Multiple sequence alignment - TraesCS6A01G244700

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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 TraesCS6A01G244700 chr6A 100.000 3623 0 0 1 3623 455943133 455939511 0.000000e+00 6691.0
1 TraesCS6A01G244700 chr6B 94.457 3482 139 22 181 3623 505797589 505801055 0.000000e+00 5312.0
2 TraesCS6A01G244700 chr6B 95.556 45 2 0 151 195 505778483 505778527 5.020000e-09 73.1
3 TraesCS6A01G244700 chr6B 78.000 100 20 2 9 108 47426059 47426156 1.090000e-05 62.1
4 TraesCS6A01G244700 chr6D 95.815 3011 108 14 625 3623 318351243 318348239 0.000000e+00 4846.0
5 TraesCS6A01G244700 chr6D 93.778 225 8 5 369 588 318351466 318351243 2.080000e-87 333.0
6 TraesCS6A01G244700 chr6D 87.387 111 10 4 1 110 382040444 382040337 1.370000e-24 124.0
7 TraesCS6A01G244700 chr6D 93.443 61 4 0 129 189 318357379 318357319 1.390000e-14 91.6
8 TraesCS6A01G244700 chr7A 84.594 1415 208 10 1199 2608 437609362 437610771 0.000000e+00 1397.0
9 TraesCS6A01G244700 chr7A 77.007 822 102 41 980 1769 42011964 42012730 1.220000e-104 390.0
10 TraesCS6A01G244700 chr7A 78.899 109 17 5 9 114 598214137 598214032 6.490000e-08 69.4
11 TraesCS6A01G244700 chr7D 84.229 1414 215 8 1199 2608 387494734 387496143 0.000000e+00 1369.0
12 TraesCS6A01G244700 chr7D 81.739 115 16 5 1 113 412150852 412150741 1.390000e-14 91.6
13 TraesCS6A01G244700 chr7D 84.615 91 13 1 22 111 495296627 495296717 4.980000e-14 89.8
14 TraesCS6A01G244700 chr7D 77.570 107 20 3 9 113 207205945 207206049 1.090000e-05 62.1
15 TraesCS6A01G244700 chr7B 83.805 1414 221 8 1199 2608 382519653 382521062 0.000000e+00 1336.0
16 TraesCS6A01G244700 chr7B 81.188 101 17 2 9 108 162931989 162931890 3.000000e-11 80.5
17 TraesCS6A01G244700 chr3A 96.429 56 2 0 2784 2839 383691081 383691026 3.850000e-15 93.5
18 TraesCS6A01G244700 chr5A 91.045 67 6 0 2773 2839 428155515 428155581 1.390000e-14 91.6
19 TraesCS6A01G244700 chr4B 92.188 64 5 0 2772 2835 189421794 189421857 1.390000e-14 91.6
20 TraesCS6A01G244700 chr5D 93.220 59 4 0 2777 2835 68894170 68894228 1.790000e-13 87.9
21 TraesCS6A01G244700 chr4A 90.625 64 6 0 2772 2835 444860304 444860241 6.450000e-13 86.1
22 TraesCS6A01G244700 chr3B 94.643 56 2 1 2784 2839 383704477 383704423 6.450000e-13 86.1
23 TraesCS6A01G244700 chr2D 82.000 100 15 3 9 108 10907731 10907635 8.340000e-12 82.4
24 TraesCS6A01G244700 chr2B 89.394 66 5 2 2776 2839 260758222 260758157 8.340000e-12 82.4
25 TraesCS6A01G244700 chr5B 84.615 78 9 3 44 119 308796860 308796784 1.400000e-09 75.0
26 TraesCS6A01G244700 chr1A 86.000 50 6 1 1 50 532378207 532378255 7.000000e-03 52.8


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 TraesCS6A01G244700 chr6A 455939511 455943133 3622 True 6691.0 6691 100.0000 1 3623 1 chr6A.!!$R1 3622
1 TraesCS6A01G244700 chr6B 505797589 505801055 3466 False 5312.0 5312 94.4570 181 3623 1 chr6B.!!$F3 3442
2 TraesCS6A01G244700 chr6D 318348239 318351466 3227 True 2589.5 4846 94.7965 369 3623 2 chr6D.!!$R3 3254
3 TraesCS6A01G244700 chr7A 437609362 437610771 1409 False 1397.0 1397 84.5940 1199 2608 1 chr7A.!!$F2 1409
4 TraesCS6A01G244700 chr7A 42011964 42012730 766 False 390.0 390 77.0070 980 1769 1 chr7A.!!$F1 789
5 TraesCS6A01G244700 chr7D 387494734 387496143 1409 False 1369.0 1369 84.2290 1199 2608 1 chr7D.!!$F2 1409
