Multiple sequence alignment - TraesCS7B01G033600

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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 TraesCS7B01G033600 chr7B 100.000 2243 0 0 1 2243 33500753 33502995 0.000000e+00 4143
1 TraesCS7B01G033600 chr7B 95.330 1820 40 11 469 2243 716785049 716786868 0.000000e+00 2848
2 TraesCS7B01G033600 chr7B 95.220 1820 42 11 469 2243 742948296 742946477 0.000000e+00 2837
3 TraesCS7B01G033600 chr7B 96.939 294 9 0 176 469 33525805 33526098 5.560000e-136 494
4 TraesCS7B01G033600 chr7B 86.861 137 18 0 139 275 423210188 423210052 1.070000e-33 154
5 TraesCS7B01G033600 chr7B 86.014 143 20 0 133 275 502882841 502882699 1.070000e-33 154
6 TraesCS7B01G033600 chr5A 95.275 1820 41 15 469 2243 16544996 16546815 0.000000e+00 2843
7 TraesCS7B01G033600 chr5A 85.821 134 19 0 142 275 24653784 24653917 2.320000e-30 143
8 TraesCS7B01G033600 chr1B 95.397 1803 52 12 469 2243 583561107 583559308 0.000000e+00 2841
9 TraesCS7B01G033600 chr7A 95.220 1820 42 11 469 2243 60168325 60166506 0.000000e+00 2837
10 TraesCS7B01G033600 chr7A 95.110 1820 44 11 469 2243 60085378 60087197 0.000000e+00 2826
11 TraesCS7B01G033600 chr7A 94.301 193 11 0 277 469 85408449 85408641 1.680000e-76 296
12 TraesCS7B01G033600 chr7A 93.782 193 12 0 277 469 85409809 85410001 7.840000e-75 291
13 TraesCS7B01G033600 chr2D 94.033 1810 63 22 469 2243 291774061 291775860 0.000000e+00 2702
14 TraesCS7B01G033600 chr2D 92.462 849 26 12 469 1303 39657094 39657918 0.000000e+00 1179
15 TraesCS7B01G033600 chr2D 93.519 540 26 5 469 999 291452958 291452419 0.000000e+00 795
16 TraesCS7B01G033600 chr2D 86.713 143 19 0 133 275 406417681 406417539 2.310000e-35 159
17 TraesCS7B01G033600 chr6B 94.991 1737 58 11 535 2243 388227635 388225900 0.000000e+00 2699
18 TraesCS7B01G033600 chr6B 86.014 143 19 1 133 275 396227557 396227698 3.860000e-33 152
19 TraesCS7B01G033600 chrUn 95.328 1220 27 6 469 1658 417899050 417900269 0.000000e+00 1910
20 TraesCS7B01G033600 chrUn 95.681 1065 24 10 1201 2243 209407075 209408139 0.000000e+00 1692
21 TraesCS7B01G033600 chrUn 95.583 1064 26 8 1201 2243 396261128 396262191 0.000000e+00 1685
22 TraesCS7B01G033600 chrUn 91.860 430 10 13 469 873 378556981 378557410 5.370000e-161 577
23 TraesCS7B01G033600 chrUn 93.782 193 12 0 277 469 410581054 410581246 7.840000e-75 291
24 TraesCS7B01G033600 chrUn 93.782 193 12 0 277 469 413384597 413384789 7.840000e-75 291
25 TraesCS7B01G033600 chrUn 93.782 193 12 0 277 469 478202838 478203030 7.840000e-75 291
26 TraesCS7B01G033600 chr7D 95.771 1064 24 8 1201 2243 579000820 578999757 0.000000e+00 1696
27 TraesCS7B01G033600 chr7D 92.228 193 15 0 277 469 83745163 83745355 7.890000e-70 274
28 TraesCS7B01G033600 chr3B 95.386 1062 30 7 1201 2243 759913745 759914806 0.000000e+00 1672
29 TraesCS7B01G033600 chr3B 86.806 144 18 1 133 275 602349952 602350095 2.310000e-35 159
30 TraesCS7B01G033600 chr3A 95.104 1062 33 8 1201 2243 725775637 725774576 0.000000e+00 1655
31 TraesCS7B01G033600 chr4D 94.811 848 17 16 469 1289 123350563 123351410 0.000000e+00 1297
32 TraesCS7B01G033600 chr1D 93.649 803 25 15 469 1245 185743320 185742518 0.000000e+00 1177
33 TraesCS7B01G033600 chr1D 87.970 133 12 2 7 136 22625681 22625550 1.070000e-33 154
34 TraesCS7B01G033600 chr1A 87.970 133 12 2 7 136 23816523 23816654 1.070000e-33 154
35 TraesCS7B01G033600 chr4A 85.816 141 20 0 135 275 554930307 554930167 1.390000e-32 150
36 TraesCS7B01G033600 chr6A 84.397 141 21 1 133 273 235176250 235176389 1.080000e-28 137


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 TraesCS7B01G033600 chr7B 33500753 33502995 2242 False 4143.0 4143 100.0000 1 2243 1 chr7B.!!$F1 2242
1 TraesCS7B01G033600 chr7B 716785049 716786868 1819 False 2848.0 2848 95.3300 469 2243 1 chr7B.!!$F3 1774
2 TraesCS7B01G033600 chr7B 742946477 742948296 1819 True 2837.0 2837 95.2200 469 2243 1 chr7B.!!$R3 1774
3 TraesCS7B01G033600 chr5A 16544996 16546815 1819 False 2843.0 2843 95.2750 469 2243 1 chr5A.!!$F1 1774
4 TraesCS7B01G033600 chr1B 583559308 583561107 1799 True 2841.0 2841 95.3970 469 2243 1 chr1B.!!$R1 1774
5 TraesCS7B01G033600 chr7A 60166506 60168325 1819 True 2837.0 2837 95.2200 469 2243 1 chr7A.!!$R1 1774
6 TraesCS7B01G033600 chr7A 60085378 60087197 1819 False 2826.0 2826 95.1100 469 2243 1 chr7A.!!$F1 1774
