Multiple sequence alignment - TraesCS4D01G278300

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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 TraesCS4D01G278300 chr4D 100.000 4341 0 0 1 4341 449985781 449981441 0.000000e+00 8017.0
1 TraesCS4D01G278300 chr4D 86.275 204 28 0 2745 2948 449982935 449982732 5.650000e-54 222.0
2 TraesCS4D01G278300 chr4D 86.275 204 28 0 2847 3050 449983037 449982834 5.650000e-54 222.0
3 TraesCS4D01G278300 chr4D 83.036 112 9 5 260 363 450017351 450017242 4.620000e-15 93.5
4 TraesCS4D01G278300 chr4B 94.299 2824 102 25 258 3050 562712424 562709629 0.000000e+00 4268.0
5 TraesCS4D01G278300 chr4B 95.820 1603 55 7 2742 4341 562709835 562708242 0.000000e+00 2579.0
6 TraesCS4D01G278300 chr4B 80.631 222 25 3 2847 3050 562709952 562709731 5.810000e-34 156.0
7 TraesCS4D01G278300 chr4A 92.007 3015 133 20 130 3050 16964635 16967635 0.000000e+00 4133.0
8 TraesCS4D01G278300 chr4A 92.399 1592 83 10 2742 4311 16967411 16968986 0.000000e+00 2235.0
9 TraesCS4D01G278300 chr4A 82.667 225 21 3 2844 3050 16967291 16967515 2.670000e-42 183.0
10 TraesCS4D01G278300 chr4A 84.762 105 16 0 2946 3050 16967291 16967395 5.940000e-19 106.0
11 TraesCS4D01G278300 chr2D 92.254 142 10 1 1 142 401449032 401448892 2.650000e-47 200.0
12 TraesCS4D01G278300 chr2D 90.210 143 13 1 1 143 599574198 599574057 7.410000e-43 185.0
13 TraesCS4D01G278300 chr7D 93.130 131 9 0 1 131 29343336 29343206 4.430000e-45 193.0
14 TraesCS4D01G278300 chr7D 92.593 135 9 1 1 135 485625628 485625761 4.430000e-45 193.0
15 TraesCS4D01G278300 chr7D 90.345 145 14 0 1 145 507666883 507667027 1.590000e-44 191.0
16 TraesCS4D01G278300 chr3A 93.130 131 9 0 1 131 533789736 533789606 4.430000e-45 193.0
17 TraesCS4D01G278300 chr5D 93.023 129 9 0 1 129 219788876 219788748 5.730000e-44 189.0
18 TraesCS4D01G278300 chr6A 89.796 147 12 2 1 146 411892730 411892874 7.410000e-43 185.0
19 TraesCS4D01G278300 chr6D 90.647 139 11 2 1 137 37468076 37467938 2.670000e-42 183.0


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 TraesCS4D01G278300 chr4D 449981441 449985781 4340 True 2820.333333 8017 90.85000 1 4341 3 chr4D.!!$R2 4340
1 TraesCS4D01G278300 chr4B 562708242 562712424 4182 True 2334.333333 4268 90.25000 258 4341 3 chr4B.!!$R1 4083
2 TraesCS4D01G278300 chr4A 16964635 16968986 4351 False 1664.250000 4133 87.95875 130 4311 4 chr4A.!!$F1 4181

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
27 28 0.036952 CATCCGCTGTGACCAGTTCT 60.037 55.000 0.00 0.00 41.02 3.01 F
43 44 0.250727 TTCTGAGGGTTTCGGGCAAG 60.251 55.000 0.00 0.00 32.69 4.01 F
117 118 0.253630 AAGGAACCAGGGGCATAGGA 60.254 55.000 0.00 0.00 0.00 2.94 F
118 119 0.253630 AGGAACCAGGGGCATAGGAA 60.254 55.000 0.00 0.00 0.00 3.36 F
179 180 0.647925 GAAAGCGGAGAATGACGAGC 59.352 55.000 0.00 0.00 0.00 5.03 F
1266 1289 0.653636 TGGAAATCGCGCGTTTATCC 59.346 50.000 30.98 29.26 0.00 2.59 F
1688 1720 1.278337 CCAGAGATCTCGACGAGCG 59.722 63.158 20.11 0.00 42.69 5.03 F
1929 1988 2.887783 ACCATTATGTCAACCGCAACAA 59.112 40.909 0.00 0.00 0.00 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1348 1371 1.339929 GTTTGTTGGGTTACCTGGCTG 59.660 52.381 0.0 0.0 37.76 4.85 R
1375 1398 1.451567 GCCCCGCCTTCTCCTTAAC 60.452 63.158 0.0 0.0 0.00 2.01 R
1623 1655 2.246739 ATCGCCGCCAACATCATCG 61.247 57.895 0.0 0.0 0.00 3.84 R
1811 1843 6.374333 TCAATACCAACCAGAAAAGCTACATC 59.626 38.462 0.0 0.0 0.00 3.06 R
2191 2250 2.173569 ACCTTCAGCTTCAGTTGGAACT 59.826 45.455 0.0 0.0 40.60 3.01 R
2290 2349 1.664649 CGAAGCACTCCGTTCTGCA 60.665 57.895 0.0 0.0 35.73 4.41 R
2504 2563 1.941325 CGGAACCTGCTCTCATAACC 58.059 55.000 0.0 0.0 0.00 2.85 R
3854 4158 1.295792 TTCGACACTGCTGGAACAAC 58.704 50.000 0.0 0.0 38.70 3.32 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
19 20 4.758251 CGGCACCATCCGCTGTGA 62.758 66.667 0.00 0.00 43.18 3.58