6 TraesCS6A01G244700 chr7B 382519653 382521062 1409 False 1336.0 1336 83.8050 1199 2608 1 chr7B.!!$F1 1409

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
150 151 0.035820 ATGTACGTCAAATGCCCGGT 60.036 50.0 0.0 0.0 0.0 5.28 F
255 256 0.320697 GGCCTACGTGTTGGAGAAGT 59.679 55.0 0.0 0.0 0.0 3.01 F
600 623 0.457853 TGTTGTAGATGACGGAGCGC 60.458 55.0 0.0 0.0 0.0 5.92 F
681 706 0.464036 TCCCAACAATCGAGATCCCG 59.536 55.0 0.0 0.0 0.0 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1812 1867 1.376037 CACCTTCCAGAACTCGGCC 60.376 63.158 0.00 0.0 0.00 6.13 R
2169 2224 1.443872 CGAGAACGTGAACCTCCGG 60.444 63.158 0.00 0.0 34.56 5.14 R
2517 2572 0.038744 AGGCATTGTTGTAGGCTGCT 59.961 50.000 3.77 0.0 36.75 4.24 R
2627 2682 1.138859 GGTTTTCTGCAAGCCCACTTT 59.861 47.619 0.00 0.0 32.29 2.66 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.512914 GGGGATGTGGCTGGGAGC 62.513 72.222 0.00 0.00 41.46 4.70
18 19 3.415087 GGGATGTGGCTGGGAGCT 61.415 66.667 0.00 0.00 41.99 4.09
19 20 2.072487 GGGATGTGGCTGGGAGCTA 61.072 63.158 0.00 0.00 41.99 3.32
20 21 1.449353 GGATGTGGCTGGGAGCTAG 59.551 63.158 0.00 0.00 41.99 3.42
21 22 1.050988 GGATGTGGCTGGGAGCTAGA 61.051 60.000 0.00 0.00 41.99 2.43
22 23 1.055040 GATGTGGCTGGGAGCTAGAT 58.945 55.000 0.00 0.00 38.36 1.98
23 24 1.001860 GATGTGGCTGGGAGCTAGATC 59.998 57.143 0.00 0.00 43.09 2.75
24 25 1.365633 GTGGCTGGGAGCTAGATCG 59.634 63.158 1.16 0.00 41.99 3.69
25 26 2.341911 GGCTGGGAGCTAGATCGC 59.658 66.667 17.38 17.38 41.99 4.58
26 27 2.341911 GCTGGGAGCTAGATCGCC 59.658 66.667 20.75 14.13 38.45 5.54
27 28 3.055580 CTGGGAGCTAGATCGCCC 58.944 66.667 20.75 10.02 45.10 6.13
28 29 2.524394 TGGGAGCTAGATCGCCCC 60.524 66.667 20.75 9.29 44.37 5.80
29 30 3.315140 GGGAGCTAGATCGCCCCC 61.315 72.222 13.70 0.00 40.96 5.40
30 31 2.524394 GGAGCTAGATCGCCCCCA 60.524 66.667 1.16 0.00 0.00 4.96
31 32 1.915769 GGAGCTAGATCGCCCCCAT 60.916 63.158 1.16 0.00 0.00 4.00
32 33 1.294780 GAGCTAGATCGCCCCCATG 59.705 63.158 0.00 0.00 0.00 3.66
33 34 2.177594 GAGCTAGATCGCCCCCATGG 62.178 65.000 4.14 4.14 37.09 3.66
44 45 1.228675 CCCCATGGGCCAATCTAGC 60.229 63.158 26.87 0.00 35.35 3.42
45 46 1.601759 CCCATGGGCCAATCTAGCG 60.602 63.158 20.41 0.00 0.00 4.26
46 47 2.263741 CCATGGGCCAATCTAGCGC 61.264 63.158 11.89 0.00 43.03 5.92
47 48 2.113986 ATGGGCCAATCTAGCGCC 59.886 61.111 11.89 0.00 42.12 6.53
48 49 3.832237 ATGGGCCAATCTAGCGCCG 62.832 63.158 11.89 0.00 43.99 6.46
63 64 4.742201 CCGGCTCGTCCACAGGTG 62.742 72.222 0.00 0.00 34.01 4.00
74 75 0.593128 CCACAGGTGGCTCTTTTTCG 59.407 55.000 5.38 0.00 44.73 3.46
75 76 0.593128 CACAGGTGGCTCTTTTTCGG 59.407 55.000 0.00 0.00 0.00 4.30
76 77 1.172812 ACAGGTGGCTCTTTTTCGGC 61.173 55.000 0.00 0.00 0.00 5.54
77 78 1.966451 AGGTGGCTCTTTTTCGGCG 60.966 57.895 0.00 0.00 0.00 6.46
78 79 2.258726 GGTGGCTCTTTTTCGGCGT 61.259 57.895 6.85 0.00 0.00 5.68
79 80 1.206831 GTGGCTCTTTTTCGGCGTC 59.793 57.895 6.85 0.00 0.00 5.19
80 81 1.964373 TGGCTCTTTTTCGGCGTCC 60.964 57.895 6.85 0.00 0.00 4.79
81 82 1.671379 GGCTCTTTTTCGGCGTCCT 60.671 57.895 6.85 0.00 0.00 3.85
82 83 1.497722 GCTCTTTTTCGGCGTCCTG 59.502 57.895 6.85 0.00 0.00 3.86
83 84 0.949105 GCTCTTTTTCGGCGTCCTGA 60.949 55.000 6.85 0.00 0.00 3.86
84 85 1.508632 CTCTTTTTCGGCGTCCTGAA 58.491 50.000 6.85 0.00 0.00 3.02
85 86 1.461127 CTCTTTTTCGGCGTCCTGAAG 59.539 52.381 6.85 5.92 0.00 3.02
86 87 0.517316 CTTTTTCGGCGTCCTGAAGG 59.483 55.000 6.85 0.00 0.00 3.46
