Multiple sequence alignment - TraesCS6D01G097500

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6D01G097500 chr6D 100.000 7589 0 0 1 7589 61152161 61144573 0.000000e+00 14015.0
1 TraesCS6D01G097500 chr6D 93.774 771 25 2 1 770 175430088 175430836 0.000000e+00 1136.0
2 TraesCS6D01G097500 chr6D 94.000 100 5 1 6773 6871 448291809 448291710 4.740000e-32 150.0
3 TraesCS6D01G097500 chr6A 97.556 5196 73 21 1601 6776 77795306 77790145 0.000000e+00 8842.0
4 TraesCS6D01G097500 chr6A 92.260 801 25 20 780 1558 77796308 77795523 0.000000e+00 1101.0
5 TraesCS6D01G097500 chr6A 92.605 311 15 6 7280 7589 77789773 77789470 2.510000e-119 440.0
6 TraesCS6D01G097500 chr6A 86.061 330 13 10 6858 7184 77790146 77789847 2.640000e-84 324.0
7 TraesCS6D01G097500 chr6B 94.674 5126 192 41 1601 6666 135127685 135122581 0.000000e+00 7878.0
8 TraesCS6D01G097500 chr6B 93.944 710 15 13 863 1558 135128587 135127892 0.000000e+00 1048.0
9 TraesCS6D01G097500 chr6B 89.333 75 6 2 6918 6992 135122385 135122313 8.110000e-15 93.5
10 TraesCS6D01G097500 chr3D 97.798 772 14 3 1 770 160923416 160924186 0.000000e+00 1328.0
11 TraesCS6D01G097500 chr3D 95.584 770 31 3 3 770 20295114 20295882 0.000000e+00 1230.0
12 TraesCS6D01G097500 chr7D 97.665 771 17 1 1 770 93611702 93612472 0.000000e+00 1323.0
13 TraesCS6D01G097500 chr4D 97.017 771 20 3 1 770 498699414 498698646 0.000000e+00 1293.0
14 TraesCS6D01G097500 chr4D 94.000 100 5 1 6773 6871 68726242 68726341 4.740000e-32 150.0
15 TraesCS6D01G097500 chr2D 96.891 772 23 1 1 771 568353062 568352291 0.000000e+00 1291.0
16 TraesCS6D01G097500 chr2D 94.000 100 5 1 6773 6871 10685886 10685985 4.740000e-32 150.0
17 TraesCS6D01G097500 chr1D 96.615 768 23 3 1 766 30065006 30064240 0.000000e+00 1271.0
18 TraesCS6D01G097500 chr1D 94.000 100 5 1 6773 6871 489134007 489134106 4.740000e-32 150.0
19 TraesCS6D01G097500 chr1D 94.828 58 2 1 7533 7589 244197849 244197792 1.050000e-13 89.8
20 TraesCS6D01G097500 chr1D 94.828 58 2 1 7533 7589 244765043 244764986 1.050000e-13 89.8
21 TraesCS6D01G097500 chrUn 93.582 779 24 4 1 776 384283183 384282428 0.000000e+00 1138.0
22 TraesCS6D01G097500 chrUn 93.453 779 25 4 1 776 379922043 379921288 0.000000e+00 1133.0
23 TraesCS6D01G097500 chr7A 88.425 743 65 18 30 770 147913899 147913176 0.000000e+00 876.0
24 TraesCS6D01G097500 chr7A 94.000 100 5 1 6773 6871 31785752 31785851 4.740000e-32 150.0
25 TraesCS6D01G097500 chr1B 85.007 707 78 12 30 732 529662014 529661332 0.000000e+00 693.0
26 TraesCS6D01G097500 chr1B 96.667 60 2 0 7033 7092 631724853 631724912 4.850000e-17 100.0
27 TraesCS6D01G097500 chr4A 82.898 766 81 18 30 770 630840600 630841340 1.790000e-180 643.0
28 TraesCS6D01G097500 chr4A 97.938 97 2 0 2214 2310 741818612 741818708 1.310000e-37 169.0
29 TraesCS6D01G097500 chr4B 86.694 248 23 2 7033 7271 44925012 44925258 4.510000e-67 267.0
30 TraesCS6D01G097500 chr5A 95.876 97 2 2 6775 6871 505136317 505136411 1.020000e-33 156.0
31 TraesCS6D01G097500 chr5B 96.703 91 3 0 6775 6865 135750649 135750739 1.320000e-32 152.0
32 TraesCS6D01G097500 chr1A 94.792 96 4 1 6767 6862 514886366 514886272 1.710000e-31 148.0
33 TraesCS6D01G097500 chr1A 94.792 96 4 1 6767 6862 515142632 515142538 1.710000e-31 148.0


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 TraesCS6D01G097500 chr6D 61144573 61152161 7588 True 14015.00 14015 100.000000 1 7589 1 chr6D.!!$R1 7588
1 TraesCS6D01G097500 chr6D 175430088 175430836 748 False 1136.00 1136 93.774000 1 770 1 chr6D.!!$F1 769
2 TraesCS6D01G097500 chr6A 77789470 77796308 6838 True 2676.75 8842 92.120500 780 7589 4 chr6A.!!$R1 6809
3 TraesCS6D01G097500 chr6B 135122313 135128587 6274 True 3006.50 7878 92.650333 863 6992 3 chr6B.!!$R1 6129
4 TraesCS6D01G097500 chr3D 160923416 160924186 770 False 1328.00 1328 97.798000 1 770 1 chr3D.!!$F2 769
5 TraesCS6D01G097500 chr3D 20295114 20295882 768 False 1230.00 1230 95.584000 3 770 1 chr3D.!!$F1 767
6 TraesCS6D01G097500 chr7D 93611702 93612472 770 False 1323.00 1323 97.665000 1 770 1 chr7D.!!$F1 769
7 TraesCS6D01G097500 chr4D 498698646 498699414 768 True 1293.00 1293 97.017000 1 770 1 chr4D.!!$R1 769
8 TraesCS6D01G097500 chr2D 568352291 568353062 771 True 1291.00 1291 96.891000 1 771 1 chr2D.!!$R1 770
9 TraesCS6D01G097500 chr1D 30064240 30065006 766 True 1271.00 1271 96.615000 1 766 1 chr1D.!!$R1 765