20 21 3.127533 GGCACCATCCGCTGTGAC 61.128 66.667 0.00 0.00 34.37 3.67
21 22 3.127533 GCACCATCCGCTGTGACC 61.128 66.667 0.00 0.00 34.37 4.02
22 23 2.347114 CACCATCCGCTGTGACCA 59.653 61.111 0.00 0.00 34.37 4.02
23 24 1.742880 CACCATCCGCTGTGACCAG 60.743 63.158 0.00 0.00 41.91 4.00
24 25 2.217038 ACCATCCGCTGTGACCAGT 61.217 57.895 0.00 0.00 41.02 4.00
25 26 1.003355 CCATCCGCTGTGACCAGTT 60.003 57.895 0.00 0.00 41.02 3.16
26 27 1.021390 CCATCCGCTGTGACCAGTTC 61.021 60.000 0.00 0.00 41.02 3.01
27 28 0.036952 CATCCGCTGTGACCAGTTCT 60.037 55.000 0.00 0.00 41.02 3.01
28 29 0.036952 ATCCGCTGTGACCAGTTCTG 60.037 55.000 0.00 0.00 41.02 3.02
29 30 1.112916 TCCGCTGTGACCAGTTCTGA 61.113 55.000 1.00 0.00 41.02 3.27
30 31 0.668706 CCGCTGTGACCAGTTCTGAG 60.669 60.000 1.00 0.00 41.02 3.35
31 32 0.668706 CGCTGTGACCAGTTCTGAGG 60.669 60.000 1.00 0.00 41.02 3.86
32 33 0.321122 GCTGTGACCAGTTCTGAGGG 60.321 60.000 1.00 0.00 41.02 4.30
33 34 1.051812 CTGTGACCAGTTCTGAGGGT 58.948 55.000 1.00 0.00 37.70 4.34
34 35 1.417890 CTGTGACCAGTTCTGAGGGTT 59.582 52.381 1.00 0.00 34.39 4.11
35 36 1.843851 TGTGACCAGTTCTGAGGGTTT 59.156 47.619 1.00 0.00 34.39 3.27
36 37 2.158813 TGTGACCAGTTCTGAGGGTTTC 60.159 50.000 1.00 0.00 34.39 2.78
37 38 1.070134 TGACCAGTTCTGAGGGTTTCG 59.930 52.381 1.00 0.00 34.39 3.46
38 39 0.396811 ACCAGTTCTGAGGGTTTCGG 59.603 55.000 1.00 0.00 0.00 4.30
39 40 0.321653 CCAGTTCTGAGGGTTTCGGG 60.322 60.000 1.00 0.00 32.69 5.14
40 41 0.955919 CAGTTCTGAGGGTTTCGGGC 60.956 60.000 0.00 0.00 32.69 6.13
41 42 1.072505 GTTCTGAGGGTTTCGGGCA 59.927 57.895 0.00 0.00 32.69 5.36
42 43 0.536460 GTTCTGAGGGTTTCGGGCAA 60.536 55.000 0.00 0.00 32.69 4.52
43 44 0.250727 TTCTGAGGGTTTCGGGCAAG 60.251 55.000 0.00 0.00 32.69 4.01
44 45 1.675641 CTGAGGGTTTCGGGCAAGG 60.676 63.158 0.00 0.00 0.00 3.61
45 46 2.361230 GAGGGTTTCGGGCAAGGG 60.361 66.667 0.00 0.00 0.00 3.95
46 47 2.856988 AGGGTTTCGGGCAAGGGA 60.857 61.111 0.00 0.00 0.00 4.20
47 48 2.361230 GGGTTTCGGGCAAGGGAG 60.361 66.667 0.00 0.00 0.00 4.30
48 49 2.434774 GGTTTCGGGCAAGGGAGT 59.565 61.111 0.00 0.00 0.00 3.85
49 50 1.971695 GGTTTCGGGCAAGGGAGTG 60.972 63.158 0.00 0.00 0.00 3.51
50 51 1.971695 GTTTCGGGCAAGGGAGTGG 60.972 63.158 0.00 0.00 0.00 4.00
51 52 3.204467 TTTCGGGCAAGGGAGTGGG 62.204 63.158 0.00 0.00 0.00 4.61
54 55 3.264845 GGGCAAGGGAGTGGGGAA 61.265 66.667 0.00 0.00 0.00 3.97
55 56 2.851045 GGCAAGGGAGTGGGGAAA 59.149 61.111 0.00 0.00 0.00 3.13
56 57 1.155155 GGCAAGGGAGTGGGGAAAA 59.845 57.895 0.00 0.00 0.00 2.29
57 58 0.471022 GGCAAGGGAGTGGGGAAAAA 60.471 55.000 0.00 0.00 0.00 1.94
58 59 1.644509 GCAAGGGAGTGGGGAAAAAT 58.355 50.000 0.00 0.00 0.00 1.82
59 60 1.276138 GCAAGGGAGTGGGGAAAAATG 59.724 52.381 0.00 0.00 0.00 2.32
60 61 2.888212 CAAGGGAGTGGGGAAAAATGA 58.112 47.619 0.00 0.00 0.00 2.57
61 62 2.827921 CAAGGGAGTGGGGAAAAATGAG 59.172 50.000 0.00 0.00 0.00 2.90
62 63 1.186200 GGGAGTGGGGAAAAATGAGC 58.814 55.000 0.00 0.00 0.00 4.26
63 64 1.549950 GGGAGTGGGGAAAAATGAGCA 60.550 52.381 0.00 0.00 0.00 4.26
64 65 2.247358 GGAGTGGGGAAAAATGAGCAA 58.753 47.619 0.00 0.00 0.00 3.91
65 66 2.632512 GGAGTGGGGAAAAATGAGCAAA 59.367 45.455 0.00 0.00 0.00 3.68
66 67 3.070878 GGAGTGGGGAAAAATGAGCAAAA 59.929 43.478 0.00 0.00 0.00 2.44
67 68 4.309933 GAGTGGGGAAAAATGAGCAAAAG 58.690 43.478 0.00 0.00 0.00 2.27
68 69 3.711190 AGTGGGGAAAAATGAGCAAAAGT 59.289 39.130 0.00 0.00 0.00 2.66
69 70 4.164030 AGTGGGGAAAAATGAGCAAAAGTT 59.836 37.500 0.00 0.00 0.00 2.66
70 71 5.365314 AGTGGGGAAAAATGAGCAAAAGTTA 59.635 36.000 0.00 0.00 0.00 2.24
71 72 6.052360 GTGGGGAAAAATGAGCAAAAGTTAA 58.948 36.000 0.00 0.00 0.00 2.01
72 73 6.202762 GTGGGGAAAAATGAGCAAAAGTTAAG 59.797 38.462 0.00 0.00 0.00 1.85
73 74 6.098982 TGGGGAAAAATGAGCAAAAGTTAAGA 59.901 34.615 0.00 0.00 0.00 2.10
74 75 7.161404 GGGGAAAAATGAGCAAAAGTTAAGAT 58.839 34.615 0.00 0.00 0.00 2.40
