Multiple sequence alignment - TraesCS4D01G241200

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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 TraesCS4D01G241200 chr4D 100.000 4035 0 0 1 4035 403405890 403401856 0.000000e+00 7452.0
1 TraesCS4D01G241200 chr4D 100.000 72 0 0 793 864 403405027 403404956 2.530000e-27 134.0
2 TraesCS4D01G241200 chr4D 100.000 72 0 0 864 935 403405098 403405027 2.530000e-27 134.0
3 TraesCS4D01G241200 chr4D 92.453 53 4 0 3551 3603 286074779 286074831 4.320000e-10 76.8
4 TraesCS4D01G241200 chr4D 92.453 53 4 0 3551 3603 286087441 286087493 4.320000e-10 76.8
5 TraesCS4D01G241200 chr4D 92.453 53 4 0 3551 3603 286126990 286127042 4.320000e-10 76.8
6 TraesCS4D01G241200 chr4D 90.385 52 5 0 3552 3603 289888960 289889011 7.240000e-08 69.4
7 TraesCS4D01G241200 chr4B 92.439 3227 164 34 864 4035 500262730 500259529 0.000000e+00 4534.0
8 TraesCS4D01G241200 chr4B 89.201 713 52 11 173 863 500263363 500262654 0.000000e+00 867.0
9 TraesCS4D01G241200 chr4B 90.580 138 7 1 13 150 500263471 500263340 1.150000e-40 178.0
10 TraesCS4D01G241200 chr4B 90.769 65 3 3 2767 2829 586071342 586071405 2.580000e-12 84.2
11 TraesCS4D01G241200 chr4A 92.942 1516 51 17 2123 3598 60932979 60931480 0.000000e+00 2156.0
12 TraesCS4D01G241200 chr4A 88.548 1240 75 24 864 2066 60934190 60932981 0.000000e+00 1441.0
13 TraesCS4D01G241200 chr4A 85.521 739 69 15 148 861 60934843 60934118 0.000000e+00 737.0
14 TraesCS4D01G241200 chr4A 97.442 430 10 1 1632 2061 728413655 728414083 0.000000e+00 732.0
15 TraesCS4D01G241200 chr4A 93.814 97 3 2 3942 4035 60931482 60931386 4.200000e-30 143.0
16 TraesCS4D01G241200 chr6A 93.804 694 29 6 1740 2433 443328547 443327868 0.000000e+00 1031.0
17 TraesCS4D01G241200 chr6B 97.674 430 9 1 1632 2061 104569929 104570357 0.000000e+00 737.0
18 TraesCS4D01G241200 chr3D 79.114 158 18 10 3556 3701 138793605 138793759 1.190000e-15 95.3
19 TraesCS4D01G241200 chr3D 90.625 64 2 4 2767 2827 534666742 534666680 9.290000e-12 82.4
20 TraesCS4D01G241200 chr7D 89.231 65 4 3 2768 2829 422150544 422150608 1.200000e-10 78.7
21 TraesCS4D01G241200 chr7A 93.617 47 3 0 3557 3603 169019659 169019705 2.010000e-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 TraesCS4D01G241200 chr4D 403401856 403405890 4034 True 2573.333333 7452 100.00000 1 4035 3 chr4D.!!$R1 4034
1 TraesCS4D01G241200 chr4B 500259529 500263471 3942 True 1859.666667 4534 90.74000 13 4035 3 chr4B.!!$R1 4022
2 TraesCS4D01G241200 chr4A 60931386 60934843 3457 True 1119.250000 2156 90.20625 148 4035 4 chr4A.!!$R1 3887
3 TraesCS4D01G241200 chr6A 443327868 443328547 679 True 1031.000000 1031 93.80400 1740 2433 1 chr6A.!!$R1 693

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
411 412 0.107017 AAGGGGGATGATCGCACAAG 60.107 55.000 14.41 0.0 34.87 3.16 F
1210 1260 0.613777 GTCTCACCCTCCAATTCCGT 59.386 55.000 0.00 0.0 0.00 4.69 F
1403 1460 0.905357 CCACCACGGAGAAGGAGAAT 59.095 55.000 0.00 0.0 36.56 2.40 F
1504 1561 1.668047 GGCTGCTTCTGTGATGTTTGC 60.668 52.381 0.00 0.0 0.00 3.68 F
1726 1787 2.300437 GCTCTCTGTTTGGGTGTAGAGT 59.700 50.000 0.00 0.0 38.22 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2214 2276 0.336048 ATGGAGGTTGGGAATGTGGG 59.664 55.000 0.00 0.0 0.00 4.61 R
2829 2892 1.002134 CACGGTGGATTGGGCTCTT 60.002 57.895 0.00 0.0 0.00 2.85 R
2831 2894 2.438434 CCACGGTGGATTGGGCTC 60.438 66.667 22.77 0.0 40.96 4.70 R
2832 2895 2.933287 TCCACGGTGGATTGGGCT 60.933 61.111 25.53 0.0 42.67 5.19 R
3545 3659 0.540365 AACAGCCCCCAAGTGATGTG 60.540 55.000 0.00 0.0 0.00 3.21 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
57 58 2.636830 ACAGAAGCCATCATTCTTCCG 58.363 47.619 0.00 0.00 39.48 4.30
112 113 7.275920 GTCAGGAATCTGTTCAGGTACATATT 58.724 38.462 0.00 0.00 41.59 1.28
163 164 3.709653 TGTTCGAATAAGCATCCCCTAGT 59.290 43.478 0.00 0.00 0.00 2.57
169 170 5.685075 CGAATAAGCATCCCCTAGTTCTGTT 60.685 44.000 0.00 0.00 0.00 3.16