10 TraesCS6D01G097500 chrUn 384282428 384283183 755 True 1138.00 1138 93.582000 1 776 1 chrUn.!!$R2 775
11 TraesCS6D01G097500 chrUn 379921288 379922043 755 True 1133.00 1133 93.453000 1 776 1 chrUn.!!$R1 775
12 TraesCS6D01G097500 chr7A 147913176 147913899 723 True 876.00 876 88.425000 30 770 1 chr7A.!!$R1 740
13 TraesCS6D01G097500 chr1B 529661332 529662014 682 True 693.00 693 85.007000 30 732 1 chr1B.!!$R1 702
14 TraesCS6D01G097500 chr4A 630840600 630841340 740 False 643.00 643 82.898000 30 770 1 chr4A.!!$F1 740

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
861 896 0.110644 GCGCTCAGTTGAACTTTCCG 60.111 55.000 0.00 0.00 0.00 4.30 F
862 897 0.110644 CGCTCAGTTGAACTTTCCGC 60.111 55.000 0.00 0.00 0.00 5.54 F
863 898 0.238553 GCTCAGTTGAACTTTCCGCC 59.761 55.000 0.00 0.00 0.00 6.13 F
2848 3092 0.178924 ACCTGCCCTCCTTTTGCATT 60.179 50.000 0.00 0.00 33.97 3.56 F
2849 3093 0.533951 CCTGCCCTCCTTTTGCATTC 59.466 55.000 0.00 0.00 33.97 2.67 F
2853 3097 1.134610 GCCCTCCTTTTGCATTCATGG 60.135 52.381 0.00 0.00 0.00 3.66 F
2863 3107 5.726980 TTTGCATTCATGGTTCTAAGCTT 57.273 34.783 3.48 3.48 0.00 3.74 F
4813 5086 1.347707 TGCAGAAGAAACTGGTCGGAT 59.652 47.619 0.00 0.00 38.22 4.18 F
5892 6172 2.032054 CGGTATGCTGTACTTGCCATTG 59.968 50.000 8.51 0.00 0.00 2.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2087 2331 0.249238 CTGCTAGGCTTGGTAGAGCG 60.249 60.000 0.00 0.00 43.62 5.03 R
2089 2333 0.755686 CCCTGCTAGGCTTGGTAGAG 59.244 60.000 0.00 0.00 32.73 2.43 R
2851 3095 1.977854 TGCCTCTCAAGCTTAGAACCA 59.022 47.619 0.00 0.88 0.00 3.67 R
4501 4773 4.018415 AGGTTTAATATGAGTGGTGCAGGT 60.018 41.667 0.00 0.00 0.00 4.00 R
4769 5042 5.010415 AGCCTGCATTTAATATGAAAGCCTC 59.990 40.000 0.00 0.00 0.00 4.70 R
4813 5086 6.233905 TCTCCACTGCATATACTTTTAGCA 57.766 37.500 0.00 0.00 0.00 3.49 R
4894 5167 3.136443 TGCACCCCTGTCTAATGGAATAG 59.864 47.826 0.00 0.00 0.00 1.73 R
6555 6866 0.109781 AGCGCGGCAACAACAATAAG 60.110 50.000 8.83 0.00 0.00 1.73 R
7193 7557 0.112412 AATTGGGCCGAGAAGTTGGT 59.888 50.000 0.00 0.00 0.00 3.67 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
43 44 4.697352 AGAACATCTATGCACTGACCAAAC 59.303 41.667 0.00 0.00 0.00 2.93
106 107 7.093552 ACCAATAAAATACAGTAGCATGCCAAA 60.094 33.333 15.66 0.00 0.00 3.28
702 737 1.425412 GCGTTCGGTAGCTTTCTGAA 58.575 50.000 0.00 0.00 0.00 3.02
772 807 9.708222 CTAGTAGTTTTACGCTATTTACTCGAA 57.292 33.333 0.00 0.00 34.88 3.71
774 809 9.017669 AGTAGTTTTACGCTATTTACTCGAATG 57.982 33.333 0.00 0.00 34.88 2.67
775 810 7.230466 AGTTTTACGCTATTTACTCGAATGG 57.770 36.000 0.00 0.00 0.00 3.16
778 813 2.433239 ACGCTATTTACTCGAATGGGGT 59.567 45.455 0.00 0.00 38.31 4.95
784 819 6.708949 GCTATTTACTCGAATGGGGTCATAAA 59.291 38.462 0.00 0.00 32.44 1.40
841 876 3.055530 AGGCTCTCACAATCGAATGAACT 60.056 43.478 7.64 0.00 0.00 3.01
842 877 3.063180 GGCTCTCACAATCGAATGAACTG 59.937 47.826 7.64 0.00 0.00 3.16
843 878 3.484886 GCTCTCACAATCGAATGAACTGC 60.485 47.826 7.64 4.46 0.00 4.40
844 879 2.667969 TCTCACAATCGAATGAACTGCG 59.332 45.455 7.64 0.00 0.00 5.18
847 882 1.394917 ACAATCGAATGAACTGCGCTC 59.605 47.619 9.73 0.00 0.00 5.03
848 883 1.394572 CAATCGAATGAACTGCGCTCA 59.605 47.619 9.73 4.26 0.00 4.26
849 884 1.284657 ATCGAATGAACTGCGCTCAG 58.715 50.000 9.73 1.19 45.71 3.35
859 894 2.306799 CTGCGCTCAGTTGAACTTTC 57.693 50.000 9.73 0.00 35.61 2.62
860 895 0.944386 TGCGCTCAGTTGAACTTTCC 59.056 50.000 9.73 0.00 0.00 3.13
861 896 0.110644 GCGCTCAGTTGAACTTTCCG 60.111 55.000 0.00 0.00 0.00 4.30
862 897 0.110644 CGCTCAGTTGAACTTTCCGC 60.111 55.000 0.00 0.00 0.00 5.54
863 898 0.238553 GCTCAGTTGAACTTTCCGCC 59.761 55.000 0.00 0.00 0.00 6.13
864 899 0.875059 CTCAGTTGAACTTTCCGCCC 59.125 55.000 0.00 0.00 0.00 6.13
869 904 0.952010 TTGAACTTTCCGCCCGCTAC 60.952 55.000 0.00 0.00 0.00 3.58
871 906 1.359459 GAACTTTCCGCCCGCTACTG 61.359 60.000 0.00 0.00 0.00 2.74
970 1010 1.515020 CGAAGCCAGACAGAGAGGG 59.485 63.158 0.00 0.00 0.00 4.30
975 1015 1.305633 CCAGACAGAGAGGGGCAGA 60.306 63.158 0.00 0.00 0.00 4.26
1026 1078 2.767960 CCTAAACCCTAGCCCGACTAAA 59.232 50.000 0.00 0.00 0.00 1.85
1031 1083 1.693152 CCTAGCCCGACTAAACCCCC 61.693 65.000 0.00 0.00 0.00 5.40
1032 1084 0.690077 CTAGCCCGACTAAACCCCCT 60.690 60.000 0.00 0.00 0.00 4.79
1033 1085 0.688749 TAGCCCGACTAAACCCCCTC 60.689 60.000 0.00 0.00 0.00 4.30
1539 1596 1.198713 TCTCTCCTTGCAGGTCCATC 58.801 55.000 0.00 0.00 36.53 3.51
