Multiple sequence alignment - TraesCS7B01G106400

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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 TraesCS7B01G106400 chr7B 100.000 3032 0 0 1 3032 123313160 123310129 0.000000e+00 5600.0
1 TraesCS7B01G106400 chr7B 77.362 561 66 39 1267 1799 123304089 123303562 2.980000e-70 276.0
2 TraesCS7B01G106400 chr7B 85.549 173 13 5 35 207 123424459 123424299 1.450000e-38 171.0
3 TraesCS7B01G106400 chr7A 90.402 896 40 20 1030 1898 162513906 162513030 0.000000e+00 1136.0
4 TraesCS7B01G106400 chr7A 89.178 730 48 19 35 755 162514833 162514126 0.000000e+00 881.0
5 TraesCS7B01G106400 chr7A 82.039 1069 133 35 1899 2924 162513000 162511948 0.000000e+00 856.0
6 TraesCS7B01G106400 chr7A 83.333 306 28 13 1496 1799 162509327 162509043 8.340000e-66 261.0
7 TraesCS7B01G106400 chr7A 84.651 215 20 5 770 972 162514139 162513926 5.130000e-48 202.0
8 TraesCS7B01G106400 chr7D 91.484 728 40 10 35 755 161188651 161187939 0.000000e+00 981.0
9 TraesCS7B01G106400 chr7D 91.831 710 34 11 1200 1899 161187551 161186856 0.000000e+00 968.0
10 TraesCS7B01G106400 chr7D 87.500 744 61 15 1899 2621 161186827 161186095 0.000000e+00 830.0
11 TraesCS7B01G106400 chr7D 77.632 532 57 41 1259 1762 161144392 161143895 1.790000e-67 267.0
12 TraesCS7B01G106400 chr7D 88.406 207 18 4 2343 2546 161160043 161159840 8.400000e-61 244.0
13 TraesCS7B01G106400 chr7D 91.071 112 6 4 2923 3032 547398594 547398703 6.770000e-32 148.0
14 TraesCS7B01G106400 chr3B 95.122 82 4 0 2943 3024 104701796 104701877 2.450000e-26 130.0
15 TraesCS7B01G106400 chr3B 88.732 71 3 5 2948 3014 803575823 803575754 6.970000e-12 82.4
16 TraesCS7B01G106400 chr1D 93.182 88 6 0 2945 3032 27889858 27889771 2.450000e-26 130.0
17 TraesCS7B01G106400 chr6B 92.941 85 6 0 2948 3032 52379963 52379879 1.140000e-24 124.0
18 TraesCS7B01G106400 chr2A 94.118 51 2 1 2943 2993 4114918 4114967 3.240000e-10 76.8
19 TraesCS7B01G106400 chr5B 91.837 49 4 0 2948 2996 223993865 223993913 5.420000e-08 69.4


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 TraesCS7B01G106400 chr7B 123310129 123313160 3031 True 5600.000000 5600 100.000000 1 3032 1 chr7B.!!$R2 3031
1 TraesCS7B01G106400 chr7B 123303562 123304089 527 True 276.000000 276 77.362000 1267 1799 1 chr7B.!!$R1 532
2 TraesCS7B01G106400 chr7A 162509043 162514833 5790 True 667.200000 1136 85.920600 35 2924 5 chr7A.!!$R1 2889
3 TraesCS7B01G106400 chr7D 161186095 161188651 2556 True 926.333333 981 90.271667 35 2621 3 chr7D.!!$R3 2586

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
22 23 0.034380 AGAGTTCGTCTGATCCCCGA 60.034 55.0 0.0 0.0 32.57 5.14 F
762 778 0.105224 TCTGTTGAACGCCTTCGGAA 59.895 50.0 0.0 0.0 40.69 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1965 2094 0.109781 CAAATCAACACCCGGCGAAG 60.110 55.0 9.3 0.92 0.0 3.79 R
2382 2553 0.036306 CCGAGGTGCCCAACTACTTT 59.964 55.0 0.0 0.00 0.0 2.66 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
20 21 2.657143 AGTAGAGTTCGTCTGATCCCC 58.343 52.381 0.00 0.00 36.64 4.81
21 22 1.334243 GTAGAGTTCGTCTGATCCCCG 59.666 57.143 0.00 0.00 36.64 5.73
22 23 0.034380 AGAGTTCGTCTGATCCCCGA 60.034 55.000 0.00 0.00 32.57 5.14
23 24 0.815734 GAGTTCGTCTGATCCCCGAA 59.184 55.000 7.00 7.00 38.18 4.30
24 25 0.818296 AGTTCGTCTGATCCCCGAAG 59.182 55.000 10.33 0.00 40.80 3.79
25 26 0.531200 GTTCGTCTGATCCCCGAAGT 59.469 55.000 10.33 0.00 40.80 3.01
26 27 1.067071 GTTCGTCTGATCCCCGAAGTT 60.067 52.381 10.33 0.00 40.80 2.66
27 28 0.530744 TCGTCTGATCCCCGAAGTTG 59.469 55.000 0.00 0.00 0.00 3.16
28 29 0.530744 CGTCTGATCCCCGAAGTTGA 59.469 55.000 0.00 0.00 0.00 3.18
29 30 1.469940 CGTCTGATCCCCGAAGTTGAG 60.470 57.143 0.00 0.00 0.00 3.02
30 31 1.825474 GTCTGATCCCCGAAGTTGAGA 59.175 52.381 0.00 0.00 0.00 3.27
31 32 1.825474 TCTGATCCCCGAAGTTGAGAC 59.175 52.381 0.00 0.00 0.00 3.36
32 33 1.550524 CTGATCCCCGAAGTTGAGACA 59.449 52.381 0.00 0.00 0.00 3.41
33 34 1.550524 TGATCCCCGAAGTTGAGACAG 59.449 52.381 0.00 0.00 0.00 3.51
57 58 2.754658 CCGACCTACTCCACCGCT 60.755 66.667 0.00 0.00 0.00 5.52
69 70 2.665185 ACCGCTGGTCAAAGACGC 60.665 61.111 0.00 0.00 32.65 5.19
