAATTCGCAGTTACCCGATG 59.457 50.000 9.60 0.00 43.34 3.84
165 2071 2.168936 TGGTAATTCGCAGTTACCCGAT 59.831 45.455 15.37 0.00 46.78 4.18
177 2083 4.985409 GCTTCATCTCCTAGTGGTAATTCG 59.015 45.833 0.00 0.00 34.23 3.34
192 2098 1.691434 GCTACTAGCAGGGCTTCATCT 59.309 52.381 2.96 0.00 41.89 2.90
199 2105 0.822532 TACTCGGCTACTAGCAGGGC 60.823 60.000 7.90 0.00 40.72 5.19
205 2111 1.491670 TACGCGTACTCGGCTACTAG 58.508 55.000 16.41 0.00 37.56 2.57
206 2112 1.934589 TTACGCGTACTCGGCTACTA 58.065 50.000 20.44 0.00 37.56 1.82
213 2119 1.580704 GTGGTTGATTACGCGTACTCG 59.419 52.381 25.43 3.23 40.37 4.18
222 2128 3.023832 CCAATCAGGGGTGGTTGATTAC 58.976 50.000 0.00 0.00 40.93 1.89
226 2132 0.404040 GTCCAATCAGGGGTGGTTGA 59.596 55.000 0.00 0.00 38.24 3.18
246 2152 4.993029 TCTTTAACCAACACCCAAACAG 57.007 40.909 0.00 0.00 0.00 3.16
268 2182 3.233980 AGTGGCAGCACGAGGTGA 61.234 61.111 16.33 0.00 45.95 4.02
270 2184 4.320456 CCAGTGGCAGCACGAGGT 62.320 66.667 0.00 0.00 0.00 3.85
275 2189 2.117941 GACGAAACCAGTGGCAGCAC 62.118 60.000 9.78 0.00 0.00 4.40
301 2215 3.005897 TCTCAAGACAGAAACGAGGGAAG 59.994 47.826 0.00 0.00 0.00 3.46
420 2338 3.524095 TCTCAGCCTTTTCCCATTTCA 57.476 42.857 0.00 0.00 0.00 2.69
428 2349 5.569441 GCGTTTTATCTTTCTCAGCCTTTTC 59.431 40.000 0.00 0.00 0.00 2.29
502 2430 1.067416 GATACTGCGGGCGACATGA 59.933 57.895 0.00 0.00 0.00 3.07
566 2494 3.632189 AGCGTTTCAGTTTCAAAGATGC 58.368 40.909 0.00 0.00 0.00 3.91
571 2499 3.434637 GCAGAAGCGTTTCAGTTTCAAA 58.565 40.909 14.70 0.00 35.70 2.69
629 2557 4.678509 TCGATGTCCTTTTTATGTGCAC 57.321 40.909 10.75 10.75 0.00 4.57
633 2561 7.661847 AGAGAGTTTTCGATGTCCTTTTTATGT 59.338 33.333 0.00 0.00 0.00 2.29
711 2660 1.379527 CAAACGGAGCCTAATCACCC 58.620 55.000 0.00 0.00 0.00 4.61
719 2668 1.614317 CCTGAATTCCAAACGGAGCCT 60.614 52.381 2.27 0.00 32.88 4.58
755 2729 0.586802 GCGAAAACTCAACCGCTTCT 59.413 50.000 0.00 0.00 43.75 2.85
816 2790 6.535150 TCGTGGTGAAGCTAAGATTATTTCTG 59.465 38.462 0.00 0.00 33.93 3.02
822 2796 4.098044 CCTCTCGTGGTGAAGCTAAGATTA 59.902 45.833 0.00 0.00 0.00 1.75
829 2803 0.605589 CTTCCTCTCGTGGTGAAGCT 59.394 55.000 4.71 0.00 0.00 3.74
1056 3034 1.603802 CATGTCTGTGGGTGTGTGTTC 59.396 52.381 0.00 0.00 0.00 3.18
1066 3062 1.409241 CCAAGGATCCCATGTCTGTGG 60.409 57.143 8.55 0.00 39.05 4.17
1206 3229 1.102222 GGCATCTCCTCGTAGTCCGT 61.102 60.000 0.00 0.00 37.94 4.69
1236 3259 3.842923 CCGGAGCAGGCAGTCGAT 61.843 66.667 0.00 0.00 0.00 3.59