75 76 7.331934 GGGGAAAAATGAGCAAAAGTTAAGATC 59.668 37.037 0.00 0.00 0.00 2.75
76 77 7.872483 GGGAAAAATGAGCAAAAGTTAAGATCA 59.128 33.333 0.00 0.00 31.76 2.92
77 78 9.428097 GGAAAAATGAGCAAAAGTTAAGATCAT 57.572 29.630 0.00 3.24 39.79 2.45
79 80 8.767478 AAAATGAGCAAAAGTTAAGATCATGG 57.233 30.769 8.44 0.00 38.29 3.66
80 81 5.902613 TGAGCAAAAGTTAAGATCATGGG 57.097 39.130 0.00 0.00 0.00 4.00
81 82 4.706476 TGAGCAAAAGTTAAGATCATGGGG 59.294 41.667 0.00 0.00 0.00 4.96
82 83 4.934356 AGCAAAAGTTAAGATCATGGGGA 58.066 39.130 0.00 0.00 0.00 4.81
83 84 5.522641 AGCAAAAGTTAAGATCATGGGGAT 58.477 37.500 0.00 0.00 39.53 3.85
84 85 6.672593 AGCAAAAGTTAAGATCATGGGGATA 58.327 36.000 0.00 0.00 36.00 2.59
85 86 7.125391 AGCAAAAGTTAAGATCATGGGGATAA 58.875 34.615 0.00 0.00 36.00 1.75
86 87 7.619302 AGCAAAAGTTAAGATCATGGGGATAAA 59.381 33.333 0.00 0.00 36.00 1.40
87 88 8.424133 GCAAAAGTTAAGATCATGGGGATAAAT 58.576 33.333 0.00 0.00 36.00 1.40
88 89 9.754382 CAAAAGTTAAGATCATGGGGATAAATG 57.246 33.333 0.00 0.00 36.00 2.32
89 90 9.713684 AAAAGTTAAGATCATGGGGATAAATGA 57.286 29.630 0.00 0.00 36.00 2.57
90 91 8.930846 AAGTTAAGATCATGGGGATAAATGAG 57.069 34.615 0.00 0.00 36.31 2.90
91 92 8.050316 AGTTAAGATCATGGGGATAAATGAGT 57.950 34.615 0.00 0.00 36.31 3.41
92 93 9.170890 AGTTAAGATCATGGGGATAAATGAGTA 57.829 33.333 0.00 0.00 36.31 2.59
93 94 9.442047 GTTAAGATCATGGGGATAAATGAGTAG 57.558 37.037 0.00 0.00 36.31 2.57
94 95 7.878621 AAGATCATGGGGATAAATGAGTAGA 57.121 36.000 0.00 0.00 36.31 2.59
95 96 7.878621 AGATCATGGGGATAAATGAGTAGAA 57.121 36.000 0.00 0.00 36.31 2.10
96 97 7.684529 AGATCATGGGGATAAATGAGTAGAAC 58.315 38.462 0.00 0.00 36.31 3.01
97 98 7.515514 AGATCATGGGGATAAATGAGTAGAACT 59.484 37.037 0.00 0.00 36.31 3.01
98 99 8.742125 ATCATGGGGATAAATGAGTAGAACTA 57.258 34.615 0.00 0.00 36.31 2.24
99 100 8.561536 TCATGGGGATAAATGAGTAGAACTAA 57.438 34.615 0.00 0.00 0.00 2.24
100 101 8.651389 TCATGGGGATAAATGAGTAGAACTAAG 58.349 37.037 0.00 0.00 0.00 2.18
101 102 7.374975 TGGGGATAAATGAGTAGAACTAAGG 57.625 40.000 0.00 0.00 0.00 2.69
102 103 7.136885 TGGGGATAAATGAGTAGAACTAAGGA 58.863 38.462 0.00 0.00 0.00 3.36
103 104 7.626084 TGGGGATAAATGAGTAGAACTAAGGAA 59.374 37.037 0.00 0.00 0.00 3.36
104 105 7.932491 GGGGATAAATGAGTAGAACTAAGGAAC 59.068 40.741 0.00 0.00 0.00 3.62
105 106 7.932491 GGGATAAATGAGTAGAACTAAGGAACC 59.068 40.741 0.00 0.00 0.00 3.62
106 107 8.483758 GGATAAATGAGTAGAACTAAGGAACCA 58.516 37.037 0.00 0.00 0.00 3.67
107 108 9.535878 GATAAATGAGTAGAACTAAGGAACCAG 57.464 37.037 0.00 0.00 0.00 4.00
108 109 5.941555 ATGAGTAGAACTAAGGAACCAGG 57.058 43.478 0.00 0.00 0.00 4.45
109 110 4.094476 TGAGTAGAACTAAGGAACCAGGG 58.906 47.826 0.00 0.00 0.00 4.45
110 111 3.451540 GAGTAGAACTAAGGAACCAGGGG 59.548 52.174 0.00 0.00 0.00 4.79
111 112 0.992695 AGAACTAAGGAACCAGGGGC 59.007 55.000 0.00 0.00 0.00 5.80
112 113 0.696501 GAACTAAGGAACCAGGGGCA 59.303 55.000 0.00 0.00 0.00 5.36
113 114 1.285078 GAACTAAGGAACCAGGGGCAT 59.715 52.381 0.00 0.00 0.00 4.40
114 115 2.280308 ACTAAGGAACCAGGGGCATA 57.720 50.000 0.00 0.00 0.00 3.14
115 116 2.127708 ACTAAGGAACCAGGGGCATAG 58.872 52.381 0.00 0.00 0.00 2.23
116 117 1.421646 CTAAGGAACCAGGGGCATAGG 59.578 57.143 0.00 0.00 0.00 2.57
117 118 0.253630 AAGGAACCAGGGGCATAGGA 60.254 55.000 0.00 0.00 0.00 2.94
118 119 0.253630 AGGAACCAGGGGCATAGGAA 60.254 55.000 0.00 0.00 0.00 3.36
119 120 0.853530 GGAACCAGGGGCATAGGAAT 59.146 55.000 0.00 0.00 0.00 3.01
120 121 2.062636 GGAACCAGGGGCATAGGAATA 58.937 52.381 0.00 0.00 0.00 1.75
121 122 2.445525 GGAACCAGGGGCATAGGAATAA 59.554 50.000 0.00 0.00 0.00 1.40
122 123 3.117284 GGAACCAGGGGCATAGGAATAAA 60.117 47.826 0.00 0.00 0.00 1.40
123 124 4.542697 GAACCAGGGGCATAGGAATAAAA 58.457 43.478 0.00 0.00 0.00 1.52
124 125 4.618378 ACCAGGGGCATAGGAATAAAAA 57.382 40.909 0.00 0.00 0.00 1.94