1567 1682 8.120465 CCACTCGACAACACATTTATTATTACC 58.880 37.037 0.00 0.00 0.00 2.85
1569 1684 8.044908 ACTCGACAACACATTTATTATTACCCT 58.955 33.333 0.00 0.00 0.00 4.34
1573 1688 9.174166 GACAACACATTTATTATTACCCTGAGT 57.826 33.333 0.00 0.00 0.00 3.41
1574 1689 8.956426 ACAACACATTTATTATTACCCTGAGTG 58.044 33.333 0.00 0.00 0.00 3.51
1585 1700 1.004745 ACCCTGAGTGCTGTAAATGGG 59.995 52.381 0.00 0.00 39.26 4.00
1595 1710 3.254657 TGCTGTAAATGGGTAACTGCAAC 59.745 43.478 4.14 0.00 42.61 4.17
1640 1874 3.244387 GCCATTTAACATTGTTGGGGTGT 60.244 43.478 12.30 0.00 0.00 4.16
1647 1881 2.288666 CATTGTTGGGGTGTCTATCGG 58.711 52.381 0.00 0.00 0.00 4.18
1650 1884 0.252197 GTTGGGGTGTCTATCGGCTT 59.748 55.000 0.00 0.00 0.00 4.35
1695 1929 1.372997 CTGTCCAGTTGACCGTCCG 60.373 63.158 0.00 0.00 43.78 4.79
1733 1976 9.401058 ACTGCATTACTTTATTAAGCTTGATCT 57.599 29.630 9.86 0.00 34.60 2.75
1806 2050 1.959085 CATTTCCTTGCAGGCGTGT 59.041 52.632 8.40 0.00 34.61 4.49
1921 2165 6.138967 CCCTCCCTATCCAATTTCATCTTTT 58.861 40.000 0.00 0.00 0.00 2.27
1944 2188 9.742144 TTTTAGTTGTTGAATAGGTGCCTTATA 57.258 29.630 0.00 0.00 0.00 0.98
1948 2192 9.255029 AGTTGTTGAATAGGTGCCTTATATTTT 57.745 29.630 0.00 0.00 0.00 1.82
2041 2285 6.380414 TCTGGAGAAGTCTGAATCTATGGAT 58.620 40.000 0.00 0.00 0.00 3.41
2049 2293 5.901853 AGTCTGAATCTATGGATGAAGACCA 59.098 40.000 21.26 0.00 41.37 4.02
2087 2331 6.947644 ATAATAACCCCACGGTAAATGTTC 57.052 37.500 0.00 0.00 43.71 3.18
2089 2333 0.956902 ACCCCACGGTAAATGTTCGC 60.957 55.000 0.00 0.00 42.18 4.70
2439 2683 6.431722 TGCTAAAGCTTTGGTATCCCTTAAT 58.568 36.000 22.02 0.00 42.66 1.40
2842 3086 3.596362 GCAATACCTGCCCTCCTTT 57.404 52.632 0.00 0.00 46.13 3.11
2843 3087 1.852633 GCAATACCTGCCCTCCTTTT 58.147 50.000 0.00 0.00 46.13 2.27
2844 3088 1.478105 GCAATACCTGCCCTCCTTTTG 59.522 52.381 0.00 0.00 46.13 2.44
2845 3089 1.478105 CAATACCTGCCCTCCTTTTGC 59.522 52.381 0.00 0.00 0.00 3.68
2846 3090 0.704076 ATACCTGCCCTCCTTTTGCA 59.296 50.000 0.00 0.00 0.00 4.08
2847 3091 0.704076 TACCTGCCCTCCTTTTGCAT 59.296 50.000 0.00 0.00 33.97 3.96
2848 3092 0.178924 ACCTGCCCTCCTTTTGCATT 60.179 50.000 0.00 0.00 33.97 3.56
2849 3093 0.533951 CCTGCCCTCCTTTTGCATTC 59.466 55.000 0.00 0.00 33.97 2.67
2850 3094 1.259609 CTGCCCTCCTTTTGCATTCA 58.740 50.000 0.00 0.00 33.97 2.57
2851 3095 1.829222 CTGCCCTCCTTTTGCATTCAT 59.171 47.619 0.00 0.00 33.97 2.57
2852 3096 1.551430 TGCCCTCCTTTTGCATTCATG 59.449 47.619 0.00 0.00 0.00 3.07
2853 3097 1.134610 GCCCTCCTTTTGCATTCATGG 60.135 52.381 0.00 0.00 0.00 3.66
2863 3107 5.726980 TTTGCATTCATGGTTCTAAGCTT 57.273 34.783 3.48 3.48 0.00 3.74
3030 3288 6.698380 GGTAACTCCTGTGAACTTTCAGATA 58.302 40.000 0.00 0.00 37.98 1.98
3199 3459 7.119699 TGTGTCAAGTATTATTTTCCTGCTCTG 59.880 37.037 0.00 0.00 0.00 3.35
4030 4298 7.083858 TGCTTCAGCTATCACATTTTTAACAC 58.916 34.615 0.00 0.00 42.66 3.32
4767 5040 6.252599 TGTTCATATTGTCCAGGAAGCTAT 57.747 37.500 0.00 0.00 0.00 2.97
4769 5042 7.445121 TGTTCATATTGTCCAGGAAGCTATAG 58.555 38.462 0.00 0.00 0.00 1.31
4813 5086 1.347707 TGCAGAAGAAACTGGTCGGAT 59.652 47.619 0.00 0.00 38.22 4.18
4915 5188 2.736670 ATTCCATTAGACAGGGGTGC 57.263 50.000 0.00 0.00 0.00 5.01
5010 5283 8.850452 GCCTTGCTGCGTTAATAAAAATATATC 58.150 33.333 0.00 0.00 0.00 1.63
5154 5427 7.941238 AGCTGATATTTTGGTATGCTGATACTT 59.059 33.333 0.00 0.00 35.63 2.24
5403 5677 5.702670 TGAACTTCTCTGCATTCTTTCGATT 59.297 36.000 0.00 0.00 0.00 3.34
5506 5780 4.152402 ACTGCATCGAAACTACACAATGAC 59.848 41.667 0.00 0.00 0.00 3.06
5700 5976 2.245159 TCTGCTCAATATGCCCTTCG 57.755 50.000 0.00 0.00 0.00 3.79
5730 6007 7.125391 TCATGCCTTCCTCCAATAACTATTTT 58.875 34.615 0.00 0.00 0.00 1.82
5853 6130 4.634004 CAGTTTGAACTACCACAAGACACA 59.366 41.667 0.00 0.00 37.08 3.72
5892 6172 2.032054 CGGTATGCTGTACTTGCCATTG 59.968 50.000 8.51 0.00 0.00 2.82
5893 6173 2.358898 GGTATGCTGTACTTGCCATTGG 59.641 50.000 0.00 0.00 0.00 3.16
5894 6174 2.512692 ATGCTGTACTTGCCATTGGA 57.487 45.000 6.95 0.00 0.00 3.53
5913 6194 8.133627 CCATTGGATTTCTATTCTGTAAAGCTG 58.866 37.037 0.00 0.00 0.00 4.24
5915 6196 9.905713 ATTGGATTTCTATTCTGTAAAGCTGTA 57.094 29.630 0.00 0.00 0.00 2.74
6066 6347 4.141574 TGGTAAGTAGCAAACTGTCAACCT 60.142 41.667 11.29 0.00 38.88 3.50
6087 6368 3.369546 GCTGCTCTTAAAAACCAGCAA 57.630 42.857 6.10 0.00 46.00 3.91
6091 6372 4.429108 TGCTCTTAAAAACCAGCAACAAC 58.571 39.130 0.00 0.00 38.93 3.32
6093 6374 5.049828 GCTCTTAAAAACCAGCAACAACAT 58.950 37.500 0.00 0.00 0.00 2.71