7 TraesCS7B01G033600 chr7A 85408449 85410001 1552 False 293.5 296 94.0415 277 469 2 chr7A.!!$F2 192
8 TraesCS7B01G033600 chr2D 291774061 291775860 1799 False 2702.0 2702 94.0330 469 2243 1 chr2D.!!$F2 1774
9 TraesCS7B01G033600 chr2D 39657094 39657918 824 False 1179.0 1179 92.4620 469 1303 1 chr2D.!!$F1 834
10 TraesCS7B01G033600 chr2D 291452419 291452958 539 True 795.0 795 93.5190 469 999 1 chr2D.!!$R1 530
11 TraesCS7B01G033600 chr6B 388225900 388227635 1735 True 2699.0 2699 94.9910 535 2243 1 chr6B.!!$R1 1708
12 TraesCS7B01G033600 chrUn 417899050 417900269 1219 False 1910.0 1910 95.3280 469 1658 1 chrUn.!!$F6 1189
13 TraesCS7B01G033600 chrUn 209407075 209408139 1064 False 1692.0 1692 95.6810 1201 2243 1 chrUn.!!$F1 1042
14 TraesCS7B01G033600 chrUn 396261128 396262191 1063 False 1685.0 1685 95.5830 1201 2243 1 chrUn.!!$F3 1042
15 TraesCS7B01G033600 chr7D 578999757 579000820 1063 True 1696.0 1696 95.7710 1201 2243 1 chr7D.!!$R1 1042
16 TraesCS7B01G033600 chr3B 759913745 759914806 1061 False 1672.0 1672 95.3860 1201 2243 1 chr3B.!!$F2 1042
17 TraesCS7B01G033600 chr3A 725774576 725775637 1061 True 1655.0 1655 95.1040 1201 2243 1 chr3A.!!$R1 1042
18 TraesCS7B01G033600 chr4D 123350563 123351410 847 False 1297.0 1297 94.8110 469 1289 1 chr4D.!!$F1 820
19 TraesCS7B01G033600 chr1D 185742518 185743320 802 True 1177.0 1177 93.6490 469 1245 1 chr1D.!!$R2 776

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
225 226 0.033228 TTTGCCATCCGCTTTTGGTG 59.967 50.0 0.0 0.0 38.78 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1958 2359 3.534357 TGGTTTGGAGCTAAATTCCCA 57.466 42.857 0.0 0.0 33.62 4.37 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
18 19 4.366684 CAGTCCCCCAGCCCCAAC 62.367 72.222 0.00 0.00 0.00 3.77
24 25 4.232061 CCCAGCCCCAACCCACAA 62.232 66.667 0.00 0.00 0.00 3.33
25 26 2.601367 CCAGCCCCAACCCACAAG 60.601 66.667 0.00 0.00 0.00 3.16
26 27 2.601367 CAGCCCCAACCCACAAGG 60.601 66.667 0.00 0.00 43.78 3.61
37 38 1.266178 CCCACAAGGTTTCATTCCCC 58.734 55.000 0.00 0.00 0.00 4.81
38 39 1.266178 CCACAAGGTTTCATTCCCCC 58.734 55.000 0.00 0.00 0.00 5.40
39 40 0.887933 CACAAGGTTTCATTCCCCCG 59.112 55.000 0.00 0.00 0.00 5.73
40 41 0.898326 ACAAGGTTTCATTCCCCCGC 60.898 55.000 0.00 0.00 0.00 6.13
41 42 0.897863 CAAGGTTTCATTCCCCCGCA 60.898 55.000 0.00 0.00 0.00 5.69
42 43 0.898326 AAGGTTTCATTCCCCCGCAC 60.898 55.000 0.00 0.00 0.00 5.34
43 44 1.304134 GGTTTCATTCCCCCGCACT 60.304 57.895 0.00 0.00 0.00 4.40
44 45 1.313091 GGTTTCATTCCCCCGCACTC 61.313 60.000 0.00 0.00 0.00 3.51
45 46 0.322546 GTTTCATTCCCCCGCACTCT 60.323 55.000 0.00 0.00 0.00 3.24
46 47 0.322456 TTTCATTCCCCCGCACTCTG 60.322 55.000 0.00 0.00 0.00 3.35
47 48 1.198094 TTCATTCCCCCGCACTCTGA 61.198 55.000 0.00 0.00 0.00 3.27
48 49 1.450312 CATTCCCCCGCACTCTGAC 60.450 63.158 0.00 0.00 0.00 3.51
49 50 1.918293 ATTCCCCCGCACTCTGACA 60.918 57.895 0.00 0.00 0.00 3.58
50 51 2.185310 ATTCCCCCGCACTCTGACAC 62.185 60.000 0.00 0.00 0.00 3.67
51 52 3.625897 CCCCCGCACTCTGACACA 61.626 66.667 0.00 0.00 0.00 3.72
52 53 2.665000 CCCCGCACTCTGACACAT 59.335 61.111 0.00 0.00 0.00 3.21
53 54 1.613317 CCCCCGCACTCTGACACATA 61.613 60.000 0.00 0.00 0.00 2.29
54 55 0.460284 CCCCGCACTCTGACACATAC 60.460 60.000 0.00 0.00 0.00 2.39
55 56 0.802222 CCCGCACTCTGACACATACG 60.802 60.000 0.00 0.00 0.00 3.06
56 57 0.109272 CCGCACTCTGACACATACGT 60.109 55.000 0.00 0.00 0.00 3.57
57 58 1.260206 CGCACTCTGACACATACGTC 58.740 55.000 0.00 0.00 36.40 4.34
58 59 1.135660 CGCACTCTGACACATACGTCT 60.136 52.381 0.00 0.00 36.82 4.18
59 60 2.520979 GCACTCTGACACATACGTCTC 58.479 52.381 0.00 0.00 36.82 3.36
60 61 2.162608 GCACTCTGACACATACGTCTCT 59.837 50.000 0.00 0.00 36.82 3.10
61 62 3.752731 CACTCTGACACATACGTCTCTG 58.247 50.000 0.00 0.00 36.82 3.35
62 63 2.162608 ACTCTGACACATACGTCTCTGC 59.837 50.000 0.00 0.00 36.82 4.26
63 64 1.472878 TCTGACACATACGTCTCTGCC 59.527 52.381 0.00 0.00 36.82 4.85
64 65 1.474478 CTGACACATACGTCTCTGCCT 59.526 52.381 0.00 0.00 36.82 4.75
65 66 1.472878 TGACACATACGTCTCTGCCTC 59.527 52.381 0.00 0.00 36.82 4.70
66 67 1.746220 GACACATACGTCTCTGCCTCT 59.254 52.381 0.00 0.00 32.92 3.69
67 68 2.164624 GACACATACGTCTCTGCCTCTT 59.835 50.000 0.00 0.00 32.92 2.85
68 69 2.563179 ACACATACGTCTCTGCCTCTTT 59.437 45.455 0.00 0.00 0.00 2.52