1406 3440 2.938086 TTGCTGCTGCCATTGCTGG 61.938 57.895 13.47 0.00 46.17 4.85
1435 3472 4.310740 AGGTCTTCTTCATACATGGGGAT 58.689 43.478 0.00 0.00 0.00 3.85
1545 3652 4.074970 CAACACCTTCTTCCACTGCTTAT 58.925 43.478 0.00 0.00 0.00 1.73
1576 3683 3.611113 AGCACGACATTACACGTATGAAC 59.389 43.478 3.85 0.00 40.76 3.18
1593 3700 4.262277 CACGTACATACTCTACAAAGCACG 59.738 45.833 0.00 0.00 0.00 5.34
1600 3707 3.264947 AGTCGCACGTACATACTCTACA 58.735 45.455 0.00 0.00 0.00 2.74
1604 3711 3.495193 TCAAAGTCGCACGTACATACTC 58.505 45.455 0.00 0.00 0.00 2.59
1605 3712 3.564235 TCAAAGTCGCACGTACATACT 57.436 42.857 0.00 0.00 0.00 2.12
1606 3713 3.242248 GGATCAAAGTCGCACGTACATAC 59.758 47.826 0.00 0.00 0.00 2.39
1640 3747 0.994995 CGATCGGAACTGCAGAACTG 59.005 55.000 23.35 17.63 0.00 3.16
1650 3757 1.062587 CCTGTGCAAATCGATCGGAAC 59.937 52.381 16.41 4.19 0.00 3.62
1654 3761 0.302890 GAGCCTGTGCAAATCGATCG 59.697 55.000 9.36 9.36 41.13 3.69
1660 3767 0.178953 ACCCTTGAGCCTGTGCAAAT 60.179 50.000 0.00 0.00 41.13 2.32
1674 3781 3.709141 GAGAGCAGATTTCTAGGACCCTT 59.291 47.826 0.00 0.00 0.00 3.95
1684 3791 5.700373 AGAAGACAACAAGAGAGCAGATTTC 59.300 40.000 0.00 0.00 0.00 2.17
1722 3829 4.410492 AGAAAGCATGCACGAGTTAAAG 57.590 40.909 21.98 0.00 0.00 1.85
1728 3835 1.929836 GGAGTAGAAAGCATGCACGAG 59.070 52.381 21.98 0.00 0.00 4.18
1729 3836 1.405526 GGGAGTAGAAAGCATGCACGA 60.406 52.381 21.98 4.40 0.00 4.35
1730 3837 1.009829 GGGAGTAGAAAGCATGCACG 58.990 55.000 21.98 0.00 0.00 5.34
1731 3838 2.284190 GAGGGAGTAGAAAGCATGCAC 58.716 52.381 21.98 8.85 0.00 4.57
1778 3885 8.638685 AGTTCTACATGCATTCATTTTTATGC 57.361 30.769 0.00 0.00 45.66 3.14
1806 3913 8.986991 GGAGGAATGGATGTATCTAGATGTATT 58.013 37.037 15.79 6.57 0.00 1.89
1807 3914 7.286546 CGGAGGAATGGATGTATCTAGATGTAT 59.713 40.741 15.79 9.11 0.00 2.29
1808 3915 6.603599 CGGAGGAATGGATGTATCTAGATGTA 59.396 42.308 15.79 4.44 0.00 2.29
1809 3916 5.420421 CGGAGGAATGGATGTATCTAGATGT 59.580 44.000 15.79 1.25 0.00 3.06
1810 3917 5.654209 TCGGAGGAATGGATGTATCTAGATG 59.346 44.000 15.79 0.00 0.00 2.90
1811 3918 5.654650 GTCGGAGGAATGGATGTATCTAGAT 59.345 44.000 10.73 10.73 0.00 1.98
1812 3919 5.010933 GTCGGAGGAATGGATGTATCTAGA 58.989 45.833 0.00 0.00 0.00 2.43
1813 3920 4.142578 CGTCGGAGGAATGGATGTATCTAG 60.143 50.000 0.00 0.00 0.00 2.43
1814 3921 3.756963 CGTCGGAGGAATGGATGTATCTA 59.243 47.826 0.00 0.00 0.00 1.98