6094 6375 5.523552 GCTCTTAAAAACCAGCAACAACATT 59.476 36.000 0.00 0.00 0.00 2.71
6614 6925 2.143925 GTTTTAGGTGCTGAGCTCGTT 58.856 47.619 9.64 0.00 0.00 3.85
6719 7080 1.128692 GTTTCTTTCGTCTGGGATGCG 59.871 52.381 0.00 0.00 0.00 4.73
6777 7138 5.823045 GCATAGGGTTTGCTACTCAAATACT 59.177 40.000 0.00 0.00 45.43 2.12
6778 7139 6.017852 GCATAGGGTTTGCTACTCAAATACTC 60.018 42.308 0.00 0.00 45.43 2.59
6779 7140 4.844884 AGGGTTTGCTACTCAAATACTCC 58.155 43.478 0.00 0.00 45.43 3.85
6780 7141 4.288626 AGGGTTTGCTACTCAAATACTCCA 59.711 41.667 0.00 0.00 45.43 3.86
6781 7142 5.044846 AGGGTTTGCTACTCAAATACTCCAT 60.045 40.000 0.00 0.00 45.43 3.41
6782 7143 5.297029 GGGTTTGCTACTCAAATACTCCATC 59.703 44.000 0.00 0.00 45.43 3.51
6783 7144 5.297029 GGTTTGCTACTCAAATACTCCATCC 59.703 44.000 0.00 0.00 45.43 3.51
6784 7145 4.322080 TGCTACTCAAATACTCCATCCG 57.678 45.455 0.00 0.00 0.00 4.18
6785 7146 3.704566 TGCTACTCAAATACTCCATCCGT 59.295 43.478 0.00 0.00 0.00 4.69
6786 7147 4.891168 TGCTACTCAAATACTCCATCCGTA 59.109 41.667 0.00 0.00 0.00 4.02
6787 7148 5.361571 TGCTACTCAAATACTCCATCCGTAA 59.638 40.000 0.00 0.00 0.00 3.18
6788 7149 6.127281 TGCTACTCAAATACTCCATCCGTAAA 60.127 38.462 0.00 0.00 0.00 2.01
6789 7150 6.200475 GCTACTCAAATACTCCATCCGTAAAC 59.800 42.308 0.00 0.00 0.00 2.01
6790 7151 6.295719 ACTCAAATACTCCATCCGTAAACT 57.704 37.500 0.00 0.00 0.00 2.66
6791 7152 7.414222 ACTCAAATACTCCATCCGTAAACTA 57.586 36.000 0.00 0.00 0.00 2.24
6792 7153 7.844009 ACTCAAATACTCCATCCGTAAACTAA 58.156 34.615 0.00 0.00 0.00 2.24
6793 7154 8.483758 ACTCAAATACTCCATCCGTAAACTAAT 58.516 33.333 0.00 0.00 0.00 1.73
6794 7155 9.976511 CTCAAATACTCCATCCGTAAACTAATA 57.023 33.333 0.00 0.00 0.00 0.98
6801 7162 8.583296 ACTCCATCCGTAAACTAATATAAGACC 58.417 37.037 0.00 0.00 0.00 3.85
6802 7163 7.596494 TCCATCCGTAAACTAATATAAGACCG 58.404 38.462 0.00 0.00 0.00 4.79
6803 7164 7.231317 TCCATCCGTAAACTAATATAAGACCGT 59.769 37.037 0.00 0.00 0.00 4.83
6804 7165 7.869429 CCATCCGTAAACTAATATAAGACCGTT 59.131 37.037 0.00 0.00 0.00 4.44
6805 7166 9.252962 CATCCGTAAACTAATATAAGACCGTTT 57.747 33.333 0.00 0.00 0.00 3.60
6807 7168 9.950680 TCCGTAAACTAATATAAGACCGTTTAG 57.049 33.333 0.00 0.00 30.36 1.85
6808 7169 9.950680 CCGTAAACTAATATAAGACCGTTTAGA 57.049 33.333 0.00 0.00 30.36 2.10
6867 7228 8.840200 AGTTTACAGAGGGAGTATATTTCTCA 57.160 34.615 8.96 0.00 34.04 3.27
7029 7393 2.923020 GTTTGCCCTGCATTTTCATACG 59.077 45.455 0.00 0.00 38.76 3.06
7030 7394 1.102154 TGCCCTGCATTTTCATACGG 58.898 50.000 0.00 0.00 31.71 4.02
7031 7395 1.340502 TGCCCTGCATTTTCATACGGA 60.341 47.619 0.00 0.00 31.71 4.69
7051 7415 2.220479 AAAACTCCGAGGCTATACGC 57.780 50.000 0.00 0.00 38.13 4.42
7052 7416 0.030369 AAACTCCGAGGCTATACGCG 59.970 55.000 3.53 3.53 40.44 6.01
7053 7417 0.816825 AACTCCGAGGCTATACGCGA 60.817 55.000 15.93 0.00 40.44 5.87
7054 7418 1.229315 ACTCCGAGGCTATACGCGAG 61.229 60.000 15.93 0.00 40.44 5.03
7083 7447 7.496529 TCTTGAAGTTGATTGTTTAGAGGTG 57.503 36.000 0.00 0.00 0.00 4.00
7103 7467 1.066454 GGTACACCTGCGCTTGTTTTT 59.934 47.619 9.73 0.00 0.00 1.94
7105 7469 0.805711 ACACCTGCGCTTGTTTTTGC 60.806 50.000 9.73 0.00 0.00 3.68
7112 7476 0.998727 CGCTTGTTTTTGCGCTCTCC 60.999 55.000 9.73 0.00 45.50 3.71
7116 7480 2.087501 TGTTTTTGCGCTCTCCGATA 57.912 45.000 9.73 0.00 40.02 2.92
7137 7501 4.399004 AGCGTCTATTCTTGCTGAGATT 57.601 40.909 0.00 0.00 36.09 2.40
7138 7502 4.118410 AGCGTCTATTCTTGCTGAGATTG 58.882 43.478 0.00 0.00 36.09 2.67
7139 7503 4.115516 GCGTCTATTCTTGCTGAGATTGA 58.884 43.478 0.00 0.00 33.49 2.57
7140 7504 4.568359 GCGTCTATTCTTGCTGAGATTGAA 59.432 41.667 0.00 0.00 33.49 2.69
7141 7505 5.276773 GCGTCTATTCTTGCTGAGATTGAAG 60.277 44.000 0.00 0.00 33.49 3.02
7142 7506 5.233902 CGTCTATTCTTGCTGAGATTGAAGG 59.766 44.000 0.00 0.00 33.49 3.46
7143 7507 5.526846 GTCTATTCTTGCTGAGATTGAAGGG 59.473 44.000 0.00 0.00 33.49 3.95
7144 7508 2.119801 TCTTGCTGAGATTGAAGGGC 57.880 50.000 0.00 0.00 0.00 5.19
7145 7509 1.632409 TCTTGCTGAGATTGAAGGGCT 59.368 47.619 0.00 0.00 0.00 5.19
7163 7527 4.347000 AGGGCTAGCCTCATCGTTTATTTA 59.653 41.667 32.18 0.00 36.10 1.40
7167 7531 7.389607 GGGCTAGCCTCATCGTTTATTTATTTA 59.610 37.037 32.18 0.00 36.10 1.40
7191 7555 7.975866 ATTTATTCAACATGCATCGAGAAAC 57.024 32.000 0.00 0.00 0.00 2.78
7192 7556 6.741992 TTATTCAACATGCATCGAGAAACT 57.258 33.333 0.00 0.00 0.00 2.66