69 70 2.926200 CACATACGTCTCTGCCTCTTTG 59.074 50.000 0.00 0.00 0.00 2.77
70 71 2.563179 ACATACGTCTCTGCCTCTTTGT 59.437 45.455 0.00 0.00 0.00 2.83
71 72 3.182967 CATACGTCTCTGCCTCTTTGTC 58.817 50.000 0.00 0.00 0.00 3.18
72 73 0.039074 ACGTCTCTGCCTCTTTGTCG 60.039 55.000 0.00 0.00 0.00 4.35
73 74 0.241213 CGTCTCTGCCTCTTTGTCGA 59.759 55.000 0.00 0.00 0.00 4.20
74 75 1.704070 GTCTCTGCCTCTTTGTCGAC 58.296 55.000 9.11 9.11 0.00 4.20
75 76 0.603569 TCTCTGCCTCTTTGTCGACC 59.396 55.000 14.12 0.00 0.00 4.79
76 77 0.734253 CTCTGCCTCTTTGTCGACCG 60.734 60.000 14.12 1.48 0.00 4.79
77 78 2.357034 TGCCTCTTTGTCGACCGC 60.357 61.111 14.12 5.58 0.00 5.68
78 79 3.119096 GCCTCTTTGTCGACCGCC 61.119 66.667 14.12 0.00 0.00 6.13
79 80 2.342279 CCTCTTTGTCGACCGCCA 59.658 61.111 14.12 0.00 0.00 5.69
80 81 1.301401 CCTCTTTGTCGACCGCCAA 60.301 57.895 14.12 0.00 0.00 4.52
81 82 1.291877 CCTCTTTGTCGACCGCCAAG 61.292 60.000 14.12 9.93 0.00 3.61
82 83 0.319555 CTCTTTGTCGACCGCCAAGA 60.320 55.000 14.12 13.43 0.00 3.02
83 84 0.105224 TCTTTGTCGACCGCCAAGAA 59.895 50.000 14.12 0.00 0.00 2.52
84 85 0.234884 CTTTGTCGACCGCCAAGAAC 59.765 55.000 14.12 0.00 0.00 3.01
85 86 1.161563 TTTGTCGACCGCCAAGAACC 61.162 55.000 14.12 0.00 0.00 3.62
86 87 3.110178 GTCGACCGCCAAGAACCG 61.110 66.667 3.51 0.00 0.00 4.44
116 117 2.809174 CGAGATGGTGCGCGTCAA 60.809 61.111 8.43 0.00 0.00 3.18
117 118 2.167219 CGAGATGGTGCGCGTCAAT 61.167 57.895 8.43 0.00 0.00 2.57
118 119 0.869880 CGAGATGGTGCGCGTCAATA 60.870 55.000 8.43 0.00 0.00 1.90
119 120 1.502231 GAGATGGTGCGCGTCAATAT 58.498 50.000 8.43 4.40 0.00 1.28
120 121 1.457303 GAGATGGTGCGCGTCAATATC 59.543 52.381 8.43 12.64 0.00 1.63
121 122 0.161658 GATGGTGCGCGTCAATATCG 59.838 55.000 8.43 0.00 0.00 2.92
122 123 0.529773 ATGGTGCGCGTCAATATCGT 60.530 50.000 8.43 0.00 0.00 3.73
123 124 1.143373 TGGTGCGCGTCAATATCGTC 61.143 55.000 8.43 0.00 0.00 4.20
124 125 1.143373 GGTGCGCGTCAATATCGTCA 61.143 55.000 8.43 0.00 0.00 4.35
125 126 0.227234 GTGCGCGTCAATATCGTCAG 59.773 55.000 8.43 0.00 0.00 3.51
126 127 0.869880 TGCGCGTCAATATCGTCAGG 60.870 55.000 8.43 0.00 0.00 3.86
127 128 1.846648 CGCGTCAATATCGTCAGGC 59.153 57.895 0.00 0.00 0.00 4.85
128 129 1.548973 CGCGTCAATATCGTCAGGCC 61.549 60.000 0.00 0.00 0.00 5.19
129 130 0.249489 GCGTCAATATCGTCAGGCCT 60.249 55.000 0.00 0.00 0.00 5.19
130 131 1.772182 CGTCAATATCGTCAGGCCTC 58.228 55.000 0.00 0.00 0.00 4.70
131 132 1.067060 CGTCAATATCGTCAGGCCTCA 59.933 52.381 0.00 0.00 0.00 3.86
132 133 2.481276 CGTCAATATCGTCAGGCCTCAA 60.481 50.000 0.00 0.00 0.00 3.02
133 134 3.126831 GTCAATATCGTCAGGCCTCAAG 58.873 50.000 0.00 0.00 0.00 3.02
134 135 3.031013 TCAATATCGTCAGGCCTCAAGA 58.969 45.455 0.00 0.00 0.00 3.02
135 136 3.126831 CAATATCGTCAGGCCTCAAGAC 58.873 50.000 0.00 7.02 0.00 3.01
138 139 2.435059 GTCAGGCCTCAAGACGGC 60.435 66.667 0.00 0.00 46.83 5.68
143 144 4.379174 GCCTCAAGACGGCAAAGA 57.621 55.556 0.00 0.00 46.77 2.52
144 145 2.629002 GCCTCAAGACGGCAAAGAA 58.371 52.632 0.00 0.00 46.77 2.52
145 146 0.238553 GCCTCAAGACGGCAAAGAAC 59.761 55.000 0.00 0.00 46.77 3.01
146 147 0.875059 CCTCAAGACGGCAAAGAACC 59.125 55.000 0.00 0.00 0.00 3.62
147 148 1.543429 CCTCAAGACGGCAAAGAACCT 60.543 52.381 0.00 0.00 0.00 3.50
148 149 1.532868 CTCAAGACGGCAAAGAACCTG 59.467 52.381 0.00 0.00 0.00 4.00
149 150 1.134220 TCAAGACGGCAAAGAACCTGT 60.134 47.619 0.00 0.00 0.00 4.00
150 151 1.676006 CAAGACGGCAAAGAACCTGTT 59.324 47.619 0.00 0.00 0.00 3.16
151 152 2.052782 AGACGGCAAAGAACCTGTTT 57.947 45.000 0.00 0.00 0.00 2.83
152 153 3.202829 AGACGGCAAAGAACCTGTTTA 57.797 42.857 0.00 0.00 0.00 2.01
153 154 3.751518 AGACGGCAAAGAACCTGTTTAT 58.248 40.909 0.00 0.00 0.00 1.40
154 155 3.751698 AGACGGCAAAGAACCTGTTTATC 59.248 43.478 0.00 0.00 0.00 1.75
155 156 2.482721 ACGGCAAAGAACCTGTTTATCG 59.517 45.455 0.00 0.00 0.00 2.92
156 157 2.482721 CGGCAAAGAACCTGTTTATCGT 59.517 45.455 0.00 0.00 0.00 3.73
157 158 3.424433 CGGCAAAGAACCTGTTTATCGTC 60.424 47.826 0.00 0.00 0.00 4.20
158 159 3.500680 GGCAAAGAACCTGTTTATCGTCA 59.499 43.478 0.00 0.00 0.00 4.35
159 160 4.156008 GGCAAAGAACCTGTTTATCGTCAT 59.844 41.667 0.00 0.00 0.00 3.06
160 161 5.353123 GGCAAAGAACCTGTTTATCGTCATA 59.647 40.000 0.00 0.00 0.00 2.15
161 162 6.038271 GGCAAAGAACCTGTTTATCGTCATAT 59.962 38.462 0.00 0.00 0.00 1.78