87 88 0.887387 TTTTTCGGCGTCCTGAAGGG 60.887 55.000 6.85 0.00 35.41 3.95
88 89 3.894547 TTTCGGCGTCCTGAAGGGC 62.895 63.158 6.85 0.00 36.18 5.19
91 92 4.344865 GGCGTCCTGAAGGGCCAA 62.345 66.667 6.18 0.00 40.77 4.52
92 93 3.056328 GCGTCCTGAAGGGCCAAC 61.056 66.667 6.18 0.00 36.14 3.77
93 94 2.742372 CGTCCTGAAGGGCCAACG 60.742 66.667 6.18 1.64 36.14 4.10
94 95 2.359975 GTCCTGAAGGGCCAACGG 60.360 66.667 6.18 3.88 32.49 4.44
106 107 3.805267 CAACGGCTGGAGATGCTC 58.195 61.111 0.00 0.00 0.00 4.26
107 108 1.220206 CAACGGCTGGAGATGCTCT 59.780 57.895 0.00 0.00 0.00 4.09
108 109 0.392193 CAACGGCTGGAGATGCTCTT 60.392 55.000 0.00 0.00 0.00 2.85
109 110 1.134699 CAACGGCTGGAGATGCTCTTA 60.135 52.381 0.00 0.00 0.00 2.10
110 111 0.749649 ACGGCTGGAGATGCTCTTAG 59.250 55.000 0.00 0.00 0.00 2.18
111 112 1.035923 CGGCTGGAGATGCTCTTAGA 58.964 55.000 0.00 0.00 0.00 2.10
112 113 1.410517 CGGCTGGAGATGCTCTTAGAA 59.589 52.381 0.00 0.00 0.00 2.10
113 114 2.159043 CGGCTGGAGATGCTCTTAGAAA 60.159 50.000 0.00 0.00 0.00 2.52
114 115 3.679917 CGGCTGGAGATGCTCTTAGAAAA 60.680 47.826 0.00 0.00 0.00 2.29
115 116 4.459330 GGCTGGAGATGCTCTTAGAAAAT 58.541 43.478 0.00 0.00 0.00 1.82
116 117 4.275443 GGCTGGAGATGCTCTTAGAAAATG 59.725 45.833 0.00 0.00 0.00 2.32
117 118 4.275443 GCTGGAGATGCTCTTAGAAAATGG 59.725 45.833 0.00 0.00 0.00 3.16
118 119 4.202441 TGGAGATGCTCTTAGAAAATGGC 58.798 43.478 0.00 0.00 0.00 4.40
119 120 3.567585 GGAGATGCTCTTAGAAAATGGCC 59.432 47.826 0.00 0.00 0.00 5.36
120 121 3.560105 AGATGCTCTTAGAAAATGGCCC 58.440 45.455 0.00 0.00 0.00 5.80
121 122 3.203934 AGATGCTCTTAGAAAATGGCCCT 59.796 43.478 0.00 0.00 0.00 5.19
122 123 3.456380 TGCTCTTAGAAAATGGCCCTT 57.544 42.857 0.00 0.00 0.00 3.95
123 124 3.091545 TGCTCTTAGAAAATGGCCCTTG 58.908 45.455 0.00 0.00 0.00 3.61
124 125 3.245229 TGCTCTTAGAAAATGGCCCTTGA 60.245 43.478 0.00 0.00 0.00 3.02
125 126 3.763897 GCTCTTAGAAAATGGCCCTTGAA 59.236 43.478 0.00 0.00 0.00 2.69
126 127 4.403752 GCTCTTAGAAAATGGCCCTTGAAT 59.596 41.667 0.00 0.00 0.00 2.57
127 128 5.594317 GCTCTTAGAAAATGGCCCTTGAATA 59.406 40.000 0.00 0.00 0.00 1.75
128 129 6.096846 GCTCTTAGAAAATGGCCCTTGAATAA 59.903 38.462 0.00 0.00 0.00 1.40
129 130 7.201947 GCTCTTAGAAAATGGCCCTTGAATAAT 60.202 37.037 0.00 0.00 0.00 1.28
130 131 9.354673 CTCTTAGAAAATGGCCCTTGAATAATA 57.645 33.333 0.00 0.00 0.00 0.98
131 132 9.707957 TCTTAGAAAATGGCCCTTGAATAATAA 57.292 29.630 0.00 0.00 0.00 1.40
134 135 8.322905 AGAAAATGGCCCTTGAATAATAATGT 57.677 30.769 0.00 0.00 0.00 2.71
135 136 9.432982 AGAAAATGGCCCTTGAATAATAATGTA 57.567 29.630 0.00 0.00 0.00 2.29
136 137 9.476202 GAAAATGGCCCTTGAATAATAATGTAC 57.524 33.333 0.00 0.00 0.00 2.90
137 138 6.817765 ATGGCCCTTGAATAATAATGTACG 57.182 37.500 0.00 0.00 0.00 3.67
138 139 5.686753 TGGCCCTTGAATAATAATGTACGT 58.313 37.500 0.00 0.00 0.00 3.57
139 140 5.761234 TGGCCCTTGAATAATAATGTACGTC 59.239 40.000 0.00 0.00 0.00 4.34
140 141 5.761234 GGCCCTTGAATAATAATGTACGTCA 59.239 40.000 0.00 0.00 0.00 4.35
141 142 6.261381 GGCCCTTGAATAATAATGTACGTCAA 59.739 38.462 0.00 0.00 0.00 3.18
142 143 7.201750 GGCCCTTGAATAATAATGTACGTCAAA 60.202 37.037 0.00 0.00 0.00 2.69
143 144 8.349983 GCCCTTGAATAATAATGTACGTCAAAT 58.650 33.333 0.00 0.00 0.00 2.32
144 145 9.663904 CCCTTGAATAATAATGTACGTCAAATG 57.336 33.333 0.00 0.00 0.00 2.32
145 146 9.169468 CCTTGAATAATAATGTACGTCAAATGC 57.831 33.333 0.00 0.00 0.00 3.56