125 126 5.156401 ACCAGGGGCATAGGAATAAAAAT 57.844 39.130 0.00 0.00 0.00 1.82
126 127 5.147767 ACCAGGGGCATAGGAATAAAAATC 58.852 41.667 0.00 0.00 0.00 2.17
127 128 4.528206 CCAGGGGCATAGGAATAAAAATCC 59.472 45.833 0.00 0.00 37.22 3.01
128 129 4.528206 CAGGGGCATAGGAATAAAAATCCC 59.472 45.833 0.00 0.00 37.71 3.85
129 130 4.171841 AGGGGCATAGGAATAAAAATCCCA 59.828 41.667 0.00 0.00 37.71 4.37
130 131 4.904853 GGGGCATAGGAATAAAAATCCCAA 59.095 41.667 0.00 0.00 37.71 4.12
131 132 5.547666 GGGGCATAGGAATAAAAATCCCAAT 59.452 40.000 0.00 0.00 37.71 3.16
132 133 6.728632 GGGGCATAGGAATAAAAATCCCAATA 59.271 38.462 0.00 0.00 37.71 1.90
133 134 7.236640 GGGGCATAGGAATAAAAATCCCAATAA 59.763 37.037 0.00 0.00 37.71 1.40
134 135 8.655901 GGGCATAGGAATAAAAATCCCAATAAA 58.344 33.333 0.00 0.00 37.71 1.40
135 136 9.710900 GGCATAGGAATAAAAATCCCAATAAAG 57.289 33.333 0.00 0.00 37.71 1.85
146 147 9.506018 AAAAATCCCAATAAAGAAAACCATGAG 57.494 29.630 0.00 0.00 0.00 2.90
147 148 7.797121 AATCCCAATAAAGAAAACCATGAGT 57.203 32.000 0.00 0.00 0.00 3.41
148 149 6.588719 TCCCAATAAAGAAAACCATGAGTG 57.411 37.500 0.00 0.00 0.00 3.51
172 173 1.550976 AGAAGGACGAAAGCGGAGAAT 59.449 47.619 0.00 0.00 43.17 2.40
174 175 0.895530 AGGACGAAAGCGGAGAATGA 59.104 50.000 0.00 0.00 43.17 2.57
179 180 0.647925 GAAAGCGGAGAATGACGAGC 59.352 55.000 0.00 0.00 0.00 5.03
210 211 2.325082 CGCGGGACAGGGAACTTTG 61.325 63.158 0.00 0.00 40.21 2.77
211 212 2.626780 GCGGGACAGGGAACTTTGC 61.627 63.158 0.00 0.00 40.21 3.68
309 311 5.695816 GTGAGGCTATGCTTAAATCTCTCAG 59.304 44.000 0.00 0.00 30.71 3.35
317 319 4.408270 TGCTTAAATCTCTCAGCCTCTCAT 59.592 41.667 0.00 0.00 0.00 2.90
425 429 1.478105 GAATGGGAGCGAGCCATTTTT 59.522 47.619 0.00 0.00 34.79 1.94
427 431 1.305219 TGGGAGCGAGCCATTTTTCG 61.305 55.000 0.00 0.00 39.69 3.46
504 508 1.755783 GCATTTCTGGGCCTCCTGG 60.756 63.158 4.53 0.00 33.38 4.45
515 519 3.854669 CTCCTGGCCGATTCCGCT 61.855 66.667 0.00 0.00 0.00 5.52
518 522 1.374758 CCTGGCCGATTCCGCTATC 60.375 63.158 0.00 0.00 0.00 2.08
521 525 2.649034 GCCGATTCCGCTATCCGA 59.351 61.111 0.00 0.00 40.02 4.55
609 625 2.107950 TCCGCTTTCCGATCACAATT 57.892 45.000 0.00 0.00 40.02 2.32
662 684 7.308830 GCATATGAGAACCCTGAATGGTAAATC 60.309 40.741 6.97 0.00 37.76 2.17
686 708 2.945008 TGCGATTTCTTTGCAGGATAGG 59.055 45.455 0.00 0.00 39.94 2.57
695 717 6.166984 TCTTTGCAGGATAGGTTAGATCAG 57.833 41.667 0.00 0.00 0.00 2.90
698 720 6.560003 TTGCAGGATAGGTTAGATCAGAAA 57.440 37.500 0.00 0.00 0.00 2.52
699 721 6.166984 TGCAGGATAGGTTAGATCAGAAAG 57.833 41.667 0.00 0.00 0.00 2.62
770 793 2.741145 ACCTGTTACTAGGCTGAGAGG 58.259 52.381 0.00 0.48 41.75 3.69
1266 1289 0.653636 TGGAAATCGCGCGTTTATCC 59.346 50.000 30.98 29.26 0.00 2.59
1324 1347 4.264253 TGATCTATGTGGAAAGTGCTTGG 58.736 43.478 0.00 0.00 0.00 3.61
1375 1398 2.351350 GGTAACCCAACAAACATGAGCG 60.351 50.000 0.00 0.00 0.00 5.03
1401 1424 4.954970 AAGGCGGGGCACACACAG 62.955 66.667 0.00 0.00 0.00 3.66
1623 1655 6.571605 TCAATCAGAGATTCATGTCTCAGAC 58.428 40.000 13.99 0.00 45.62 3.51
1688 1720 1.278337 CCAGAGATCTCGACGAGCG 59.722 63.158 20.11 0.00 42.69 5.03
1929 1988 2.887783 ACCATTATGTCAACCGCAACAA 59.112 40.909 0.00 0.00 0.00 2.83
2504 2563 1.001406 ACCTGGAAGCTGAACTCGAAG 59.999 52.381 0.00 0.00 0.00 3.79
2539 2598 1.368641 TCCGCATCGAACCATTTGAG 58.631 50.000 0.00 0.00 0.00 3.02
2593 2652 3.776969 TGGCACTCAGAGTCTTGGATAAT 59.223 43.478 0.00 0.00 0.00 1.28
2622 2681 7.890127 AGATTTTGTGAGGAATACCATCTTTGA 59.110 33.333 0.00 0.00 38.94 2.69
2760 2819 3.431486 GGGTCACTGAGAGATCATCCAAC 60.431 52.174 0.00 0.00 0.00 3.77
2802 2861 8.329203 AGTGTAGAAAACTCAGAATTGGAATC 57.671 34.615 0.00 0.00 0.00 2.52
2903 3202 5.186996 TGCAGAAAACTCAGAATTGGAAC 57.813 39.130 0.00 0.00 0.00 3.62
2910 3209 2.036733 ACTCAGAATTGGAACGTCGGAA 59.963 45.455 0.00 0.00 0.00 4.30