7193 7557 7.841915 TTATTCAACATGCATCGAGAAACTA 57.158 32.000 0.00 0.00 0.00 2.24
7194 7558 5.530519 TTCAACATGCATCGAGAAACTAC 57.469 39.130 0.00 0.00 0.00 2.73
7195 7559 3.932710 TCAACATGCATCGAGAAACTACC 59.067 43.478 0.00 0.00 0.00 3.18
7196 7560 3.610040 ACATGCATCGAGAAACTACCA 57.390 42.857 0.00 0.00 0.00 3.25
7197 7561 3.937814 ACATGCATCGAGAAACTACCAA 58.062 40.909 0.00 0.00 0.00 3.67
7198 7562 3.684788 ACATGCATCGAGAAACTACCAAC 59.315 43.478 0.00 0.00 0.00 3.77
7199 7563 3.678056 TGCATCGAGAAACTACCAACT 57.322 42.857 0.00 0.00 0.00 3.16
7200 7564 4.002906 TGCATCGAGAAACTACCAACTT 57.997 40.909 0.00 0.00 0.00 2.66
7201 7565 3.994392 TGCATCGAGAAACTACCAACTTC 59.006 43.478 0.00 0.00 0.00 3.01
7202 7566 4.246458 GCATCGAGAAACTACCAACTTCT 58.754 43.478 0.00 0.00 32.11 2.85
7203 7567 4.327627 GCATCGAGAAACTACCAACTTCTC 59.672 45.833 0.00 0.00 41.02 2.87
7206 7570 2.994578 GAGAAACTACCAACTTCTCGGC 59.005 50.000 0.00 0.00 36.70 5.54
7207 7571 2.074576 GAAACTACCAACTTCTCGGCC 58.925 52.381 0.00 0.00 0.00 6.13
7208 7572 0.323957 AACTACCAACTTCTCGGCCC 59.676 55.000 0.00 0.00 0.00 5.80
7209 7573 0.834687 ACTACCAACTTCTCGGCCCA 60.835 55.000 0.00 0.00 0.00 5.36
7210 7574 0.323629 CTACCAACTTCTCGGCCCAA 59.676 55.000 0.00 0.00 0.00 4.12
7211 7575 0.988832 TACCAACTTCTCGGCCCAAT 59.011 50.000 0.00 0.00 0.00 3.16
7212 7576 0.112412 ACCAACTTCTCGGCCCAATT 59.888 50.000 0.00 0.00 0.00 2.32
7213 7577 0.527565 CCAACTTCTCGGCCCAATTG 59.472 55.000 0.00 0.00 0.00 2.32
7214 7578 1.247567 CAACTTCTCGGCCCAATTGT 58.752 50.000 4.43 0.00 0.00 2.71
7215 7579 1.068333 CAACTTCTCGGCCCAATTGTG 60.068 52.381 4.43 0.00 0.00 3.33
7216 7580 1.244019 ACTTCTCGGCCCAATTGTGC 61.244 55.000 4.08 4.08 0.00 4.57
7217 7581 2.257286 CTTCTCGGCCCAATTGTGCG 62.257 60.000 6.82 3.01 0.00 5.34
7218 7582 4.481112 CTCGGCCCAATTGTGCGC 62.481 66.667 6.82 0.00 0.00 6.09
7220 7584 4.781959 CGGCCCAATTGTGCGCAG 62.782 66.667 12.22 0.00 29.56 5.18
7221 7585 3.372730 GGCCCAATTGTGCGCAGA 61.373 61.111 12.22 6.80 29.56 4.26
7222 7586 2.650196 GCCCAATTGTGCGCAGAA 59.350 55.556 23.08 23.08 0.00 3.02
7223 7587 1.734117 GCCCAATTGTGCGCAGAAC 60.734 57.895 23.31 5.74 0.00 3.01
7224 7588 1.659233 CCCAATTGTGCGCAGAACA 59.341 52.632 23.31 8.82 0.00 3.18
7225 7589 0.244450 CCCAATTGTGCGCAGAACAT 59.756 50.000 23.31 11.79 0.00 2.71
7226 7590 1.342555 CCAATTGTGCGCAGAACATG 58.657 50.000 23.31 22.03 0.00 3.21
7237 7601 2.787601 CAGAACATGCAAGCACACTT 57.212 45.000 0.00 0.00 36.19 3.16
7246 7610 3.595691 AAGCACACTTGAGGTCTCG 57.404 52.632 0.00 0.00 33.84 4.04
7247 7611 1.040646 AAGCACACTTGAGGTCTCGA 58.959 50.000 0.00 0.00 33.84 4.04
7248 7612 0.600557 AGCACACTTGAGGTCTCGAG 59.399 55.000 5.93 5.93 44.74 4.04
7249 7613 1.011451 GCACACTTGAGGTCTCGAGC 61.011 60.000 7.81 2.69 43.37 5.03
7267 7631 2.692368 TGCTGGATGGACTCCCCC 60.692 66.667 0.00 0.00 44.23 5.40
7286 7650 4.421554 CCCCTCTCCCTCCCTGCA 62.422 72.222 0.00 0.00 0.00 4.41
7288 7652 1.925455 CCCTCTCCCTCCCTGCAAA 60.925 63.158 0.00 0.00 0.00 3.68
7540 7943 4.525487 ACATGTTCTTGCAACATCCTTGAT 59.475 37.500 0.00 0.00 38.69 2.57
7557 7960 9.976511 CATCCTTGATGTATTTGCAATTAATCT 57.023 29.630 0.00 0.00 35.54 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 2.704725 AAGTGCATTTGGTTAGTGCG 57.295 45.000 0.00 0.00 41.61 5.34
106 107 9.636789 AGAACTAGGGTTAGTAATTGTTTGTTT 57.363 29.630 0.00 0.00 39.20 2.83
286 295 1.523154 GATCCGGCGAGCTCAGATCT 61.523 60.000 15.40 0.00 32.42 2.75
797 832 5.334879 CCTCAACGTTTCGAGATTTTGGAAT 60.335 40.000 15.24 0.00 0.00 3.01
801 836 3.058914 AGCCTCAACGTTTCGAGATTTTG 60.059 43.478 15.24 2.05 0.00 2.44
806 841 0.959553 AGAGCCTCAACGTTTCGAGA 59.040 50.000 15.24 1.99 0.00 4.04
807 842 1.335964 TGAGAGCCTCAACGTTTCGAG 60.336 52.381 0.00 3.06 37.57 4.04
809 844 0.784778 GTGAGAGCCTCAACGTTTCG 59.215 55.000 0.00 0.00 42.46 3.46
841 876 0.944386 GGAAAGTTCAACTGAGCGCA 59.056 50.000 11.47 0.00 0.00 6.09
842 877 0.110644 CGGAAAGTTCAACTGAGCGC 60.111 55.000 0.00 0.00 0.00 5.92
843 878 0.110644 GCGGAAAGTTCAACTGAGCG 60.111 55.000 0.00 0.00 0.00 5.03
844 879 0.238553 GGCGGAAAGTTCAACTGAGC 59.761 55.000 0.00 0.00 0.00 4.26
847 882 1.574428 CGGGCGGAAAGTTCAACTG 59.426 57.895 0.00 0.00 0.00 3.16
848 883 2.258726 GCGGGCGGAAAGTTCAACT 61.259 57.895 0.00 0.00 0.00 3.16
849 884 0.952010 TAGCGGGCGGAAAGTTCAAC 60.952 55.000 0.00 0.00 0.00 3.18
850 885 0.952010 GTAGCGGGCGGAAAGTTCAA 60.952 55.000 0.00 0.00 0.00 2.69