146 147 9.169468 CTTGAATAATAATGTACGTCAAATGCC 57.831 33.333 0.00 0.00 0.00 4.40
147 148 7.644490 TGAATAATAATGTACGTCAAATGCCC 58.356 34.615 0.00 0.00 0.00 5.36
148 149 4.545823 AATAATGTACGTCAAATGCCCG 57.454 40.909 0.00 0.00 0.00 6.13
149 150 1.091537 AATGTACGTCAAATGCCCGG 58.908 50.000 0.00 0.00 0.00 5.73
150 151 0.035820 ATGTACGTCAAATGCCCGGT 60.036 50.000 0.00 0.00 0.00 5.28
151 152 0.951525 TGTACGTCAAATGCCCGGTG 60.952 55.000 0.00 0.00 0.00 4.94
152 153 2.036006 TACGTCAAATGCCCGGTGC 61.036 57.895 0.00 4.04 41.77 5.01
162 163 3.322466 CCCGGTGCACCTTCTCCT 61.322 66.667 32.28 0.00 0.00 3.69
163 164 1.987855 CCCGGTGCACCTTCTCCTA 60.988 63.158 32.28 0.00 0.00 2.94
164 165 1.338136 CCCGGTGCACCTTCTCCTAT 61.338 60.000 32.28 0.00 0.00 2.57
165 166 1.410004 CCGGTGCACCTTCTCCTATA 58.590 55.000 32.28 0.00 0.00 1.31
166 167 1.068741 CCGGTGCACCTTCTCCTATAC 59.931 57.143 32.28 2.75 0.00 1.47
167 168 2.032620 CGGTGCACCTTCTCCTATACT 58.967 52.381 32.28 0.00 0.00 2.12
168 169 2.431057 CGGTGCACCTTCTCCTATACTT 59.569 50.000 32.28 0.00 0.00 2.24
169 170 3.118738 CGGTGCACCTTCTCCTATACTTT 60.119 47.826 32.28 0.00 0.00 2.66
170 171 4.623171 CGGTGCACCTTCTCCTATACTTTT 60.623 45.833 32.28 0.00 0.00 2.27
171 172 5.254115 GGTGCACCTTCTCCTATACTTTTT 58.746 41.667 29.12 0.00 0.00 1.94
172 173 5.354513 GGTGCACCTTCTCCTATACTTTTTC 59.645 44.000 29.12 0.00 0.00 2.29
173 174 5.354513 GTGCACCTTCTCCTATACTTTTTCC 59.645 44.000 5.22 0.00 0.00 3.13
174 175 5.250774 TGCACCTTCTCCTATACTTTTTCCT 59.749 40.000 0.00 0.00 0.00 3.36
175 176 6.181190 GCACCTTCTCCTATACTTTTTCCTT 58.819 40.000 0.00 0.00 0.00 3.36
176 177 6.316640 GCACCTTCTCCTATACTTTTTCCTTC 59.683 42.308 0.00 0.00 0.00 3.46
177 178 6.824196 CACCTTCTCCTATACTTTTTCCTTCC 59.176 42.308 0.00 0.00 0.00 3.46
178 179 6.069556 ACCTTCTCCTATACTTTTTCCTTCCC 60.070 42.308 0.00 0.00 0.00 3.97
179 180 5.970501 TCTCCTATACTTTTTCCTTCCCC 57.029 43.478 0.00 0.00 0.00 4.81
183 184 6.490492 TCCTATACTTTTTCCTTCCCCAAAG 58.510 40.000 0.00 0.00 33.27 2.77
192 193 1.202927 CCTTCCCCAAAGCACTTCTGA 60.203 52.381 0.00 0.00 33.29 3.27
197 198 2.229784 CCCCAAAGCACTTCTGATTGAC 59.770 50.000 0.00 0.00 0.00 3.18
200 201 4.038402 CCCAAAGCACTTCTGATTGACTTT 59.962 41.667 0.00 0.00 0.00 2.66
251 252 1.338674 TGATTGGCCTACGTGTTGGAG 60.339 52.381 3.32 0.00 0.00 3.86
255 256 0.320697 GGCCTACGTGTTGGAGAAGT 59.679 55.000 0.00 0.00 0.00 3.01
260 261 4.554134 GCCTACGTGTTGGAGAAGTTTTTC 60.554 45.833 0.00 0.00 0.00 2.29
266 267 2.959030 GTTGGAGAAGTTTTTCCTGCCT 59.041 45.455 8.35 0.00 34.48 4.75
267 268 4.142038 GTTGGAGAAGTTTTTCCTGCCTA 58.858 43.478 8.35 0.00 34.48 3.93
268 269 4.447138 TGGAGAAGTTTTTCCTGCCTAA 57.553 40.909 8.35 0.00 34.48 2.69
269 270 4.398319 TGGAGAAGTTTTTCCTGCCTAAG 58.602 43.478 8.35 0.00 34.48 2.18
281 286 4.421131 TCCTGCCTAAGAAAACTCTCTCT 58.579 43.478 0.00 0.00 0.00 3.10
330 335 0.677731 AATGGGCATCAGTGGTCACG 60.678 55.000 0.00 0.00 36.20 4.35
341 346 6.715464 CATCAGTGGTCACGGTTAATTATTC 58.285 40.000 1.62 0.00 36.20 1.75
349 354 9.233649 TGGTCACGGTTAATTATTCAGTTTTAT 57.766 29.630 0.00 0.00 0.00 1.40
366 371 9.744468 TCAGTTTTATTCAAAGGAAAAGCTAAC 57.256 29.630 0.00 0.00 36.43 2.34
432 450 8.594550 ACTGGTTATGGACTTATATGATACACC 58.405 37.037 0.00 0.00 0.00 4.16
440 458 7.399191 TGGACTTATATGATACACCCATAGTCC 59.601 40.741 0.00 0.00 42.29 3.85
468 486 7.399191 TGGTCATGTCATAACCTCTACTTTACT 59.601 37.037 6.70 0.00 34.05 2.24