2959 3258 5.787953 ACGATGAATCACTGAGAGATCAT 57.212 39.130 0.00 6.07 38.64 2.45
2994 3293 4.277476 CCTGGCCAATATGTAGAAAACCA 58.723 43.478 7.01 0.00 0.00 3.67
3397 3696 2.637872 GGCCATAGTTGTAGCCCATCTA 59.362 50.000 0.00 0.00 39.60 1.98
3431 3730 5.163426 TGTTTGAGAACATGCTGTGGAAAAT 60.163 36.000 0.00 0.00 40.71 1.82
3438 3737 6.425721 AGAACATGCTGTGGAAAATCAAAATG 59.574 34.615 0.00 0.00 0.00 2.32
3441 3740 5.021033 TGCTGTGGAAAATCAAAATGTGT 57.979 34.783 0.00 0.00 0.00 3.72
3510 3809 6.006275 AGACCTTATGCATTGTATGAGGTT 57.994 37.500 25.01 15.46 42.54 3.50
3596 3898 4.467438 TGCCTCAGTCAATAATCTCACAGA 59.533 41.667 0.00 0.00 0.00 3.41
3597 3899 5.049167 GCCTCAGTCAATAATCTCACAGAG 58.951 45.833 0.00 0.00 0.00 3.35
3600 3902 6.461370 CCTCAGTCAATAATCTCACAGAGGAG 60.461 46.154 0.00 0.00 42.39 3.69
3686 3988 9.896645 ATATAATGTGATCCCTAGCATTACTTG 57.103 33.333 0.00 0.00 36.86 3.16
3736 4039 1.253800 CTCGTTGAATCAGCGTGATCG 59.746 52.381 18.23 1.36 35.76 3.69
3854 4158 5.323371 TGGACTGGAAAGAAACAAAGTTG 57.677 39.130 0.00 0.00 0.00 3.16
3975 4282 3.521524 ATTTTCTTTGTCTGTCGACGC 57.478 42.857 11.62 4.38 43.21 5.19
3996 4303 2.126228 TCGATCGGCGACAACACC 60.126 61.111 13.76 0.00 45.59 4.16
4087 4394 2.221169 TGGGATACGATGCATGCTTTC 58.779 47.619 20.33 14.44 37.60 2.62
4088 4395 2.221169 GGGATACGATGCATGCTTTCA 58.779 47.619 20.33 0.00 37.60 2.69
4098 4405 2.251869 CATGCTTTCATGTCACACCG 57.748 50.000 0.00 0.00 43.85 4.94
4099 4406 1.805943 CATGCTTTCATGTCACACCGA 59.194 47.619 0.00 0.00 43.85 4.69
4100 4407 1.511850 TGCTTTCATGTCACACCGAG 58.488 50.000 0.00 0.00 0.00 4.63
4101 4408 0.798776 GCTTTCATGTCACACCGAGG 59.201 55.000 0.00 0.00 0.00 4.63
4102 4409 1.878102 GCTTTCATGTCACACCGAGGT 60.878 52.381 0.00 0.00 0.00 3.85
4159 4466 1.199615 AACTAGGCTGGAGGAGAAGC 58.800 55.000 4.33 0.00 38.76 3.86
4312 4619 1.008327 TCCTGGGAGCTGAGGTAATGA 59.992 52.381 0.00 0.00 0.00 2.57
4322 4629 3.449018 GCTGAGGTAATGAGGAGACTTCA 59.551 47.826 0.00 0.00 44.43 3.02
4337 4644 0.794981 CTTCAGAAGAGTCGACCGCG 60.795 60.000 13.01 0.00 39.35 6.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.507140 AACCCTCAGAACTGGTCACA 58.493 50.000 0.00 0.00 0.00 3.58
17 18 1.070134 CGAAACCCTCAGAACTGGTCA 59.930 52.381 0.00 0.00 0.00 4.02
19 20 0.396811 CCGAAACCCTCAGAACTGGT 59.603 55.000 1.93 0.00 0.00 4.00
20 21 0.321653 CCCGAAACCCTCAGAACTGG 60.322 60.000 1.93 0.00 0.00 4.00
21 22 0.955919 GCCCGAAACCCTCAGAACTG 60.956 60.000 0.00 0.00 0.00 3.16
22 23 1.375326 GCCCGAAACCCTCAGAACT 59.625 57.895 0.00 0.00 0.00 3.01
23 24 0.536460 TTGCCCGAAACCCTCAGAAC 60.536 55.000 0.00 0.00 0.00 3.01
24 25 0.250727 CTTGCCCGAAACCCTCAGAA 60.251 55.000 0.00 0.00 0.00 3.02
25 26 1.374947 CTTGCCCGAAACCCTCAGA 59.625 57.895 0.00 0.00 0.00 3.27
26 27 1.675641 CCTTGCCCGAAACCCTCAG 60.676 63.158 0.00 0.00 0.00 3.35
27 28 2.434331 CCTTGCCCGAAACCCTCA 59.566 61.111 0.00 0.00 0.00 3.86
28 29 2.361230 CCCTTGCCCGAAACCCTC 60.361 66.667 0.00 0.00 0.00 4.30
29 30 2.856988 TCCCTTGCCCGAAACCCT 60.857 61.111 0.00 0.00 0.00 4.34
30 31 2.361230 CTCCCTTGCCCGAAACCC 60.361 66.667 0.00 0.00 0.00 4.11
31 32 1.971695 CACTCCCTTGCCCGAAACC 60.972 63.158 0.00 0.00 0.00 3.27
32 33 1.971695 CCACTCCCTTGCCCGAAAC 60.972 63.158 0.00 0.00 0.00 2.78
33 34 2.434331 CCACTCCCTTGCCCGAAA 59.566 61.111 0.00 0.00 0.00 3.46
34 35 3.646715 CCCACTCCCTTGCCCGAA 61.647 66.667 0.00 0.00 0.00 4.30
37 38 2.380571 TTTTCCCCACTCCCTTGCCC 62.381 60.000 0.00 0.00 0.00 5.36
38 39 0.471022 TTTTTCCCCACTCCCTTGCC 60.471 55.000 0.00 0.00 0.00 4.52
39 40 1.276138 CATTTTTCCCCACTCCCTTGC 59.724 52.381 0.00 0.00 0.00 4.01
40 41 2.827921 CTCATTTTTCCCCACTCCCTTG 59.172 50.000 0.00 0.00 0.00 3.61
41 42 2.823152 GCTCATTTTTCCCCACTCCCTT 60.823 50.000 0.00 0.00 0.00 3.95
42 43 1.272704 GCTCATTTTTCCCCACTCCCT 60.273 52.381 0.00 0.00 0.00 4.20
43 44 1.186200 GCTCATTTTTCCCCACTCCC 58.814 55.000 0.00 0.00 0.00 4.30