1815 3922 2.558795 CGTCGGAGGAATGGATGTATCT 59.441 50.000 0.00 0.00 0.00 1.98
1816 3923 2.557056 TCGTCGGAGGAATGGATGTATC 59.443 50.000 0.00 0.00 0.00 2.24
1817 3924 2.558795 CTCGTCGGAGGAATGGATGTAT 59.441 50.000 1.73 0.00 36.61 2.29
1818 3925 1.954382 CTCGTCGGAGGAATGGATGTA 59.046 52.381 1.73 0.00 36.61 2.29
1819 3926 0.747255 CTCGTCGGAGGAATGGATGT 59.253 55.000 1.73 0.00 36.61 3.06
1820 3927 0.747255 ACTCGTCGGAGGAATGGATG 59.253 55.000 1.73 0.00 44.93 3.51
1821 3928 2.359981 TACTCGTCGGAGGAATGGAT 57.640 50.000 1.73 0.00 44.93 3.41
1822 3929 2.359981 ATACTCGTCGGAGGAATGGA 57.640 50.000 1.73 0.00 44.93 3.41
1823 3930 3.381949 GAAATACTCGTCGGAGGAATGG 58.618 50.000 1.73 0.00 44.93 3.16
1824 3931 3.381949 GGAAATACTCGTCGGAGGAATG 58.618 50.000 1.73 0.00 44.93 2.67
1825 3932 2.034305 CGGAAATACTCGTCGGAGGAAT 59.966 50.000 1.73 0.00 44.93 3.01
1826 3933 1.402968 CGGAAATACTCGTCGGAGGAA 59.597 52.381 1.73 0.00 44.93 3.36
1827 3934 1.019673 CGGAAATACTCGTCGGAGGA 58.980 55.000 0.00 0.00 44.93 3.71
1828 3935 0.030369 CCGGAAATACTCGTCGGAGG 59.970 60.000 0.00 0.00 44.93 4.30
1829 3936 1.019673 TCCGGAAATACTCGTCGGAG 58.980 55.000 0.00 0.00 43.84 4.63
1830 3937 0.734889 GTCCGGAAATACTCGTCGGA 59.265 55.000 5.23 0.00 46.06 4.55
1831 3938 0.590732 CGTCCGGAAATACTCGTCGG 60.591 60.000 5.23 0.00 41.80 4.79
1832 3939 0.590732 CCGTCCGGAAATACTCGTCG 60.591 60.000 5.23 1.25 37.50 5.12
1833 3940 0.734889 TCCGTCCGGAAATACTCGTC 59.265 55.000 5.23 0.00 42.05 4.20
1834 3941 0.737219 CTCCGTCCGGAAATACTCGT 59.263 55.000 5.23 0.00 44.66 4.18
1835 3942 0.030369 CCTCCGTCCGGAAATACTCG 59.970 60.000 5.23 3.90 44.66 4.18
1836 3943 0.388294 CCCTCCGTCCGGAAATACTC 59.612 60.000 5.23 0.00 44.66 2.59
1837 3944 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
1838 3945 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
1839 3946 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
1840 3947 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
1841 3948 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
1842 3949 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
1843 3950 1.856539 AAGTACTCCCTCCGTCCGGA 61.857 60.000 0.00 0.00 42.90 5.14
1844 3951 1.379576 AAGTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
1845 3952 1.807886 CAAGTACTCCCTCCGTCCG 59.192 63.158 0.00 0.00 0.00 4.79
1846 3953 0.971447 AGCAAGTACTCCCTCCGTCC 60.971 60.000 0.00 0.00 0.00 4.79