488 506 3.555956 ACTTCCGCTATAAACAATGCTCG 59.444 43.478 0.00 0.00 0.00 5.03
559 577 4.072131 CAGCTCCTAAACTAAAACTGGCA 58.928 43.478 0.00 0.00 0.00 4.92
597 620 5.043903 CCTAACATGTTGTAGATGACGGAG 58.956 45.833 21.42 5.56 0.00 4.63
598 621 2.893637 ACATGTTGTAGATGACGGAGC 58.106 47.619 0.00 0.00 0.00 4.70
600 623 0.457853 TGTTGTAGATGACGGAGCGC 60.458 55.000 0.00 0.00 0.00 5.92
659 682 6.662865 ACAAATCACCATCACACCAAATTA 57.337 33.333 0.00 0.00 0.00 1.40
660 683 6.454795 ACAAATCACCATCACACCAAATTAC 58.545 36.000 0.00 0.00 0.00 1.89
670 695 3.639094 CACACCAAATTACCTCCCAACAA 59.361 43.478 0.00 0.00 0.00 2.83
673 698 3.761752 ACCAAATTACCTCCCAACAATCG 59.238 43.478 0.00 0.00 0.00 3.34
681 706 0.464036 TCCCAACAATCGAGATCCCG 59.536 55.000 0.00 0.00 0.00 5.14
750 775 7.812191 GTGTTTAATATTGTGCACCTGATCAAA 59.188 33.333 15.69 5.57 0.00 2.69
765 790 0.605319 TCAAACCACTGCCGTCCATC 60.605 55.000 0.00 0.00 0.00 3.51
779 804 2.029666 CATCCCTCATCGGACGGC 59.970 66.667 0.00 0.00 33.77 5.68
792 817 1.138671 GACGGCTCAGCTCACTCTC 59.861 63.158 0.00 0.00 0.00 3.20
793 818 1.590610 GACGGCTCAGCTCACTCTCA 61.591 60.000 0.00 0.00 0.00 3.27
805 830 1.102154 CACTCTCAGACAGCGAGGAT 58.898 55.000 0.00 0.00 33.32 3.24
809 834 0.820226 CTCAGACAGCGAGGATCCAA 59.180 55.000 15.82 0.00 0.00 3.53
810 835 1.205655 CTCAGACAGCGAGGATCCAAA 59.794 52.381 15.82 0.00 0.00 3.28
822 847 3.272364 ATCCAAAGGCAGCCGAGCA 62.272 57.895 5.55 0.00 35.83 4.26
950 976 2.872245 CGAAGCTCCAACAAGTCAAGAA 59.128 45.455 0.00 0.00 0.00 2.52
956 982 4.061596 CTCCAACAAGTCAAGAACTCTCC 58.938 47.826 0.00 0.00 37.17 3.71
985 1011 2.614013 TCCTTCCCCTTCCCCTGC 60.614 66.667 0.00 0.00 0.00 4.85
1119 1153 4.570663 CGGCCGCCTCTTCTACCG 62.571 72.222 14.67 0.00 0.00 4.02
1326 1367 2.885861 GTCGACCTCGGCATGTCT 59.114 61.111 3.51 0.00 44.43 3.41
1386 1427 2.486042 GTCCTCGTCTGCCTCGTC 59.514 66.667 0.00 0.00 0.00 4.20
1797 1852 4.218578 CGCATCCTCTCGCTGCCT 62.219 66.667 0.00 0.00 32.24 4.75
1800 1855 2.841988 ATCCTCTCGCTGCCTCCC 60.842 66.667 0.00 0.00 0.00 4.30
1801 1856 3.686098 ATCCTCTCGCTGCCTCCCA 62.686 63.158 0.00 0.00 0.00 4.37
1803 1858 2.757508 CTCTCGCTGCCTCCCAGA 60.758 66.667 0.00 0.00 44.64 3.86
1809 1864 2.587247 GCTGCCTCCCAGACTGACA 61.587 63.158 3.32 0.00 44.64 3.58
1812 1867 2.664081 GCCTCCCAGACTGACAGGG 61.664 68.421 17.09 1.28 45.32 4.45
2517 2572 1.601477 TGTCTCCGGTGCACTCGTA 60.601 57.895 17.98 4.84 0.00 3.43
2627 2682 8.100791 AGTGAAATACCAAAGCAGTTGATAGTA 58.899 33.333 1.93 0.00 39.87 1.82
2739 2795 3.338818 AACACATTCACAGTTCTTGCG 57.661 42.857 0.00 0.00 0.00 4.85
2755 2811 2.339728 TGCGCAAAATTAAACCGAGG 57.660 45.000 8.16 0.00 0.00 4.63
2976 3044 6.154021 AGGCCTCGATTTAGTTAGAAGTTGTA 59.846 38.462 0.00 0.00 0.00 2.41
3036 3104 9.606631 CACTTCCTAATGAAATTTCTAGCTACT 57.393 33.333 18.64 0.00 37.87 2.57
3084 3152 2.715532 AAGACAAGCTCGAAGCCGCA 62.716 55.000 0.00 0.00 43.77 5.69
3114 3183 5.182760 ACAAGATGCTCTAGCCAAGAAAAAG 59.817 40.000 0.00 0.00 41.18 2.27
3237 3309 7.719483 CCAATGCTGGTATTCATCATAACTTT 58.281 34.615 0.00 0.00 38.00 2.66
3311 3383 7.281841 TCATATCATCCATGTTAGCAAACTCA 58.718 34.615 0.00 0.00 36.51 3.41
3330 3402 1.532868 CACCAACAGCTTGCACTCTAC 59.467 52.381 0.00 0.00 0.00 2.59
3370 3442 4.202326 TGAGAAACCAACCTACTCTTCCAC 60.202 45.833 0.00 0.00 0.00 4.02
3371 3443 3.714798 AGAAACCAACCTACTCTTCCACA 59.285 43.478 0.00 0.00 0.00 4.17