176 177 0.757561 TCTCAACTGGTCGTGGGTCA 60.758 55.000 0.00 0.00 0.00 4.02
343 352 4.805231 CGCGGTGGCACCATACGA 62.805 66.667 34.11 0.00 38.47 3.43
344 353 3.192922 GCGGTGGCACCATACGAC 61.193 66.667 34.11 13.30 38.47 4.34
345 354 2.883730 CGGTGGCACCATACGACG 60.884 66.667 34.11 15.84 38.47 5.12
392 401 2.372690 CGAAACCGTGTCGCTCCTG 61.373 63.158 0.00 0.00 0.00 3.86
397 406 1.006102 CCGTGTCGCTCCTGAACTT 60.006 57.895 0.00 0.00 0.00 2.66
398 407 1.284982 CCGTGTCGCTCCTGAACTTG 61.285 60.000 0.00 0.00 0.00 3.16
403 412 2.671177 CGCTCCTGAACTTGTGGCG 61.671 63.158 0.00 0.00 35.54 5.69
428 439 4.201970 CCGGTTTCAGCTTTCAACTAACAA 60.202 41.667 0.00 0.00 0.00 2.83
439 450 6.345015 GCTTTCAACTAACAAATGCGAGTTTC 60.345 38.462 0.00 0.00 29.73 2.78
440 451 5.103290 TCAACTAACAAATGCGAGTTTCC 57.897 39.130 0.00 0.00 29.73 3.13
576 592 4.950475 AGTTTCTTGGAAATTAGCTAGGGC 59.050 41.667 0.00 0.00 39.06 5.19
596 612 1.338973 CGGGATCGACTCCGGATAAAA 59.661 52.381 17.49 0.00 46.01 1.52
624 640 2.503895 ATTCAGGCCAAGTTCAGGAG 57.496 50.000 5.01 0.00 0.00 3.69
638 654 5.012893 AGTTCAGGAGGGAATTCAAATGTC 58.987 41.667 7.93 0.00 0.00 3.06
737 753 4.571176 GCTTCTGCCTAAATTAAGTACGCT 59.429 41.667 0.00 0.00 0.00 5.07
740 756 5.726397 TCTGCCTAAATTAAGTACGCTCAA 58.274 37.500 0.00 0.00 0.00 3.02
741 757 6.346096 TCTGCCTAAATTAAGTACGCTCAAT 58.654 36.000 0.00 0.00 0.00 2.57
742 758 6.479001 TCTGCCTAAATTAAGTACGCTCAATC 59.521 38.462 0.00 0.00 0.00 2.67
743 759 6.346096 TGCCTAAATTAAGTACGCTCAATCT 58.654 36.000 0.00 0.00 0.00 2.40
744 760 6.479001 TGCCTAAATTAAGTACGCTCAATCTC 59.521 38.462 0.00 0.00 0.00 2.75
745 761 6.702282 GCCTAAATTAAGTACGCTCAATCTCT 59.298 38.462 0.00 0.00 0.00 3.10
746 762 7.306866 GCCTAAATTAAGTACGCTCAATCTCTG 60.307 40.741 0.00 0.00 0.00 3.35
747 763 7.707035 CCTAAATTAAGTACGCTCAATCTCTGT 59.293 37.037 0.00 0.00 0.00 3.41
748 764 7.907214 AAATTAAGTACGCTCAATCTCTGTT 57.093 32.000 0.00 0.00 0.00 3.16
749 765 6.893958 ATTAAGTACGCTCAATCTCTGTTG 57.106 37.500 0.00 0.00 0.00 3.33
750 766 4.521130 AAGTACGCTCAATCTCTGTTGA 57.479 40.909 0.00 0.00 36.70 3.18
751 767 4.521130 AGTACGCTCAATCTCTGTTGAA 57.479 40.909 0.00 0.00 37.63 2.69
752 768 4.238514 AGTACGCTCAATCTCTGTTGAAC 58.761 43.478 0.00 0.00 37.63 3.18
753 769 2.776694 CGCTCAATCTCTGTTGAACG 57.223 50.000 0.00 0.00 40.06 3.95
754 770 1.201855 CGCTCAATCTCTGTTGAACGC 60.202 52.381 0.44 0.00 39.72 4.84
755 771 1.129437 GCTCAATCTCTGTTGAACGCC 59.871 52.381 0.00 0.00 37.63 5.68
756 772 2.693069 CTCAATCTCTGTTGAACGCCT 58.307 47.619 0.00 0.00 37.63 5.52
757 773 3.070018 CTCAATCTCTGTTGAACGCCTT 58.930 45.455 0.00 0.00 37.63 4.35
758 774 3.067106 TCAATCTCTGTTGAACGCCTTC 58.933 45.455 0.00 0.00 35.31 3.46
759 775 1.714794 ATCTCTGTTGAACGCCTTCG 58.285 50.000 0.00 0.00 42.43 3.79
760 776 0.319555 TCTCTGTTGAACGCCTTCGG 60.320 55.000 0.00 0.00 40.69 4.30
761 777 0.319555 CTCTGTTGAACGCCTTCGGA 60.320 55.000 0.00 0.00 40.69 4.55
762 778 0.105224 TCTGTTGAACGCCTTCGGAA 59.895 50.000 0.00 0.00 40.69 4.30
763 779 0.941542 CTGTTGAACGCCTTCGGAAA 59.058 50.000 0.00 0.00 40.69 3.13
764 780 1.332375 CTGTTGAACGCCTTCGGAAAA 59.668 47.619 0.00 0.00 40.69 2.29
765 781 1.743958 TGTTGAACGCCTTCGGAAAAA 59.256 42.857 0.00 0.00 40.69 1.94
848 864 2.554370 TCCCTGGTCAAAGTAAACCG 57.446 50.000 0.00 0.00 38.45 4.44
849 865 1.770061 TCCCTGGTCAAAGTAAACCGT 59.230 47.619 0.00 0.00 38.45 4.83
860 876 4.996062 AAGTAAACCGTATTTCCACGTG 57.004 40.909 9.08 9.08 40.31 4.49
864 880 1.504359 ACCGTATTTCCACGTGTGTG 58.496 50.000 15.65 0.00 46.00 3.82
885 901 5.069119 TGTGAACATATGTCGAGCTCCTTAT 59.931 40.000 9.23 2.38 0.00 1.73
957 993 8.891671 AGAAATGTATTTTTGTTGCAGACAAT 57.108 26.923 12.95 4.36 46.99 2.71
977 1013 7.756722 AGACAATAGGTACATTGTACGTACAAC 59.243 37.037 36.24 25.97 46.53 3.32
992 1028 5.553123 ACGTACAACTCAAAATATGTGGGA 58.447 37.500 0.00 0.00 0.00 4.37
995 1031 6.538742 CGTACAACTCAAAATATGTGGGAGAT 59.461 38.462 0.00 0.00 0.00 2.75
1028 1064 0.930310 CATGTATCTGTTCCCGTGCG 59.070 55.000 0.00 0.00 0.00 5.34
1036 1075 3.923864 TTCCCGTGCGTGCTCTGT 61.924 61.111 0.00 0.00 0.00 3.41
1045 1084 1.488957 CGTGCTCTGTTCAAGACGC 59.511 57.895 0.00 0.00 32.70 5.19
