Multiple sequence alignment - TraesCS6D01G319400

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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 TraesCS6D01G319400 chr6D 100.000 2252 0 0 1 2252 427341487 427339236 0.000000e+00 4159.0
1 TraesCS6D01G319400 chr6B 88.172 1116 63 18 781 1848 643251802 643250708 0.000000e+00 1266.0
2 TraesCS6D01G319400 chr6B 94.203 138 7 1 2116 2252 643243717 643243580 2.270000e-50 209.0
3 TraesCS6D01G319400 chr6B 92.537 134 5 2 1977 2106 643250711 643250579 1.060000e-43 187.0
4 TraesCS6D01G319400 chr6B 93.333 45 3 0 740 784 693135671 693135715 1.440000e-07 67.6
5 TraesCS6D01G319400 chr6A 85.832 1094 75 35 781 1846 572104262 572103221 0.000000e+00 1088.0
6 TraesCS6D01G319400 chr6A 90.217 276 20 4 1981 2252 572103218 572102946 9.890000e-94 353.0
7 TraesCS6D01G319400 chr3D 92.512 641 41 3 117 751 522089144 522089783 0.000000e+00 911.0
8 TraesCS6D01G319400 chr3D 92.044 641 45 3 117 751 537401089 537400449 0.000000e+00 896.0
9 TraesCS6D01G319400 chr3D 91.576 641 47 3 117 751 429312752 429313391 0.000000e+00 878.0
10 TraesCS6D01G319400 chr3D 91.549 639 48 4 119 751 547931007 547930369 0.000000e+00 876.0
11 TraesCS6D01G319400 chr3D 95.420 131 6 0 1849 1979 363329821 363329691 2.270000e-50 209.0
12 TraesCS6D01G319400 chr3D 98.291 117 2 0 4 120 522088359 522088475 2.930000e-49 206.0
13 TraesCS6D01G319400 chr3D 98.291 117 2 0 4 120 537401873 537401757 2.930000e-49 206.0
14 TraesCS6D01G319400 chr3D 94.615 130 7 0 1849 1978 348544383 348544512 3.790000e-48 202.0
15 TraesCS6D01G319400 chr7D 91.994 637 43 4 118 747 604445183 604445818 0.000000e+00 887.0
16 TraesCS6D01G319400 chr7D 98.333 120 2 0 1 120 155727186 155727305 6.300000e-51 211.0
17 TraesCS6D01G319400 chr7D 95.495 111 5 0 1868 1978 378491217 378491327 6.390000e-41 178.0
18 TraesCS6D01G319400 chr5D 91.628 645 44 4 113 751 430530731 430530091 0.000000e+00 883.0
19 TraesCS6D01G319400 chr5D 95.385 130 6 0 1849 1978 542576456 542576327 8.150000e-50 207.0
20 TraesCS6D01G319400 chr5D 89.764 127 13 0 1849 1975 310278108 310277982 1.790000e-36 163.0
21 TraesCS6D01G319400 chr5D 95.238 42 2 0 743 784 485993481 485993440 1.440000e-07 67.6
22 TraesCS6D01G319400 chr5D 95.238 42 2 0 743 784 499854247 499854288 1.440000e-07 67.6
23 TraesCS6D01G319400 chr2D 91.732 641 45 5 117 751 549980602 549979964 0.000000e+00 883.0
24 TraesCS6D01G319400 chr2D 96.923 130 4 0 1849 1978 414957649 414957778 3.770000e-53 219.0
25 TraesCS6D01G319400 chr2D 97.479 119 3 0 2 120 77221380 77221262 1.050000e-48 204.0
26 TraesCS6D01G319400 chr5B 91.589 642 47 5 117 751 292163508 292164149 0.000000e+00 880.0
27 TraesCS6D01G319400 chr4D 91.576 641 47 4 117 751 35487560 35486921 0.000000e+00 878.0
28 TraesCS6D01G319400 chr4D 93.431 137 9 0 1843 1979 345338772 345338908 1.050000e-48 204.0
29 TraesCS6D01G319400 chr4D 93.333 135 9 0 1849 1983 362783397 362783263 1.360000e-47 200.0
30 TraesCS6D01G319400 chr7B 97.500 120 3 0 1 120 451300649 451300530 2.930000e-49 206.0
31 TraesCS6D01G319400 chr7B 95.238 42 2 0 743 784 14720959 14720918 1.440000e-07 67.6
32 TraesCS6D01G319400 chr7B 95.238 42 2 0 743 784 402830801 402830760 1.440000e-07 67.6
33 TraesCS6D01G319400 chr2B 98.291 117 2 0 4 120 722615652 722615536 2.930000e-49 206.0
34 TraesCS6D01G319400 chr2B 92.157 51 3 1 743 792 427569641 427569591 1.120000e-08 71.3
35 TraesCS6D01G319400 chr2B 95.349 43 2 0 743 785 213983346 213983304 4.010000e-08 69.4
36 TraesCS6D01G319400 chr2A 97.500 120 3 0 1 120 655849361 655849480 2.930000e-49 206.0
37 TraesCS6D01G319400 chr1D 98.291 117 2 0 4 120 196083058 196082942 2.930000e-49 206.0
38 TraesCS6D01G319400 chr3B 94.488 127 7 0 1 127 225297716 225297842 1.760000e-46 196.0
39 TraesCS6D01G319400 chr3B 95.238 42 2 0 743 784 17229319 17229278 1.440000e-07 67.6
40 TraesCS6D01G319400 chr4B 88.148 135 16 0 1845 1979 159606604 159606470 6.440000e-36 161.0
41 TraesCS6D01G319400 chr1B 93.617 47 3 0 740 786 188259530 188259576 1.120000e-08 71.3


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 TraesCS6D01G319400 chr6D 427339236 427341487 2251 True 4159.0 4159 100.0000 1 2252 1 chr6D.!!$R1 2251