3408 3485 1.616159 ATCAACGGGTCCTGGTTTTG 58.384 50.000 1.89 0.00 0.00 2.44
3507 3584 6.149474 CCTGAAAACAGGAGGTACAATACTTG 59.851 42.308 10.33 0.00 45.00 3.16
3558 3635 6.915349 GGTAACAATTGCTAACATTGGTACA 58.085 36.000 18.07 0.00 45.35 2.90
3599 3676 1.165270 CACCACCGAAGAATGTTCCC 58.835 55.000 0.00 0.00 0.00 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.512914 GCTCCCAGCCACATCCCC 62.513 72.222 0.00 0.00 34.48 4.81
1 2 2.049627 CTAGCTCCCAGCCACATCCC 62.050 65.000 0.00 0.00 43.77 3.85
2 3 1.050988 TCTAGCTCCCAGCCACATCC 61.051 60.000 0.00 0.00 43.77 3.51
3 4 1.001860 GATCTAGCTCCCAGCCACATC 59.998 57.143 0.00 0.00 43.77 3.06
4 5 1.055040 GATCTAGCTCCCAGCCACAT 58.945 55.000 0.00 0.00 43.77 3.21
5 6 1.395045 CGATCTAGCTCCCAGCCACA 61.395 60.000 0.00 0.00 43.77 4.17
8 9 2.341911 GCGATCTAGCTCCCAGCC 59.658 66.667 0.00 0.00 43.77 4.85
9 10 2.341911 GGCGATCTAGCTCCCAGC 59.658 66.667 0.00 0.00 42.84 4.85
10 11 3.055580 GGGCGATCTAGCTCCCAG 58.944 66.667 1.03 0.00 38.62 4.45
14 15 1.294780 CATGGGGGCGATCTAGCTC 59.705 63.158 0.00 0.00 37.29 4.09
15 16 2.219875 CCATGGGGGCGATCTAGCT 61.220 63.158 2.85 0.00 37.29 3.32
16 17 2.348998 CCATGGGGGCGATCTAGC 59.651 66.667 2.85 0.00 0.00 3.42
27 28 1.601759 CGCTAGATTGGCCCATGGG 60.602 63.158 27.87 27.87 38.57 4.00
28 29 2.263741 GCGCTAGATTGGCCCATGG 61.264 63.158 4.14 4.14 0.00 3.66
29 30 2.263741 GGCGCTAGATTGGCCCATG 61.264 63.158 7.64 0.00 41.01 3.66
30 31 2.113986 GGCGCTAGATTGGCCCAT 59.886 61.111 7.64 0.00 41.01 4.00
31 32 4.545706 CGGCGCTAGATTGGCCCA 62.546 66.667 7.64 0.00 43.99 5.36
34 35 4.918201 AGCCGGCGCTAGATTGGC 62.918 66.667 23.20 11.51 46.08 4.52
46 47 4.742201 CACCTGTGGACGAGCCGG 62.742 72.222 0.00 0.00 40.66 6.13
56 57 0.593128 CCGAAAAAGAGCCACCTGTG 59.407 55.000 0.00 0.00 0.00 3.66
57 58 1.172812 GCCGAAAAAGAGCCACCTGT 61.173 55.000 0.00 0.00 0.00 4.00
58 59 1.581447 GCCGAAAAAGAGCCACCTG 59.419 57.895 0.00 0.00 0.00 4.00
59 60 1.966451 CGCCGAAAAAGAGCCACCT 60.966 57.895 0.00 0.00 0.00 4.00
60 61 2.183858 GACGCCGAAAAAGAGCCACC 62.184 60.000 0.00 0.00 0.00 4.61
61 62 1.206831 GACGCCGAAAAAGAGCCAC 59.793 57.895 0.00 0.00 0.00 5.01
62 63 1.964373 GGACGCCGAAAAAGAGCCA 60.964 57.895 0.00 0.00 0.00 4.75
63 64 1.671379 AGGACGCCGAAAAAGAGCC 60.671 57.895 0.00 0.00 0.00 4.70
64 65 0.949105 TCAGGACGCCGAAAAAGAGC 60.949 55.000 0.00 0.00 0.00 4.09
65 66 1.461127 CTTCAGGACGCCGAAAAAGAG 59.539 52.381 0.00 0.00 0.00 2.85
66 67 1.508632 CTTCAGGACGCCGAAAAAGA 58.491 50.000 0.00 0.00 0.00 2.52
67 68 0.517316 CCTTCAGGACGCCGAAAAAG 59.483 55.000 0.00 0.00 37.39 2.27
68 69 0.887387 CCCTTCAGGACGCCGAAAAA 60.887 55.000 0.00 0.00 38.24 1.94
69 70 1.302192 CCCTTCAGGACGCCGAAAA 60.302 57.895 0.00 0.00 38.24 2.29
70 71 2.345991 CCCTTCAGGACGCCGAAA 59.654 61.111 0.00 0.00 38.24 3.46
71 72 4.388499 GCCCTTCAGGACGCCGAA 62.388 66.667 0.00 0.00 38.24 4.30
78 79 4.344865 GCCGTTGGCCCTTCAGGA 62.345 66.667 0.00 0.00 44.06 3.86
89 90 3.805267 GAGCATCTCCAGCCGTTG 58.195 61.111 0.00 0.00 0.00 4.10
100 101 3.560105 AGGGCCATTTTCTAAGAGCATC 58.440 45.455 6.18 0.00 0.00 3.91
101 102 3.677156 AGGGCCATTTTCTAAGAGCAT 57.323 42.857 6.18 0.00 0.00 3.79
102 103 3.091545 CAAGGGCCATTTTCTAAGAGCA 58.908 45.455 6.18 0.00 0.00 4.26
103 104 3.356290 TCAAGGGCCATTTTCTAAGAGC 58.644 45.455 6.18 0.00 0.00 4.09
104 105 7.645058 TTATTCAAGGGCCATTTTCTAAGAG 57.355 36.000 6.18 0.00 0.00 2.85
105 106 9.707957 TTATTATTCAAGGGCCATTTTCTAAGA 57.292 29.630 6.18 0.00 0.00 2.10