44 45 1.923356 TGCTCATTTTTCCCCACTCC 58.077 50.000 0.00 0.00 0.00 3.85
45 46 4.202253 ACTTTTGCTCATTTTTCCCCACTC 60.202 41.667 0.00 0.00 0.00 3.51
46 47 3.711190 ACTTTTGCTCATTTTTCCCCACT 59.289 39.130 0.00 0.00 0.00 4.00
47 48 4.071961 ACTTTTGCTCATTTTTCCCCAC 57.928 40.909 0.00 0.00 0.00 4.61
48 49 4.769345 AACTTTTGCTCATTTTTCCCCA 57.231 36.364 0.00 0.00 0.00 4.96
49 50 6.521162 TCTTAACTTTTGCTCATTTTTCCCC 58.479 36.000 0.00 0.00 0.00 4.81
50 51 7.872483 TGATCTTAACTTTTGCTCATTTTTCCC 59.128 33.333 0.00 0.00 0.00 3.97
51 52 8.816640 TGATCTTAACTTTTGCTCATTTTTCC 57.183 30.769 0.00 0.00 0.00 3.13
53 54 9.211485 CCATGATCTTAACTTTTGCTCATTTTT 57.789 29.630 0.00 0.00 0.00 1.94
54 55 7.820872 CCCATGATCTTAACTTTTGCTCATTTT 59.179 33.333 0.00 0.00 0.00 1.82
55 56 7.325694 CCCATGATCTTAACTTTTGCTCATTT 58.674 34.615 0.00 0.00 0.00 2.32
56 57 6.127253 CCCCATGATCTTAACTTTTGCTCATT 60.127 38.462 0.00 0.00 0.00 2.57
57 58 5.361857 CCCCATGATCTTAACTTTTGCTCAT 59.638 40.000 0.00 0.00 0.00 2.90
58 59 4.706476 CCCCATGATCTTAACTTTTGCTCA 59.294 41.667 0.00 0.00 0.00 4.26
59 60 4.949856 TCCCCATGATCTTAACTTTTGCTC 59.050 41.667 0.00 0.00 0.00 4.26
60 61 4.934356 TCCCCATGATCTTAACTTTTGCT 58.066 39.130 0.00 0.00 0.00 3.91
61 62 5.859205 ATCCCCATGATCTTAACTTTTGC 57.141 39.130 0.00 0.00 0.00 3.68
62 63 9.754382 CATTTATCCCCATGATCTTAACTTTTG 57.246 33.333 0.00 0.00 34.76 2.44
63 64 9.713684 TCATTTATCCCCATGATCTTAACTTTT 57.286 29.630 0.00 0.00 34.76 2.27
64 65 9.359653 CTCATTTATCCCCATGATCTTAACTTT 57.640 33.333 0.00 0.00 34.76 2.66
65 66 8.506083 ACTCATTTATCCCCATGATCTTAACTT 58.494 33.333 0.00 0.00 34.76 2.66
66 67 8.050316 ACTCATTTATCCCCATGATCTTAACT 57.950 34.615 0.00 0.00 34.76 2.24
67 68 9.442047 CTACTCATTTATCCCCATGATCTTAAC 57.558 37.037 0.00 0.00 34.76 2.01
68 69 9.392506 TCTACTCATTTATCCCCATGATCTTAA 57.607 33.333 0.00 0.00 34.76 1.85
69 70 8.972662 TCTACTCATTTATCCCCATGATCTTA 57.027 34.615 0.00 0.00 34.76 2.10
70 71 7.878621 TCTACTCATTTATCCCCATGATCTT 57.121 36.000 0.00 0.00 34.76 2.40
71 72 7.515514 AGTTCTACTCATTTATCCCCATGATCT 59.484 37.037 0.00 0.00 34.76 2.75
72 73 7.684529 AGTTCTACTCATTTATCCCCATGATC 58.315 38.462 0.00 0.00 34.76 2.92
73 74 7.639062 AGTTCTACTCATTTATCCCCATGAT 57.361 36.000 0.00 0.00 37.49 2.45
74 75 8.561536 TTAGTTCTACTCATTTATCCCCATGA 57.438 34.615 0.00 0.00 0.00 3.07
75 76 7.880195 CCTTAGTTCTACTCATTTATCCCCATG 59.120 40.741 0.00 0.00 0.00 3.66
76 77 7.794683 TCCTTAGTTCTACTCATTTATCCCCAT 59.205 37.037 0.00 0.00 0.00 4.00
77 78 7.136885 TCCTTAGTTCTACTCATTTATCCCCA 58.863 38.462 0.00 0.00 0.00 4.96
78 79 7.613551 TCCTTAGTTCTACTCATTTATCCCC 57.386 40.000 0.00 0.00 0.00 4.81
79 80 7.932491 GGTTCCTTAGTTCTACTCATTTATCCC 59.068 40.741 0.00 0.00 0.00 3.85
80 81 8.483758 TGGTTCCTTAGTTCTACTCATTTATCC 58.516 37.037 0.00 0.00 0.00 2.59
81 82 9.535878 CTGGTTCCTTAGTTCTACTCATTTATC 57.464 37.037 0.00 0.00 0.00 1.75
82 83 8.487028 CCTGGTTCCTTAGTTCTACTCATTTAT 58.513 37.037 0.00 0.00 0.00 1.40
83 84 7.093024 CCCTGGTTCCTTAGTTCTACTCATTTA 60.093 40.741 0.00 0.00 0.00 1.40
84 85 6.296489 CCCTGGTTCCTTAGTTCTACTCATTT 60.296 42.308 0.00 0.00 0.00 2.32
85 86 5.189934 CCCTGGTTCCTTAGTTCTACTCATT 59.810 44.000 0.00 0.00 0.00 2.57
86 87 4.717280 CCCTGGTTCCTTAGTTCTACTCAT 59.283 45.833 0.00 0.00 0.00 2.90
87 88 4.094476 CCCTGGTTCCTTAGTTCTACTCA 58.906 47.826 0.00 0.00 0.00 3.41
88 89 3.451540 CCCCTGGTTCCTTAGTTCTACTC 59.548 52.174 0.00 0.00 0.00 2.59
89 90 3.451890 CCCCTGGTTCCTTAGTTCTACT 58.548 50.000 0.00 0.00 0.00 2.57
90 91 2.093075 GCCCCTGGTTCCTTAGTTCTAC 60.093 54.545 0.00 0.00 0.00 2.59
91 92 2.193993 GCCCCTGGTTCCTTAGTTCTA 58.806 52.381 0.00 0.00 0.00 2.10
92 93 0.992695 GCCCCTGGTTCCTTAGTTCT 59.007 55.000 0.00 0.00 0.00 3.01
93 94 0.696501 TGCCCCTGGTTCCTTAGTTC 59.303 55.000 0.00 0.00 0.00 3.01
94 95 1.382914 ATGCCCCTGGTTCCTTAGTT 58.617 50.000 0.00 0.00 0.00 2.24