851 886 1.375013 GTAGCGGGCGGAAAGTTCA 60.375 57.895 0.00 0.00 0.00 3.18
852 887 1.079336 AGTAGCGGGCGGAAAGTTC 60.079 57.895 0.00 0.00 0.00 3.01
853 888 1.375523 CAGTAGCGGGCGGAAAGTT 60.376 57.895 0.00 0.00 0.00 2.66
854 889 1.252904 TACAGTAGCGGGCGGAAAGT 61.253 55.000 0.00 0.00 0.00 2.66
855 890 0.527817 CTACAGTAGCGGGCGGAAAG 60.528 60.000 0.00 0.00 0.00 2.62
856 891 0.966875 TCTACAGTAGCGGGCGGAAA 60.967 55.000 2.26 0.00 0.00 3.13
857 892 0.966875 TTCTACAGTAGCGGGCGGAA 60.967 55.000 2.26 0.00 0.00 4.30
858 893 0.966875 TTTCTACAGTAGCGGGCGGA 60.967 55.000 2.26 0.00 0.00 5.54
859 894 0.104304 ATTTCTACAGTAGCGGGCGG 59.896 55.000 2.26 0.00 0.00 6.13
860 895 1.488527 GATTTCTACAGTAGCGGGCG 58.511 55.000 2.26 0.00 0.00 6.13
861 896 1.066605 TCGATTTCTACAGTAGCGGGC 59.933 52.381 2.26 0.00 0.00 6.13
862 897 3.114065 GTTCGATTTCTACAGTAGCGGG 58.886 50.000 2.26 0.00 0.00 6.13
863 898 3.546670 GTGTTCGATTTCTACAGTAGCGG 59.453 47.826 2.26 0.00 0.00 5.52
864 899 3.546670 GGTGTTCGATTTCTACAGTAGCG 59.453 47.826 2.26 1.12 0.00 4.26
869 904 3.121279 CACGTGGTGTTCGATTTCTACAG 59.879 47.826 7.95 0.00 0.00 2.74
871 906 2.159881 GCACGTGGTGTTCGATTTCTAC 60.160 50.000 18.88 0.00 35.75 2.59
962 1002 3.478274 GCCCTCTGCCCCTCTCTG 61.478 72.222 0.00 0.00 0.00 3.35
1073 1125 1.003355 ATCTTCGCCTGGTGTGTGG 60.003 57.895 7.20 0.00 0.00 4.17
1271 1323 1.005394 GGGAGGACGCGAGAAAACA 60.005 57.895 15.93 0.00 0.00 2.83
1539 1596 1.604604 AAATGTGTTGTCGAGTGGGG 58.395 50.000 0.00 0.00 0.00 4.96
1567 1682 2.496899 ACCCATTTACAGCACTCAGG 57.503 50.000 0.00 0.00 0.00 3.86
1569 1684 4.323417 CAGTTACCCATTTACAGCACTCA 58.677 43.478 0.00 0.00 0.00 3.41
1573 1688 3.147553 TGCAGTTACCCATTTACAGCA 57.852 42.857 0.00 0.00 32.88 4.41
1574 1689 3.254657 TGTTGCAGTTACCCATTTACAGC 59.745 43.478 0.00 0.00 0.00 4.40
1621 1854 6.094881 CGATAGACACCCCAACAATGTTAAAT 59.905 38.462 0.00 0.00 39.76 1.40
1624 1857 4.509616 CGATAGACACCCCAACAATGTTA 58.490 43.478 0.00 0.00 39.76 2.41
1640 1874 6.525578 TTCTAGTTCTTCAAAGCCGATAGA 57.474 37.500 0.00 0.00 39.76 1.98
1647 1881 6.560253 TCCATGTTTCTAGTTCTTCAAAGC 57.440 37.500 0.00 0.00 0.00 3.51
1650 1884 9.436957 GAGTTATCCATGTTTCTAGTTCTTCAA 57.563 33.333 0.00 0.00 0.00 2.69
1695 1929 6.759497 AAGTAATGCAGTTAAGGAATCCAC 57.241 37.500 0.61 0.00 0.00 4.02
1827 2071 1.064060 GCATAATTGGCACAGGTCGAC 59.936 52.381 7.13 7.13 42.39 4.20
1921 2165 9.914834 AAATATAAGGCACCTATTCAACAACTA 57.085 29.630 0.00 0.00 0.00 2.24
2087 2331 0.249238 CTGCTAGGCTTGGTAGAGCG 60.249 60.000 0.00 0.00 43.62 5.03
2089 2333 0.755686 CCCTGCTAGGCTTGGTAGAG 59.244 60.000 0.00 0.00 32.73 2.43
2117 2361 2.173669 GCTAGCCTTGAATGCGCGA 61.174 57.895 12.10 0.00 0.00 5.87
2636 2880 3.754965 TGTTAGAAAAGCCTGCAGATGT 58.245 40.909 17.39 0.00 0.00 3.06
2840 3084 5.726980 AGCTTAGAACCATGAATGCAAAA 57.273 34.783 0.00 0.00 0.00 2.44
2841 3085 5.243507 TCAAGCTTAGAACCATGAATGCAAA 59.756 36.000 0.00 0.00 0.00 3.68
2842 3086 4.766373 TCAAGCTTAGAACCATGAATGCAA 59.234 37.500 0.00 0.00 0.00 4.08
2843 3087 4.334552 TCAAGCTTAGAACCATGAATGCA 58.665 39.130 0.00 0.00 0.00 3.96
2844 3088 4.637534 TCTCAAGCTTAGAACCATGAATGC 59.362 41.667 0.00 0.00 0.00 3.56
2845 3089 5.296283 CCTCTCAAGCTTAGAACCATGAATG 59.704 44.000 0.00 0.00 0.00 2.67
2846 3090 5.435291 CCTCTCAAGCTTAGAACCATGAAT 58.565 41.667 0.00 0.00 0.00 2.57
2847 3091 4.836825 CCTCTCAAGCTTAGAACCATGAA 58.163 43.478 0.00 0.00 0.00 2.57
2848 3092 3.369892 GCCTCTCAAGCTTAGAACCATGA 60.370 47.826 0.00 0.00 0.00 3.07
2849 3093 2.941720 GCCTCTCAAGCTTAGAACCATG 59.058 50.000 0.00 0.00 0.00 3.66
2850 3094 2.573462 TGCCTCTCAAGCTTAGAACCAT 59.427 45.455 0.00 0.00 0.00 3.55
2851 3095 1.977854 TGCCTCTCAAGCTTAGAACCA 59.022 47.619 0.00 0.88 0.00 3.67
2852 3096 2.770164 TGCCTCTCAAGCTTAGAACC 57.230 50.000 0.00 0.00 0.00 3.62
2853 3097 4.697352 TCAATTGCCTCTCAAGCTTAGAAC 59.303 41.667 0.00 0.00 38.22 3.01
2863 3107 4.847198 ACATACACATCAATTGCCTCTCA 58.153 39.130 0.00 0.00 0.00 3.27
3030 3288 9.047947 AGTTAAAGACCCTCTGAACTATAACAT 57.952 33.333 0.00 0.00 33.96 2.71
3168 3426 9.573133 CAGGAAAATAATACTTGACACATTTCC 57.427 33.333 0.00 0.00 42.13 3.13
3199 3459 5.874810 TCACAAGTCAAGGCATATAGTTCAC 59.125 40.000 0.00 0.00 0.00 3.18
3575 3837 1.341877 CCCATGCCCCATAACTTCACA 60.342 52.381 0.00 0.00 0.00 3.58
4030 4298 7.386299 CCTGGTTCATTAGCTATTAAGTGCTAG 59.614 40.741 10.68 0.00 41.89 3.42
4501 4773 4.018415 AGGTTTAATATGAGTGGTGCAGGT 60.018 41.667 0.00 0.00 0.00 4.00