108 109 9.432982 ACATTATTATTCAAGGGCCATTTTCTA 57.567 29.630 6.18 0.00 0.00 2.10
109 110 8.322905 ACATTATTATTCAAGGGCCATTTTCT 57.677 30.769 6.18 0.00 0.00 2.52
110 111 9.476202 GTACATTATTATTCAAGGGCCATTTTC 57.524 33.333 6.18 0.00 0.00 2.29
111 112 8.141268 CGTACATTATTATTCAAGGGCCATTTT 58.859 33.333 6.18 0.00 0.00 1.82
112 113 7.286775 ACGTACATTATTATTCAAGGGCCATTT 59.713 33.333 6.18 0.00 0.00 2.32
113 114 6.775629 ACGTACATTATTATTCAAGGGCCATT 59.224 34.615 6.18 0.00 0.00 3.16
114 115 6.303839 ACGTACATTATTATTCAAGGGCCAT 58.696 36.000 6.18 0.00 0.00 4.40
115 116 5.686753 ACGTACATTATTATTCAAGGGCCA 58.313 37.500 6.18 0.00 0.00 5.36
116 117 5.761234 TGACGTACATTATTATTCAAGGGCC 59.239 40.000 0.00 0.00 0.00 5.80
117 118 6.854496 TGACGTACATTATTATTCAAGGGC 57.146 37.500 0.00 0.00 0.00 5.19
118 119 9.663904 CATTTGACGTACATTATTATTCAAGGG 57.336 33.333 0.00 0.00 0.00 3.95
119 120 9.169468 GCATTTGACGTACATTATTATTCAAGG 57.831 33.333 0.00 0.00 0.00 3.61
120 121 9.169468 GGCATTTGACGTACATTATTATTCAAG 57.831 33.333 0.00 0.00 0.00 3.02
121 122 8.132362 GGGCATTTGACGTACATTATTATTCAA 58.868 33.333 0.00 0.00 0.00 2.69
122 123 7.519168 CGGGCATTTGACGTACATTATTATTCA 60.519 37.037 0.00 0.00 0.00 2.57
123 124 6.795114 CGGGCATTTGACGTACATTATTATTC 59.205 38.462 0.00 0.00 0.00 1.75
124 125 6.293735 CCGGGCATTTGACGTACATTATTATT 60.294 38.462 0.00 0.00 0.00 1.40
125 126 5.180492 CCGGGCATTTGACGTACATTATTAT 59.820 40.000 0.00 0.00 0.00 1.28
126 127 4.512198 CCGGGCATTTGACGTACATTATTA 59.488 41.667 0.00 0.00 0.00 0.98
127 128 3.314080 CCGGGCATTTGACGTACATTATT 59.686 43.478 0.00 0.00 0.00 1.40
128 129 2.875933 CCGGGCATTTGACGTACATTAT 59.124 45.455 0.00 0.00 0.00 1.28
129 130 2.281517 CCGGGCATTTGACGTACATTA 58.718 47.619 0.00 0.00 0.00 1.90
130 131 1.091537 CCGGGCATTTGACGTACATT 58.908 50.000 0.00 0.00 0.00 2.71
131 132 0.035820 ACCGGGCATTTGACGTACAT 60.036 50.000 6.32 0.00 0.00 2.29
132 133 0.951525 CACCGGGCATTTGACGTACA 60.952 55.000 6.32 0.00 0.00 2.90
133 134 1.791662 CACCGGGCATTTGACGTAC 59.208 57.895 6.32 0.00 0.00 3.67
134 135 2.036006 GCACCGGGCATTTGACGTA 61.036 57.895 6.32 0.00 43.97 3.57
135 136 3.361977 GCACCGGGCATTTGACGT 61.362 61.111 6.32 0.00 43.97 4.34
145 146 1.338136 ATAGGAGAAGGTGCACCGGG 61.338 60.000 29.68 0.00 42.08 5.73
146 147 1.068741 GTATAGGAGAAGGTGCACCGG 59.931 57.143 29.68 0.00 42.08 5.28
147 148 2.032620 AGTATAGGAGAAGGTGCACCG 58.967 52.381 29.68 0.00 42.08 4.94
148 149 4.489306 AAAGTATAGGAGAAGGTGCACC 57.511 45.455 29.22 29.22 0.00 5.01
149 150 5.354513 GGAAAAAGTATAGGAGAAGGTGCAC 59.645 44.000 8.80 8.80 0.00 4.57
150 151 5.250774 AGGAAAAAGTATAGGAGAAGGTGCA 59.749 40.000 0.00 0.00 0.00 4.57
151 152 5.746284 AGGAAAAAGTATAGGAGAAGGTGC 58.254 41.667 0.00 0.00 0.00 5.01
152 153 6.824196 GGAAGGAAAAAGTATAGGAGAAGGTG 59.176 42.308 0.00 0.00 0.00 4.00
153 154 6.069556 GGGAAGGAAAAAGTATAGGAGAAGGT 60.070 42.308 0.00 0.00 0.00 3.50
154 155 6.358178 GGGAAGGAAAAAGTATAGGAGAAGG 58.642 44.000 0.00 0.00 0.00 3.46
155 156 6.069615 TGGGGAAGGAAAAAGTATAGGAGAAG 60.070 42.308 0.00 0.00 0.00 2.85
156 157 5.793763 TGGGGAAGGAAAAAGTATAGGAGAA 59.206 40.000 0.00 0.00 0.00 2.87
157 158 5.355711 TGGGGAAGGAAAAAGTATAGGAGA 58.644 41.667 0.00 0.00 0.00 3.71
158 159 5.710409 TGGGGAAGGAAAAAGTATAGGAG 57.290 43.478 0.00 0.00 0.00 3.69
159 160 6.471942 TTTGGGGAAGGAAAAAGTATAGGA 57.528 37.500 0.00 0.00 0.00 2.94