1 TraesCS6D01G319400 chr6B 643250579 643251802 1223 True 726.5 1266 90.3545 781 2106 2 chr6B.!!$R2 1325
2 TraesCS6D01G319400 chr6A 572102946 572104262 1316 True 720.5 1088 88.0245 781 2252 2 chr6A.!!$R1 1471
3 TraesCS6D01G319400 chr3D 429312752 429313391 639 False 878.0 878 91.5760 117 751 1 chr3D.!!$F2 634
4 TraesCS6D01G319400 chr3D 547930369 547931007 638 True 876.0 876 91.5490 119 751 1 chr3D.!!$R2 632
5 TraesCS6D01G319400 chr3D 522088359 522089783 1424 False 558.5 911 95.4015 4 751 2 chr3D.!!$F3 747
6 TraesCS6D01G319400 chr3D 537400449 537401873 1424 True 551.0 896 95.1675 4 751 2 chr3D.!!$R3 747
7 TraesCS6D01G319400 chr7D 604445183 604445818 635 False 887.0 887 91.9940 118 747 1 chr7D.!!$F3 629
8 TraesCS6D01G319400 chr5D 430530091 430530731 640 True 883.0 883 91.6280 113 751 1 chr5D.!!$R2 638
9 TraesCS6D01G319400 chr2D 549979964 549980602 638 True 883.0 883 91.7320 117 751 1 chr2D.!!$R2 634
10 TraesCS6D01G319400 chr5B 292163508 292164149 641 False 880.0 880 91.5890 117 751 1 chr5B.!!$F1 634
11 TraesCS6D01G319400 chr4D 35486921 35487560 639 True 878.0 878 91.5760 117 751 1 chr4D.!!$R1 634

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
830 1514 0.60613 TTGCTCTGCTCGGCATTCAA 60.606 50.0 0.0 2.49 38.13 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1929 2672 0.178961 GAAGTTGGGGAGCTGGGTTT 60.179 55.0 0.0 0.0 0.0 3.27 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
40 41 2.158957 TCCTTGATGACCCGATAGCAAC 60.159 50.000 0.00 0.00 0.00 4.17
115 791 6.424812 AGCTTGAAATGCCTACAAAATGTTTC 59.575 34.615 0.00 0.00 37.80 2.78
133 809 1.758936 TCCATGTAGTCATCGTCGGT 58.241 50.000 0.00 0.00 31.15 4.69
256 932 4.636435 CGGGGTGGCGTTGAGGTT 62.636 66.667 0.00 0.00 0.00 3.50
351 1029 2.183555 GCGGGTAGACGTGGAAGG 59.816 66.667 0.00 0.00 35.98 3.46
361 1039 3.467226 GTGGAAGGCGGGGATCGA 61.467 66.667 0.00 0.00 42.43 3.59
494 1172 1.043116 ACCCTAGCATGTAGAGCGCA 61.043 55.000 11.47 0.00 37.01 6.09
700 1384 1.518903 GCACGAGGCTTGCCTTTTCT 61.519 55.000 15.92 0.00 40.25 2.52
712 1396 2.856988 TTTTCTGGAGGGGGCGGT 60.857 61.111 0.00 0.00 0.00 5.68
714 1398 4.649705 TTCTGGAGGGGGCGGTGA 62.650 66.667 0.00 0.00 0.00 4.02
735 1419 2.046864 CCAGACGAGGCGAGGAAGA 61.047 63.158 0.00 0.00 0.00 2.87
760 1444 4.570663 GGCGACGGACGAGATGGG 62.571 72.222 3.67 0.00 45.77 4.00
761 1445 3.823330 GCGACGGACGAGATGGGT 61.823 66.667 3.67 0.00 45.77 4.51
762 1446 2.408022 CGACGGACGAGATGGGTC 59.592 66.667 0.00 0.00 45.77 4.46
763 1447 2.408022 GACGGACGAGATGGGTCG 59.592 66.667 0.00 0.00 45.76 4.79
764 1448 3.753070 GACGGACGAGATGGGTCGC 62.753 68.421 0.00 0.00 44.06 5.19
765 1449 4.570663 CGGACGAGATGGGTCGCC 62.571 72.222 0.00 0.00 44.06 5.54
766 1450 4.222847 GGACGAGATGGGTCGCCC 62.223 72.222 7.87 7.87 44.06 6.13
776 1460 4.324991 GGTCGCCCCGTTGGAGTT 62.325 66.667 0.00 0.00 35.07 3.01
777 1461 3.047877 GTCGCCCCGTTGGAGTTG 61.048 66.667 0.00 0.00 35.07 3.16
795 1479 2.229675 TGCTCTAATCTGTCATGCCG 57.770 50.000 0.00 0.00 0.00 5.69
796 1480 1.482182 TGCTCTAATCTGTCATGCCGT 59.518 47.619 0.00 0.00 0.00 5.68
798 1482 2.748605 CTCTAATCTGTCATGCCGTCC 58.251 52.381 0.00 0.00 0.00 4.79
830 1514 0.606130 TTGCTCTGCTCGGCATTCAA 60.606 50.000 0.00 2.49 38.13 2.69
911 1597 1.058695 CGACACGCCAAGACGTATTTC 59.941 52.381 0.00 0.00 46.34 2.17
949 1635 1.812571 CAGTCCTTTTGCGCTAACCAT 59.187 47.619 9.73 0.00 0.00 3.55
954 1640 1.062587 CTTTTGCGCTAACCATCTCCG 59.937 52.381 9.73 0.00 0.00 4.63
1303 1990 1.061276 GATCCACGCTTCGAGCTTTTC 59.939 52.381 0.00 0.00 39.60 2.29
1315 2005 3.252974 GAGCTTTTCGAATCAGGAGGA 57.747 47.619 0.00 0.00 0.00 3.71
1322 2012 2.168496 TCGAATCAGGAGGAGTTCGTT 58.832 47.619 6.30 0.00 42.74 3.85
1346 2038 1.338136 ATCCGAGCAAAGGGGATCGT 61.338 55.000 0.00 0.00 44.55 3.73
1391 2083 4.484236 TGCACATTGGAATTTCTTTAGCG 58.516 39.130 0.00 0.00 0.00 4.26
1399 2091 4.207955 GGAATTTCTTTAGCGAAGGGGAT 58.792 43.478 0.00 0.00 35.98 3.85
1418 2110 0.461548 TGACTGAGATGGCCATCGAC 59.538 55.000 34.48 30.40 42.48 4.20
1430 2122 1.927895 CCATCGACTTCTGTAGCACC 58.072 55.000 0.00 0.00 0.00 5.01
1431 2123 1.204704 CCATCGACTTCTGTAGCACCA 59.795 52.381 0.00 0.00 0.00 4.17
1434 2126 1.204704 TCGACTTCTGTAGCACCATGG 59.795 52.381 11.19 11.19 0.00 3.66