1182 1226 3.329743 TCGACGATGGAATTCTACGAC 57.670 47.619 19.51 14.52 0.00 4.34
1190 1234 1.521423 GGAATTCTACGACGGAATGCG 59.479 52.381 5.23 0.00 34.19 4.73
1191 1235 2.456989 GAATTCTACGACGGAATGCGA 58.543 47.619 0.00 0.00 34.19 5.10
1343 1406 2.278857 CCATCGACCGCCTCTTCG 60.279 66.667 0.00 0.00 36.55 3.79
1345 1408 3.141488 ATCGACCGCCTCTTCGCT 61.141 61.111 0.00 0.00 35.15 4.93
1484 1553 3.131709 TGTTGCAAAGGGAGAAGAGAG 57.868 47.619 0.00 0.00 0.00 3.20
1485 1554 2.705658 TGTTGCAAAGGGAGAAGAGAGA 59.294 45.455 0.00 0.00 0.00 3.10
1486 1555 3.244353 TGTTGCAAAGGGAGAAGAGAGAG 60.244 47.826 0.00 0.00 0.00 3.20
1487 1556 2.894731 TGCAAAGGGAGAAGAGAGAGA 58.105 47.619 0.00 0.00 0.00 3.10
1531 1600 1.787057 GACGAGATCGATGGCCGTCT 61.787 60.000 22.53 4.78 44.10 4.18
1561 1630 2.619840 GATGAAGCTCGCTCTGCCGA 62.620 60.000 0.00 0.00 35.68 5.54
1711 1792 3.914605 CTGTACACGCAGCGGCTGA 62.915 63.158 32.72 9.28 38.10 4.26
1712 1793 3.479269 GTACACGCAGCGGCTGAC 61.479 66.667 32.72 21.43 38.10 3.51
1816 1898 3.923645 TCCTCCACGACCACCCCT 61.924 66.667 0.00 0.00 0.00 4.79
1820 1902 2.928396 CCACGACCACCCCTTCCT 60.928 66.667 0.00 0.00 0.00 3.36
1821 1903 2.663196 CACGACCACCCCTTCCTC 59.337 66.667 0.00 0.00 0.00 3.71
1822 1904 1.913762 CACGACCACCCCTTCCTCT 60.914 63.158 0.00 0.00 0.00 3.69
1824 1906 1.305381 CGACCACCCCTTCCTCTCT 60.305 63.158 0.00 0.00 0.00 3.10
1825 1907 1.324005 CGACCACCCCTTCCTCTCTC 61.324 65.000 0.00 0.00 0.00 3.20
1826 1908 1.305381 ACCACCCCTTCCTCTCTCG 60.305 63.158 0.00 0.00 0.00 4.04
1827 1909 2.060980 CCACCCCTTCCTCTCTCGG 61.061 68.421 0.00 0.00 0.00 4.63
1943 2072 3.058224 CGTTGGTTGGTTTCTTGGAGATC 60.058 47.826 0.00 0.00 0.00 2.75
2026 2166 6.124340 TCGTATACTTGGTAGGATCTGTTCA 58.876 40.000 0.56 0.00 0.00 3.18
2048 2190 8.872845 GTTCATTTGAATAAAACATAGGCAAGG 58.127 33.333 0.00 0.00 36.33 3.61
2079 2221 2.033299 GCGCCAGCAACACATGTATATT 59.967 45.455 0.00 0.00 44.35 1.28
2139 2292 5.581126 TCAAATCTTGACAAAGCACAGTT 57.419 34.783 0.00 0.00 34.08 3.16
2140 2293 5.964758 TCAAATCTTGACAAAGCACAGTTT 58.035 33.333 0.00 0.00 34.08 2.66
2191 2352 9.921637 AAAAAGTTATTGCTCCGATTTTGATTA 57.078 25.926 0.00 0.00 0.00 1.75
2219 2387 2.542766 ACAAAAACGTGTCAGCTGTG 57.457 45.000 14.67 3.52 0.00 3.66
2288 2459 1.517242 GTGGAAGTGGAAGCTGACAG 58.483 55.000 0.00 0.00 0.00 3.51
2381 2552 1.670791 GGTGTCAACCGTTTCTTGGA 58.329 50.000 0.00 0.00 36.51 3.53
2382 2553 2.018515 GGTGTCAACCGTTTCTTGGAA 58.981 47.619 0.00 0.00 36.51 3.53
2482 2653 1.750399 CTCACCTGGGCCAATTCGG 60.750 63.158 8.04 7.98 38.11 4.30
2488 2659 2.196997 CTGGGCCAATTCGGTCTCCA 62.197 60.000 8.04 0.00 40.36 3.86
2504 2676 1.770658 CTCCACTGGAGGCCAATATGA 59.229 52.381 16.57 0.00 45.43 2.15
2505 2677 2.374504 CTCCACTGGAGGCCAATATGAT 59.625 50.000 16.57 0.00 45.43 2.45
2506 2678 3.584406 CTCCACTGGAGGCCAATATGATA 59.416 47.826 16.57 0.00 45.43 2.15
2511 2685 5.829924 CACTGGAGGCCAATATGATAAGTTT 59.170 40.000 5.01 0.00 30.80 2.66
2521 2695 7.118390 GCCAATATGATAAGTTTCACGATAGCT 59.882 37.037 0.00 0.00 42.67 3.32
2522 2696 8.651588 CCAATATGATAAGTTTCACGATAGCTC 58.348 37.037 0.00 0.00 42.67 4.09
2523 2697 9.416794 CAATATGATAAGTTTCACGATAGCTCT 57.583 33.333 0.00 0.00 42.67 4.09
2531 2705 2.196925 ACGATAGCTCTCTGCCGGG 61.197 63.158 2.18 0.00 44.23 5.73
2548 2722 3.102097 GCTCACCGCAGCCATTAC 58.898 61.111 0.00 0.00 38.92 1.89
2550 2724 0.179084 GCTCACCGCAGCCATTACTA 60.179 55.000 0.00 0.00 38.92 1.82
2553 2727 1.134818 TCACCGCAGCCATTACTACTG 60.135 52.381 0.00 0.00 34.48 2.74
2556 2730 2.963101 ACCGCAGCCATTACTACTGATA 59.037 45.455 0.00 0.00 33.10 2.15
2562 2736 6.090088 CGCAGCCATTACTACTGATATTTCTC 59.910 42.308 0.00 0.00 33.10 2.87
2586 2761 1.296068 CGGCCGGTGTTACCCTTAA 59.704 57.895 20.10 0.00 33.75 1.85
2590 2765 1.883209 GCCGGTGTTACCCTTAAAGCA 60.883 52.381 1.90 0.00 33.75 3.91
2596 2771 4.569564 GGTGTTACCCTTAAAGCATCTACG 59.430 45.833 0.00 0.00 30.04 3.51
2597 2772 5.413499 GTGTTACCCTTAAAGCATCTACGA 58.587 41.667 0.00 0.00 0.00 3.43
2602 2777 2.470821 CTTAAAGCATCTACGACCGGG 58.529 52.381 6.32 0.00 0.00 5.73