1847 3954 0.896226 AAGCAAGTACTCCCTCCGTC 59.104 55.000 0.00 0.00 0.00 4.79
1848 3955 0.896226 GAAGCAAGTACTCCCTCCGT 59.104 55.000 0.00 0.00 0.00 4.69
1849 3956 0.179134 CGAAGCAAGTACTCCCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
1850 3957 1.135053 GTCGAAGCAAGTACTCCCTCC 60.135 57.143 0.00 0.00 0.00 4.30
1851 3958 1.135053 GGTCGAAGCAAGTACTCCCTC 60.135 57.143 0.00 0.00 0.00 4.30
1852 3959 0.896226 GGTCGAAGCAAGTACTCCCT 59.104 55.000 0.00 0.00 0.00 4.20
1853 3960 0.606604 TGGTCGAAGCAAGTACTCCC 59.393 55.000 0.00 0.00 0.00 4.30
1854 3961 2.674796 ATGGTCGAAGCAAGTACTCC 57.325 50.000 0.00 0.00 0.00 3.85
1855 3962 5.348986 TGATTATGGTCGAAGCAAGTACTC 58.651 41.667 0.00 0.00 0.00 2.59
1856 3963 5.339008 TGATTATGGTCGAAGCAAGTACT 57.661 39.130 0.00 0.00 0.00 2.73
1857 3964 4.508124 CCTGATTATGGTCGAAGCAAGTAC 59.492 45.833 0.00 0.00 0.00 2.73
1858 3965 4.404394 TCCTGATTATGGTCGAAGCAAGTA 59.596 41.667 0.00 0.00 0.00 2.24
1859 3966 3.197766 TCCTGATTATGGTCGAAGCAAGT 59.802 43.478 0.00 0.00 0.00 3.16
1860 3967 3.797039 TCCTGATTATGGTCGAAGCAAG 58.203 45.455 0.00 0.00 0.00 4.01
1861 3968 3.904800 TCCTGATTATGGTCGAAGCAA 57.095 42.857 0.00 0.00 0.00 3.91
1862 3969 3.197766 AGTTCCTGATTATGGTCGAAGCA 59.802 43.478 0.00 0.00 0.00 3.91
1863 3970 3.798202 AGTTCCTGATTATGGTCGAAGC 58.202 45.455 0.00 0.00 0.00 3.86
1864 3971 5.749109 GTGTAGTTCCTGATTATGGTCGAAG 59.251 44.000 0.00 0.00 0.00 3.79
1865 3972 5.394883 GGTGTAGTTCCTGATTATGGTCGAA 60.395 44.000 0.00 0.00 0.00 3.71
1866 3973 4.098960 GGTGTAGTTCCTGATTATGGTCGA 59.901 45.833 0.00 0.00 0.00 4.20
1867 3974 4.142026 TGGTGTAGTTCCTGATTATGGTCG 60.142 45.833 0.00 0.00 0.00 4.79
1868 3975 5.104900 AGTGGTGTAGTTCCTGATTATGGTC 60.105 44.000 0.00 0.00 0.00 4.02
1869 3976 4.783227 AGTGGTGTAGTTCCTGATTATGGT 59.217 41.667 0.00 0.00 0.00 3.55
1870 3977 5.359194 AGTGGTGTAGTTCCTGATTATGG 57.641 43.478 0.00 0.00 0.00 2.74
1871 3978 7.687941 AAAAGTGGTGTAGTTCCTGATTATG 57.312 36.000 0.00 0.00 0.00 1.90
1872 3979 9.975218 AATAAAAGTGGTGTAGTTCCTGATTAT 57.025 29.630 0.00 0.00 0.00 1.28
1873 3980 9.226606 CAATAAAAGTGGTGTAGTTCCTGATTA 57.773 33.333 0.00 0.00 0.00 1.75
1874 3981 7.176690 CCAATAAAAGTGGTGTAGTTCCTGATT 59.823 37.037 0.00 0.00 0.00 2.57
1875 3982 6.659242 CCAATAAAAGTGGTGTAGTTCCTGAT 59.341 38.462 0.00 0.00 0.00 2.90
1876 3983 6.001460 CCAATAAAAGTGGTGTAGTTCCTGA 58.999 40.000 0.00 0.00 0.00 3.86
1877 3984 5.183140 CCCAATAAAAGTGGTGTAGTTCCTG 59.817 44.000 0.00 0.00 34.01 3.86