4767 5040 6.207417 GCCTGCATTTAATATGAAAGCCTCTA 59.793 38.462 0.00 0.00 0.00 2.43
4769 5042 5.010415 AGCCTGCATTTAATATGAAAGCCTC 59.990 40.000 0.00 0.00 0.00 4.70
4813 5086 6.233905 TCTCCACTGCATATACTTTTAGCA 57.766 37.500 0.00 0.00 0.00 3.49
4894 5167 3.136443 TGCACCCCTGTCTAATGGAATAG 59.864 47.826 0.00 0.00 0.00 1.73
4915 5188 4.326826 TGATCCCTAAACTGACAAGCTTG 58.673 43.478 24.84 24.84 0.00 4.01
5010 5283 7.303261 CCGAAAACCAATCAGATCATCATATG 58.697 38.462 0.00 0.00 0.00 1.78
5154 5427 7.973388 AGATTTGAAATGTCACTTTCGAACAAA 59.027 29.630 0.00 1.47 39.90 2.83
5377 5651 5.050091 TCGAAAGAATGCAGAGAAGTTCAAC 60.050 40.000 5.50 0.00 37.03 3.18
5433 5707 3.488310 GCAGCAGAACACATGAAAACAAG 59.512 43.478 0.00 0.00 0.00 3.16
5506 5780 3.457234 TGAGATGGCATAAGCACTTACG 58.543 45.455 0.00 0.00 44.61 3.18
5700 5976 2.425143 TGGAGGAAGGCATGATCAAC 57.575 50.000 0.00 0.00 0.00 3.18
5730 6007 5.302823 AGGTGATCATCAGATGTCGTTATGA 59.697 40.000 9.06 0.00 33.72 2.15
5892 6172 8.718102 TGTACAGCTTTACAGAATAGAAATCC 57.282 34.615 8.66 0.00 0.00 3.01
5932 6213 6.239120 CCTGCCAAAATGATTGGATAAGTAGG 60.239 42.308 11.26 4.65 42.06 3.18
6115 6396 6.262944 TGGCAATGTTCATAATATGTCAGACC 59.737 38.462 0.00 5.52 0.00 3.85
6555 6866 0.109781 AGCGCGGCAACAACAATAAG 60.110 50.000 8.83 0.00 0.00 1.73
6614 6925 7.147312 CAGAAAAGGCAATGTCAAAACTGATA 58.853 34.615 0.00 0.00 0.00 2.15
6777 7138 7.231317 ACGGTCTTATATTAGTTTACGGATGGA 59.769 37.037 0.00 0.00 0.00 3.41
6778 7139 7.373493 ACGGTCTTATATTAGTTTACGGATGG 58.627 38.462 0.00 0.00 0.00 3.51
6779 7140 8.807667 AACGGTCTTATATTAGTTTACGGATG 57.192 34.615 0.00 0.00 0.00 3.51
6781 7142 9.950680 CTAAACGGTCTTATATTAGTTTACGGA 57.049 33.333 0.00 0.00 34.29 4.69
6782 7143 9.950680 TCTAAACGGTCTTATATTAGTTTACGG 57.049 33.333 0.00 0.00 34.29 4.02
6827 7188 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
6828 7189 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
6829 7190 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
6830 7191 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
6831 7192 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
6841 7202 9.931698 TGAGAAATATACTCCCTCTGTAAACTA 57.068 33.333 7.18 0.00 33.95 2.24
6842 7203 8.840200 TGAGAAATATACTCCCTCTGTAAACT 57.160 34.615 7.18 0.00 33.95 2.66
6845 7206 8.150945 GCATTGAGAAATATACTCCCTCTGTAA 58.849 37.037 7.18 0.00 33.95 2.41
6846 7207 7.510685 AGCATTGAGAAATATACTCCCTCTGTA 59.489 37.037 7.18 0.00 33.95 2.74
6847 7208 6.328672 AGCATTGAGAAATATACTCCCTCTGT 59.671 38.462 7.18 0.00 33.95 3.41
6848 7209 6.767456 AGCATTGAGAAATATACTCCCTCTG 58.233 40.000 7.18 0.00 33.95 3.35
6849 7210 7.385894 AAGCATTGAGAAATATACTCCCTCT 57.614 36.000 7.18 0.00 33.95 3.69
6867 7228 9.218440 CAACTAAATTGTTATTTCCCAAGCATT 57.782 29.630 0.00 0.00 35.61 3.56
7029 7393 3.121544 CGTATAGCCTCGGAGTTTTTCC 58.878 50.000 4.02 0.00 43.04 3.13
7030 7394 2.538861 GCGTATAGCCTCGGAGTTTTTC 59.461 50.000 4.02 0.00 40.81 2.29
7031 7395 2.547826 GCGTATAGCCTCGGAGTTTTT 58.452 47.619 4.02 0.00 40.81 1.94
7038 7402 0.443088 CTACTCGCGTATAGCCTCGG 59.557 60.000 5.77 0.00 44.76 4.63
7039 7403 1.146637 ACTACTCGCGTATAGCCTCG 58.853 55.000 5.77 0.00 44.76 4.63
7044 7408 5.808403 ACTTCAAGAACTACTCGCGTATAG 58.192 41.667 5.77 11.74 0.00 1.31
7051 7415 6.771188 ACAATCAACTTCAAGAACTACTCG 57.229 37.500 0.00 0.00 0.00 4.18
7053 7417 9.832445 TCTAAACAATCAACTTCAAGAACTACT 57.168 29.630 0.00 0.00 0.00 2.57
7055 7419 9.273016 CCTCTAAACAATCAACTTCAAGAACTA 57.727 33.333 0.00 0.00 0.00 2.24
7056 7420 7.775561 ACCTCTAAACAATCAACTTCAAGAACT 59.224 33.333 0.00 0.00 0.00 3.01
7057 7421 7.857885 CACCTCTAAACAATCAACTTCAAGAAC 59.142 37.037 0.00 0.00 0.00 3.01
7058 7422 7.013274 CCACCTCTAAACAATCAACTTCAAGAA 59.987 37.037 0.00 0.00 0.00 2.52
7059 7423 6.486657 CCACCTCTAAACAATCAACTTCAAGA 59.513 38.462 0.00 0.00 0.00 3.02
7060 7424 6.263168 ACCACCTCTAAACAATCAACTTCAAG 59.737 38.462 0.00 0.00 0.00 3.02
7061 7425 6.126409 ACCACCTCTAAACAATCAACTTCAA 58.874 36.000 0.00 0.00 0.00 2.69
7062 7426 5.690865 ACCACCTCTAAACAATCAACTTCA 58.309 37.500 0.00 0.00 0.00 3.02
7063 7427 6.708949 TGTACCACCTCTAAACAATCAACTTC 59.291 38.462 0.00 0.00 0.00 3.01
7064 7428 6.485648 GTGTACCACCTCTAAACAATCAACTT 59.514 38.462 0.00 0.00 0.00 2.66
7065 7429 5.995897 GTGTACCACCTCTAAACAATCAACT 59.004 40.000 0.00 0.00 0.00 3.16
7066 7430 6.237313 GTGTACCACCTCTAAACAATCAAC 57.763 41.667 0.00 0.00 0.00 3.18