162 163 7.415206 GGCAAAGAACCTGTTTATCGTCATATT 60.415 37.037 0.00 0.00 0.00 1.28
163 164 7.640240 GCAAAGAACCTGTTTATCGTCATATTC 59.360 37.037 0.00 0.00 0.00 1.75
164 165 8.883731 CAAAGAACCTGTTTATCGTCATATTCT 58.116 33.333 0.00 0.00 0.00 2.40
165 166 9.449719 AAAGAACCTGTTTATCGTCATATTCTT 57.550 29.630 0.00 0.00 33.32 2.52
166 167 9.449719 AAGAACCTGTTTATCGTCATATTCTTT 57.550 29.630 0.00 0.00 30.58 2.52
167 168 8.883731 AGAACCTGTTTATCGTCATATTCTTTG 58.116 33.333 0.00 0.00 0.00 2.77
168 169 8.561738 AACCTGTTTATCGTCATATTCTTTGT 57.438 30.769 0.00 0.00 0.00 2.83
169 170 8.197988 ACCTGTTTATCGTCATATTCTTTGTC 57.802 34.615 0.00 0.00 0.00 3.18
170 171 7.010183 ACCTGTTTATCGTCATATTCTTTGTCG 59.990 37.037 0.00 0.00 0.00 4.35
171 172 7.229228 TGTTTATCGTCATATTCTTTGTCGG 57.771 36.000 0.00 0.00 0.00 4.79
172 173 6.256975 TGTTTATCGTCATATTCTTTGTCGGG 59.743 38.462 0.00 0.00 0.00 5.14
173 174 2.546778 TCGTCATATTCTTTGTCGGGC 58.453 47.619 0.00 0.00 0.00 6.13
174 175 2.093921 TCGTCATATTCTTTGTCGGGCA 60.094 45.455 0.00 0.00 0.00 5.36
175 176 2.285220 CGTCATATTCTTTGTCGGGCAG 59.715 50.000 0.00 0.00 0.00 4.85
176 177 2.032178 GTCATATTCTTTGTCGGGCAGC 59.968 50.000 0.00 0.00 0.00 5.25
177 178 2.092968 TCATATTCTTTGTCGGGCAGCT 60.093 45.455 0.00 0.00 0.00 4.24
178 179 2.489938 TATTCTTTGTCGGGCAGCTT 57.510 45.000 0.00 0.00 0.00 3.74
179 180 1.620822 ATTCTTTGTCGGGCAGCTTT 58.379 45.000 0.00 0.00 0.00 3.51
180 181 0.667993 TTCTTTGTCGGGCAGCTTTG 59.332 50.000 0.00 0.00 0.00 2.77
181 182 1.372128 CTTTGTCGGGCAGCTTTGC 60.372 57.895 0.00 0.00 0.00 3.68
189 190 4.389576 GCAGCTTTGCCGTCGGTG 62.390 66.667 13.94 2.88 0.00 4.94
190 191 3.726517 CAGCTTTGCCGTCGGTGG 61.727 66.667 13.94 2.09 0.00 4.61
207 208 3.050275 GCGGACGGCAAAGAGCTT 61.050 61.111 0.00 0.00 44.79 3.74
208 209 2.617274 GCGGACGGCAAAGAGCTTT 61.617 57.895 0.00 0.00 44.79 3.51
216 217 3.708195 CAAAGAGCTTTGCCATCCG 57.292 52.632 9.74 0.00 42.66 4.18
217 218 0.457337 CAAAGAGCTTTGCCATCCGC 60.457 55.000 9.74 0.00 42.66 5.54
218 219 0.610232 AAAGAGCTTTGCCATCCGCT 60.610 50.000 0.00 0.00 38.78 5.52
219 220 0.610232 AAGAGCTTTGCCATCCGCTT 60.610 50.000 0.00 0.00 38.78 4.68
220 221 0.610232 AGAGCTTTGCCATCCGCTTT 60.610 50.000 0.00 0.00 38.78 3.51
221 222 0.244721 GAGCTTTGCCATCCGCTTTT 59.755 50.000 0.00 0.00 38.78 2.27
222 223 0.037975 AGCTTTGCCATCCGCTTTTG 60.038 50.000 0.00 0.00 38.78 2.44
223 224 1.015607 GCTTTGCCATCCGCTTTTGG 61.016 55.000 0.00 0.00 38.78 3.28
224 225 0.318120 CTTTGCCATCCGCTTTTGGT 59.682 50.000 0.00 0.00 38.78 3.67
225 226 0.033228 TTTGCCATCCGCTTTTGGTG 59.967 50.000 0.00 0.00 38.78 4.17
226 227 1.112315 TTGCCATCCGCTTTTGGTGT 61.112 50.000 0.00 0.00 38.78 4.16
227 228 1.212751 GCCATCCGCTTTTGGTGTC 59.787 57.895 0.00 0.00 35.34 3.67
228 229 1.244019 GCCATCCGCTTTTGGTGTCT 61.244 55.000 0.00 0.00 35.34 3.41
229 230 1.247567 CCATCCGCTTTTGGTGTCTT 58.752 50.000 0.00 0.00 0.00 3.01
230 231 1.613437 CCATCCGCTTTTGGTGTCTTT 59.387 47.619 0.00 0.00 0.00 2.52
231 232 2.607771 CCATCCGCTTTTGGTGTCTTTG 60.608 50.000 0.00 0.00 0.00 2.77
232 233 0.383949 TCCGCTTTTGGTGTCTTTGC 59.616 50.000 0.00 0.00 0.00 3.68
233 234 0.597377 CCGCTTTTGGTGTCTTTGCC 60.597 55.000 0.00 0.00 0.00 4.52
234 235 0.934436 CGCTTTTGGTGTCTTTGCCG 60.934 55.000 0.00 0.00 0.00 5.69
235 236 0.102300 GCTTTTGGTGTCTTTGCCGT 59.898 50.000 0.00 0.00 0.00 5.68
236 237 1.864029 GCTTTTGGTGTCTTTGCCGTC 60.864 52.381 0.00 0.00 0.00 4.79
237 238 1.676006 CTTTTGGTGTCTTTGCCGTCT 59.324 47.619 0.00 0.00 0.00 4.18
238 239 1.021202 TTTGGTGTCTTTGCCGTCTG 58.979 50.000 0.00 0.00 0.00 3.51
239 240 0.107410 TTGGTGTCTTTGCCGTCTGT 60.107 50.000 0.00 0.00 0.00 3.41
240 241 0.531974 TGGTGTCTTTGCCGTCTGTC 60.532 55.000 0.00 0.00 0.00 3.51
241 242 1.557443 GGTGTCTTTGCCGTCTGTCG 61.557 60.000 0.00 0.00 39.52 4.35
242 243 0.874607 GTGTCTTTGCCGTCTGTCGT 60.875 55.000 0.00 0.00 37.94 4.34
243 244 0.874175 TGTCTTTGCCGTCTGTCGTG 60.874 55.000 0.00 0.00 37.94 4.35
244 245 1.300620 TCTTTGCCGTCTGTCGTGG 60.301 57.895 0.00 0.00 37.94 4.94
260 261 3.642938 TGGCAGACGGCAAATAAGT 57.357 47.368 0.00 0.00 46.20 2.24
261 262 1.904287 TGGCAGACGGCAAATAAGTT 58.096 45.000 0.00 0.00 46.20 2.66
262 263 1.539388 TGGCAGACGGCAAATAAGTTG 59.461 47.619 0.00 0.00 46.20 3.16
263 264 2.812243 TGGCAGACGGCAAATAAGTTGA 60.812 45.455 0.00 0.00 46.20 3.18