341 342 5.993055 TGTTAGAAGGATGCTTCATGATCA 58.007 37.500 26.36 15.10 35.91 2.92
344 345 4.851843 AGAAGGATGCTTCATGATCACAA 58.148 39.130 26.36 0.00 35.91 3.33
347 348 4.533815 AGGATGCTTCATGATCACAACAT 58.466 39.130 0.00 0.00 0.00 2.71
356 357 6.688637 TCATGATCACAACATTCATCTTCC 57.311 37.500 0.00 0.00 0.00 3.46
386 387 2.296190 AGAACGGGCAAATTCAGGTTTC 59.704 45.455 0.00 0.00 0.00 2.78
411 412 0.107017 AAGGGGGATGATCGCACAAG 60.107 55.000 14.41 0.00 34.87 3.16
416 417 2.614057 GGGGATGATCGCACAAGTAAAG 59.386 50.000 11.71 0.00 0.00 1.85
435 436 4.840716 AAGCTGAAGATGGAGAGTGAAT 57.159 40.909 0.00 0.00 0.00 2.57
445 446 2.565391 TGGAGAGTGAATTTCGGTAGCA 59.435 45.455 0.00 0.00 0.00 3.49
446 447 3.197766 TGGAGAGTGAATTTCGGTAGCAT 59.802 43.478 0.00 0.00 0.00 3.79
557 566 1.529226 TGTTATTGTGTGGGAAGCCG 58.471 50.000 0.00 0.00 0.00 5.52
689 711 7.905604 AAATGCCTACAATTTTAAAGAAGCC 57.094 32.000 0.00 0.00 0.00 4.35
694 716 6.443792 CCTACAATTTTAAAGAAGCCGTTGT 58.556 36.000 0.00 0.00 33.62 3.32
700 723 5.821516 TTTAAAGAAGCCGTTGTCTCAAA 57.178 34.783 0.00 0.00 0.00 2.69
705 728 3.004734 AGAAGCCGTTGTCTCAAAAATGG 59.995 43.478 0.00 0.00 35.84 3.16
744 767 8.721019 CAAAAGGGATTGCAATATGTTTACAT 57.279 30.769 12.97 0.53 40.22 2.29
745 768 8.605746 CAAAAGGGATTGCAATATGTTTACATG 58.394 33.333 12.97 4.28 37.15 3.21
746 769 5.846203 AGGGATTGCAATATGTTTACATGC 58.154 37.500 12.97 3.18 37.15 4.06
748 771 6.047870 GGGATTGCAATATGTTTACATGCAA 58.952 36.000 18.92 18.92 42.71 4.08
749 772 6.538021 GGGATTGCAATATGTTTACATGCAAA 59.462 34.615 19.94 9.05 42.22 3.68
750 773 7.065563 GGGATTGCAATATGTTTACATGCAAAA 59.934 33.333 19.94 5.52 42.22 2.44
751 774 8.117988 GGATTGCAATATGTTTACATGCAAAAG 58.882 33.333 19.94 0.00 42.22 2.27
752 775 6.964741 TGCAATATGTTTACATGCAAAAGG 57.035 33.333 7.06 0.00 37.15 3.11
753 776 5.873712 TGCAATATGTTTACATGCAAAAGGG 59.126 36.000 7.06 0.00 37.15 3.95
754 777 6.105333 GCAATATGTTTACATGCAAAAGGGA 58.895 36.000 5.64 0.00 37.15 4.20
756 779 7.412891 GCAATATGTTTACATGCAAAAGGGAAC 60.413 37.037 5.64 0.00 37.15 3.62
757 780 5.543507 ATGTTTACATGCAAAAGGGAACA 57.456 34.783 0.00 0.00 34.83 3.18
758 781 4.688021 TGTTTACATGCAAAAGGGAACAC 58.312 39.130 0.00 0.00 0.00 3.32
759 782 3.634568 TTACATGCAAAAGGGAACACG 57.365 42.857 0.00 0.00 0.00 4.49
760 783 1.398692 ACATGCAAAAGGGAACACGT 58.601 45.000 0.00 0.00 0.00 4.49
761 784 1.754226 ACATGCAAAAGGGAACACGTT 59.246 42.857 0.00 0.00 0.00 3.99
762 785 2.952978 ACATGCAAAAGGGAACACGTTA 59.047 40.909 0.00 0.00 0.00 3.18
763 786 3.243267 ACATGCAAAAGGGAACACGTTAC 60.243 43.478 0.00 0.00 0.00 2.50
764 787 2.366533 TGCAAAAGGGAACACGTTACA 58.633 42.857 0.00 0.00 0.00 2.41
777 801 1.268352 ACGTTACATGCAAATGCGGTT 59.732 42.857 7.64 0.00 45.83 4.44
829 856 8.579850 TTGCAAAGAGATTGAAATATGGTACT 57.420 30.769 0.00 0.00 41.85 2.73
830 857 9.679661 TTGCAAAGAGATTGAAATATGGTACTA 57.320 29.630 0.00 0.00 41.85 1.82
831 858 9.330063 TGCAAAGAGATTGAAATATGGTACTAG 57.670 33.333 0.00 0.00 41.85 2.57
832 859 8.286097 GCAAAGAGATTGAAATATGGTACTAGC 58.714 37.037 0.00 0.00 41.85 3.42
833 860 9.330063 CAAAGAGATTGAAATATGGTACTAGCA 57.670 33.333 0.00 0.00 41.85 3.49
835 862 9.717942 AAGAGATTGAAATATGGTACTAGCATC 57.282 33.333 3.98 0.00 37.51 3.91
836 863 9.099071 AGAGATTGAAATATGGTACTAGCATCT 57.901 33.333 3.98 0.00 37.51 2.90
837 864 9.149225 GAGATTGAAATATGGTACTAGCATCTG 57.851 37.037 3.98 0.00 37.51 2.90
838 865 8.654997 AGATTGAAATATGGTACTAGCATCTGT 58.345 33.333 3.98 0.00 37.51 3.41
839 866 9.929180 GATTGAAATATGGTACTAGCATCTGTA 57.071 33.333 3.98 0.00 37.51 2.74
842 869 9.710900 TGAAATATGGTACTAGCATCTGTAATG 57.289 33.333 3.98 0.00 37.51 1.90
843 870 8.553459 AAATATGGTACTAGCATCTGTAATGC 57.447 34.615 3.98 1.80 44.85 3.56
850 877 2.458592 GCATCTGTAATGCGTTCCAC 57.541 50.000 0.00 0.00 35.17 4.02
851 878 2.009774 GCATCTGTAATGCGTTCCACT 58.990 47.619 0.00 0.00 35.17 4.00