95 96 2.127708 CTATGCCCCTGGTTCCTTAGT 58.872 52.381 0.00 0.00 0.00 2.24
96 97 1.421646 CCTATGCCCCTGGTTCCTTAG 59.578 57.143 0.00 0.00 0.00 2.18
97 98 1.010294 TCCTATGCCCCTGGTTCCTTA 59.990 52.381 0.00 0.00 0.00 2.69
98 99 0.253630 TCCTATGCCCCTGGTTCCTT 60.254 55.000 0.00 0.00 0.00 3.36
99 100 0.253630 TTCCTATGCCCCTGGTTCCT 60.254 55.000 0.00 0.00 0.00 3.36
100 101 0.853530 ATTCCTATGCCCCTGGTTCC 59.146 55.000 0.00 0.00 0.00 3.62
101 102 3.876309 TTATTCCTATGCCCCTGGTTC 57.124 47.619 0.00 0.00 0.00 3.62
102 103 4.618378 TTTTATTCCTATGCCCCTGGTT 57.382 40.909 0.00 0.00 0.00 3.67
103 104 4.618378 TTTTTATTCCTATGCCCCTGGT 57.382 40.909 0.00 0.00 0.00 4.00
104 105 4.528206 GGATTTTTATTCCTATGCCCCTGG 59.472 45.833 0.00 0.00 0.00 4.45
105 106 4.528206 GGGATTTTTATTCCTATGCCCCTG 59.472 45.833 0.00 0.00 33.53 4.45
106 107 4.171841 TGGGATTTTTATTCCTATGCCCCT 59.828 41.667 0.00 0.00 33.53 4.79
107 108 4.488770 TGGGATTTTTATTCCTATGCCCC 58.511 43.478 0.00 0.00 33.53 5.80
108 109 6.686484 ATTGGGATTTTTATTCCTATGCCC 57.314 37.500 0.00 0.00 33.53 5.36
109 110 9.710900 CTTTATTGGGATTTTTATTCCTATGCC 57.289 33.333 0.00 0.00 33.53 4.40
120 121 9.506018 CTCATGGTTTTCTTTATTGGGATTTTT 57.494 29.630 0.00 0.00 0.00 1.94
121 122 8.659527 ACTCATGGTTTTCTTTATTGGGATTTT 58.340 29.630 0.00 0.00 0.00 1.82
122 123 8.096414 CACTCATGGTTTTCTTTATTGGGATTT 58.904 33.333 0.00 0.00 0.00 2.17
123 124 7.310609 CCACTCATGGTTTTCTTTATTGGGATT 60.311 37.037 0.00 0.00 41.64 3.01
124 125 6.155049 CCACTCATGGTTTTCTTTATTGGGAT 59.845 38.462 0.00 0.00 41.64 3.85
125 126 5.480073 CCACTCATGGTTTTCTTTATTGGGA 59.520 40.000 0.00 0.00 41.64 4.37
126 127 5.723295 CCACTCATGGTTTTCTTTATTGGG 58.277 41.667 0.00 0.00 41.64 4.12
141 142 1.546029 TCGTCCTTCTCACCACTCATG 59.454 52.381 0.00 0.00 0.00 3.07
142 143 1.924731 TCGTCCTTCTCACCACTCAT 58.075 50.000 0.00 0.00 0.00 2.90
143 144 1.699730 TTCGTCCTTCTCACCACTCA 58.300 50.000 0.00 0.00 0.00 3.41
144 145 2.678324 CTTTCGTCCTTCTCACCACTC 58.322 52.381 0.00 0.00 0.00 3.51
145 146 1.270358 GCTTTCGTCCTTCTCACCACT 60.270 52.381 0.00 0.00 0.00 4.00
146 147 1.149148 GCTTTCGTCCTTCTCACCAC 58.851 55.000 0.00 0.00 0.00 4.16
147 148 0.319555 CGCTTTCGTCCTTCTCACCA 60.320 55.000 0.00 0.00 0.00 4.17
148 149 1.014564 CCGCTTTCGTCCTTCTCACC 61.015 60.000 0.00 0.00 0.00 4.02
149 150 0.038526 TCCGCTTTCGTCCTTCTCAC 60.039 55.000 0.00 0.00 0.00 3.51
150 151 0.243907 CTCCGCTTTCGTCCTTCTCA 59.756 55.000 0.00 0.00 0.00 3.27
151 152 0.526662 TCTCCGCTTTCGTCCTTCTC 59.473 55.000 0.00 0.00 0.00 2.87
152 153 0.966920 TTCTCCGCTTTCGTCCTTCT 59.033 50.000 0.00 0.00 0.00 2.85
172 173 3.733960 CCCACGTCTCGCTCGTCA 61.734 66.667 0.00 0.00 39.55 4.35
192 193 2.032071 AAAGTTCCCTGTCCCGCG 59.968 61.111 0.00 0.00 0.00 6.46
241 243 7.723324 AGACGGCAAACTTGTATATGTATACT 58.277 34.615 4.17 0.00 39.36 2.12
242 244 7.941795 AGACGGCAAACTTGTATATGTATAC 57.058 36.000 0.00 0.00 39.14 1.47
243 245 8.951787 AAAGACGGCAAACTTGTATATGTATA 57.048 30.769 0.00 0.00 0.00 1.47
244 246 7.859325 AAAGACGGCAAACTTGTATATGTAT 57.141 32.000 0.00 0.00 0.00 2.29
253 255 3.115554 CCAAGAAAAGACGGCAAACTTG 58.884 45.455 0.00 0.45 34.85 3.16
256 258 1.487482 GCCAAGAAAAGACGGCAAAC 58.513 50.000 0.00 0.00 44.25 2.93
309 311 1.404391 CCTTTGCATGTGATGAGAGGC 59.596 52.381 0.00 0.00 0.00 4.70
317 319 4.528206 TCTCTCTCTAACCTTTGCATGTGA 59.472 41.667 0.00 0.00 0.00 3.58
378 380 0.266152 GATTGGAGAGGGGAGGGAGA 59.734 60.000 0.00 0.00 0.00 3.71
382 384 1.723288 GTAGGATTGGAGAGGGGAGG 58.277 60.000 0.00 0.00 0.00 4.30
504 508 1.733399 GTCGGATAGCGGAATCGGC 60.733 63.158 4.52 4.52 36.79 5.54
515 519 2.203451 GCGGGAGAGGGTCGGATA 60.203 66.667 0.00 0.00 0.00 2.59
518 522 3.917760 GATGCGGGAGAGGGTCGG 61.918 72.222 0.00 0.00 0.00 4.79
609 625 1.332065 TGTCGCGCAGATTCAAACAAA 59.668 42.857 8.75 0.00 0.00 2.83