1496 2192 7.373493 AGCTGTAATTTTTCAACTGATTCCTG 58.627 34.615 0.00 0.00 0.00 3.86
1766 2502 3.238597 ACCCAATTACCACAAGCATGTT 58.761 40.909 0.00 0.00 37.82 2.71
1780 2518 5.807011 ACAAGCATGTTTGTTTGAACTTCTC 59.193 36.000 20.76 0.00 44.24 2.87
1828 2571 2.663279 ACTCGCAACGTTTTCATCAC 57.337 45.000 0.00 0.00 0.00 3.06
1834 2577 2.468777 GCAACGTTTTCATCACAGCAAG 59.531 45.455 0.00 0.00 0.00 4.01
1848 2591 3.011513 GCAAGCAGCATGTTCTTCG 57.988 52.632 0.00 0.00 44.79 3.79
1849 2592 0.455633 GCAAGCAGCATGTTCTTCGG 60.456 55.000 0.00 0.00 44.79 4.30
1850 2593 0.455633 CAAGCAGCATGTTCTTCGGC 60.456 55.000 0.00 0.00 39.31 5.54
1851 2594 0.607489 AAGCAGCATGTTCTTCGGCT 60.607 50.000 0.00 0.00 39.31 5.52
1853 2596 1.136147 CAGCATGTTCTTCGGCTGC 59.864 57.895 0.00 0.00 46.00 5.25
1854 2597 2.099062 GCATGTTCTTCGGCTGCG 59.901 61.111 0.00 0.00 0.00 5.18
1855 2598 2.680913 GCATGTTCTTCGGCTGCGT 61.681 57.895 0.00 0.00 0.00 5.24
1856 2599 1.868997 CATGTTCTTCGGCTGCGTT 59.131 52.632 0.00 0.00 0.00 4.84
1857 2600 0.179215 CATGTTCTTCGGCTGCGTTC 60.179 55.000 0.00 0.00 0.00 3.95
1858 2601 1.626654 ATGTTCTTCGGCTGCGTTCG 61.627 55.000 0.00 0.00 0.00 3.95
1859 2602 2.736995 TTCTTCGGCTGCGTTCGG 60.737 61.111 0.00 0.00 0.00 4.30
1860 2603 3.509137 TTCTTCGGCTGCGTTCGGT 62.509 57.895 0.00 0.00 0.00 4.69
1861 2604 2.981977 TTCTTCGGCTGCGTTCGGTT 62.982 55.000 0.00 0.00 0.00 4.44
1862 2605 2.589442 TTCGGCTGCGTTCGGTTT 60.589 55.556 0.00 0.00 0.00 3.27
1863 2606 2.494504 CTTCGGCTGCGTTCGGTTTC 62.495 60.000 0.00 0.00 0.00 2.78
1864 2607 2.981977 TTCGGCTGCGTTCGGTTTCT 62.982 55.000 0.00 0.00 0.00 2.52
1865 2608 2.861006 GGCTGCGTTCGGTTTCTC 59.139 61.111 0.00 0.00 0.00 2.87
1866 2609 1.668151 GGCTGCGTTCGGTTTCTCT 60.668 57.895 0.00 0.00 0.00 3.10
1867 2610 1.627550 GGCTGCGTTCGGTTTCTCTC 61.628 60.000 0.00 0.00 0.00 3.20
1868 2611 1.945776 GCTGCGTTCGGTTTCTCTCG 61.946 60.000 0.00 0.00 0.00 4.04
1869 2612 1.344942 CTGCGTTCGGTTTCTCTCGG 61.345 60.000 0.00 0.00 0.00 4.63
1870 2613 2.727684 GCGTTCGGTTTCTCTCGGC 61.728 63.158 0.00 0.00 0.00 5.54
1871 2614 1.080705 CGTTCGGTTTCTCTCGGCT 60.081 57.895 0.00 0.00 0.00 5.52
1872 2615 1.071567 CGTTCGGTTTCTCTCGGCTC 61.072 60.000 0.00 0.00 0.00 4.70
1873 2616 1.071567 GTTCGGTTTCTCTCGGCTCG 61.072 60.000 0.00 0.00 0.00 5.03
1874 2617 1.521450 TTCGGTTTCTCTCGGCTCGT 61.521 55.000 0.00 0.00 0.00 4.18
1875 2618 1.080705 CGGTTTCTCTCGGCTCGTT 60.081 57.895 0.00 0.00 0.00 3.85
1876 2619 0.666577 CGGTTTCTCTCGGCTCGTTT 60.667 55.000 0.00 0.00 0.00 3.60
1877 2620 1.401931 CGGTTTCTCTCGGCTCGTTTA 60.402 52.381 0.00 0.00 0.00 2.01
1878 2621 2.680577 GGTTTCTCTCGGCTCGTTTAA 58.319 47.619 0.00 0.00 0.00 1.52
1879 2622 2.411069 GGTTTCTCTCGGCTCGTTTAAC 59.589 50.000 0.00 0.00 0.00 2.01
1880 2623 3.315418 GTTTCTCTCGGCTCGTTTAACT 58.685 45.455 0.00 0.00 0.00 2.24
1881 2624 2.915738 TCTCTCGGCTCGTTTAACTC 57.084 50.000 0.00 0.00 0.00 3.01
1882 2625 2.434428 TCTCTCGGCTCGTTTAACTCT 58.566 47.619 0.00 0.00 0.00 3.24
1883 2626 2.161808 TCTCTCGGCTCGTTTAACTCTG 59.838 50.000 0.00 0.00 0.00 3.35
1884 2627 0.992802 CTCGGCTCGTTTAACTCTGC 59.007 55.000 0.00 0.00 0.00 4.26
1885 2628 0.601558 TCGGCTCGTTTAACTCTGCT 59.398 50.000 0.00 0.00 0.00 4.24
1886 2629 0.992802 CGGCTCGTTTAACTCTGCTC 59.007 55.000 0.00 0.00 0.00 4.26
1887 2630 1.360820 GGCTCGTTTAACTCTGCTCC 58.639 55.000 0.00 0.00 0.00 4.70
1888 2631 0.992802 GCTCGTTTAACTCTGCTCCG 59.007 55.000 0.00 0.00 0.00 4.63
1889 2632 1.630148 CTCGTTTAACTCTGCTCCGG 58.370 55.000 0.00 0.00 0.00 5.14
1890 2633 0.245539 TCGTTTAACTCTGCTCCGGG 59.754 55.000 0.00 0.00 0.00 5.73
1891 2634 0.245539 CGTTTAACTCTGCTCCGGGA 59.754 55.000 0.00 0.00 0.00 5.14
1892 2635 1.736032 CGTTTAACTCTGCTCCGGGAG 60.736 57.143 19.95 19.95 35.86 4.30
1893 2636 1.275573 GTTTAACTCTGCTCCGGGAGT 59.724 52.381 24.30 2.96 43.60 3.85
1894 2637 0.895530 TTAACTCTGCTCCGGGAGTG 59.104 55.000 24.30 17.14 41.28 3.51
1895 2638 0.970937 TAACTCTGCTCCGGGAGTGG 60.971 60.000 24.30 16.74 41.28 4.00
1896 2639 2.363018 CTCTGCTCCGGGAGTGGA 60.363 66.667 24.30 19.55 36.37 4.02
1897 2640 2.680352 TCTGCTCCGGGAGTGGAC 60.680 66.667 24.30 8.98 33.48 4.02
1898 2641 3.775654 CTGCTCCGGGAGTGGACC 61.776 72.222 24.30 8.62 33.48 4.46