852 879 2.420022 GCATCTGTAATGCGTTCCACTT 59.580 45.455 0.00 0.00 35.17 3.16
853 880 3.728864 GCATCTGTAATGCGTTCCACTTG 60.729 47.826 0.00 0.00 35.17 3.16
854 881 3.394674 TCTGTAATGCGTTCCACTTGA 57.605 42.857 0.00 0.00 0.00 3.02
855 882 3.937814 TCTGTAATGCGTTCCACTTGAT 58.062 40.909 0.00 0.00 0.00 2.57
856 883 4.323417 TCTGTAATGCGTTCCACTTGATT 58.677 39.130 0.00 0.00 0.00 2.57
857 884 4.154015 TCTGTAATGCGTTCCACTTGATTG 59.846 41.667 0.00 0.00 0.00 2.67
858 885 3.190327 TGTAATGCGTTCCACTTGATTGG 59.810 43.478 0.00 0.00 38.10 3.16
859 886 1.909700 ATGCGTTCCACTTGATTGGT 58.090 45.000 0.00 0.00 37.93 3.67
860 887 1.686355 TGCGTTCCACTTGATTGGTT 58.314 45.000 0.00 0.00 37.93 3.67
861 888 1.336440 TGCGTTCCACTTGATTGGTTG 59.664 47.619 0.00 0.00 37.93 3.77
862 889 1.335872 GCGTTCCACTTGATTGGTTGG 60.336 52.381 0.00 0.00 37.93 3.77
863 890 2.226330 CGTTCCACTTGATTGGTTGGA 58.774 47.619 0.00 0.00 37.93 3.53
864 891 2.819608 CGTTCCACTTGATTGGTTGGAT 59.180 45.455 0.00 0.00 37.93 3.41
865 892 3.366273 CGTTCCACTTGATTGGTTGGATG 60.366 47.826 0.00 0.00 37.93 3.51
866 893 3.524095 TCCACTTGATTGGTTGGATGT 57.476 42.857 0.00 0.00 37.93 3.06
867 894 3.843422 TCCACTTGATTGGTTGGATGTT 58.157 40.909 0.00 0.00 37.93 2.71
868 895 4.222336 TCCACTTGATTGGTTGGATGTTT 58.778 39.130 0.00 0.00 37.93 2.83
869 896 4.280677 TCCACTTGATTGGTTGGATGTTTC 59.719 41.667 0.00 0.00 37.93 2.78
870 897 4.039004 CCACTTGATTGGTTGGATGTTTCA 59.961 41.667 0.00 0.00 0.00 2.69
871 898 5.453057 CCACTTGATTGGTTGGATGTTTCAA 60.453 40.000 0.00 0.00 0.00 2.69
872 899 6.047870 CACTTGATTGGTTGGATGTTTCAAA 58.952 36.000 0.00 0.00 0.00 2.69
873 900 6.707161 CACTTGATTGGTTGGATGTTTCAAAT 59.293 34.615 0.00 0.00 0.00 2.32
874 901 7.871973 CACTTGATTGGTTGGATGTTTCAAATA 59.128 33.333 0.00 0.00 0.00 1.40
875 902 8.596293 ACTTGATTGGTTGGATGTTTCAAATAT 58.404 29.630 0.00 0.00 0.00 1.28
876 903 9.439500 CTTGATTGGTTGGATGTTTCAAATATT 57.561 29.630 0.00 0.00 0.00 1.28
877 904 8.774890 TGATTGGTTGGATGTTTCAAATATTG 57.225 30.769 0.00 0.00 0.00 1.90
878 905 7.333921 TGATTGGTTGGATGTTTCAAATATTGC 59.666 33.333 0.00 0.00 0.00 3.56
879 906 6.106648 TGGTTGGATGTTTCAAATATTGCA 57.893 33.333 0.00 0.00 0.00 4.08
880 907 6.528321 TGGTTGGATGTTTCAAATATTGCAA 58.472 32.000 0.00 0.00 0.00 4.08
881 908 6.994496 TGGTTGGATGTTTCAAATATTGCAAA 59.006 30.769 1.71 0.00 0.00 3.68
882 909 7.172875 TGGTTGGATGTTTCAAATATTGCAAAG 59.827 33.333 1.71 0.00 0.00 2.77
883 910 7.387397 GGTTGGATGTTTCAAATATTGCAAAGA 59.613 33.333 1.71 0.00 0.00 2.52
884 911 8.437742 GTTGGATGTTTCAAATATTGCAAAGAG 58.562 33.333 1.71 0.00 0.00 2.85
885 912 7.894708 TGGATGTTTCAAATATTGCAAAGAGA 58.105 30.769 1.71 0.00 0.00 3.10
886 913 8.533657 TGGATGTTTCAAATATTGCAAAGAGAT 58.466 29.630 1.71 0.00 0.00 2.75
887 914 9.374838 GGATGTTTCAAATATTGCAAAGAGATT 57.625 29.630 1.71 0.00 0.00 2.40
889 916 9.932207 ATGTTTCAAATATTGCAAAGAGATTGA 57.068 25.926 1.71 7.72 41.85 2.57
890 917 9.761504 TGTTTCAAATATTGCAAAGAGATTGAA 57.238 25.926 17.64 17.64 41.85 2.69
958 990 2.203640 ACGGGGCAGAGACAGACA 60.204 61.111 0.00 0.00 0.00 3.41
973 1005 2.726691 GACACCACCGCATTCGTCG 61.727 63.158 0.00 0.00 0.00 5.12
1169 1216 1.072538 TCCCCTGACCTTTCCCCAA 60.073 57.895 0.00 0.00 0.00 4.12
1183 1230 2.610519 CCCAAGCTTCTCCCTGCCT 61.611 63.158 0.00 0.00 0.00 4.75
1210 1260 0.613777 GTCTCACCCTCCAATTCCGT 59.386 55.000 0.00 0.00 0.00 4.69
1280 1330 2.572284 GAGAAGTACGTGCCCGCT 59.428 61.111 0.00 0.00 37.70 5.52
1332 1389 2.143122 TCTGATGTTGTTTCTGACGGC 58.857 47.619 0.00 0.00 0.00 5.68
1403 1460 0.905357 CCACCACGGAGAAGGAGAAT 59.095 55.000 0.00 0.00 36.56 2.40
1448 1505 4.220821 CCGGAGTGCTACAACCTCATATAT 59.779 45.833 0.00 0.00 0.00 0.86
1492 1549 2.328099 CGGTGTGGAAGGCTGCTTC 61.328 63.158 0.00 1.56 0.00 3.86
1504 1561 1.668047 GGCTGCTTCTGTGATGTTTGC 60.668 52.381 0.00 0.00 0.00 3.68
1510 1567 4.142204 TGCTTCTGTGATGTTTGCTTTGAA 60.142 37.500 0.00 0.00 0.00 2.69