7083 7447 0.666374 AAAACAAGCGCAGGTGTACC 59.334 50.000 11.47 0.00 39.47 3.34
7112 7476 3.890128 TCAGCAAGAATAGACGCTATCG 58.110 45.455 0.80 0.00 42.43 2.92
7116 7480 4.118410 CAATCTCAGCAAGAATAGACGCT 58.882 43.478 0.00 0.00 37.61 5.07
7137 7501 0.687757 ACGATGAGGCTAGCCCTTCA 60.688 55.000 30.42 26.62 46.60 3.02
7138 7502 0.466124 AACGATGAGGCTAGCCCTTC 59.534 55.000 30.42 21.84 46.60 3.46
7139 7503 0.912486 AAACGATGAGGCTAGCCCTT 59.088 50.000 30.42 18.47 46.60 3.95
7141 7505 2.841442 ATAAACGATGAGGCTAGCCC 57.159 50.000 30.42 21.06 36.58 5.19
7142 7506 6.803154 AATAAATAAACGATGAGGCTAGCC 57.197 37.500 27.19 27.19 0.00 3.93
7167 7531 7.765307 AGTTTCTCGATGCATGTTGAATAAAT 58.235 30.769 2.46 0.00 0.00 1.40
7170 7534 6.257849 GGTAGTTTCTCGATGCATGTTGAATA 59.742 38.462 2.46 0.00 0.00 1.75
7174 7538 3.684305 TGGTAGTTTCTCGATGCATGTTG 59.316 43.478 2.46 0.00 0.00 3.33
7185 7549 2.994578 GCCGAGAAGTTGGTAGTTTCTC 59.005 50.000 3.93 3.93 42.01 2.87
7186 7550 2.289506 GGCCGAGAAGTTGGTAGTTTCT 60.290 50.000 0.00 0.00 34.06 2.52
7187 7551 2.074576 GGCCGAGAAGTTGGTAGTTTC 58.925 52.381 0.00 0.00 0.00 2.78
7188 7552 1.271217 GGGCCGAGAAGTTGGTAGTTT 60.271 52.381 0.00 0.00 0.00 2.66
7189 7553 0.323957 GGGCCGAGAAGTTGGTAGTT 59.676 55.000 0.00 0.00 0.00 2.24
7190 7554 0.834687 TGGGCCGAGAAGTTGGTAGT 60.835 55.000 0.00 0.00 0.00 2.73
7191 7555 0.323629 TTGGGCCGAGAAGTTGGTAG 59.676 55.000 0.00 0.00 0.00 3.18
7192 7556 0.988832 ATTGGGCCGAGAAGTTGGTA 59.011 50.000 0.00 0.00 0.00 3.25
7193 7557 0.112412 AATTGGGCCGAGAAGTTGGT 59.888 50.000 0.00 0.00 0.00 3.67
7194 7558 0.527565 CAATTGGGCCGAGAAGTTGG 59.472 55.000 0.00 0.00 0.00 3.77
7195 7559 1.068333 CACAATTGGGCCGAGAAGTTG 60.068 52.381 10.83 1.20 0.00 3.16
7196 7560 1.247567 CACAATTGGGCCGAGAAGTT 58.752 50.000 10.83 0.00 0.00 2.66
7197 7561 1.244019 GCACAATTGGGCCGAGAAGT 61.244 55.000 22.50 0.00 38.87 3.01
7198 7562 1.508088 GCACAATTGGGCCGAGAAG 59.492 57.895 22.50 0.00 38.87 2.85
7199 7563 2.331893 CGCACAATTGGGCCGAGAA 61.332 57.895 26.46 0.00 42.67 2.87
7200 7564 2.745884 CGCACAATTGGGCCGAGA 60.746 61.111 26.46 0.00 42.67 4.04
7206 7570 0.244450 ATGTTCTGCGCACAATTGGG 59.756 50.000 5.66 6.91 38.71 4.12
7207 7571 1.342555 CATGTTCTGCGCACAATTGG 58.657 50.000 5.66 0.00 0.00 3.16
7208 7572 0.711670 GCATGTTCTGCGCACAATTG 59.288 50.000 5.66 6.47 41.97 2.32
7209 7573 3.111536 GCATGTTCTGCGCACAATT 57.888 47.368 5.66 0.00 41.97 2.32
7210 7574 4.874534 GCATGTTCTGCGCACAAT 57.125 50.000 5.66 0.00 41.97 2.71
7218 7582 2.390938 CAAGTGTGCTTGCATGTTCTG 58.609 47.619 0.00 0.00 44.54 3.02
7219 7583 2.787601 CAAGTGTGCTTGCATGTTCT 57.212 45.000 0.00 0.00 44.54 3.01
7228 7592 1.000283 CTCGAGACCTCAAGTGTGCTT 60.000 52.381 6.58 0.00 34.82 3.91
7229 7593 0.600557 CTCGAGACCTCAAGTGTGCT 59.399 55.000 6.58 0.00 0.00 4.40
7230 7594 1.011451 GCTCGAGACCTCAAGTGTGC 61.011 60.000 18.75 0.00 0.00 4.57
7231 7595 0.600557 AGCTCGAGACCTCAAGTGTG 59.399 55.000 18.75 0.00 0.00 3.82
7232 7596 0.600557 CAGCTCGAGACCTCAAGTGT 59.399 55.000 18.75 0.00 0.00 3.55
7233 7597 0.735632 GCAGCTCGAGACCTCAAGTG 60.736 60.000 18.75 2.27 0.00 3.16
7234 7598 0.897863 AGCAGCTCGAGACCTCAAGT 60.898 55.000 18.75 0.00 0.00 3.16
7235 7599 0.458197 CAGCAGCTCGAGACCTCAAG 60.458 60.000 18.75 0.00 0.00 3.02
7236 7600 1.588597 CAGCAGCTCGAGACCTCAA 59.411 57.895 18.75 0.00 0.00 3.02
7237 7601 2.346541 CCAGCAGCTCGAGACCTCA 61.347 63.158 18.75 0.00 0.00 3.86
7238 7602 1.391157 ATCCAGCAGCTCGAGACCTC 61.391 60.000 18.75 0.00 0.00 3.85
7239 7603 1.381056 ATCCAGCAGCTCGAGACCT 60.381 57.895 18.75 5.31 0.00 3.85
7240 7604 1.227205 CATCCAGCAGCTCGAGACC 60.227 63.158 18.75 2.74 0.00 3.85
7241 7605 1.227205 CCATCCAGCAGCTCGAGAC 60.227 63.158 18.75 7.74 0.00 3.36
7242 7606 1.380380 TCCATCCAGCAGCTCGAGA 60.380 57.895 18.75 0.00 0.00 4.04
7243 7607 1.227205 GTCCATCCAGCAGCTCGAG 60.227 63.158 8.45 8.45 0.00 4.04
7244 7608 1.670949 GAGTCCATCCAGCAGCTCGA 61.671 60.000 0.00 0.00 0.00 4.04
7245 7609 1.227205 GAGTCCATCCAGCAGCTCG 60.227 63.158 0.00 0.00 0.00 5.03
7246 7610 4.852962 GAGTCCATCCAGCAGCTC 57.147 61.111 0.00 0.00 0.00 4.09
7315 7717 9.661563 TGTTGTGAGAATATACCGTTTTTCTAT 57.338 29.630 0.00 0.00 0.00 1.98
7490 7893 8.798859 ATCTTCTGCAATACTAGAACAAACAT 57.201 30.769 0.00 0.00 0.00 2.71
7499 7902 7.710044 AGAACATGTGATCTTCTGCAATACTAG 59.290 37.037 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.