1899 2642 4.631740 TGCTCCGGGAGTGGACCA 62.632 66.667 24.30 11.13 33.48 4.02
1900 2643 3.775654 GCTCCGGGAGTGGACCAG 61.776 72.222 24.30 0.00 33.48 4.00
1901 2644 2.037367 CTCCGGGAGTGGACCAGA 59.963 66.667 16.15 0.00 33.48 3.86
1902 2645 2.283676 TCCGGGAGTGGACCAGAC 60.284 66.667 0.00 0.00 31.53 3.51
1903 2646 2.283966 CCGGGAGTGGACCAGACT 60.284 66.667 0.00 0.00 0.00 3.24
1904 2647 1.913762 CCGGGAGTGGACCAGACTT 60.914 63.158 0.00 0.00 0.00 3.01
1905 2648 1.481056 CCGGGAGTGGACCAGACTTT 61.481 60.000 0.00 0.00 0.00 2.66
1906 2649 1.263356 CGGGAGTGGACCAGACTTTA 58.737 55.000 0.00 0.00 0.00 1.85
1907 2650 1.204941 CGGGAGTGGACCAGACTTTAG 59.795 57.143 0.00 0.00 0.00 1.85
1908 2651 1.066071 GGGAGTGGACCAGACTTTAGC 60.066 57.143 0.00 0.00 0.00 3.09
1909 2652 1.903183 GGAGTGGACCAGACTTTAGCT 59.097 52.381 0.00 0.00 0.00 3.32
1910 2653 2.303311 GGAGTGGACCAGACTTTAGCTT 59.697 50.000 0.00 0.00 0.00 3.74
1911 2654 3.514309 GGAGTGGACCAGACTTTAGCTTA 59.486 47.826 0.00 0.00 0.00 3.09
1912 2655 4.020485 GGAGTGGACCAGACTTTAGCTTAA 60.020 45.833 0.00 0.00 0.00 1.85
1913 2656 5.338463 GGAGTGGACCAGACTTTAGCTTAAT 60.338 44.000 0.00 0.00 0.00 1.40
1914 2657 6.128138 AGTGGACCAGACTTTAGCTTAATT 57.872 37.500 0.00 0.00 0.00 1.40
1915 2658 6.543735 AGTGGACCAGACTTTAGCTTAATTT 58.456 36.000 0.00 0.00 0.00 1.82
1916 2659 7.004691 AGTGGACCAGACTTTAGCTTAATTTT 58.995 34.615 0.00 0.00 0.00 1.82
1917 2660 8.161425 AGTGGACCAGACTTTAGCTTAATTTTA 58.839 33.333 0.00 0.00 0.00 1.52
1918 2661 8.957466 GTGGACCAGACTTTAGCTTAATTTTAT 58.043 33.333 0.00 0.00 0.00 1.40
1919 2662 8.956426 TGGACCAGACTTTAGCTTAATTTTATG 58.044 33.333 0.00 0.00 0.00 1.90
1920 2663 8.406297 GGACCAGACTTTAGCTTAATTTTATGG 58.594 37.037 0.00 0.00 0.00 2.74
1921 2664 9.174166 GACCAGACTTTAGCTTAATTTTATGGA 57.826 33.333 0.00 0.00 0.00 3.41
1922 2665 9.178758 ACCAGACTTTAGCTTAATTTTATGGAG 57.821 33.333 0.00 0.00 0.00 3.86
1923 2666 8.131731 CCAGACTTTAGCTTAATTTTATGGAGC 58.868 37.037 0.00 0.00 0.00 4.70
1924 2667 8.897752 CAGACTTTAGCTTAATTTTATGGAGCT 58.102 33.333 0.00 1.58 45.01 4.09
1925 2668 8.897752 AGACTTTAGCTTAATTTTATGGAGCTG 58.102 33.333 6.44 0.00 43.06 4.24
1926 2669 7.484140 ACTTTAGCTTAATTTTATGGAGCTGC 58.516 34.615 0.00 0.00 43.06 5.25
1927 2670 4.926140 AGCTTAATTTTATGGAGCTGCC 57.074 40.909 1.53 0.00 41.75 4.85
1935 2678 2.605873 TGGAGCTGCCAAAACCCA 59.394 55.556 1.53 0.00 45.87 4.51
1936 2679 1.531365 TGGAGCTGCCAAAACCCAG 60.531 57.895 1.53 0.00 45.87 4.45
1940 2683 3.369921 CTGCCAAAACCCAGCTCC 58.630 61.111 0.00 0.00 0.00 4.70
1941 2684 2.203625 TGCCAAAACCCAGCTCCC 60.204 61.111 0.00 0.00 0.00 4.30
1942 2685 2.997315 GCCAAAACCCAGCTCCCC 60.997 66.667 0.00 0.00 0.00 4.81
1943 2686 2.525592 CCAAAACCCAGCTCCCCA 59.474 61.111 0.00 0.00 0.00 4.96
1944 2687 1.152355 CCAAAACCCAGCTCCCCAA 60.152 57.895 0.00 0.00 0.00 4.12
1945 2688 1.471829 CCAAAACCCAGCTCCCCAAC 61.472 60.000 0.00 0.00 0.00 3.77
1946 2689 0.469892 CAAAACCCAGCTCCCCAACT 60.470 55.000 0.00 0.00 0.00 3.16
1947 2690 0.264657 AAAACCCAGCTCCCCAACTT 59.735 50.000 0.00 0.00 0.00 2.66
1948 2691 0.178961 AAACCCAGCTCCCCAACTTC 60.179 55.000 0.00 0.00 0.00 3.01
1949 2692 1.360393 AACCCAGCTCCCCAACTTCA 61.360 55.000 0.00 0.00 0.00 3.02
1950 2693 1.303643 CCCAGCTCCCCAACTTCAC 60.304 63.158 0.00 0.00 0.00 3.18
1951 2694 1.672356 CCAGCTCCCCAACTTCACG 60.672 63.158 0.00 0.00 0.00 4.35
1952 2695 1.672356 CAGCTCCCCAACTTCACGG 60.672 63.158 0.00 0.00 0.00 4.94
1953 2696 1.841556 AGCTCCCCAACTTCACGGA 60.842 57.895 0.00 0.00 0.00 4.69
1954 2697 1.376037 GCTCCCCAACTTCACGGAG 60.376 63.158 0.00 0.00 44.05 4.63
1955 2698 1.376037 CTCCCCAACTTCACGGAGC 60.376 63.158 0.00 0.00 35.80 4.70
1956 2699 2.742372 CCCCAACTTCACGGAGCG 60.742 66.667 0.00 0.00 0.00 5.03
1957 2700 3.423154 CCCAACTTCACGGAGCGC 61.423 66.667 0.00 0.00 0.00 5.92
1958 2701 3.777925 CCAACTTCACGGAGCGCG 61.778 66.667 0.00 0.00 0.00 6.86
1959 2702 4.430423 CAACTTCACGGAGCGCGC 62.430 66.667 26.66 26.66 0.00 6.86
1960 2703 4.961511 AACTTCACGGAGCGCGCA 62.962 61.111 35.10 8.46 0.00 6.09
1961 2704 4.961511 ACTTCACGGAGCGCGCAA 62.962 61.111 35.10 16.60 0.00 4.85
1962 2705 4.139420 CTTCACGGAGCGCGCAAG 62.139 66.667 35.10 24.77 43.44 4.01