2607 2782 1.655329 CATCTACGACCGGGCTCTC 59.345 63.158 5.33 0.00 0.00 3.20
2615 2790 3.330720 CCGGGCTCTCCAAACCCT 61.331 66.667 0.00 0.00 41.86 4.34
2618 2793 0.976073 CGGGCTCTCCAAACCCTCTA 60.976 60.000 0.00 0.00 41.86 2.43
2622 2797 3.008485 GGGCTCTCCAAACCCTCTATATG 59.992 52.174 0.00 0.00 40.75 1.78
2624 2799 3.558109 GCTCTCCAAACCCTCTATATGCC 60.558 52.174 0.00 0.00 0.00 4.40
2625 2800 2.979678 TCTCCAAACCCTCTATATGCCC 59.020 50.000 0.00 0.00 0.00 5.36
2626 2801 1.697432 TCCAAACCCTCTATATGCCCG 59.303 52.381 0.00 0.00 0.00 6.13
2627 2802 1.271379 CCAAACCCTCTATATGCCCGG 60.271 57.143 0.00 0.00 0.00 5.73
2629 2804 1.489560 AACCCTCTATATGCCCGGGC 61.490 60.000 39.40 39.40 38.50 6.13
2630 2805 2.579201 CCTCTATATGCCCGGGCG 59.421 66.667 39.00 25.01 45.51 6.13
2631 2806 1.982395 CCTCTATATGCCCGGGCGA 60.982 63.158 39.00 30.02 45.51 5.54
2632 2807 1.541310 CCTCTATATGCCCGGGCGAA 61.541 60.000 39.00 29.69 45.51 4.70
2633 2808 0.389948 CTCTATATGCCCGGGCGAAC 60.390 60.000 39.00 15.31 45.51 3.95
2634 2809 1.736645 CTATATGCCCGGGCGAACG 60.737 63.158 39.00 22.28 45.51 3.95
2645 2820 4.681978 GCGAACGGCCCAGTCACT 62.682 66.667 0.00 0.00 34.80 3.41
2646 2821 2.738521 CGAACGGCCCAGTCACTG 60.739 66.667 0.00 0.00 0.00 3.66
2654 2829 4.473643 CCAGTCACTGGCCGAAAA 57.526 55.556 12.03 0.00 45.13 2.29
2655 2830 1.949257 CCAGTCACTGGCCGAAAAC 59.051 57.895 12.03 0.00 45.13 2.43
2656 2831 1.515521 CCAGTCACTGGCCGAAAACC 61.516 60.000 12.03 0.00 45.13 3.27
2657 2832 0.535102 CAGTCACTGGCCGAAAACCT 60.535 55.000 0.00 0.00 0.00 3.50
2661 2836 0.817634 CACTGGCCGAAAACCTGACA 60.818 55.000 0.00 0.00 0.00 3.58
2664 2839 0.817634 TGGCCGAAAACCTGACACAG 60.818 55.000 0.00 0.00 0.00 3.66
2666 2841 0.586802 GCCGAAAACCTGACACAGAC 59.413 55.000 0.00 0.00 32.44 3.51
2668 2843 0.859232 CGAAAACCTGACACAGACGG 59.141 55.000 0.00 0.00 32.44 4.79
2674 2849 1.002087 ACCTGACACAGACGGATTTCC 59.998 52.381 0.00 0.00 32.44 3.13
2713 2888 4.060038 TGCCTTAATGAGAGATCGGTTC 57.940 45.455 0.00 0.00 0.00 3.62
2714 2889 3.181465 TGCCTTAATGAGAGATCGGTTCC 60.181 47.826 0.00 0.00 0.00 3.62
2721 2896 5.815233 ATGAGAGATCGGTTCCATGTATT 57.185 39.130 0.00 0.00 0.00 1.89
2726 2901 5.305644 AGAGATCGGTTCCATGTATTTAGCT 59.694 40.000 0.00 0.00 0.00 3.32
2732 2907 7.506114 TCGGTTCCATGTATTTAGCTAGATTT 58.494 34.615 1.57 0.00 0.00 2.17
2733 2908 7.656137 TCGGTTCCATGTATTTAGCTAGATTTC 59.344 37.037 1.57 0.00 0.00 2.17
2734 2909 7.095187 CGGTTCCATGTATTTAGCTAGATTTCC 60.095 40.741 1.57 0.00 0.00 3.13
2735 2910 7.095187 GGTTCCATGTATTTAGCTAGATTTCCG 60.095 40.741 1.57 0.00 0.00 4.30
2736 2911 7.297936 TCCATGTATTTAGCTAGATTTCCGA 57.702 36.000 1.57 0.00 0.00 4.55
2746 2921 5.825507 AGCTAGATTTCCGATTTTTCATGC 58.174 37.500 0.00 0.00 0.00 4.06
2752 2927 1.198867 TCCGATTTTTCATGCGTGTGG 59.801 47.619 5.68 0.00 0.00 4.17
2770 2945 3.016736 GTGGGCACATGTAGTTTGCTAT 58.983 45.455 0.00 0.00 36.46 2.97
2775 2950 3.426159 GCACATGTAGTTTGCTATTGCGT 60.426 43.478 0.00 0.00 43.34 5.24
2781 2956 1.745087 AGTTTGCTATTGCGTCCATGG 59.255 47.619 4.97 4.97 43.34 3.66
2807 2982 3.100545 GGCACCCATGTATCACCAG 57.899 57.895 0.00 0.00 0.00 4.00
2812 2987 2.170397 CACCCATGTATCACCAGTAGCA 59.830 50.000 0.00 0.00 0.00 3.49
2813 2988 3.048600 ACCCATGTATCACCAGTAGCAT 58.951 45.455 0.00 0.00 0.00 3.79
2821 2996 5.833131 TGTATCACCAGTAGCATGACATAGA 59.167 40.000 0.00 0.00 0.00 1.98
2826 3001 4.959210 ACCAGTAGCATGACATAGAGAAGT 59.041 41.667 0.00 0.00 0.00 3.01
2829 3004 6.488344 CCAGTAGCATGACATAGAGAAGTCTA 59.512 42.308 0.00 0.00 39.70 2.59
2830 3005 7.013750 CCAGTAGCATGACATAGAGAAGTCTAA 59.986 40.741 0.00 0.00 38.82 2.10
2843 3018 3.578716 AGAAGTCTAACTACAAGCAGCCA 59.421 43.478 0.00 0.00 0.00 4.75
2846 3021 2.028020 GTCTAACTACAAGCAGCCACCT 60.028 50.000 0.00 0.00 0.00 4.00
2847 3022 3.194968 GTCTAACTACAAGCAGCCACCTA 59.805 47.826 0.00 0.00 0.00 3.08
2877 3052 3.164269 CCAGCCGGGGTCATAGCT 61.164 66.667 2.18 0.00 35.52 3.32
2883 3064 1.682087 GCCGGGGTCATAGCTCTTTTT 60.682 52.381 2.18 0.00 0.00 1.94
2974 3164 8.611654 TTTACTATCTAAAAGAAACGCAAGGT 57.388 30.769 0.00 0.00 46.39 3.50
2982 3172 4.355925 AACGCAAGGTTCCGTCTC 57.644 55.556 0.00 0.00 46.39 3.36