1519 1576 6.864685 GTGATGTTTGCTTTGAATTCTGATGA 59.135 34.615 7.05 0.00 0.00 2.92
1520 1577 7.383029 GTGATGTTTGCTTTGAATTCTGATGAA 59.617 33.333 7.05 0.00 36.54 2.57
1521 1578 7.597369 TGATGTTTGCTTTGAATTCTGATGAAG 59.403 33.333 7.05 4.77 35.44 3.02
1523 1580 6.698329 TGTTTGCTTTGAATTCTGATGAAGTG 59.302 34.615 7.05 0.00 35.44 3.16
1524 1581 6.638096 TTGCTTTGAATTCTGATGAAGTGA 57.362 33.333 7.05 0.00 35.44 3.41
1619 1679 2.878406 GCACAAGTAAGACAGCAGGAAA 59.122 45.455 0.00 0.00 0.00 3.13
1624 1684 7.254590 GCACAAGTAAGACAGCAGGAAATATAG 60.255 40.741 0.00 0.00 0.00 1.31
1632 1692 8.224620 AGACAGCAGGAAATATAGGGAATATT 57.775 34.615 0.00 0.00 41.62 1.28
1653 1713 8.814038 ATATTTAGCTTCAGTGTTTCTGGATT 57.186 30.769 0.00 0.00 43.76 3.01
1682 1743 8.076781 CACTGAATTGTACTATCTACGTAGCAT 58.923 37.037 18.00 13.72 0.00 3.79
1690 1751 8.278408 TGTACTATCTACGTAGCATTCGTAAAG 58.722 37.037 18.00 7.82 41.92 1.85
1692 1753 4.970662 TCTACGTAGCATTCGTAAAGGT 57.029 40.909 18.00 0.00 41.92 3.50
1703 1764 5.612276 GCATTCGTAAAGGTTTGCATTGTTG 60.612 40.000 0.00 0.00 0.00 3.33
1726 1787 2.300437 GCTCTCTGTTTGGGTGTAGAGT 59.700 50.000 0.00 0.00 38.22 3.24
1738 1799 3.181448 GGGTGTAGAGTGTGGAAAAGGAA 60.181 47.826 0.00 0.00 0.00 3.36
1841 1903 6.006449 AGTTCTTAGCAATTCTCACCACATT 58.994 36.000 0.00 0.00 0.00 2.71
1959 2021 3.014623 GGTGGAACAGTTAGTTATGGCC 58.985 50.000 0.00 0.00 41.80 5.36
1968 2030 6.300703 ACAGTTAGTTATGGCCTGTGTTAAA 58.699 36.000 3.32 0.00 35.20 1.52
1969 2031 6.773685 ACAGTTAGTTATGGCCTGTGTTAAAA 59.226 34.615 3.32 0.00 35.20 1.52
1970 2032 7.081976 CAGTTAGTTATGGCCTGTGTTAAAAC 58.918 38.462 3.32 0.00 0.00 2.43
1971 2033 7.002276 AGTTAGTTATGGCCTGTGTTAAAACT 58.998 34.615 3.32 1.81 0.00 2.66
1972 2034 7.504574 AGTTAGTTATGGCCTGTGTTAAAACTT 59.495 33.333 3.32 0.00 0.00 2.66
1973 2035 8.785946 GTTAGTTATGGCCTGTGTTAAAACTTA 58.214 33.333 3.32 0.00 0.00 2.24
1974 2036 7.826918 AGTTATGGCCTGTGTTAAAACTTAA 57.173 32.000 3.32 0.00 0.00 1.85
2006 2068 4.036027 CCATGAAGCCTGTCATAACATGTC 59.964 45.833 0.00 0.00 36.04 3.06
2105 2167 5.663106 AGTGATAGTTGAGCAAGGGAGATTA 59.337 40.000 0.00 0.00 0.00 1.75
2298 2360 3.808726 CAGCTGTCTCTTGGATTCTATGC 59.191 47.826 5.25 0.00 0.00 3.14
2339 2401 8.300286 TGTTTAATTTTGACAACTCACAACTCA 58.700 29.630 0.00 0.00 0.00 3.41
2414 2476 5.714806 GGTCCATTGGGTTTCTAATTCTTGA 59.285 40.000 2.09 0.00 34.93 3.02
2518 2580 7.103641 TGTACTTCCCAGAATATCACTTTGAC 58.896 38.462 0.00 0.00 0.00 3.18
2632 2694 6.677781 TTACATTAGAGTTTACATGCTGCC 57.322 37.500 0.00 0.00 0.00 4.85
3058 3121 7.833682 TGAAGGATTTATACTTTCTGCCAATGA 59.166 33.333 0.00 0.00 29.10 2.57
3131 3194 6.285990 ACGTTTCCTAACATATGGTGTATCC 58.714 40.000 2.68 0.00 41.14 2.59
3532 3630 4.887071 TGTCAACATTCAGGTTTTACTGCT 59.113 37.500 0.00 0.00 38.36 4.24
3555 3669 3.696281 TGTCAGCAAACACATCACTTG 57.304 42.857 0.00 0.00 0.00 3.16
3584 3698 5.194432 TGTTTGGTTTCTAGCCACACTTTA 58.806 37.500 5.95 0.00 37.52 1.85
3599 3713 1.606668 ACTTTACCACACATTGCCACG 59.393 47.619 0.00 0.00 0.00 4.94
3637 3751 3.821033 GTGTTTGATTCTAAGCCACACCT 59.179 43.478 0.00 0.00 0.00 4.00
3640 3754 6.151144 GTGTTTGATTCTAAGCCACACCTTAT 59.849 38.462 0.00 0.00 0.00 1.73
3716 3830 0.806492 GATTTCTCGACCGACAGCCC 60.806 60.000 0.00 0.00 0.00 5.19
3725 3839 2.703798 CCGACAGCCCCTTGCATTG 61.704 63.158 0.00 0.00 44.83 2.82
3727 3841 1.885871 GACAGCCCCTTGCATTGTC 59.114 57.895 0.00 0.00 44.83 3.18
3741 3855 6.039047 CCTTGCATTGTCAGATAATAAGTGCT 59.961 38.462 5.22 0.00 0.00 4.40
3742 3856 6.609237 TGCATTGTCAGATAATAAGTGCTC 57.391 37.500 5.22 0.00 0.00 4.26
3761 3875 1.076187 TCAGTCAAGAGGAGAGGCTCA 59.924 52.381 18.26 0.00 31.08 4.26
3781 3895 6.239120 GGCTCATGATAATTGTTGCCACTAAT 60.239 38.462 12.15 0.00 36.02 1.73
3817 3931 5.597806 AGGCATATTTGACAATCATGCAAG 58.402 37.500 24.55 0.00 42.94 4.01
3818 3932 4.210537 GGCATATTTGACAATCATGCAAGC 59.789 41.667 24.55 11.91 42.94 4.01
3838 3952 3.620374 AGCATGCTTTCAGAATCAGTACG 59.380 43.478 16.30 0.00 0.00 3.67