264 265 3.764885 GCAGACGGCAAATAAGTTGAT 57.235 42.857 0.00 0.00 43.97 2.57
265 266 4.096732 GCAGACGGCAAATAAGTTGATT 57.903 40.909 0.00 0.00 43.97 2.57
266 267 4.098416 GCAGACGGCAAATAAGTTGATTC 58.902 43.478 0.00 0.00 43.97 2.52
267 268 4.662145 CAGACGGCAAATAAGTTGATTCC 58.338 43.478 0.00 0.00 39.87 3.01
268 269 4.396166 CAGACGGCAAATAAGTTGATTCCT 59.604 41.667 0.00 0.00 39.87 3.36
269 270 4.396166 AGACGGCAAATAAGTTGATTCCTG 59.604 41.667 0.00 0.00 39.87 3.86
270 271 4.079253 ACGGCAAATAAGTTGATTCCTGT 58.921 39.130 0.00 0.00 39.87 4.00
271 272 5.250200 ACGGCAAATAAGTTGATTCCTGTA 58.750 37.500 0.00 0.00 39.87 2.74
272 273 5.354234 ACGGCAAATAAGTTGATTCCTGTAG 59.646 40.000 0.00 0.00 39.87 2.74
273 274 5.354234 CGGCAAATAAGTTGATTCCTGTAGT 59.646 40.000 0.00 0.00 39.87 2.73
274 275 6.555315 GGCAAATAAGTTGATTCCTGTAGTG 58.445 40.000 0.00 0.00 39.87 2.74
275 276 6.404734 GGCAAATAAGTTGATTCCTGTAGTGG 60.405 42.308 0.00 0.00 39.87 4.00
285 286 7.016153 TGATTCCTGTAGTGGTGTCTTAATT 57.984 36.000 0.00 0.00 0.00 1.40
291 292 5.616270 TGTAGTGGTGTCTTAATTGCTGAA 58.384 37.500 0.00 0.00 0.00 3.02
301 302 9.282247 GTGTCTTAATTGCTGAAATAGTTCATG 57.718 33.333 6.00 2.46 42.85 3.07
354 355 9.384764 ACTTGCATAGATATCATCATCATCAAG 57.615 33.333 5.32 9.02 0.00 3.02
398 399 9.533831 ACTCAACTATAAGGGAAATGACAAAAT 57.466 29.630 0.00 0.00 0.00 1.82
410 411 7.765819 GGGAAATGACAAAATAAATGAGGAAGG 59.234 37.037 0.00 0.00 0.00 3.46
506 507 8.617290 TCTTAGAAAAAGGTGGCTTAACTAAG 57.383 34.615 0.00 0.00 37.02 2.18
591 598 5.334724 TCAAAACCCCTTACTCGTAGATC 57.665 43.478 0.00 0.00 33.89 2.75
622 629 1.604278 GCTTTTCTCGCCAACTGAACT 59.396 47.619 0.00 0.00 0.00 3.01
624 631 2.910688 TTTCTCGCCAACTGAACTCT 57.089 45.000 0.00 0.00 0.00 3.24
682 689 7.624360 TTAAAGATAGATTTTCGTGCCATGT 57.376 32.000 0.00 0.00 0.00 3.21
895 922 3.067461 TGGTCCGCATAACCAATATTTGC 59.933 43.478 0.00 0.00 43.72 3.68
970 997 4.398044 AGAAAGAACAGCGAAGGAAAAACA 59.602 37.500 0.00 0.00 0.00 2.83
1215 1243 4.863548 TGATGGCCTTTCTGATCTCATTT 58.136 39.130 3.32 0.00 0.00 2.32
1274 1302 9.878599 AAAAAGAAATGTGAGAATGTAGTTACG 57.121 29.630 0.00 0.00 0.00 3.18
1387 1465 3.342377 TGCAATTTCAGTACCGGATCA 57.658 42.857 9.46 0.00 0.00 2.92
1549 1932 2.621526 GCCCTTTCACTTTTTCTTCGGA 59.378 45.455 0.00 0.00 0.00 4.55
1555 1938 6.294176 CCTTTCACTTTTTCTTCGGATGTCAT 60.294 38.462 0.00 0.00 0.00 3.06
1783 2182 4.956700 TCAATAAGGTCCGACTTCAGAGAT 59.043 41.667 0.00 0.00 32.02 2.75
1958 2359 4.321601 GCACTCGATCAAGCCTATACATCT 60.322 45.833 0.00 0.00 0.00 2.90
1983 2384 5.011635 GGGAATTTAGCTCCAAACCAAAGAA 59.988 40.000 0.00 0.00 34.34 2.52
2070 2471 0.608640 CTACTTTCTGGTGCCGGTCT 59.391 55.000 1.90 0.00 0.00 3.85
2095 2496 3.587061 TCACAAAGATAGCCCCTTCTTGA 59.413 43.478 0.00 0.00 32.65 3.02
2194 2595 5.990120 ATCTTTCTTGGTTTGGAATCCAG 57.010 39.130 0.86 0.00 33.81 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.366684 GTTGGGGCTGGGGGACTG 62.367 72.222 0.00 0.00 0.00 3.51
7 8 4.232061 TTGTGGGTTGGGGCTGGG 62.232 66.667 0.00 0.00 0.00 4.45
8 9 2.601367 CTTGTGGGTTGGGGCTGG 60.601 66.667 0.00 0.00 0.00 4.85
9 10 2.601367 CCTTGTGGGTTGGGGCTG 60.601 66.667 0.00 0.00 0.00 4.85
18 19 1.266178 GGGGAATGAAACCTTGTGGG 58.734 55.000 0.00 0.00 41.89 4.61
19 20 1.266178 GGGGGAATGAAACCTTGTGG 58.734 55.000 0.00 0.00 39.83 4.17
20 21 0.887933 CGGGGGAATGAAACCTTGTG 59.112 55.000 0.00 0.00 0.00 3.33
21 22 0.898326 GCGGGGGAATGAAACCTTGT 60.898 55.000 0.00 0.00 0.00 3.16
22 23 0.897863 TGCGGGGGAATGAAACCTTG 60.898 55.000 0.00 0.00 0.00 3.61
23 24 0.898326 GTGCGGGGGAATGAAACCTT 60.898 55.000 0.00 0.00 0.00 3.50
24 25 1.304134 GTGCGGGGGAATGAAACCT 60.304 57.895 0.00 0.00 0.00 3.50
25 26 1.304134 AGTGCGGGGGAATGAAACC 60.304 57.895 0.00 0.00 0.00 3.27
26 27 0.322546 AGAGTGCGGGGGAATGAAAC 60.323 55.000 0.00 0.00 0.00 2.78
27 28 0.322456 CAGAGTGCGGGGGAATGAAA 60.322 55.000 0.00 0.00 0.00 2.69
28 29 1.198094 TCAGAGTGCGGGGGAATGAA 61.198 55.000 0.00 0.00 0.00 2.57
29 30 1.612146 TCAGAGTGCGGGGGAATGA 60.612 57.895 0.00 0.00 0.00 2.57
30 31 1.450312 GTCAGAGTGCGGGGGAATG 60.450 63.158 0.00 0.00 0.00 2.67
31 32 1.918293 TGTCAGAGTGCGGGGGAAT 60.918 57.895 0.00 0.00 0.00 3.01
32 33 2.525629 TGTCAGAGTGCGGGGGAA 60.526 61.111 0.00 0.00 0.00 3.97
33 34 3.311110 GTGTCAGAGTGCGGGGGA 61.311 66.667 0.00 0.00 0.00 4.81
34 35 1.613317 TATGTGTCAGAGTGCGGGGG 61.613 60.000 0.00 0.00 0.00 5.40