2983 3173 1.301479 AACGCAAGGTTCCGTCTCC 60.301 57.895 0.00 0.00 46.39 3.71
2985 3175 2.747686 GCAAGGTTCCGTCTCCCA 59.252 61.111 0.00 0.00 0.00 4.37
2986 3176 1.299976 GCAAGGTTCCGTCTCCCAT 59.700 57.895 0.00 0.00 0.00 4.00
2987 3177 0.744771 GCAAGGTTCCGTCTCCCATC 60.745 60.000 0.00 0.00 0.00 3.51
2989 3179 1.279271 CAAGGTTCCGTCTCCCATCTT 59.721 52.381 0.00 0.00 0.00 2.40
2991 3181 2.108970 AGGTTCCGTCTCCCATCTTAC 58.891 52.381 0.00 0.00 0.00 2.34
3014 4887 1.443872 CTCGTTTCGTCCACCCTCG 60.444 63.158 0.00 0.00 0.00 4.63
3017 4890 2.029964 TTTCGTCCACCCTCGCAC 59.970 61.111 0.00 0.00 0.00 5.34
3018 4891 3.851845 TTTCGTCCACCCTCGCACG 62.852 63.158 0.00 0.00 0.00 5.34
3021 4894 4.736896 GTCCACCCTCGCACGTCC 62.737 72.222 0.00 0.00 0.00 4.79
3023 4896 4.082523 CCACCCTCGCACGTCCAT 62.083 66.667 0.00 0.00 0.00 3.41
3024 4897 2.509336 CACCCTCGCACGTCCATC 60.509 66.667 0.00 0.00 0.00 3.51
3025 4898 2.994995 ACCCTCGCACGTCCATCA 60.995 61.111 0.00 0.00 0.00 3.07
3026 4899 2.359169 ACCCTCGCACGTCCATCAT 61.359 57.895 0.00 0.00 0.00 2.45
3028 4901 1.431488 CCCTCGCACGTCCATCATTG 61.431 60.000 0.00 0.00 0.00 2.82
3029 4902 0.740868 CCTCGCACGTCCATCATTGT 60.741 55.000 0.00 0.00 0.00 2.71
3030 4903 0.371301 CTCGCACGTCCATCATTGTG 59.629 55.000 0.00 0.00 35.48 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.657143 GGGGATCAGACGAACTCTACT 58.343 52.381 0.00 0.00 0.00 2.57
1 2 1.334243 CGGGGATCAGACGAACTCTAC 59.666 57.143 0.00 0.00 0.00 2.59
2 3 1.211212 TCGGGGATCAGACGAACTCTA 59.789 52.381 0.00 0.00 33.21 2.43
3 4 0.034380 TCGGGGATCAGACGAACTCT 60.034 55.000 0.00 0.00 33.21 3.24
4 5 0.815734 TTCGGGGATCAGACGAACTC 59.184 55.000 12.38 0.00 41.12 3.01
5 6 0.818296 CTTCGGGGATCAGACGAACT 59.182 55.000 12.38 0.00 41.12 3.01
6 7 0.531200 ACTTCGGGGATCAGACGAAC 59.469 55.000 12.38 0.00 41.12 3.95
7 8 1.067142 CAACTTCGGGGATCAGACGAA 60.067 52.381 14.67 14.67 43.39 3.85
8 9 0.530744 CAACTTCGGGGATCAGACGA 59.469 55.000 0.00 0.00 34.47 4.20
9 10 0.530744 TCAACTTCGGGGATCAGACG 59.469 55.000 0.00 0.00 0.00 4.18
10 11 1.825474 TCTCAACTTCGGGGATCAGAC 59.175 52.381 0.00 0.00 0.00 3.51
11 12 1.825474 GTCTCAACTTCGGGGATCAGA 59.175 52.381 0.00 0.00 0.00 3.27
12 13 1.550524 TGTCTCAACTTCGGGGATCAG 59.449 52.381 0.00 0.00 0.00 2.90
13 14 1.550524 CTGTCTCAACTTCGGGGATCA 59.449 52.381 0.00 0.00 0.00 2.92
14 15 1.740718 GCTGTCTCAACTTCGGGGATC 60.741 57.143 0.00 0.00 0.00 3.36
15 16 0.250513 GCTGTCTCAACTTCGGGGAT 59.749 55.000 0.00 0.00 0.00 3.85
16 17 0.832135 AGCTGTCTCAACTTCGGGGA 60.832 55.000 0.00 0.00 0.00 4.81
17 18 0.671781 CAGCTGTCTCAACTTCGGGG 60.672 60.000 5.25 0.00 0.00 5.73
18 19 1.294659 GCAGCTGTCTCAACTTCGGG 61.295 60.000 16.64 0.00 0.00 5.14
19 20 1.294659 GGCAGCTGTCTCAACTTCGG 61.295 60.000 16.64 0.00 0.00 4.30
20 21 0.320247 AGGCAGCTGTCTCAACTTCG 60.320 55.000 16.96 0.00 0.00 3.79
21 22 1.437625 GAGGCAGCTGTCTCAACTTC 58.562 55.000 37.21 14.82 45.61 3.01
22 23 3.621953 GAGGCAGCTGTCTCAACTT 57.378 52.632 37.21 9.49 45.61 2.66
27 28 2.183046 GTCGGAGGCAGCTGTCTC 59.817 66.667 35.29 35.29 45.58 3.36
28 29 2.500815 TAGGTCGGAGGCAGCTGTCT 62.501 60.000 23.48 23.48 0.00 3.41
29 30 2.052690 TAGGTCGGAGGCAGCTGTC 61.053 63.158 11.28 11.28 0.00 3.51
30 31 2.037367 TAGGTCGGAGGCAGCTGT 59.963 61.111 16.64 0.00 0.00 4.40
31 32 2.010582 GAGTAGGTCGGAGGCAGCTG 62.011 65.000 10.11 10.11 0.00 4.24
32 33 1.755008 GAGTAGGTCGGAGGCAGCT 60.755 63.158 0.00 0.00 0.00 4.24
33 34 2.787567 GGAGTAGGTCGGAGGCAGC 61.788 68.421 0.00 0.00 0.00 5.25
176 177 3.074412 GGTGTCAATCCAACTTCGTCAT 58.926 45.455 0.00 0.00 0.00 3.06
181 182 4.074970 AGTGATGGTGTCAATCCAACTTC 58.925 43.478 0.00 0.00 38.90 3.01
191 192 6.499234 CATCATTAACAAGTGATGGTGTCA 57.501 37.500 8.35 0.00 44.94 3.58
327 336 3.192922 GTCGTATGGTGCCACCGC 61.193 66.667 9.78 1.07 42.58 5.68
343 352 2.924926 CAAATTACATTGCTGCATGCGT 59.075 40.909 14.09 6.04 46.63 5.24
344 353 3.562781 CAAATTACATTGCTGCATGCG 57.437 42.857 14.09 9.16 46.63 4.73
403 412 0.318699 GTTGAAAGCTGAAACCGGCC 60.319 55.000 0.00 0.00 36.61 6.13
439 450 1.964933 GCTACCTAGCTTGTAGGAGGG 59.035 57.143 19.11 6.71 45.62 4.30
532 548 1.470805 GCTCAAAACTTTGCCACGGTT 60.471 47.619 0.00 0.00 38.05 4.44