3870 3984 4.604156 TCTCAATCCAGAGAAGTAGCTGA 58.396 43.478 0.00 0.00 41.45 4.26
3899 4013 4.712476 AGCTTCAATATTCTGCCGATTCT 58.288 39.130 0.00 0.00 0.00 2.40
3940 4054 3.490078 GCGATTGTGACAAGTGGGAAAAA 60.490 43.478 3.74 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.988815 TCCTTGATCTATAGTTTCTGATTAAGC 57.011 33.333 0.00 0.00 33.80 3.09
22 23 4.339530 GGCTTCTGTTTCTCAAGTTTCCTT 59.660 41.667 0.00 0.00 0.00 3.36
37 38 2.636830 CGGAAGAATGATGGCTTCTGT 58.363 47.619 0.00 0.00 40.78 3.41
38 39 1.332997 GCGGAAGAATGATGGCTTCTG 59.667 52.381 10.90 10.90 45.75 3.02
39 40 1.065199 TGCGGAAGAATGATGGCTTCT 60.065 47.619 0.00 0.00 40.20 2.85
40 41 1.332997 CTGCGGAAGAATGATGGCTTC 59.667 52.381 0.00 0.00 39.74 3.86
41 42 1.386533 CTGCGGAAGAATGATGGCTT 58.613 50.000 0.00 0.00 0.00 4.35
42 43 0.465097 CCTGCGGAAGAATGATGGCT 60.465 55.000 0.00 0.00 0.00 4.75
57 58 4.168760 CAAAACGATGATTTCTTCCCTGC 58.831 43.478 0.00 0.00 0.00 4.85
127 128 9.176181 GCTTATTCGAACAAAAATGAACTACAA 57.824 29.630 0.00 0.00 0.00 2.41
128 129 8.346300 TGCTTATTCGAACAAAAATGAACTACA 58.654 29.630 0.00 0.00 0.00 2.74
129 130 8.722342 TGCTTATTCGAACAAAAATGAACTAC 57.278 30.769 0.00 0.00 0.00 2.73
130 131 9.554724 GATGCTTATTCGAACAAAAATGAACTA 57.445 29.630 0.00 0.00 0.00 2.24
131 132 7.542130 GGATGCTTATTCGAACAAAAATGAACT 59.458 33.333 0.00 0.00 0.00 3.01
132 133 7.201435 GGGATGCTTATTCGAACAAAAATGAAC 60.201 37.037 0.00 0.00 0.00 3.18
133 134 6.811170 GGGATGCTTATTCGAACAAAAATGAA 59.189 34.615 0.00 0.00 0.00 2.57
134 135 6.329496 GGGATGCTTATTCGAACAAAAATGA 58.671 36.000 0.00 0.00 0.00 2.57
135 136 5.519927 GGGGATGCTTATTCGAACAAAAATG 59.480 40.000 0.00 0.00 0.00 2.32
136 137 5.422012 AGGGGATGCTTATTCGAACAAAAAT 59.578 36.000 0.00 0.00 0.00 1.82
137 138 4.770010 AGGGGATGCTTATTCGAACAAAAA 59.230 37.500 0.00 0.00 0.00 1.94
138 139 4.340617 AGGGGATGCTTATTCGAACAAAA 58.659 39.130 0.00 0.00 0.00 2.44
139 140 3.963129 AGGGGATGCTTATTCGAACAAA 58.037 40.909 0.00 0.00 0.00 2.83
140 141 3.644966 AGGGGATGCTTATTCGAACAA 57.355 42.857 0.00 0.00 0.00 2.83
141 142 3.709653 ACTAGGGGATGCTTATTCGAACA 59.290 43.478 0.00 0.00 0.00 3.18
142 143 4.338379 ACTAGGGGATGCTTATTCGAAC 57.662 45.455 0.00 0.00 0.00 3.95
143 144 4.654262 AGAACTAGGGGATGCTTATTCGAA 59.346 41.667 0.00 0.00 0.00 3.71
144 145 4.039245 CAGAACTAGGGGATGCTTATTCGA 59.961 45.833 0.00 0.00 0.00 3.71
145 146 4.202264 ACAGAACTAGGGGATGCTTATTCG 60.202 45.833 0.00 0.00 0.00 3.34
146 147 5.297569 ACAGAACTAGGGGATGCTTATTC 57.702 43.478 0.00 0.00 0.00 1.75
169 170 7.397892 TCGGGCAAAAATGAACTATAATTCA 57.602 32.000 0.00 0.00 42.62 2.57
341 342 6.124340 TGCATATCAGGAAGATGAATGTTGT 58.876 36.000 0.00 0.00 37.57 3.32
344 345 6.183810 TCTGCATATCAGGAAGATGAATGT 57.816 37.500 0.00 0.00 43.06 2.71
347 348 5.052481 CGTTCTGCATATCAGGAAGATGAA 58.948 41.667 0.00 0.00 43.06 2.57
356 357 1.667236 TTGCCCGTTCTGCATATCAG 58.333 50.000 0.00 0.00 44.21 2.90
369 370 0.732538 GCGAAACCTGAATTTGCCCG 60.733 55.000 0.00 0.00 32.14 6.13
386 387 1.072159 GATCATCCCCCTTCAGGCG 59.928 63.158 0.00 0.00 0.00 5.52
411 412 5.078411 TCACTCTCCATCTTCAGCTTTAC 57.922 43.478 0.00 0.00 0.00 2.01
416 417 4.033817 CGAAATTCACTCTCCATCTTCAGC 59.966 45.833 0.00 0.00 0.00 4.26
435 436 3.632604 TCCAACAAACAATGCTACCGAAA 59.367 39.130 0.00 0.00 0.00 3.46
534 543 4.560513 CGGCTTCCCACACAATAACAAAAT 60.561 41.667 0.00 0.00 0.00 1.82
557 566 3.651980 CTGGCCCCTGCTTCTTCCC 62.652 68.421 0.00 0.00 37.74 3.97
611 620 4.177783 GAGCACCTGTCTAGAAAACTAGC 58.822 47.826 0.00 0.00 0.00 3.42
617 626 3.834813 AGTCATGAGCACCTGTCTAGAAA 59.165 43.478 0.00 0.00 0.00 2.52
626 638 2.551721 CCTGTTCAAGTCATGAGCACCT 60.552 50.000 0.00 0.00 43.36 4.00
689 711 3.723764 CGTGTTCCATTTTTGAGACAACG 59.276 43.478 0.00 0.00 0.00 4.10
694 716 6.434596 CATGTAACGTGTTCCATTTTTGAGA 58.565 36.000 0.00 0.00 0.00 3.27
700 723 4.576216 TTGCATGTAACGTGTTCCATTT 57.424 36.364 0.00 0.00 0.00 2.32