35 36 0.460284 GTATGTGTCAGAGTGCGGGG 60.460 60.000 0.00 0.00 0.00 5.73
36 37 0.802222 CGTATGTGTCAGAGTGCGGG 60.802 60.000 0.00 0.00 0.00 6.13
37 38 0.109272 ACGTATGTGTCAGAGTGCGG 60.109 55.000 0.00 0.00 0.00 5.69
38 39 1.135660 AGACGTATGTGTCAGAGTGCG 60.136 52.381 0.00 0.00 41.41 5.34
39 40 2.162608 AGAGACGTATGTGTCAGAGTGC 59.837 50.000 14.14 0.00 40.71 4.40
40 41 3.752731 CAGAGACGTATGTGTCAGAGTG 58.247 50.000 14.14 0.62 40.71 3.51
41 42 2.162608 GCAGAGACGTATGTGTCAGAGT 59.837 50.000 14.14 0.00 40.71 3.24
42 43 2.478709 GGCAGAGACGTATGTGTCAGAG 60.479 54.545 14.14 5.27 40.71 3.35
43 44 1.472878 GGCAGAGACGTATGTGTCAGA 59.527 52.381 14.14 0.00 40.71 3.27
44 45 1.474478 AGGCAGAGACGTATGTGTCAG 59.526 52.381 14.62 7.54 40.71 3.51
45 46 1.472878 GAGGCAGAGACGTATGTGTCA 59.527 52.381 14.62 0.00 40.71 3.58
46 47 1.746220 AGAGGCAGAGACGTATGTGTC 59.254 52.381 3.40 3.40 38.62 3.67
47 48 1.840737 AGAGGCAGAGACGTATGTGT 58.159 50.000 9.21 0.00 0.00 3.72
48 49 2.926200 CAAAGAGGCAGAGACGTATGTG 59.074 50.000 2.48 2.48 0.00 3.21
49 50 2.563179 ACAAAGAGGCAGAGACGTATGT 59.437 45.455 0.00 0.00 0.00 2.29
50 51 3.182967 GACAAAGAGGCAGAGACGTATG 58.817 50.000 0.00 0.00 0.00 2.39
51 52 2.159366 CGACAAAGAGGCAGAGACGTAT 60.159 50.000 0.00 0.00 0.00 3.06
52 53 1.199327 CGACAAAGAGGCAGAGACGTA 59.801 52.381 0.00 0.00 0.00 3.57
53 54 0.039074 CGACAAAGAGGCAGAGACGT 60.039 55.000 0.00 0.00 0.00 4.34
54 55 0.241213 TCGACAAAGAGGCAGAGACG 59.759 55.000 0.00 0.00 0.00 4.18
55 56 1.670380 GGTCGACAAAGAGGCAGAGAC 60.670 57.143 18.91 0.00 0.00 3.36
56 57 0.603569 GGTCGACAAAGAGGCAGAGA 59.396 55.000 18.91 0.00 0.00 3.10
57 58 0.734253 CGGTCGACAAAGAGGCAGAG 60.734 60.000 18.91 0.00 0.00 3.35
58 59 1.289066 CGGTCGACAAAGAGGCAGA 59.711 57.895 18.91 0.00 0.00 4.26
59 60 2.383527 GCGGTCGACAAAGAGGCAG 61.384 63.158 18.91 0.00 0.00 4.85
60 61 2.357034 GCGGTCGACAAAGAGGCA 60.357 61.111 18.91 0.00 0.00 4.75
61 62 3.119096 GGCGGTCGACAAAGAGGC 61.119 66.667 18.91 10.92 0.00 4.70
62 63 1.291877 CTTGGCGGTCGACAAAGAGG 61.292 60.000 18.91 0.00 43.25 3.69
63 64 0.319555 TCTTGGCGGTCGACAAAGAG 60.320 55.000 18.91 8.22 43.25 2.85
64 65 0.105224 TTCTTGGCGGTCGACAAAGA 59.895 50.000 18.91 16.17 43.25 2.52
65 66 0.234884 GTTCTTGGCGGTCGACAAAG 59.765 55.000 18.91 14.24 43.25 2.77
66 67 1.161563 GGTTCTTGGCGGTCGACAAA 61.162 55.000 18.91 5.06 43.25 2.83
67 68 1.595929 GGTTCTTGGCGGTCGACAA 60.596 57.895 18.91 11.33 41.42 3.18
68 69 2.029964 GGTTCTTGGCGGTCGACA 59.970 61.111 18.91 0.00 0.00 4.35
69 70 3.110178 CGGTTCTTGGCGGTCGAC 61.110 66.667 7.13 7.13 0.00 4.20
99 100 0.869880 TATTGACGCGCACCATCTCG 60.870 55.000 5.73 0.00 0.00 4.04
100 101 1.457303 GATATTGACGCGCACCATCTC 59.543 52.381 5.73 0.00 0.00 2.75
101 102 1.502231 GATATTGACGCGCACCATCT 58.498 50.000 5.73 0.00 0.00 2.90
102 103 0.161658 CGATATTGACGCGCACCATC 59.838 55.000 5.73 9.29 0.00 3.51
103 104 0.529773 ACGATATTGACGCGCACCAT 60.530 50.000 5.73 0.44 0.00 3.55
104 105 1.143373 GACGATATTGACGCGCACCA 61.143 55.000 5.73 0.38 0.00 4.17
105 106 1.143373 TGACGATATTGACGCGCACC 61.143 55.000 5.73 0.00 0.00 5.01
106 107 0.227234 CTGACGATATTGACGCGCAC 59.773 55.000 5.73 0.41 0.00 5.34
107 108 0.869880 CCTGACGATATTGACGCGCA 60.870 55.000 5.73 1.71 0.00 6.09
108 109 1.846648 CCTGACGATATTGACGCGC 59.153 57.895 5.73 0.00 0.00 6.86
109 110 1.548973 GGCCTGACGATATTGACGCG 61.549 60.000 3.53 3.53 0.00 6.01
110 111 0.249489 AGGCCTGACGATATTGACGC 60.249 55.000 3.11 0.00 0.00 5.19
111 112 1.067060 TGAGGCCTGACGATATTGACG 59.933 52.381 12.00 0.00 0.00 4.35
112 113 2.890808 TGAGGCCTGACGATATTGAC 57.109 50.000 12.00 0.00 0.00 3.18
113 114 3.031013 TCTTGAGGCCTGACGATATTGA 58.969 45.455 12.00 0.00 0.00 2.57
114 115 3.126831 GTCTTGAGGCCTGACGATATTG 58.873 50.000 12.00 0.00 0.00 1.90
115 116 3.460857 GTCTTGAGGCCTGACGATATT 57.539 47.619 12.00 0.00 0.00 1.28
127 128 0.875059 GGTTCTTTGCCGTCTTGAGG 59.125 55.000 0.00 0.00 0.00 3.86
128 129 1.532868 CAGGTTCTTTGCCGTCTTGAG 59.467 52.381 0.00 0.00 0.00 3.02
129 130 1.134220 ACAGGTTCTTTGCCGTCTTGA 60.134 47.619 0.00 0.00 0.00 3.02
130 131 1.308998 ACAGGTTCTTTGCCGTCTTG 58.691 50.000 0.00 0.00 0.00 3.02
131 132 2.052782 AACAGGTTCTTTGCCGTCTT 57.947 45.000 0.00 0.00 0.00 3.01
132 133 2.052782 AAACAGGTTCTTTGCCGTCT 57.947 45.000 0.00 0.00 0.00 4.18
133 134 3.424433 CGATAAACAGGTTCTTTGCCGTC 60.424 47.826 0.00 0.00 0.00 4.79