543 559 5.659440 TTTCCAAGAAACTGCTCAAAACT 57.341 34.783 0.00 0.00 0.00 2.66
576 592 0.956633 TTTATCCGGAGTCGATCCCG 59.043 55.000 11.34 17.98 46.50 5.14
596 612 4.961438 ACTTGGCCTGAATTTTCAATGT 57.039 36.364 3.32 0.00 36.64 2.71
624 640 3.506067 ACGGTCAAGACATTTGAATTCCC 59.494 43.478 2.27 0.00 0.00 3.97
638 654 3.254060 CCTGTCAACTGATACGGTCAAG 58.746 50.000 0.00 0.00 36.14 3.02
737 753 2.839486 AGGCGTTCAACAGAGATTGA 57.161 45.000 0.00 0.00 36.80 2.57
740 756 1.673033 CCGAAGGCGTTCAACAGAGAT 60.673 52.381 18.45 0.00 46.14 2.75
741 757 0.319555 CCGAAGGCGTTCAACAGAGA 60.320 55.000 18.45 0.00 46.14 3.10
742 758 2.153913 CCGAAGGCGTTCAACAGAG 58.846 57.895 18.45 1.76 46.14 3.35
743 759 4.354155 CCGAAGGCGTTCAACAGA 57.646 55.556 18.45 0.00 46.14 3.41
764 780 3.506067 CCTAGCGTTCAACAGGGATTTTT 59.494 43.478 0.00 0.00 0.00 1.94
765 781 3.081804 CCTAGCGTTCAACAGGGATTTT 58.918 45.455 0.00 0.00 0.00 1.82
766 782 2.039879 ACCTAGCGTTCAACAGGGATTT 59.960 45.455 0.00 0.00 32.12 2.17
767 783 1.628846 ACCTAGCGTTCAACAGGGATT 59.371 47.619 0.00 0.00 32.12 3.01
793 809 1.302832 GGCACTTGACAGGGGTCTG 60.303 63.158 0.00 0.00 44.61 3.51
848 864 4.742438 ATGTTCACACACGTGGAAATAC 57.258 40.909 21.57 12.28 43.79 1.89
849 865 5.935206 ACATATGTTCACACACGTGGAAATA 59.065 36.000 21.57 12.99 43.79 1.40
860 876 2.860735 GGAGCTCGACATATGTTCACAC 59.139 50.000 10.30 0.00 0.00 3.82
947 983 5.579119 CGTACAATGTACCTATTGTCTGCAA 59.421 40.000 16.89 0.00 45.49 4.08
957 993 6.816134 TGAGTTGTACGTACAATGTACCTA 57.184 37.500 36.03 19.18 46.56 3.08
977 1013 6.774170 TCCATGAATCTCCCACATATTTTGAG 59.226 38.462 0.00 0.00 0.00 3.02
984 1020 7.127647 TGCATATATCCATGAATCTCCCACATA 59.872 37.037 0.00 0.00 0.00 2.29
992 1028 9.780186 CAGATACATGCATATATCCATGAATCT 57.220 33.333 21.10 3.64 40.92 2.40
995 1031 9.387257 GAACAGATACATGCATATATCCATGAA 57.613 33.333 21.10 0.00 40.92 2.57
1016 1052 3.414700 GAGCACGCACGGGAACAG 61.415 66.667 0.00 0.00 0.00 3.16
1028 1064 1.488957 CGCGTCTTGAACAGAGCAC 59.511 57.895 0.00 0.00 29.34 4.40
1036 1075 3.391631 CGTGTCGCGCGTCTTGAA 61.392 61.111 30.98 6.01 32.40 2.69
1182 1226 0.663568 GGTCGGTATCTCGCATTCCG 60.664 60.000 6.07 6.07 42.12 4.30
1343 1406 2.743636 TATATAACGCAGGCAGGAGC 57.256 50.000 0.00 0.00 41.10 4.70
1370 1433 2.622064 AGCTATGGAATGAACGGGTC 57.378 50.000 0.00 0.00 0.00 4.46
1371 1434 3.039011 AGTAGCTATGGAATGAACGGGT 58.961 45.455 0.00 0.00 0.00 5.28
1484 1553 4.636249 TGGCTTTCTTCTTCTTCTGTCTC 58.364 43.478 0.00 0.00 0.00 3.36
1485 1554 4.696479 TGGCTTTCTTCTTCTTCTGTCT 57.304 40.909 0.00 0.00 0.00 3.41
1486 1555 4.215185 CCTTGGCTTTCTTCTTCTTCTGTC 59.785 45.833 0.00 0.00 0.00 3.51
1487 1556 4.140536 CCTTGGCTTTCTTCTTCTTCTGT 58.859 43.478 0.00 0.00 0.00 3.41
1531 1600 1.478510 GAGCTTCATCGTCCTCCTCAA 59.521 52.381 0.00 0.00 0.00 3.02
1547 1616 2.419057 GATCATCGGCAGAGCGAGCT 62.419 60.000 0.00 0.00 0.00 4.09
1561 1630 2.890474 GAACGCCGCCACGATCAT 60.890 61.111 0.00 0.00 35.23 2.45
1816 1898 2.547218 CGTCAAAAACCCGAGAGAGGAA 60.547 50.000 0.00 0.00 0.00 3.36
1820 1902 1.042229 TCCGTCAAAAACCCGAGAGA 58.958 50.000 0.00 0.00 0.00 3.10
1821 1903 1.145803 GTCCGTCAAAAACCCGAGAG 58.854 55.000 0.00 0.00 0.00 3.20
1822 1904 0.249996 GGTCCGTCAAAAACCCGAGA 60.250 55.000 0.00 0.00 0.00 4.04
1824 1906 0.533308 CTGGTCCGTCAAAAACCCGA 60.533 55.000 0.00 0.00 31.78 5.14
1825 1907 1.946267 CTGGTCCGTCAAAAACCCG 59.054 57.895 0.00 0.00 31.78 5.28
1826 1908 1.658114 GCTGGTCCGTCAAAAACCC 59.342 57.895 0.00 0.00 31.78 4.11
1827 1909 1.658114 GGCTGGTCCGTCAAAAACC 59.342 57.895 0.00 0.00 0.00 3.27
1943 2072 3.394062 CGCGCGGGCAACAAAAAG 61.394 61.111 24.84 1.04 39.92 2.27
1965 2094 0.109781 CAAATCAACACCCGGCGAAG 60.110 55.000 9.30 0.92 0.00 3.79
2026 2166 6.818142 GCACCTTGCCTATGTTTTATTCAAAT 59.182 34.615 0.00 0.00 37.42 2.32
2059 2201 3.303990 GGAATATACATGTGTTGCTGGCG 60.304 47.826 9.11 0.00 0.00 5.69
2060 2202 3.885297 AGGAATATACATGTGTTGCTGGC 59.115 43.478 9.11 0.00 0.00 4.85
2170 2323 6.912591 CCACTAATCAAAATCGGAGCAATAAC 59.087 38.462 0.00 0.00 0.00 1.89
2171 2324 6.826231 TCCACTAATCAAAATCGGAGCAATAA 59.174 34.615 0.00 0.00 0.00 1.40