1974 2717 3.121030 CGCAAGCTCCGAACAGGG 61.121 66.667 0.82 0.00 41.52 4.45
1975 2718 3.435186 GCAAGCTCCGAACAGGGC 61.435 66.667 0.00 0.00 41.52 5.19
1976 2719 2.747855 CAAGCTCCGAACAGGGCC 60.748 66.667 0.00 0.00 41.52 5.80
1977 2720 2.930562 AAGCTCCGAACAGGGCCT 60.931 61.111 0.00 0.00 41.52 5.19
1978 2721 2.529744 AAGCTCCGAACAGGGCCTT 61.530 57.895 1.32 0.00 41.52 4.35
1979 2722 2.747855 GCTCCGAACAGGGCCTTG 60.748 66.667 14.35 14.35 41.52 3.61
2006 2749 4.494350 ACAATGTCATGTGCTTCAACTC 57.506 40.909 0.00 0.00 30.82 3.01
2048 2795 3.270877 AGGATTGCCGTAACTGATTGAC 58.729 45.455 0.00 0.00 39.96 3.18
2109 2859 3.295973 CCTTTCCCCTGACACTTTTGAA 58.704 45.455 0.00 0.00 0.00 2.69
2120 2870 6.389830 TGACACTTTTGAACTTATGTGCAT 57.610 33.333 0.00 0.00 30.60 3.96
2189 2939 7.428020 ACGTCTTGTCACAAACACTAATACTA 58.572 34.615 0.00 0.00 37.70 1.82
2190 2940 7.380602 ACGTCTTGTCACAAACACTAATACTAC 59.619 37.037 0.00 0.00 37.70 2.73
2191 2941 7.594015 CGTCTTGTCACAAACACTAATACTACT 59.406 37.037 0.00 0.00 37.70 2.57
2192 2942 9.257651 GTCTTGTCACAAACACTAATACTACTT 57.742 33.333 0.00 0.00 37.70 2.24
2193 2943 9.472361 TCTTGTCACAAACACTAATACTACTTC 57.528 33.333 0.00 0.00 37.70 3.01
2219 2970 9.426837 CACATCTTTGTCCATTATTGTTTTCAT 57.573 29.630 0.00 0.00 32.34 2.57
2226 2977 9.993454 TTGTCCATTATTGTTTTCATTGATTCA 57.007 25.926 0.00 0.00 0.00 2.57
2242 2993 9.016438 TCATTGATTCAGATTTTCTCATCAACA 57.984 29.630 9.34 0.00 36.66 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.039074 ACGAGGAGAAGTGCAAGACG 60.039 55.000 0.00 0.00 0.00 4.18
1 2 1.670380 GGACGAGGAGAAGTGCAAGAC 60.670 57.143 0.00 0.00 0.00 3.01
2 3 0.603569 GGACGAGGAGAAGTGCAAGA 59.396 55.000 0.00 0.00 0.00 3.02
7 8 2.493675 TCATCAAGGACGAGGAGAAGTG 59.506 50.000 0.00 0.00 0.00 3.16
40 41 0.035458 AAGTGCTTCAACCTCTCCCG 59.965 55.000 0.00 0.00 0.00 5.14
115 791 1.536072 CCACCGACGATGACTACATGG 60.536 57.143 0.00 0.00 36.82 3.66
133 809 3.969250 GAGGAAATGCCGTCCGCCA 62.969 63.158 0.00 0.00 43.43 5.69
332 1010 1.445582 CTTCCACGTCTACCCGCAC 60.446 63.158 0.00 0.00 0.00 5.34
351 1029 2.435938 TTGCAACTCGATCCCCGC 60.436 61.111 0.00 0.00 38.37 6.13
562 1245 4.514577 CGCGAGGAATGAGGCCGT 62.515 66.667 0.00 0.00 0.00 5.68
719 1403 2.400158 CGTCTTCCTCGCCTCGTCT 61.400 63.158 0.00 0.00 0.00 4.18
747 1431 3.823330 GCGACCCATCTCGTCCGT 61.823 66.667 0.00 0.00 35.99 4.69
760 1444 3.047877 CAACTCCAACGGGGCGAC 61.048 66.667 0.00 0.00 36.21 5.19
763 1447 2.180159 TAGAGCAACTCCAACGGGGC 62.180 60.000 0.00 0.00 36.21 5.80
764 1448 0.323629 TTAGAGCAACTCCAACGGGG 59.676 55.000 0.00 0.00 38.37 5.73
765 1449 2.093447 AGATTAGAGCAACTCCAACGGG 60.093 50.000 0.00 0.00 0.00 5.28
766 1450 2.932614 CAGATTAGAGCAACTCCAACGG 59.067 50.000 0.00 0.00 0.00 4.44
767 1451 3.589988 ACAGATTAGAGCAACTCCAACG 58.410 45.455 0.00 0.00 0.00 4.10
768 1452 4.569943 TGACAGATTAGAGCAACTCCAAC 58.430 43.478 0.00 0.00 0.00 3.77
769 1453 4.890158 TGACAGATTAGAGCAACTCCAA 57.110 40.909 0.00 0.00 0.00 3.53
770 1454 4.763073 CATGACAGATTAGAGCAACTCCA 58.237 43.478 0.00 0.00 0.00 3.86
771 1455 3.559242 GCATGACAGATTAGAGCAACTCC 59.441 47.826 0.00 0.00 0.00 3.85
772 1456 3.559242 GGCATGACAGATTAGAGCAACTC 59.441 47.826 0.00 0.00 0.00 3.01
773 1457 3.539604 GGCATGACAGATTAGAGCAACT 58.460 45.455 0.00 0.00 0.00 3.16
774 1458 2.286294 CGGCATGACAGATTAGAGCAAC 59.714 50.000 0.00 0.00 0.00 4.17
775 1459 2.093500 ACGGCATGACAGATTAGAGCAA 60.093 45.455 0.00 0.00 0.00 3.91
776 1460 1.482182 ACGGCATGACAGATTAGAGCA 59.518 47.619 0.00 0.00 0.00 4.26
777 1461 2.131183 GACGGCATGACAGATTAGAGC 58.869 52.381 0.00 0.00 0.00 4.09
778 1462 2.101415 TGGACGGCATGACAGATTAGAG 59.899 50.000 0.00 0.00 0.00 2.43
779 1463 2.107366 TGGACGGCATGACAGATTAGA 58.893 47.619 0.00 0.00 0.00 2.10
795 1479 0.744771 GCAAGAAGGGGATCGTGGAC 60.745 60.000 0.00 0.00 30.70 4.02
796 1480 0.909610 AGCAAGAAGGGGATCGTGGA 60.910 55.000 0.00 0.00 30.70 4.02
798 1482 0.539051 AGAGCAAGAAGGGGATCGTG 59.461 55.000 0.00 0.00 32.80 4.35
1276 1962 1.296715 GAAGCGTGGATCCTGGTGT 59.703 57.895 14.23 2.82 0.00 4.16
1281 1967 2.496817 GCTCGAAGCGTGGATCCT 59.503 61.111 14.23 0.00 0.00 3.24
1304 1991 3.056465 AGTGAACGAACTCCTCCTGATTC 60.056 47.826 0.00 0.00 0.00 2.52