662 684 0.454957 CCTGCAAAGAAATCGCACCG 60.455 55.000 0.00 0.00 0.00 4.94
695 717 3.074412 TGGCAAGAAACCTCGATCTTTC 58.926 45.455 6.79 6.79 33.73 2.62
698 720 1.339151 GGTGGCAAGAAACCTCGATCT 60.339 52.381 0.00 0.00 33.40 2.75
699 721 1.087501 GGTGGCAAGAAACCTCGATC 58.912 55.000 0.00 0.00 33.40 3.69
707 729 4.218200 CACATACAGATTGGTGGCAAGAAA 59.782 41.667 0.00 0.00 0.00 2.52
770 793 6.074676 GCCAAATTTCTGCAATAATCACGATC 60.075 38.462 4.70 0.00 0.00 3.69
808 831 2.552743 GGAACCTTTTCTCCCAACGAAG 59.447 50.000 0.00 0.00 31.71 3.79
844 867 3.331150 CTTGGTTACTCATGCCAACGTA 58.669 45.455 0.00 0.00 37.36 3.57
1266 1289 3.488721 GCTTGCTGTGAATCTGGCAATAG 60.489 47.826 0.00 0.00 42.51 1.73
1324 1347 3.004734 CCAACTGGTCCAGAACATGAAAC 59.995 47.826 26.18 0.00 35.18 2.78
1348 1371 1.339929 GTTTGTTGGGTTACCTGGCTG 59.660 52.381 0.00 0.00 37.76 4.85
1375 1398 1.451567 GCCCCGCCTTCTCCTTAAC 60.452 63.158 0.00 0.00 0.00 2.01
1401 1424 3.803555 CTCTGAACAACAAGAACATCGC 58.196 45.455 0.00 0.00 0.00 4.58
1623 1655 2.246739 ATCGCCGCCAACATCATCG 61.247 57.895 0.00 0.00 0.00 3.84
1811 1843 6.374333 TCAATACCAACCAGAAAAGCTACATC 59.626 38.462 0.00 0.00 0.00 3.06
2191 2250 2.173569 ACCTTCAGCTTCAGTTGGAACT 59.826 45.455 0.00 0.00 40.60 3.01
2269 2328 6.993079 TGCATCGAGCTCTTTATAAAGGATA 58.007 36.000 22.11 5.35 45.94 2.59
2290 2349 1.664649 CGAAGCACTCCGTTCTGCA 60.665 57.895 0.00 0.00 35.73 4.41
2504 2563 1.941325 CGGAACCTGCTCTCATAACC 58.059 55.000 0.00 0.00 0.00 2.85
2539 2598 3.675467 ATAGCGTCAAATTTTCCGAGC 57.325 42.857 9.74 2.55 0.00 5.03
2593 2652 7.405292 AGATGGTATTCCTCACAAAATCTGAA 58.595 34.615 0.00 0.00 34.23 3.02
2622 2681 6.423776 TTTTGGCCTTCTCATCTTCAAAAT 57.576 33.333 3.32 0.00 30.78 1.82
2770 2829 4.137543 CTGAGTTTTCTACACTTTGGCCT 58.862 43.478 3.32 0.00 0.00 5.19
2802 2861 2.166459 TGAGGCAATAGTGAACTCCGAG 59.834 50.000 11.20 0.00 32.36 4.63
2845 2922 3.815856 TCACTTGGATGATCTCTCAGC 57.184 47.619 0.00 0.00 37.06 4.26
2903 3202 2.540101 GAGGCATTAGTGAATTCCGACG 59.460 50.000 2.27 0.00 33.89 5.12
2910 3209 4.472833 AGTCTTCCTGAGGCATTAGTGAAT 59.527 41.667 0.00 0.00 30.26 2.57
2994 3293 5.279156 GGTGAACTTTGGCATTCTGATTCTT 60.279 40.000 0.00 0.00 0.00 2.52
3397 3696 4.669206 TGTTCTCAAACACATTGCCAAT 57.331 36.364 0.00 0.00 40.45 3.16
3510 3809 7.701539 AAGATATTTGCAGTACATTTGGTGA 57.298 32.000 0.00 0.00 0.00 4.02
3596 3898 5.664908 ACTGATAATTGGTGAGATGTCTCCT 59.335 40.000 11.77 0.00 42.20 3.69
3597 3899 5.757320 CACTGATAATTGGTGAGATGTCTCC 59.243 44.000 7.51 4.06 42.20 3.71
3600 3902 7.223582 CACTACACTGATAATTGGTGAGATGTC 59.776 40.741 0.00 0.00 35.28 3.06
3736 4039 6.282199 TGGAGGAACTGTGTAAGATCTAAC 57.718 41.667 0.00 0.00 41.55 2.34
3850 4154 2.017049 GACACTGCTGGAACAACAACT 58.983 47.619 0.00 0.00 38.70 3.16
3854 4158 1.295792 TTCGACACTGCTGGAACAAC 58.704 50.000 0.00 0.00 38.70 3.32
3930 4237 4.646572 AGACTGGAAAAGAATCTCCACAC 58.353 43.478 0.00 0.00 36.79 3.82
3996 4303 1.019673 CTGGGCATCATGAAGTTCGG 58.980 55.000 0.00 0.00 0.00 4.30
4087 4394 0.390340 CCTCACCTCGGTGTGACATG 60.390 60.000 17.21 0.00 45.55 3.21
4088 4395 0.832135 ACCTCACCTCGGTGTGACAT 60.832 55.000 17.21 2.77 45.55 3.06
4098 4405 0.836400 TTCCCCAGTCACCTCACCTC 60.836 60.000 0.00 0.00 0.00 3.85
4099 4406 1.128188 GTTCCCCAGTCACCTCACCT 61.128 60.000 0.00 0.00 0.00 4.00
4100 4407 1.375326 GTTCCCCAGTCACCTCACC 59.625 63.158 0.00 0.00 0.00 4.02
4101 4408 0.035458 CTGTTCCCCAGTCACCTCAC 59.965 60.000 0.00 0.00 36.37 3.51
4102 4409 1.127567 CCTGTTCCCCAGTCACCTCA 61.128 60.000 0.00 0.00 39.74 3.86
4159 4466 4.488126 TTTCTGCTTGAAGAATGTTCCG 57.512 40.909 0.00 0.00 36.12 4.30
4312 4619 3.078837 GTCGACTCTTCTGAAGTCTCCT 58.921 50.000 16.43 0.00 0.00 3.69
4322 4629 3.329688 CTGCGCGGTCGACTCTTCT 62.330 63.158 16.46 0.00 38.10 2.85


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

AutoCloner maintained by Alex Coulton.