134 135 2.482721 CGATAAACAGGTTCTTTGCCGT 59.517 45.455 0.00 0.00 0.00 5.68
135 136 2.482721 ACGATAAACAGGTTCTTTGCCG 59.517 45.455 0.00 0.00 0.00 5.69
136 137 3.500680 TGACGATAAACAGGTTCTTTGCC 59.499 43.478 0.00 0.00 0.00 4.52
137 138 4.742438 TGACGATAAACAGGTTCTTTGC 57.258 40.909 0.00 0.00 0.00 3.68
138 139 8.883731 AGAATATGACGATAAACAGGTTCTTTG 58.116 33.333 0.00 0.00 0.00 2.77
139 140 9.449719 AAGAATATGACGATAAACAGGTTCTTT 57.550 29.630 0.00 0.00 33.86 2.52
140 141 9.449719 AAAGAATATGACGATAAACAGGTTCTT 57.550 29.630 0.00 0.00 36.35 2.52
141 142 8.883731 CAAAGAATATGACGATAAACAGGTTCT 58.116 33.333 0.00 0.00 0.00 3.01
142 143 8.665685 ACAAAGAATATGACGATAAACAGGTTC 58.334 33.333 0.00 0.00 0.00 3.62
143 144 8.561738 ACAAAGAATATGACGATAAACAGGTT 57.438 30.769 0.00 0.00 0.00 3.50
144 145 7.010183 CGACAAAGAATATGACGATAAACAGGT 59.990 37.037 0.00 0.00 38.00 4.00
145 146 7.337718 CGACAAAGAATATGACGATAAACAGG 58.662 38.462 0.00 0.00 38.00 4.00
146 147 7.337718 CCGACAAAGAATATGACGATAAACAG 58.662 38.462 0.00 0.00 38.00 3.16
147 148 6.256975 CCCGACAAAGAATATGACGATAAACA 59.743 38.462 0.00 0.00 38.00 2.83
148 149 6.646636 CCCGACAAAGAATATGACGATAAAC 58.353 40.000 0.00 0.00 38.00 2.01
149 150 5.235616 GCCCGACAAAGAATATGACGATAAA 59.764 40.000 0.00 0.00 38.00 1.40
150 151 4.748102 GCCCGACAAAGAATATGACGATAA 59.252 41.667 0.00 0.00 38.00 1.75
151 152 4.202172 TGCCCGACAAAGAATATGACGATA 60.202 41.667 0.00 0.00 38.00 2.92
152 153 3.131396 GCCCGACAAAGAATATGACGAT 58.869 45.455 0.00 0.00 38.00 3.73
153 154 2.093921 TGCCCGACAAAGAATATGACGA 60.094 45.455 0.00 0.00 38.00 4.20
154 155 2.276201 TGCCCGACAAAGAATATGACG 58.724 47.619 0.00 0.00 36.09 4.35
155 156 2.032178 GCTGCCCGACAAAGAATATGAC 59.968 50.000 0.00 0.00 0.00 3.06
156 157 2.092968 AGCTGCCCGACAAAGAATATGA 60.093 45.455 0.00 0.00 0.00 2.15
157 158 2.292267 AGCTGCCCGACAAAGAATATG 58.708 47.619 0.00 0.00 0.00 1.78
158 159 2.717639 AGCTGCCCGACAAAGAATAT 57.282 45.000 0.00 0.00 0.00 1.28
159 160 2.487762 CAAAGCTGCCCGACAAAGAATA 59.512 45.455 0.00 0.00 0.00 1.75
160 161 1.270550 CAAAGCTGCCCGACAAAGAAT 59.729 47.619 0.00 0.00 0.00 2.40
161 162 0.667993 CAAAGCTGCCCGACAAAGAA 59.332 50.000 0.00 0.00 0.00 2.52
162 163 1.795170 GCAAAGCTGCCCGACAAAGA 61.795 55.000 0.00 0.00 43.26 2.52
163 164 1.372128 GCAAAGCTGCCCGACAAAG 60.372 57.895 0.00 0.00 43.26 2.77
164 165 2.727544 GCAAAGCTGCCCGACAAA 59.272 55.556 0.00 0.00 43.26 2.83
173 174 3.726517 CCACCGACGGCAAAGCTG 61.727 66.667 15.39 3.09 41.29 4.24
187 188 3.423154 CTCTTTGCCGTCCGCCAC 61.423 66.667 0.00 0.00 36.24 5.01
190 191 2.617274 AAAGCTCTTTGCCGTCCGC 61.617 57.895 0.00 0.00 44.23 5.54
191 192 1.207593 CAAAGCTCTTTGCCGTCCG 59.792 57.895 9.14 0.00 42.66 4.79
199 200 1.885871 GCGGATGGCAAAGCTCTTT 59.114 52.632 0.00 0.00 42.87 2.52
200 201 3.595819 GCGGATGGCAAAGCTCTT 58.404 55.556 0.00 0.00 42.87 2.85
209 210 1.212751 GACACCAAAAGCGGATGGC 59.787 57.895 4.84 0.00 40.51 4.40
210 211 1.247567 AAGACACCAAAAGCGGATGG 58.752 50.000 3.54 3.54 42.60 3.51
211 212 2.664916 CAAAGACACCAAAAGCGGATG 58.335 47.619 0.00 0.00 0.00 3.51
212 213 1.000274 GCAAAGACACCAAAAGCGGAT 60.000 47.619 0.00 0.00 0.00 4.18
213 214 0.383949 GCAAAGACACCAAAAGCGGA 59.616 50.000 0.00 0.00 0.00 5.54
214 215 0.597377 GGCAAAGACACCAAAAGCGG 60.597 55.000 0.00 0.00 0.00 5.52
215 216 0.934436 CGGCAAAGACACCAAAAGCG 60.934 55.000 0.00 0.00 0.00 4.68
216 217 0.102300 ACGGCAAAGACACCAAAAGC 59.898 50.000 0.00 0.00 0.00 3.51
217 218 1.676006 AGACGGCAAAGACACCAAAAG 59.324 47.619 0.00 0.00 0.00 2.27
218 219 1.403679 CAGACGGCAAAGACACCAAAA 59.596 47.619 0.00 0.00 0.00 2.44
219 220 1.021202 CAGACGGCAAAGACACCAAA 58.979 50.000 0.00 0.00 0.00 3.28
220 221 0.107410 ACAGACGGCAAAGACACCAA 60.107 50.000 0.00 0.00 0.00 3.67
221 222 0.531974 GACAGACGGCAAAGACACCA 60.532 55.000 0.00 0.00 0.00 4.17
222 223 1.557443 CGACAGACGGCAAAGACACC 61.557 60.000 0.00 0.00 38.46 4.16
223 224 1.853319 CGACAGACGGCAAAGACAC 59.147 57.895 0.00 0.00 38.46 3.67
224 225 4.336581 CGACAGACGGCAAAGACA 57.663 55.556 0.00 0.00 38.46 3.41
241 242 1.165270 ACTTATTTGCCGTCTGCCAC 58.835 50.000 0.00 0.00 40.16 5.01
242 243 1.539388 CAACTTATTTGCCGTCTGCCA 59.461 47.619 0.00 0.00 40.16 4.92
243 244 1.810151 TCAACTTATTTGCCGTCTGCC 59.190 47.619 0.00 0.00 40.16 4.85