1878 3985 5.321927 CCCAATAAAAGTGGTGTAGTTCCT 58.678 41.667 0.00 0.00 34.01 3.36
1879 3986 4.461431 CCCCAATAAAAGTGGTGTAGTTCC 59.539 45.833 0.00 0.00 34.01 3.62
1880 3987 4.082408 GCCCCAATAAAAGTGGTGTAGTTC 60.082 45.833 0.00 0.00 34.01 3.01
1881 3988 3.830178 GCCCCAATAAAAGTGGTGTAGTT 59.170 43.478 0.00 0.00 34.01 2.24
1882 3989 3.075432 AGCCCCAATAAAAGTGGTGTAGT 59.925 43.478 0.00 0.00 34.01 2.73
1883 3990 3.697166 AGCCCCAATAAAAGTGGTGTAG 58.303 45.455 0.00 0.00 34.01 2.74
1884 3991 3.818295 AGCCCCAATAAAAGTGGTGTA 57.182 42.857 0.00 0.00 34.01 2.90
1885 3992 2.694616 AGCCCCAATAAAAGTGGTGT 57.305 45.000 0.00 0.00 34.01 4.16
1894 4001 6.786122 ACTAAGAACAGTTTAGCCCCAATAA 58.214 36.000 0.00 0.00 32.58 1.40
1907 4014 7.997773 TGACACTATCACTACTAAGAACAGT 57.002 36.000 0.00 0.00 29.99 3.55
1945 4052 4.882427 TCTACGTATCTGCTAGAGTTGCTT 59.118 41.667 0.00 0.00 0.00 3.91
1970 4077 9.374838 ACGACAGTTATTTTATAGTTTAGGGTG 57.625 33.333 0.00 0.00 0.00 4.61
1991 4098 4.416620 CAGGCAAAAACTGTAAAACGACA 58.583 39.130 0.00 0.00 0.00 4.35
2012 4119 4.501915 CGATAGGGGAAAGCGTAAATACCA 60.502 45.833 0.00 0.00 0.00 3.25
2017 4124 1.207570 TGCGATAGGGGAAAGCGTAAA 59.792 47.619 0.00 0.00 0.00 2.01
2020 4127 1.153429 GTGCGATAGGGGAAAGCGT 60.153 57.895 0.00 0.00 0.00 5.07
2023 4130 2.159379 GCTTTTGTGCGATAGGGGAAAG 60.159 50.000 0.00 0.00 0.00 2.62
2034 4141 0.871163 CCACCAACTGCTTTTGTGCG 60.871 55.000 0.00 0.00 35.36 5.34
2052 4159 0.250338 ACCGCTGAAGTTTCACTCCC 60.250 55.000 0.00 0.00 32.90 4.30
2072 4179 9.941325 TTAATACAAGCATGATGAAATTTGGTT 57.059 25.926 0.00 0.00 32.88 3.67
2123 4230 7.218614 TGGATGCATGATGAAATTAATTTCCC 58.781 34.615 29.31 22.69 44.16 3.97
2125 4232 8.882415 ACTGGATGCATGATGAAATTAATTTC 57.118 30.769 27.02 27.02 44.83 2.17
2161 4268 9.622004 GAGAAAATATCAGCATTCACAATATGG 57.378 33.333 0.00 0.00 0.00 2.74
2262 4370 8.966868 CAATACAAACAGGACATAGGGTTTTAT 58.033 33.333 0.00 0.00 31.57 1.40
2273 4381 6.995686 ACAATCACTACAATACAAACAGGACA 59.004 34.615 0.00 0.00 0.00 4.02
2291 4399 6.919775 ACTCTATACCCTATCCACAATCAC 57.080 41.667 0.00 0.00 0.00 3.06
2302 4410 7.313740 AGATCAACGTCTACTCTATACCCTA 57.686 40.000 0.00 0.00 0.00 3.53
2303 4411 6.190346 AGATCAACGTCTACTCTATACCCT 57.810 41.667 0.00 0.00 0.00 4.34
2309 4417 5.068329 TCGAGGTAGATCAACGTCTACTCTA 59.932 44.000 12.27 3.44 46.26 2.43
2391 4499 4.618920 ATATAACCCGAGGCCAAACTAG 57.381 45.455 5.01 0.00 0.00 2.57