1305 1992 2.900546 AGTGAACGAACTCCTCCTGATT 59.099 45.455 0.00 0.00 0.00 2.57
1307 1994 1.996798 AGTGAACGAACTCCTCCTGA 58.003 50.000 0.00 0.00 0.00 3.86
1310 2000 2.223525 CGGATAGTGAACGAACTCCTCC 60.224 54.545 0.00 0.00 32.54 4.30
1315 2005 1.816835 TGCTCGGATAGTGAACGAACT 59.183 47.619 0.00 0.00 36.08 3.01
1322 2012 0.830648 CCCCTTTGCTCGGATAGTGA 59.169 55.000 0.00 0.00 0.00 3.41
1353 2045 1.063972 GCAGCAAGACGCACACAAA 59.936 52.632 0.00 0.00 46.13 2.83
1362 2054 3.308438 AATTCCAATGTGCAGCAAGAC 57.692 42.857 0.00 0.00 0.00 3.01
1367 2059 4.328169 GCTAAAGAAATTCCAATGTGCAGC 59.672 41.667 0.00 0.00 0.00 5.25
1368 2060 4.560035 CGCTAAAGAAATTCCAATGTGCAG 59.440 41.667 0.00 0.00 0.00 4.41
1391 2083 1.202746 GCCATCTCAGTCATCCCCTTC 60.203 57.143 0.00 0.00 0.00 3.46
1399 2091 0.461548 GTCGATGGCCATCTCAGTCA 59.538 55.000 36.51 15.10 35.72 3.41
1418 2110 2.501723 AGGTACCATGGTGCTACAGAAG 59.498 50.000 28.95 0.00 0.00 2.85
1430 2122 7.011763 CACAATTCATACAGAGAAGGTACCATG 59.988 40.741 15.94 6.47 0.00 3.66
1431 2123 7.050377 CACAATTCATACAGAGAAGGTACCAT 58.950 38.462 15.94 0.42 0.00 3.55
1434 2126 6.313905 CACCACAATTCATACAGAGAAGGTAC 59.686 42.308 0.00 0.00 0.00 3.34
1437 2129 4.095483 GCACCACAATTCATACAGAGAAGG 59.905 45.833 0.00 0.00 0.00 3.46
1440 2132 4.558226 AGCACCACAATTCATACAGAGA 57.442 40.909 0.00 0.00 0.00 3.10
1496 2192 2.223044 GCAGCATTACTAAACTGCGACC 60.223 50.000 10.00 0.00 45.23 4.79
1677 2413 7.149202 ACCCATTAGCTTTGTATGGAAGATA 57.851 36.000 14.76 0.00 41.05 1.98
1780 2518 1.993542 TGCTGTGCACAACAAACTTG 58.006 45.000 20.16 7.26 38.67 3.16
1788 2527 2.333291 CAGACCATGCTGTGCACAA 58.667 52.632 21.98 7.43 43.04 3.33
1813 2556 2.118228 TGCTGTGATGAAAACGTTGC 57.882 45.000 0.00 0.00 0.00 4.17
1817 2560 2.313234 CTGCTTGCTGTGATGAAAACG 58.687 47.619 0.00 0.00 0.00 3.60
1823 2566 0.526211 ACATGCTGCTTGCTGTGATG 59.474 50.000 14.63 3.43 43.37 3.07
1828 2571 1.728179 CGAAGAACATGCTGCTTGCTG 60.728 52.381 14.63 3.47 43.37 4.41
1834 2577 1.136147 CAGCCGAAGAACATGCTGC 59.864 57.895 0.00 0.00 43.96 5.25
1848 2591 1.627550 GAGAGAAACCGAACGCAGCC 61.628 60.000 0.00 0.00 0.00 4.85
1849 2592 1.782181 GAGAGAAACCGAACGCAGC 59.218 57.895 0.00 0.00 0.00 5.25
1850 2593 1.344942 CCGAGAGAAACCGAACGCAG 61.345 60.000 0.00 0.00 0.00 5.18
1851 2594 1.372499 CCGAGAGAAACCGAACGCA 60.372 57.895 0.00 0.00 0.00 5.24
1852 2595 2.727684 GCCGAGAGAAACCGAACGC 61.728 63.158 0.00 0.00 0.00 4.84
1853 2596 1.071567 GAGCCGAGAGAAACCGAACG 61.072 60.000 0.00 0.00 0.00 3.95
1854 2597 1.071567 CGAGCCGAGAGAAACCGAAC 61.072 60.000 0.00 0.00 0.00 3.95
1855 2598 1.211969 CGAGCCGAGAGAAACCGAA 59.788 57.895 0.00 0.00 0.00 4.30
1856 2599 1.521450 AACGAGCCGAGAGAAACCGA 61.521 55.000 1.50 0.00 0.00 4.69
1857 2600 0.666577 AAACGAGCCGAGAGAAACCG 60.667 55.000 1.50 0.00 0.00 4.44
1858 2601 2.358939 TAAACGAGCCGAGAGAAACC 57.641 50.000 1.50 0.00 0.00 3.27
1859 2602 3.315418 AGTTAAACGAGCCGAGAGAAAC 58.685 45.455 1.50 0.00 0.00 2.78
1860 2603 3.255149 AGAGTTAAACGAGCCGAGAGAAA 59.745 43.478 1.50 0.00 0.00 2.52
1861 2604 2.818432 AGAGTTAAACGAGCCGAGAGAA 59.182 45.455 1.50 0.00 0.00 2.87
1862 2605 2.161808 CAGAGTTAAACGAGCCGAGAGA 59.838 50.000 1.50 0.00 0.00 3.10
1863 2606 2.520979 CAGAGTTAAACGAGCCGAGAG 58.479 52.381 1.50 0.00 0.00 3.20
1864 2607 1.402456 GCAGAGTTAAACGAGCCGAGA 60.402 52.381 1.50 0.00 0.00 4.04
1865 2608 0.992802 GCAGAGTTAAACGAGCCGAG 59.007 55.000 1.50 0.00 0.00 4.63
1866 2609 0.601558 AGCAGAGTTAAACGAGCCGA 59.398 50.000 1.50 0.00 0.00 5.54
1867 2610 0.992802 GAGCAGAGTTAAACGAGCCG 59.007 55.000 0.00 0.00 0.00 5.52
1868 2611 1.360820 GGAGCAGAGTTAAACGAGCC 58.639 55.000 0.00 0.00 0.00 4.70
1869 2612 0.992802 CGGAGCAGAGTTAAACGAGC 59.007 55.000 0.00 0.00 0.00 5.03
1870 2613 1.630148 CCGGAGCAGAGTTAAACGAG 58.370 55.000 0.00 0.00 0.00 4.18
1871 2614 0.245539 CCCGGAGCAGAGTTAAACGA 59.754 55.000 0.73 0.00 0.00 3.85
1872 2615 0.245539 TCCCGGAGCAGAGTTAAACG 59.754 55.000 0.73 0.00 0.00 3.60
1873 2616 1.275573 ACTCCCGGAGCAGAGTTAAAC 59.724 52.381 14.86 0.00 40.43 2.01
1874 2617 1.275291 CACTCCCGGAGCAGAGTTAAA 59.725 52.381 14.86 0.00 41.38 1.52
1875 2618 0.895530 CACTCCCGGAGCAGAGTTAA 59.104 55.000 14.86 0.00 41.38 2.01