705 728 3.003897 TCCCTTTTGCATGTAACGTGTTC 59.996 43.478 0.00 0.00 0.00 3.18
731 754 7.601886 TGTTCCCTTTTGCATGTAAACATATTG 59.398 33.333 8.60 0.00 34.26 1.90
742 765 2.507339 AACGTGTTCCCTTTTGCATG 57.493 45.000 0.00 0.00 0.00 4.06
743 766 2.952978 TGTAACGTGTTCCCTTTTGCAT 59.047 40.909 0.00 0.00 0.00 3.96
744 767 2.366533 TGTAACGTGTTCCCTTTTGCA 58.633 42.857 0.00 0.00 0.00 4.08
745 768 3.305110 CATGTAACGTGTTCCCTTTTGC 58.695 45.455 0.00 0.00 0.00 3.68
746 769 3.243234 TGCATGTAACGTGTTCCCTTTTG 60.243 43.478 0.00 0.00 0.00 2.44
748 771 2.577700 TGCATGTAACGTGTTCCCTTT 58.422 42.857 0.00 0.00 0.00 3.11
749 772 2.264005 TGCATGTAACGTGTTCCCTT 57.736 45.000 0.00 0.00 0.00 3.95
750 773 2.264005 TTGCATGTAACGTGTTCCCT 57.736 45.000 0.00 0.00 0.00 4.20
751 774 3.241701 CATTTGCATGTAACGTGTTCCC 58.758 45.455 0.00 0.00 0.00 3.97
752 775 2.661195 GCATTTGCATGTAACGTGTTCC 59.339 45.455 0.00 0.00 41.59 3.62
753 776 2.338228 CGCATTTGCATGTAACGTGTTC 59.662 45.455 0.00 0.00 42.21 3.18
754 777 2.315011 CGCATTTGCATGTAACGTGTT 58.685 42.857 0.00 0.00 42.21 3.32
756 779 1.258427 CCGCATTTGCATGTAACGTG 58.742 50.000 0.00 0.00 42.21 4.49
757 780 0.878416 ACCGCATTTGCATGTAACGT 59.122 45.000 0.00 0.00 42.21 3.99
758 781 1.648191 CAACCGCATTTGCATGTAACG 59.352 47.619 0.00 0.00 42.21 3.18
759 782 2.940147 TCAACCGCATTTGCATGTAAC 58.060 42.857 0.00 0.00 42.21 2.50
760 783 3.005261 ACTTCAACCGCATTTGCATGTAA 59.995 39.130 3.13 0.00 42.21 2.41
761 784 2.556189 ACTTCAACCGCATTTGCATGTA 59.444 40.909 3.13 0.00 42.21 2.29
762 785 1.340889 ACTTCAACCGCATTTGCATGT 59.659 42.857 3.13 0.00 42.21 3.21
763 786 2.068837 ACTTCAACCGCATTTGCATG 57.931 45.000 3.13 0.00 42.21 4.06
764 787 2.818130 AACTTCAACCGCATTTGCAT 57.182 40.000 3.13 0.00 42.21 3.96
806 830 8.286097 GCTAGTACCATATTTCAATCTCTTTGC 58.714 37.037 0.00 0.00 35.16 3.68
828 855 3.246226 GTGGAACGCATTACAGATGCTAG 59.754 47.826 9.07 0.00 42.50 3.42
829 856 3.118775 AGTGGAACGCATTACAGATGCTA 60.119 43.478 9.07 0.00 45.86 3.49
830 857 2.009774 GTGGAACGCATTACAGATGCT 58.990 47.619 9.07 0.00 42.50 3.79
831 858 2.009774 AGTGGAACGCATTACAGATGC 58.990 47.619 1.04 1.04 45.86 3.91
832 859 3.684305 TCAAGTGGAACGCATTACAGATG 59.316 43.478 0.00 0.00 45.86 2.90
833 860 3.937814 TCAAGTGGAACGCATTACAGAT 58.062 40.909 0.00 0.00 45.86 2.90
834 861 3.394674 TCAAGTGGAACGCATTACAGA 57.605 42.857 0.00 0.00 45.86 3.41
835 862 4.406069 CAATCAAGTGGAACGCATTACAG 58.594 43.478 0.00 0.00 45.86 2.74
836 863 3.190327 CCAATCAAGTGGAACGCATTACA 59.810 43.478 0.00 0.00 45.86 2.41
837 864 3.190535 ACCAATCAAGTGGAACGCATTAC 59.809 43.478 3.08 0.00 45.86 1.89
838 865 3.417101 ACCAATCAAGTGGAACGCATTA 58.583 40.909 3.08 0.00 45.86 1.90
839 866 2.238521 ACCAATCAAGTGGAACGCATT 58.761 42.857 3.08 0.00 45.86 3.56
840 867 1.909700 ACCAATCAAGTGGAACGCAT 58.090 45.000 3.08 0.00 45.86 4.73
841 868 1.336440 CAACCAATCAAGTGGAACGCA 59.664 47.619 3.08 0.00 45.86 5.24
842 869 1.335872 CCAACCAATCAAGTGGAACGC 60.336 52.381 3.08 0.00 45.86 4.84
843 870 2.226330 TCCAACCAATCAAGTGGAACG 58.774 47.619 3.08 0.00 45.86 3.95
844 871 3.573967 ACATCCAACCAATCAAGTGGAAC 59.426 43.478 3.08 0.00 41.65 3.62
845 872 3.843422 ACATCCAACCAATCAAGTGGAA 58.157 40.909 3.08 0.00 41.65 3.53
846 873 3.524095 ACATCCAACCAATCAAGTGGA 57.476 42.857 3.08 0.00 41.65 4.02
847 874 4.039004 TGAAACATCCAACCAATCAAGTGG 59.961 41.667 0.00 0.00 44.92 4.00
848 875 5.199024 TGAAACATCCAACCAATCAAGTG 57.801 39.130 0.00 0.00 0.00 3.16
849 876 5.867903 TTGAAACATCCAACCAATCAAGT 57.132 34.783 0.00 0.00 0.00 3.16
850 877 9.439500 AATATTTGAAACATCCAACCAATCAAG 57.561 29.630 0.00 0.00 0.00 3.02
851 878 9.217278 CAATATTTGAAACATCCAACCAATCAA 57.783 29.630 0.00 0.00 0.00 2.57
852 879 7.333921 GCAATATTTGAAACATCCAACCAATCA 59.666 33.333 0.00 0.00 0.00 2.57
853 880 7.333921 TGCAATATTTGAAACATCCAACCAATC 59.666 33.333 0.00 0.00 0.00 2.67
854 881 7.166851 TGCAATATTTGAAACATCCAACCAAT 58.833 30.769 0.00 0.00 0.00 3.16