2396 4504 4.986054 ACATTATATAACCCGAGGCCAA 57.014 40.909 5.01 0.00 0.00 4.52
2398 4506 5.672421 AGTACATTATATAACCCGAGGCC 57.328 43.478 0.00 0.00 0.00 5.19
2419 4527 7.368198 ACTCTTTTAAATCCTAGGCCTCTAG 57.632 40.000 9.68 0.63 41.95 2.43
2420 4528 6.326843 GGACTCTTTTAAATCCTAGGCCTCTA 59.673 42.308 9.68 0.00 0.00 2.43
2425 4533 6.181190 ACAAGGACTCTTTTAAATCCTAGGC 58.819 40.000 2.96 0.00 40.83 3.93
2436 4544 2.614057 CGCACAAGACAAGGACTCTTTT 59.386 45.455 0.00 0.00 0.00 2.27
2437 4545 2.213499 CGCACAAGACAAGGACTCTTT 58.787 47.619 0.00 0.00 0.00 2.52
2439 4547 0.601311 GCGCACAAGACAAGGACTCT 60.601 55.000 0.30 0.00 0.00 3.24
2468 4576 9.878667 TCCATTACGTATACAAGAAAGATTTCA 57.121 29.630 7.97 0.00 39.61 2.69
2470 4578 9.886132 AGTCCATTACGTATACAAGAAAGATTT 57.114 29.630 3.32 0.00 0.00 2.17
2477 4585 5.239306 CGGGTAGTCCATTACGTATACAAGA 59.761 44.000 3.32 0.00 34.36 3.02
2483 4591 4.464008 TCTTCGGGTAGTCCATTACGTAT 58.536 43.478 0.00 0.00 34.36 3.06
2484 4592 3.884895 TCTTCGGGTAGTCCATTACGTA 58.115 45.455 0.00 0.00 34.36 3.57
2485 4593 2.726821 TCTTCGGGTAGTCCATTACGT 58.273 47.619 0.00 0.00 34.36 3.57
2486 4594 3.639538 CATCTTCGGGTAGTCCATTACG 58.360 50.000 0.00 0.00 34.36 3.18
2487 4595 3.391049 GCATCTTCGGGTAGTCCATTAC 58.609 50.000 0.00 0.00 34.36 1.89
2489 4597 1.141053 GGCATCTTCGGGTAGTCCATT 59.859 52.381 0.00 0.00 34.36 3.16
2490 4598 0.759346 GGCATCTTCGGGTAGTCCAT 59.241 55.000 0.00 0.00 34.36 3.41
2491 4599 0.325296 AGGCATCTTCGGGTAGTCCA 60.325 55.000 0.00 0.00 34.36 4.02
2492 4600 1.700955 TAGGCATCTTCGGGTAGTCC 58.299 55.000 0.00 0.00 0.00 3.85
2493 4601 4.338379 AATTAGGCATCTTCGGGTAGTC 57.662 45.455 0.00 0.00 0.00 2.59
2494 4602 5.454329 GGTTAATTAGGCATCTTCGGGTAGT 60.454 44.000 0.00 0.00 0.00 2.73
2495 4603 4.995487 GGTTAATTAGGCATCTTCGGGTAG 59.005 45.833 0.00 0.00 0.00 3.18
2496 4604 4.501915 CGGTTAATTAGGCATCTTCGGGTA 60.502 45.833 0.00 0.00 0.00 3.69
2497 4605 3.743269 CGGTTAATTAGGCATCTTCGGGT 60.743 47.826 0.00 0.00 0.00 5.28
2505 4613 4.349930 ACCCTATGACGGTTAATTAGGCAT 59.650 41.667 0.00 0.00 0.00 4.40
2506 4614 3.712733 ACCCTATGACGGTTAATTAGGCA 59.287 43.478 0.00 0.00 0.00 4.75
2510 4618 5.221303 CGAGGAACCCTATGACGGTTAATTA 60.221 44.000 0.00 0.00 43.75 1.40
2520 4628 1.313475 AGGCCGAGGAACCCTATGA 59.687 57.895 0.00 0.00 31.76 2.15


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

AutoCloner maintained by Alex Coulton.