2172 2325 6.353323 TCCACTAATCAAAATCGGAGCAATA 58.647 36.000 0.00 0.00 0.00 1.90
2174 2327 4.584874 TCCACTAATCAAAATCGGAGCAA 58.415 39.130 0.00 0.00 0.00 3.91
2188 2349 6.038825 TGACACGTTTTTGTTGATCCACTAAT 59.961 34.615 0.00 0.00 0.00 1.73
2191 2352 3.692101 TGACACGTTTTTGTTGATCCACT 59.308 39.130 0.00 0.00 0.00 4.00
2219 2387 1.165270 AAACTTCCAGGCATGCGTAC 58.835 50.000 13.36 0.00 0.00 3.67
2288 2459 2.805353 ATGAGTGACGCACGCGAC 60.805 61.111 19.66 12.93 42.83 5.19
2381 2552 1.544759 CCGAGGTGCCCAACTACTTTT 60.545 52.381 0.00 0.00 0.00 2.27
2382 2553 0.036306 CCGAGGTGCCCAACTACTTT 59.964 55.000 0.00 0.00 0.00 2.66
2488 2659 5.653255 AACTTATCATATTGGCCTCCAGT 57.347 39.130 3.32 0.00 33.81 4.00
2494 2666 6.560253 ATCGTGAAACTTATCATATTGGCC 57.440 37.500 0.00 0.00 31.75 5.36
2500 2672 8.293157 CAGAGAGCTATCGTGAAACTTATCATA 58.707 37.037 2.03 0.00 31.75 2.15
2504 2676 5.285651 GCAGAGAGCTATCGTGAAACTTAT 58.714 41.667 2.03 0.00 41.15 1.73
2505 2677 4.440250 GGCAGAGAGCTATCGTGAAACTTA 60.440 45.833 2.03 0.00 44.79 2.24
2506 2678 3.516615 GCAGAGAGCTATCGTGAAACTT 58.483 45.455 2.03 0.00 41.15 2.66
2511 2685 1.448119 CCGGCAGAGAGCTATCGTGA 61.448 60.000 2.03 0.00 44.79 4.35
2546 2720 4.084171 CGCCGACGAGAAATATCAGTAGTA 60.084 45.833 0.00 0.00 43.93 1.82
2548 2722 3.227147 CGCCGACGAGAAATATCAGTAG 58.773 50.000 0.00 0.00 43.93 2.57
2550 2724 1.269102 CCGCCGACGAGAAATATCAGT 60.269 52.381 0.00 0.00 43.93 3.41
2553 2727 1.282930 GGCCGCCGACGAGAAATATC 61.283 60.000 0.00 0.00 43.93 1.63
2579 2753 2.159142 CGGTCGTAGATGCTTTAAGGGT 60.159 50.000 0.00 0.00 40.67 4.34
2581 2755 2.470821 CCGGTCGTAGATGCTTTAAGG 58.529 52.381 0.00 0.00 40.67 2.69
2586 2761 2.017559 GAGCCCGGTCGTAGATGCTT 62.018 60.000 0.00 0.00 40.67 3.91
2590 2765 1.528776 GGAGAGCCCGGTCGTAGAT 60.529 63.158 0.00 0.00 40.67 1.98
2596 2771 2.046217 GGTTTGGAGAGCCCGGTC 60.046 66.667 0.00 0.00 37.93 4.79
2597 2772 3.647771 GGGTTTGGAGAGCCCGGT 61.648 66.667 0.00 0.00 39.19 5.28
2602 2777 3.558109 GGCATATAGAGGGTTTGGAGAGC 60.558 52.174 0.00 0.00 0.00 4.09
2607 2782 1.271379 CCGGGCATATAGAGGGTTTGG 60.271 57.143 0.00 0.00 0.00 3.28
2615 2790 1.669440 GTTCGCCCGGGCATATAGA 59.331 57.895 42.78 29.03 42.06 1.98
2618 2793 4.619227 CCGTTCGCCCGGGCATAT 62.619 66.667 42.78 0.00 44.32 1.78
2629 2804 2.738521 CAGTGACTGGGCCGTTCG 60.739 66.667 4.28 0.00 0.00 3.95
2639 2814 0.535102 CAGGTTTTCGGCCAGTGACT 60.535 55.000 2.24 0.00 0.00 3.41
2640 2815 0.534203 TCAGGTTTTCGGCCAGTGAC 60.534 55.000 2.24 0.00 0.00 3.67
2641 2816 0.534203 GTCAGGTTTTCGGCCAGTGA 60.534 55.000 2.24 0.00 0.00 3.41
2642 2817 0.817634 TGTCAGGTTTTCGGCCAGTG 60.818 55.000 2.24 0.00 0.00 3.66
2643 2818 0.818040 GTGTCAGGTTTTCGGCCAGT 60.818 55.000 2.24 0.00 0.00 4.00
2645 2820 0.817634 CTGTGTCAGGTTTTCGGCCA 60.818 55.000 2.24 0.00 0.00 5.36
2646 2821 0.534203 TCTGTGTCAGGTTTTCGGCC 60.534 55.000 0.00 0.00 31.51 6.13
2647 2822 0.586802 GTCTGTGTCAGGTTTTCGGC 59.413 55.000 0.00 0.00 31.51 5.54
2648 2823 0.859232 CGTCTGTGTCAGGTTTTCGG 59.141 55.000 0.00 0.00 31.51 4.30
2649 2824 0.859232 CCGTCTGTGTCAGGTTTTCG 59.141 55.000 0.00 0.00 31.51 3.46
2650 2825 2.234300 TCCGTCTGTGTCAGGTTTTC 57.766 50.000 0.00 0.00 31.51 2.29
2651 2826 2.930826 ATCCGTCTGTGTCAGGTTTT 57.069 45.000 0.00 0.00 31.51 2.43
2652 2827 2.930826 AATCCGTCTGTGTCAGGTTT 57.069 45.000 0.00 0.00 31.51 3.27
2653 2828 2.550208 GGAAATCCGTCTGTGTCAGGTT 60.550 50.000 0.00 0.00 31.51 3.50
2654 2829 1.002087 GGAAATCCGTCTGTGTCAGGT 59.998 52.381 0.00 0.00 31.51 4.00
2655 2830 1.726853 GGAAATCCGTCTGTGTCAGG 58.273 55.000 0.00 0.00 31.51 3.86
2666 2841 6.065171 CTCTAATCGAGTTCTCGGAAATCCG 61.065 48.000 19.65 15.59 46.33 4.18
2668 2843 6.062434 TCTCTAATCGAGTTCTCGGAAATC 57.938 41.667 19.65 4.62 40.75 2.17
2674 2849 3.252215 AGGCATCTCTAATCGAGTTCTCG 59.748 47.826 14.93 14.93 40.75 4.04
2680 2855 6.918626 TCTCATTAAGGCATCTCTAATCGAG 58.081 40.000 0.00 0.00 41.30 4.04
2683 2858 7.701924 CGATCTCTCATTAAGGCATCTCTAATC 59.298 40.741 0.00 0.00 0.00 1.75
2697 2872 6.918067 ATACATGGAACCGATCTCTCATTA 57.082 37.500 0.00 0.00 0.00 1.90
2698 2873 5.815233 ATACATGGAACCGATCTCTCATT 57.185 39.130 0.00 0.00 0.00 2.57