855 882 6.528321 TGCAATATTTGAAACATCCAACCAA 58.472 32.000 0.00 0.00 0.00 3.67
856 883 6.106648 TGCAATATTTGAAACATCCAACCA 57.893 33.333 0.00 0.00 0.00 3.67
857 884 7.387397 TCTTTGCAATATTTGAAACATCCAACC 59.613 33.333 0.00 0.00 0.00 3.77
858 885 8.309163 TCTTTGCAATATTTGAAACATCCAAC 57.691 30.769 0.00 0.00 0.00 3.77
859 886 8.366401 TCTCTTTGCAATATTTGAAACATCCAA 58.634 29.630 0.00 0.00 0.00 3.53
860 887 7.894708 TCTCTTTGCAATATTTGAAACATCCA 58.105 30.769 0.00 0.00 0.00 3.41
861 888 8.937634 ATCTCTTTGCAATATTTGAAACATCC 57.062 30.769 0.00 0.00 0.00 3.51
863 890 9.932207 TCAATCTCTTTGCAATATTTGAAACAT 57.068 25.926 0.00 0.00 35.16 2.71
864 891 9.761504 TTCAATCTCTTTGCAATATTTGAAACA 57.238 25.926 0.00 0.00 35.16 2.83
874 901 9.193806 AGTACCATATTTCAATCTCTTTGCAAT 57.806 29.630 0.00 0.00 35.68 3.56
875 902 8.579850 AGTACCATATTTCAATCTCTTTGCAA 57.420 30.769 0.00 0.00 35.16 4.08
876 903 9.330063 CTAGTACCATATTTCAATCTCTTTGCA 57.670 33.333 0.00 0.00 35.16 4.08
877 904 8.286097 GCTAGTACCATATTTCAATCTCTTTGC 58.714 37.037 0.00 0.00 35.16 3.68
878 905 9.330063 TGCTAGTACCATATTTCAATCTCTTTG 57.670 33.333 0.00 0.00 36.61 2.77
880 907 9.717942 GATGCTAGTACCATATTTCAATCTCTT 57.282 33.333 0.00 0.00 0.00 2.85
881 908 9.099071 AGATGCTAGTACCATATTTCAATCTCT 57.901 33.333 0.00 0.00 0.00 3.10
882 909 9.149225 CAGATGCTAGTACCATATTTCAATCTC 57.851 37.037 0.00 0.00 0.00 2.75
883 910 8.654997 ACAGATGCTAGTACCATATTTCAATCT 58.345 33.333 0.00 0.00 0.00 2.40
884 911 8.839310 ACAGATGCTAGTACCATATTTCAATC 57.161 34.615 0.00 0.00 0.00 2.67
887 914 9.710900 CATTACAGATGCTAGTACCATATTTCA 57.289 33.333 0.00 0.00 0.00 2.69
888 915 8.660373 GCATTACAGATGCTAGTACCATATTTC 58.340 37.037 3.87 0.00 41.52 2.17
889 916 7.331934 CGCATTACAGATGCTAGTACCATATTT 59.668 37.037 9.07 0.00 42.50 1.40
890 917 6.813649 CGCATTACAGATGCTAGTACCATATT 59.186 38.462 9.07 0.00 42.50 1.28
891 918 6.071334 ACGCATTACAGATGCTAGTACCATAT 60.071 38.462 9.07 0.00 42.50 1.78
892 919 5.243060 ACGCATTACAGATGCTAGTACCATA 59.757 40.000 9.07 0.00 42.50 2.74
893 920 4.039245 ACGCATTACAGATGCTAGTACCAT 59.961 41.667 9.07 0.00 42.50 3.55
894 921 3.383505 ACGCATTACAGATGCTAGTACCA 59.616 43.478 9.07 0.00 42.50 3.25
895 922 3.978687 ACGCATTACAGATGCTAGTACC 58.021 45.455 9.07 0.00 42.50 3.34
958 990 4.673298 TGCGACGAATGCGGTGGT 62.673 61.111 0.00 0.00 43.17 4.16
990 1022 3.546543 GGATCCATCCGGTCGGCA 61.547 66.667 6.95 0.00 37.19 5.69
1070 1111 2.277072 CGAGGAGGAGCAGGAGGA 59.723 66.667 0.00 0.00 0.00 3.71
1169 1216 2.690510 GGGAGGCAGGGAGAAGCT 60.691 66.667 0.00 0.00 0.00 3.74
1183 1230 3.899545 GAGGGTGAGACGGGTGGGA 62.900 68.421 0.00 0.00 0.00 4.37
1210 1260 1.003580 GGATCTCCTTGTCCTGCAACA 59.996 52.381 0.00 0.00 32.90 3.33
1492 1549 6.210796 TCAGAATTCAAAGCAAACATCACAG 58.789 36.000 8.44 0.00 0.00 3.66
1510 1567 9.071276 ACACAGTAAAAATCACTTCATCAGAAT 57.929 29.630 0.00 0.00 32.31 2.40
1519 1576 5.105554 TGCCACAACACAGTAAAAATCACTT 60.106 36.000 0.00 0.00 0.00 3.16
1520 1577 4.400884 TGCCACAACACAGTAAAAATCACT 59.599 37.500 0.00 0.00 0.00 3.41
1521 1578 4.677584 TGCCACAACACAGTAAAAATCAC 58.322 39.130 0.00 0.00 0.00 3.06
1523 1580 3.735746 GCTGCCACAACACAGTAAAAATC 59.264 43.478 0.00 0.00 36.26 2.17
1524 1581 3.384467 AGCTGCCACAACACAGTAAAAAT 59.616 39.130 0.00 0.00 36.26 1.82
1624 1684 7.631717 AGAAACACTGAAGCTAAATATTCCC 57.368 36.000 0.00 0.00 0.00 3.97
1641 1701 7.425606 ACAATTCAGTGTAAATCCAGAAACAC 58.574 34.615 0.00 0.00 41.97 3.32
1676 1737 4.413495 TGCAAACCTTTACGAATGCTAC 57.587 40.909 0.00 0.00 34.97 3.58
1682 1743 4.800993 CACAACAATGCAAACCTTTACGAA 59.199 37.500 0.00 0.00 0.00 3.85
1703 1764 2.037251 TCTACACCCAAACAGAGAGCAC 59.963 50.000 0.00 0.00 0.00 4.40
1927 1989 7.103641 ACTAACTGTTCCACCATAAGTACATG 58.896 38.462 0.00 0.00 0.00 3.21
1959 2021 6.695713 GGTCAGGCTTTTAAGTTTTAACACAG 59.304 38.462 0.00 0.00 0.00 3.66
1968 2030 4.021981 GCTTCATGGTCAGGCTTTTAAGTT 60.022 41.667 0.00 0.00 0.00 2.66