244 245 3.764885 ATCAACTTATTTGCCGTCTGC 57.235 42.857 0.00 0.00 41.77 4.26
245 246 4.396166 AGGAATCAACTTATTTGCCGTCTG 59.604 41.667 0.00 0.00 34.88 3.51
246 247 4.396166 CAGGAATCAACTTATTTGCCGTCT 59.604 41.667 0.00 0.00 34.88 4.18
247 248 4.156008 ACAGGAATCAACTTATTTGCCGTC 59.844 41.667 0.00 0.00 34.88 4.79
248 249 4.079253 ACAGGAATCAACTTATTTGCCGT 58.921 39.130 0.00 0.00 34.88 5.68
249 250 4.701956 ACAGGAATCAACTTATTTGCCG 57.298 40.909 0.00 0.00 34.88 5.69
250 251 6.404734 CCACTACAGGAATCAACTTATTTGCC 60.405 42.308 0.00 0.00 34.88 4.52
251 252 6.151144 ACCACTACAGGAATCAACTTATTTGC 59.849 38.462 0.00 0.00 34.88 3.68
252 253 7.174946 ACACCACTACAGGAATCAACTTATTTG 59.825 37.037 0.00 0.00 36.42 2.32
253 254 7.231467 ACACCACTACAGGAATCAACTTATTT 58.769 34.615 0.00 0.00 0.00 1.40
254 255 6.779860 ACACCACTACAGGAATCAACTTATT 58.220 36.000 0.00 0.00 0.00 1.40
255 256 6.213600 AGACACCACTACAGGAATCAACTTAT 59.786 38.462 0.00 0.00 0.00 1.73
256 257 5.542635 AGACACCACTACAGGAATCAACTTA 59.457 40.000 0.00 0.00 0.00 2.24
257 258 4.348168 AGACACCACTACAGGAATCAACTT 59.652 41.667 0.00 0.00 0.00 2.66
258 259 3.904339 AGACACCACTACAGGAATCAACT 59.096 43.478 0.00 0.00 0.00 3.16
259 260 4.273148 AGACACCACTACAGGAATCAAC 57.727 45.455 0.00 0.00 0.00 3.18
260 261 4.974645 AAGACACCACTACAGGAATCAA 57.025 40.909 0.00 0.00 0.00 2.57
261 262 6.620877 ATTAAGACACCACTACAGGAATCA 57.379 37.500 0.00 0.00 0.00 2.57
262 263 6.183360 GCAATTAAGACACCACTACAGGAATC 60.183 42.308 0.00 0.00 0.00 2.52
263 264 5.648092 GCAATTAAGACACCACTACAGGAAT 59.352 40.000 0.00 0.00 0.00 3.01
264 265 5.001232 GCAATTAAGACACCACTACAGGAA 58.999 41.667 0.00 0.00 0.00 3.36
265 266 4.286032 AGCAATTAAGACACCACTACAGGA 59.714 41.667 0.00 0.00 0.00 3.86
266 267 4.393062 CAGCAATTAAGACACCACTACAGG 59.607 45.833 0.00 0.00 0.00 4.00
267 268 5.237815 TCAGCAATTAAGACACCACTACAG 58.762 41.667 0.00 0.00 0.00 2.74
268 269 5.222079 TCAGCAATTAAGACACCACTACA 57.778 39.130 0.00 0.00 0.00 2.74
269 270 6.554334 TTTCAGCAATTAAGACACCACTAC 57.446 37.500 0.00 0.00 0.00 2.73
270 271 8.100791 ACTATTTCAGCAATTAAGACACCACTA 58.899 33.333 0.00 0.00 0.00 2.74
271 272 6.942576 ACTATTTCAGCAATTAAGACACCACT 59.057 34.615 0.00 0.00 0.00 4.00
272 273 7.145932 ACTATTTCAGCAATTAAGACACCAC 57.854 36.000 0.00 0.00 0.00 4.16
273 274 7.446931 TGAACTATTTCAGCAATTAAGACACCA 59.553 33.333 0.00 0.00 36.79 4.17
274 275 7.816640 TGAACTATTTCAGCAATTAAGACACC 58.183 34.615 0.00 0.00 36.79 4.16
275 276 9.282247 CATGAACTATTTCAGCAATTAAGACAC 57.718 33.333 1.80 0.00 45.07 3.67
285 286 9.932207 AAATTTTGATCATGAACTATTTCAGCA 57.068 25.926 0.00 0.00 45.07 4.41
354 355 7.044798 AGTTGAGTCTATTCAGCTCAATTACC 58.955 38.462 9.04 0.00 42.03 2.85
444 445 7.425224 ACCCTATACAGAGATGGTATTATGC 57.575 40.000 0.00 0.00 33.68 3.14
506 507 4.931601 GCATTTGGTTCCATCTTTCTTTCC 59.068 41.667 0.00 0.00 0.00 3.13
547 548 7.531857 TGATTAATTCACAGGTAAGGCAAAA 57.468 32.000 0.00 0.00 0.00 2.44
591 598 2.933260 GCGAGAAAAGCCTTCTTCCTAG 59.067 50.000 0.51 0.00 0.00 3.02
622 629 8.466798 GCAAAAAGTCCAAAATAGCCTATTAGA 58.533 33.333 0.00 0.00 0.00 2.10
624 631 8.032451 GTGCAAAAAGTCCAAAATAGCCTATTA 58.968 33.333 0.00 0.00 0.00 0.98
682 689 2.104792 ACTCTCAGCAGCTTGGTTTACA 59.895 45.455 0.00 0.00 0.00 2.41
869 895 2.684001 TTGGTTATGCGGACCACTAG 57.316 50.000 5.27 0.00 46.34 2.57
895 922 1.410153 GGCCTGCACCTCCATAATTTG 59.590 52.381 0.00 0.00 0.00 2.32
1215 1243 5.049336 TGACTTTTTATGCGATCGGAAAACA 60.049 36.000 14.89 3.87 0.00 2.83
1387 1465 5.313712 AGGACACAGAAATAAATGGACGTT 58.686 37.500 0.00 0.00 0.00 3.99
1549 1932 6.092955 AGCATTGAACAAAGTTGATGACAT 57.907 33.333 0.00 0.00 0.00 3.06
1555 1938 4.518970 GGGACTAGCATTGAACAAAGTTGA 59.481 41.667 0.00 0.00 0.00 3.18
1610 1993 5.036117 AGCTTACAAACTTCTCTGAACCA 57.964 39.130 0.00 0.00 0.00 3.67
1660 2056 5.632244 TGCCGAATTAAAGACCTTAAACC 57.368 39.130 0.00 0.00 33.20 3.27
1783 2182 5.470098 GCCTAAAACAAGTTCATGTCTCTCA 59.530 40.000 0.00 0.00 31.81 3.27
1958 2359 3.534357 TGGTTTGGAGCTAAATTCCCA 57.466 42.857 0.00 0.00 33.62 4.37
2070 2471 3.846588 AGAAGGGGCTATCTTTGTGAAGA 59.153 43.478 0.00 0.00 45.45 2.87
2122 2523 5.012561 AGCTTCAGAACTCTTGTATTCCACT 59.987 40.000 0.00 0.00 0.00 4.00
2194 2595 5.447144 GGCAATTGTTTGTTTTCAACTGGAC 60.447 40.000 7.40 0.00 39.73 4.02


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

AutoCloner maintained by Alex Coulton.