2702 2877 5.305644 AGCTAAATACATGGAACCGATCTCT 59.694 40.000 0.00 0.00 0.00 3.10
2713 2888 8.553459 AATCGGAAATCTAGCTAAATACATGG 57.447 34.615 0.00 0.00 0.00 3.66
2721 2896 7.417612 GCATGAAAAATCGGAAATCTAGCTAA 58.582 34.615 0.00 0.00 0.00 3.09
2726 2901 5.123186 ACACGCATGAAAAATCGGAAATCTA 59.877 36.000 0.00 0.00 0.00 1.98
2732 2907 1.198867 CCACACGCATGAAAAATCGGA 59.801 47.619 0.00 0.00 0.00 4.55
2733 2908 1.616620 CCACACGCATGAAAAATCGG 58.383 50.000 0.00 0.00 0.00 4.18
2734 2909 1.616620 CCCACACGCATGAAAAATCG 58.383 50.000 0.00 0.00 0.00 3.34
2735 2910 1.336702 TGCCCACACGCATGAAAAATC 60.337 47.619 0.00 0.00 32.62 2.17
2736 2911 0.678395 TGCCCACACGCATGAAAAAT 59.322 45.000 0.00 0.00 32.62 1.82
2752 2927 3.438360 GCAATAGCAAACTACATGTGCC 58.562 45.455 9.11 0.00 41.58 5.01
2760 2935 2.942376 CCATGGACGCAATAGCAAACTA 59.058 45.455 5.56 0.00 42.27 2.24
2770 2945 3.353029 CGTGTGCCATGGACGCAA 61.353 61.111 18.40 2.30 38.13 4.85
2789 2964 0.255890 ACTGGTGATACATGGGTGCC 59.744 55.000 0.00 0.00 0.00 5.01
2792 2967 2.477245 TGCTACTGGTGATACATGGGT 58.523 47.619 0.00 0.00 0.00 4.51
2796 2971 5.557576 ATGTCATGCTACTGGTGATACAT 57.442 39.130 0.00 0.00 0.00 2.29
2797 2972 5.833131 TCTATGTCATGCTACTGGTGATACA 59.167 40.000 0.00 0.00 0.00 2.29
2800 2975 5.143369 TCTCTATGTCATGCTACTGGTGAT 58.857 41.667 0.00 0.00 0.00 3.06
2803 2978 4.959210 ACTTCTCTATGTCATGCTACTGGT 59.041 41.667 0.00 0.00 0.00 4.00
2805 2980 6.389830 AGACTTCTCTATGTCATGCTACTG 57.610 41.667 0.00 0.00 35.81 2.74
2806 2981 7.777910 AGTTAGACTTCTCTATGTCATGCTACT 59.222 37.037 0.00 0.00 35.81 2.57
2807 2982 7.936584 AGTTAGACTTCTCTATGTCATGCTAC 58.063 38.462 0.00 0.00 35.81 3.58
2812 2987 8.410141 GCTTGTAGTTAGACTTCTCTATGTCAT 58.590 37.037 0.00 0.00 35.81 3.06
2813 2988 7.393515 TGCTTGTAGTTAGACTTCTCTATGTCA 59.606 37.037 0.00 0.00 35.81 3.58
2821 2996 3.578716 TGGCTGCTTGTAGTTAGACTTCT 59.421 43.478 0.00 0.00 0.00 2.85
2826 3001 2.257207 AGGTGGCTGCTTGTAGTTAGA 58.743 47.619 0.00 0.00 0.00 2.10
2829 3004 2.257207 TCTAGGTGGCTGCTTGTAGTT 58.743 47.619 0.00 0.00 0.00 2.24
2830 3005 1.938585 TCTAGGTGGCTGCTTGTAGT 58.061 50.000 0.00 0.00 0.00 2.73
2889 3070 9.715123 AAACAAAATAGTAAAGCAAAAATGTGC 57.285 25.926 0.00 0.00 45.28 4.57
2948 3138 8.718734 ACCTTGCGTTTCTTTTAGATAGTAAAG 58.281 33.333 0.00 0.00 33.65 1.85
2949 3139 8.611654 ACCTTGCGTTTCTTTTAGATAGTAAA 57.388 30.769 0.00 0.00 0.00 2.01
2950 3140 8.611654 AACCTTGCGTTTCTTTTAGATAGTAA 57.388 30.769 0.00 0.00 0.00 2.24
2951 3141 7.332678 GGAACCTTGCGTTTCTTTTAGATAGTA 59.667 37.037 0.00 0.00 33.74 1.82
2953 3143 6.543736 GGAACCTTGCGTTTCTTTTAGATAG 58.456 40.000 0.00 0.00 33.74 2.08
2955 3145 4.083484 CGGAACCTTGCGTTTCTTTTAGAT 60.083 41.667 0.00 0.00 37.24 1.98
2956 3146 3.249080 CGGAACCTTGCGTTTCTTTTAGA 59.751 43.478 0.00 0.00 37.24 2.10
2959 3149 2.485266 CGGAACCTTGCGTTTCTTTT 57.515 45.000 0.00 0.00 37.24 2.27
2969 3159 0.905357 AGATGGGAGACGGAACCTTG 59.095 55.000 0.00 0.00 0.00 3.61
2971 3161 2.108970 GTAAGATGGGAGACGGAACCT 58.891 52.381 0.00 0.00 0.00 3.50
2972 3162 1.202382 CGTAAGATGGGAGACGGAACC 60.202 57.143 0.00 0.00 43.02 3.62
2974 3164 1.747355 GACGTAAGATGGGAGACGGAA 59.253 52.381 0.00 0.00 39.57 4.30
2975 3165 1.386533 GACGTAAGATGGGAGACGGA 58.613 55.000 0.00 0.00 39.57 4.69
2976 3166 0.029035 CGACGTAAGATGGGAGACGG 59.971 60.000 0.00 0.00 39.57 4.79
2977 3167 0.591741 GCGACGTAAGATGGGAGACG 60.592 60.000 0.00 0.00 43.62 4.18
2978 3168 0.739561 AGCGACGTAAGATGGGAGAC 59.260 55.000 0.00 0.00 43.62 3.36
2979 3169 1.022735 GAGCGACGTAAGATGGGAGA 58.977 55.000 0.00 0.00 43.62 3.71
2980 3170 0.317103 CGAGCGACGTAAGATGGGAG 60.317 60.000 0.00 0.00 43.62 4.30
2981 3171 1.725665 CGAGCGACGTAAGATGGGA 59.274 57.895 0.00 0.00 43.62 4.37
2982 3172 4.303853 CGAGCGACGTAAGATGGG 57.696 61.111 0.00 0.00 43.62 4.00
3000 4873 2.029964 GTGCGAGGGTGGACGAAA 59.970 61.111 0.00 0.00 0.00 3.46
3004 4877 4.736896 GGACGTGCGAGGGTGGAC 62.737 72.222 0.00 0.00 0.00 4.02
3014 4887 4.771684 GCACAATGATGGACGTGC 57.228 55.556 0.00 0.00 46.85 5.34


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

AutoCloner maintained by Alex Coulton.