1969 2031 3.507622 GCTTCATGGTCAGGCTTTTAAGT 59.492 43.478 0.00 0.00 0.00 2.24
1970 2032 3.119352 GGCTTCATGGTCAGGCTTTTAAG 60.119 47.826 0.00 0.00 32.83 1.85
1971 2033 2.825532 GGCTTCATGGTCAGGCTTTTAA 59.174 45.455 0.00 0.00 32.83 1.52
1972 2034 2.041620 AGGCTTCATGGTCAGGCTTTTA 59.958 45.455 9.75 0.00 43.11 1.52
1973 2035 1.203100 AGGCTTCATGGTCAGGCTTTT 60.203 47.619 9.75 0.00 43.11 2.27
1974 2036 0.407139 AGGCTTCATGGTCAGGCTTT 59.593 50.000 9.75 0.00 43.11 3.51
2006 2068 6.239120 CCCTTACTGAATTATCCATTTGGCTG 60.239 42.308 0.00 0.00 34.44 4.85
2208 2270 1.272425 GGTTGGGAATGTGGGTGATGA 60.272 52.381 0.00 0.00 0.00 2.92
2209 2271 1.185315 GGTTGGGAATGTGGGTGATG 58.815 55.000 0.00 0.00 0.00 3.07
2210 2272 1.005924 GAGGTTGGGAATGTGGGTGAT 59.994 52.381 0.00 0.00 0.00 3.06
2211 2273 0.404040 GAGGTTGGGAATGTGGGTGA 59.596 55.000 0.00 0.00 0.00 4.02
2212 2274 0.611896 GGAGGTTGGGAATGTGGGTG 60.612 60.000 0.00 0.00 0.00 4.61
2213 2275 1.071314 TGGAGGTTGGGAATGTGGGT 61.071 55.000 0.00 0.00 0.00 4.51
2214 2276 0.336048 ATGGAGGTTGGGAATGTGGG 59.664 55.000 0.00 0.00 0.00 4.61
2325 2387 4.130118 GGATGAGTTGAGTTGTGAGTTGT 58.870 43.478 0.00 0.00 0.00 3.32
2339 2401 4.040755 ACTAGCCCACATTAGGATGAGTT 58.959 43.478 0.00 0.00 36.73 3.01
2414 2476 7.437748 AGAAGTAAAACTGCGAGATATAGCAT 58.562 34.615 0.00 0.00 42.95 3.79
2458 2520 4.184629 GTGAGGAGCACCAGTAACTAATG 58.815 47.826 2.07 0.00 41.78 1.90
2482 2544 6.540438 TCTGGGAAGTACAGGTATTTACAG 57.460 41.667 0.00 10.17 36.62 2.74
2518 2580 9.123902 TCAGTAAATAACAAATGATCATGGGAG 57.876 33.333 9.46 2.37 0.00 4.30
2549 2611 9.971922 ATTTCTGTTTTCTTTTTCTGGATGTAG 57.028 29.630 0.00 0.00 0.00 2.74
2743 2805 5.809001 ACTAAAATGCCAGAGAGTCAATGA 58.191 37.500 0.00 0.00 0.00 2.57
2774 2836 1.532505 GCATGCTGTGCGTATTTGAGG 60.533 52.381 11.37 0.00 45.23 3.86
2829 2892 1.002134 CACGGTGGATTGGGCTCTT 60.002 57.895 0.00 0.00 0.00 2.85
2830 2893 2.671070 CACGGTGGATTGGGCTCT 59.329 61.111 0.00 0.00 0.00 4.09
2831 2894 2.438434 CCACGGTGGATTGGGCTC 60.438 66.667 22.77 0.00 40.96 4.70
2832 2895 2.933287 TCCACGGTGGATTGGGCT 60.933 61.111 25.53 0.00 42.67 5.19
2852 2915 5.419155 TGTGGGTGTGAAAGTTTGAATGTAA 59.581 36.000 0.00 0.00 0.00 2.41
3179 3242 7.013655 ACACTGGAAAGATATATGTTGGATTGC 59.986 37.037 0.00 0.00 0.00 3.56
3316 3408 8.567948 TCTGACTTGTTTTGTTATCTTTGGATC 58.432 33.333 0.00 0.00 33.71 3.36
3399 3491 9.640963 ATTCTGTTGTCTATCTAACACTAACAC 57.359 33.333 0.00 0.00 33.60 3.32
3426 3521 3.755905 TGTTTGTGTCAACTGAAGCTTCA 59.244 39.130 26.87 26.87 35.57 3.02
3532 3630 5.278414 CCAAGTGATGTGTTTGCTGACATTA 60.278 40.000 0.00 0.00 32.85 1.90
3545 3659 0.540365 AACAGCCCCCAAGTGATGTG 60.540 55.000 0.00 0.00 0.00 3.21
3555 3669 1.545841 CTAGAAACCAAACAGCCCCC 58.454 55.000 0.00 0.00 0.00 5.40
3584 3698 3.294493 GGCGTGGCAATGTGTGGT 61.294 61.111 0.00 0.00 0.00 4.16
3599 3713 3.577805 AACACCCACCTAATATGAGGC 57.422 47.619 5.96 0.00 40.65 4.70
3716 3830 6.039047 AGCACTTATTATCTGACAATGCAAGG 59.961 38.462 0.00 0.00 32.99 3.61
3725 3839 7.261325 TCTTGACTGAGCACTTATTATCTGAC 58.739 38.462 0.00 0.00 0.00 3.51
3727 3841 6.700960 CCTCTTGACTGAGCACTTATTATCTG 59.299 42.308 0.00 0.00 33.02 2.90
3741 3855 1.076187 TGAGCCTCTCCTCTTGACTGA 59.924 52.381 0.00 0.00 33.02 3.41
3742 3856 1.554836 TGAGCCTCTCCTCTTGACTG 58.445 55.000 0.00 0.00 33.02 3.51
3781 3895 1.583556 TATGCCTCCCAAGCTTCTCA 58.416 50.000 0.00 0.00 0.00 3.27
3817 3931 3.618594 TCGTACTGATTCTGAAAGCATGC 59.381 43.478 10.51 10.51 28.87 4.06
3818 3932 4.269603 CCTCGTACTGATTCTGAAAGCATG 59.730 45.833 0.00 0.00 28.87 4.06
3838 3952 2.433604 TCTGGATTGAGAGATGTGCCTC 59.566 50.000 0.00 0.00 0.00 4.70
3870 3984 5.392380 CGGCAGAATATTGAAGCTTTTGACT 60.392 40.000 0.00 0.00 0.00 3.41
3922 4036 3.165875 TGGTTTTTCCCACTTGTCACAA 58.834 40.909 0.00 0.00 34.77 3.33


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

AutoCloner maintained by Alex Coulton.