1876 2619 0.970937 CCACTCCCGGAGCAGAGTTA 60.971 60.000 14.86 0.00 41.38 2.24
1877 2620 2.286523 CCACTCCCGGAGCAGAGTT 61.287 63.158 14.86 0.00 41.38 3.01
1878 2621 2.681778 CCACTCCCGGAGCAGAGT 60.682 66.667 14.86 3.69 44.12 3.24
1879 2622 2.363018 TCCACTCCCGGAGCAGAG 60.363 66.667 14.86 2.90 36.16 3.35
1880 2623 2.680352 GTCCACTCCCGGAGCAGA 60.680 66.667 14.86 8.55 35.10 4.26
1884 2627 2.037367 TCTGGTCCACTCCCGGAG 59.963 66.667 13.31 13.31 35.10 4.63
1885 2628 2.283676 GTCTGGTCCACTCCCGGA 60.284 66.667 0.73 0.00 34.95 5.14
1886 2629 1.481056 AAAGTCTGGTCCACTCCCGG 61.481 60.000 0.00 0.00 0.00 5.73
1887 2630 1.204941 CTAAAGTCTGGTCCACTCCCG 59.795 57.143 0.00 0.00 0.00 5.14
1888 2631 1.066071 GCTAAAGTCTGGTCCACTCCC 60.066 57.143 0.00 0.00 0.00 4.30
1889 2632 1.903183 AGCTAAAGTCTGGTCCACTCC 59.097 52.381 0.00 0.00 0.00 3.85
1890 2633 3.686916 AAGCTAAAGTCTGGTCCACTC 57.313 47.619 0.00 0.00 0.00 3.51
1891 2634 5.763876 ATTAAGCTAAAGTCTGGTCCACT 57.236 39.130 0.00 0.00 0.00 4.00
1892 2635 6.819397 AAATTAAGCTAAAGTCTGGTCCAC 57.181 37.500 0.00 0.00 0.00 4.02
1893 2636 8.956426 CATAAAATTAAGCTAAAGTCTGGTCCA 58.044 33.333 0.00 0.00 0.00 4.02
1894 2637 8.406297 CCATAAAATTAAGCTAAAGTCTGGTCC 58.594 37.037 0.00 0.00 0.00 4.46
1895 2638 9.174166 TCCATAAAATTAAGCTAAAGTCTGGTC 57.826 33.333 0.00 0.00 0.00 4.02
1896 2639 9.178758 CTCCATAAAATTAAGCTAAAGTCTGGT 57.821 33.333 0.00 0.00 0.00 4.00
1897 2640 8.131731 GCTCCATAAAATTAAGCTAAAGTCTGG 58.868 37.037 0.00 0.00 0.00 3.86
1898 2641 8.897752 AGCTCCATAAAATTAAGCTAAAGTCTG 58.102 33.333 0.00 0.00 41.32 3.51
1899 2642 8.897752 CAGCTCCATAAAATTAAGCTAAAGTCT 58.102 33.333 0.00 0.00 41.19 3.24
1900 2643 7.645735 GCAGCTCCATAAAATTAAGCTAAAGTC 59.354 37.037 0.00 0.00 41.19 3.01
1901 2644 7.416777 GGCAGCTCCATAAAATTAAGCTAAAGT 60.417 37.037 0.00 0.00 41.19 2.66
1902 2645 6.920210 GGCAGCTCCATAAAATTAAGCTAAAG 59.080 38.462 0.00 0.00 41.19 1.85
1903 2646 6.379703 TGGCAGCTCCATAAAATTAAGCTAAA 59.620 34.615 1.25 0.00 41.19 1.85
1904 2647 5.890985 TGGCAGCTCCATAAAATTAAGCTAA 59.109 36.000 1.25 0.00 41.19 3.09
1905 2648 5.445069 TGGCAGCTCCATAAAATTAAGCTA 58.555 37.500 1.25 0.00 41.19 3.32
1906 2649 4.280819 TGGCAGCTCCATAAAATTAAGCT 58.719 39.130 1.25 0.00 43.81 3.74
1907 2650 4.654091 TGGCAGCTCCATAAAATTAAGC 57.346 40.909 1.25 0.00 40.72 3.09
1908 2651 6.313658 GGTTTTGGCAGCTCCATAAAATTAAG 59.686 38.462 5.83 0.00 46.04 1.85
1909 2652 6.169800 GGTTTTGGCAGCTCCATAAAATTAA 58.830 36.000 5.83 0.00 46.04 1.40
1910 2653 5.337975 GGGTTTTGGCAGCTCCATAAAATTA 60.338 40.000 5.83 0.00 46.04 1.40
1911 2654 4.565444 GGGTTTTGGCAGCTCCATAAAATT 60.565 41.667 5.83 0.00 46.04 1.82
1912 2655 3.055167 GGGTTTTGGCAGCTCCATAAAAT 60.055 43.478 5.83 0.00 46.04 1.82
1913 2656 2.301583 GGGTTTTGGCAGCTCCATAAAA 59.698 45.455 5.83 2.91 46.04 1.52
1914 2657 1.899142 GGGTTTTGGCAGCTCCATAAA 59.101 47.619 5.83 6.94 46.04 1.40
1915 2658 1.203112 TGGGTTTTGGCAGCTCCATAA 60.203 47.619 5.83 5.22 46.04 1.90
1916 2659 0.407528 TGGGTTTTGGCAGCTCCATA 59.592 50.000 5.83 0.00 46.04 2.74
1917 2660 0.901580 CTGGGTTTTGGCAGCTCCAT 60.902 55.000 5.83 0.00 46.04 3.41
1918 2661 1.531365 CTGGGTTTTGGCAGCTCCA 60.531 57.895 1.25 1.25 44.85 3.86
1919 2662 2.935740 GCTGGGTTTTGGCAGCTCC 61.936 63.158 0.00 0.00 37.66 4.70
1920 2663 1.905354 AGCTGGGTTTTGGCAGCTC 60.905 57.895 0.00 0.00 46.74 4.09
1921 2664 2.199535 AGCTGGGTTTTGGCAGCT 59.800 55.556 0.00 0.00 45.07 4.24
1922 2665 2.653115 GAGCTGGGTTTTGGCAGC 59.347 61.111 0.00 0.00 40.66 5.25
1923 2666 2.278330 GGGAGCTGGGTTTTGGCAG 61.278 63.158 0.00 0.00 0.00 4.85
1924 2667 2.203625 GGGAGCTGGGTTTTGGCA 60.204 61.111 0.00 0.00 0.00 4.92
1925 2668 2.997315 GGGGAGCTGGGTTTTGGC 60.997 66.667 0.00 0.00 0.00 4.52
1926 2669 1.152355 TTGGGGAGCTGGGTTTTGG 60.152 57.895 0.00 0.00 0.00 3.28
1927 2670 0.469892 AGTTGGGGAGCTGGGTTTTG 60.470 55.000 0.00 0.00 0.00 2.44
1928 2671 0.264657 AAGTTGGGGAGCTGGGTTTT 59.735 50.000 0.00 0.00 0.00 2.43
1929 2672 0.178961 GAAGTTGGGGAGCTGGGTTT 60.179 55.000 0.00 0.00 0.00 3.27
1930 2673 1.360393 TGAAGTTGGGGAGCTGGGTT 61.360 55.000 0.00 0.00 0.00 4.11
1931 2674 1.774217 TGAAGTTGGGGAGCTGGGT 60.774 57.895 0.00 0.00 0.00 4.51
1932 2675 1.303643 GTGAAGTTGGGGAGCTGGG 60.304 63.158 0.00 0.00 0.00 4.45
1933 2676 1.672356 CGTGAAGTTGGGGAGCTGG 60.672 63.158 0.00 0.00 0.00 4.85
1934 2677 1.672356 CCGTGAAGTTGGGGAGCTG 60.672 63.158 0.00 0.00 0.00 4.24
1935 2678 1.831652 CTCCGTGAAGTTGGGGAGCT 61.832 60.000 0.00 0.00 39.60 4.09
1936 2679 1.376037 CTCCGTGAAGTTGGGGAGC 60.376 63.158 1.67 0.00 39.60 4.70
1938 2681 2.747686 GCTCCGTGAAGTTGGGGA 59.252 61.111 0.00 0.00 0.00 4.81
1939 2682 2.742372 CGCTCCGTGAAGTTGGGG 60.742 66.667 0.00 0.00 0.00 4.96
1940 2683 3.423154 GCGCTCCGTGAAGTTGGG 61.423 66.667 0.00 0.00 0.00 4.12
1941 2684 3.777925 CGCGCTCCGTGAAGTTGG 61.778 66.667 5.56 0.00 39.94 3.77
1942 2685 4.430423 GCGCGCTCCGTGAAGTTG 62.430 66.667 26.67 0.00 39.94 3.16
1943 2686 4.961511 TGCGCGCTCCGTGAAGTT 62.962 61.111 33.29 0.00 39.94 2.66
1944 2687 4.961511 TTGCGCGCTCCGTGAAGT 62.962 61.111 33.29 0.00 39.94 3.01
1945 2688 4.139420 CTTGCGCGCTCCGTGAAG 62.139 66.667 33.29 21.47 39.94 3.02
1955 2698 4.139420 CTGTTCGGAGCTTGCGCG 62.139 66.667 0.00 0.00 42.32 6.86
1956 2699 3.793144 CCTGTTCGGAGCTTGCGC 61.793 66.667 0.00 0.00 33.16 6.09
1957 2700 3.121030 CCCTGTTCGGAGCTTGCG 61.121 66.667 0.00 0.00 33.16 4.85
1958 2701 3.435186 GCCCTGTTCGGAGCTTGC 61.435 66.667 0.00 0.00 33.16 4.01
1959 2702 2.747855 GGCCCTGTTCGGAGCTTG 60.748 66.667 0.00 0.00 33.16 4.01
1960 2703 2.529744 AAGGCCCTGTTCGGAGCTT 61.530 57.895 0.00 0.00 33.16 3.74
1961 2704 2.930562 AAGGCCCTGTTCGGAGCT 60.931 61.111 0.00 0.00 33.16 4.09
1962 2705 2.543067 ATCAAGGCCCTGTTCGGAGC 62.543 60.000 0.00 0.00 33.16 4.70
1963 2706 0.462759 GATCAAGGCCCTGTTCGGAG 60.463 60.000 0.00 0.00 33.16 4.63
1964 2707 0.909610 AGATCAAGGCCCTGTTCGGA 60.910 55.000 0.00 0.00 33.16 4.55
1965 2708 0.830648 TAGATCAAGGCCCTGTTCGG 59.169 55.000 0.00 0.00 0.00 4.30
1966 2709 2.280628 GTTAGATCAAGGCCCTGTTCG 58.719 52.381 0.00 0.00 0.00 3.95
1967 2710 3.350219 TGTTAGATCAAGGCCCTGTTC 57.650 47.619 0.00 0.79 0.00 3.18
1968 2711 3.806949 TTGTTAGATCAAGGCCCTGTT 57.193 42.857 0.00 0.00 0.00 3.16
1969 2712 3.010584 ACATTGTTAGATCAAGGCCCTGT 59.989 43.478 0.00 0.00 33.26 4.00
1970 2713 3.624777 ACATTGTTAGATCAAGGCCCTG 58.375 45.455 0.00 0.00 33.26 4.45
1971 2714 3.266772 TGACATTGTTAGATCAAGGCCCT 59.733 43.478 0.00 0.00 33.26 5.19
1972 2715 3.620488 TGACATTGTTAGATCAAGGCCC 58.380 45.455 0.00 0.00 33.26 5.80
1973 2716 4.641989 ACATGACATTGTTAGATCAAGGCC 59.358 41.667 0.00 0.00 33.26 5.19
1974 2717 5.575957 CACATGACATTGTTAGATCAAGGC 58.424 41.667 0.00 0.00 33.26 4.35
1975 2718 5.356190 AGCACATGACATTGTTAGATCAAGG 59.644 40.000 0.00 0.00 35.61 3.61
1976 2719 6.432607 AGCACATGACATTGTTAGATCAAG 57.567 37.500 0.00 0.00 0.00 3.02
1977 2720 6.430616 TGAAGCACATGACATTGTTAGATCAA 59.569 34.615 0.00 0.00 0.00 2.57
1978 2721 5.939296 TGAAGCACATGACATTGTTAGATCA 59.061 36.000 0.00 0.00 0.00 2.92
1979 2722 6.426980 TGAAGCACATGACATTGTTAGATC 57.573 37.500 0.00 0.00 0.00 2.75
2006 2749 2.033448 TTTGCTAGCCCGGTGTGG 59.967 61.111 13.29 0.00 37.55 4.17
2048 2795 7.857885 GCATTGAAGGGATAAAAAGATAGAACG 59.142 37.037 0.00 0.00 0.00 3.95
2109 2859 3.441572 GCTTTGTCCTGATGCACATAAGT 59.558 43.478 0.00 0.00 0.00 2.24
2120 2870 2.376518 AGGATTTCCTGCTTTGTCCTGA 59.623 45.455 0.00 0.00 46.55 3.86
2158 2908 4.805192 GTGTTTGTGACAAGACGTAGGTAA 59.195 41.667 0.00 0.00 40.65 2.85
2159 2909 4.098349 AGTGTTTGTGACAAGACGTAGGTA 59.902 41.667 0.00 0.00 40.65 3.08
2166 2916 8.813643 AGTAGTATTAGTGTTTGTGACAAGAC 57.186 34.615 0.00 0.00 40.65 3.01
2168 2918 9.256477 TGAAGTAGTATTAGTGTTTGTGACAAG 57.744 33.333 0.00 0.00 40.65 3.16
2189 2939 7.765695 ACAATAATGGACAAAGATGTGAAGT 57.234 32.000 0.00 0.00 40.74 3.01
2190 2940 9.480053 AAAACAATAATGGACAAAGATGTGAAG 57.520 29.630 0.00 0.00 40.74 3.02
2191 2941 9.474920 GAAAACAATAATGGACAAAGATGTGAA 57.525 29.630 0.00 0.00 40.74 3.18
2192 2942 8.637099 TGAAAACAATAATGGACAAAGATGTGA 58.363 29.630 0.00 0.00 40.74 3.58
2193 2943 8.815141 TGAAAACAATAATGGACAAAGATGTG 57.185 30.769 0.00 0.00 40.74 3.21
2219 2970 9.634163 CATTGTTGATGAGAAAATCTGAATCAA 57.366 29.630 9.40 9.40 38.03 2.57
2225 2976 7.646446 TTTGCATTGTTGATGAGAAAATCTG 57.354 32.000 0.00 0.00 38.03 2.90


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

AutoCloner maintained by Alex Coulton.