160 161 5.127194 GCTTTGGGGAAGGAAAAAGTATAGG 59.873 44.000 0.00 0.00 35.82 2.57
161 162 5.714806 TGCTTTGGGGAAGGAAAAAGTATAG 59.285 40.000 0.00 0.00 35.82 1.31
162 163 5.479027 GTGCTTTGGGGAAGGAAAAAGTATA 59.521 40.000 0.00 0.00 37.45 1.47
163 164 4.283467 GTGCTTTGGGGAAGGAAAAAGTAT 59.717 41.667 0.00 0.00 37.45 2.12
164 165 3.639561 GTGCTTTGGGGAAGGAAAAAGTA 59.360 43.478 0.00 0.00 37.45 2.24
165 166 2.434336 GTGCTTTGGGGAAGGAAAAAGT 59.566 45.455 0.00 0.00 37.45 2.66
166 167 2.700371 AGTGCTTTGGGGAAGGAAAAAG 59.300 45.455 0.00 0.00 37.45 2.27
167 168 2.758130 AGTGCTTTGGGGAAGGAAAAA 58.242 42.857 0.00 0.00 37.45 1.94
168 169 2.470057 AGTGCTTTGGGGAAGGAAAA 57.530 45.000 0.00 0.00 37.45 2.29
169 170 2.091333 AGAAGTGCTTTGGGGAAGGAAA 60.091 45.455 0.00 0.00 37.45 3.13
170 171 1.499007 AGAAGTGCTTTGGGGAAGGAA 59.501 47.619 0.00 0.00 37.45 3.36
171 172 1.149101 AGAAGTGCTTTGGGGAAGGA 58.851 50.000 0.00 0.00 35.82 3.36
172 173 1.202927 TCAGAAGTGCTTTGGGGAAGG 60.203 52.381 0.00 0.00 35.82 3.46
173 174 2.276732 TCAGAAGTGCTTTGGGGAAG 57.723 50.000 0.00 0.00 38.45 3.46
174 175 2.892852 CAATCAGAAGTGCTTTGGGGAA 59.107 45.455 0.00 0.00 0.00 3.97
175 176 2.108075 TCAATCAGAAGTGCTTTGGGGA 59.892 45.455 0.00 0.00 0.00 4.81
176 177 2.229784 GTCAATCAGAAGTGCTTTGGGG 59.770 50.000 0.00 0.00 0.00 4.96
177 178 3.152341 AGTCAATCAGAAGTGCTTTGGG 58.848 45.455 0.00 0.00 0.00 4.12
178 179 4.843220 AAGTCAATCAGAAGTGCTTTGG 57.157 40.909 0.00 0.00 0.00 3.28
200 201 4.105697 AGAGGTGATTGGTGTAGGGAAAAA 59.894 41.667 0.00 0.00 0.00 1.94
205 206 2.187958 TCAGAGGTGATTGGTGTAGGG 58.812 52.381 0.00 0.00 0.00 3.53
220 221 3.278668 AGGCCAATCAGTCAATCAGAG 57.721 47.619 5.01 0.00 0.00 3.35
236 237 0.320697 ACTTCTCCAACACGTAGGCC 59.679 55.000 0.00 0.00 0.00 5.19
251 252 6.806751 AGTTTTCTTAGGCAGGAAAAACTTC 58.193 36.000 12.20 3.88 41.19 3.01
255 256 6.365520 AGAGAGTTTTCTTAGGCAGGAAAAA 58.634 36.000 11.64 0.53 41.19 1.94
260 261 4.221703 TGAGAGAGAGTTTTCTTAGGCAGG 59.778 45.833 0.00 0.00 32.53 4.85
266 267 3.572682 TGCGGTGAGAGAGAGTTTTCTTA 59.427 43.478 0.00 0.00 32.53 2.10
267 268 2.365617 TGCGGTGAGAGAGAGTTTTCTT 59.634 45.455 0.00 0.00 32.53 2.52
268 269 1.964223 TGCGGTGAGAGAGAGTTTTCT 59.036 47.619 0.00 0.00 36.01 2.52
269 270 2.440539 TGCGGTGAGAGAGAGTTTTC 57.559 50.000 0.00 0.00 0.00 2.29
281 286 1.005037 GTGACCACTGATGCGGTGA 60.005 57.895 7.91 0.00 42.79 4.02
316 321 1.803334 TTAACCGTGACCACTGATGC 58.197 50.000 0.00 0.00 0.00 3.91
341 346 8.978539 GGTTAGCTTTTCCTTTGAATAAAACTG 58.021 33.333 0.00 0.00 0.00 3.16
349 354 5.300792 ACGAATGGTTAGCTTTTCCTTTGAA 59.699 36.000 0.00 0.00 0.00 2.69
350 355 4.825085 ACGAATGGTTAGCTTTTCCTTTGA 59.175 37.500 0.00 0.00 0.00 2.69
352 357 5.784578 AACGAATGGTTAGCTTTTCCTTT 57.215 34.783 0.00 0.00 37.00 3.11
355 360 4.866921 ACAAACGAATGGTTAGCTTTTCC 58.133 39.130 0.00 0.00 38.08 3.13
366 371 5.718649 AGTCGAATGATACAAACGAATGG 57.281 39.130 0.00 0.00 34.91 3.16
432 450 3.912496 TGACATGACCAAGGACTATGG 57.088 47.619 0.00 0.00 43.84 2.74
440 458 6.227298 AGTAGAGGTTATGACATGACCAAG 57.773 41.667 26.28 0.00 41.10 3.61
468 486 3.787785 TCGAGCATTGTTTATAGCGGAA 58.212 40.909 0.00 0.00 0.00 4.30
488 506 0.108585 TTGGACTGGGCACTCAACTC 59.891 55.000 0.00 0.00 0.00 3.01
499 517 1.934589 TCGACGCATAATTGGACTGG 58.065 50.000 0.00 0.00 0.00 4.00
501 519 2.483876 CCATCGACGCATAATTGGACT 58.516 47.619 0.00 0.00 0.00 3.85
559 577 4.999469 TGTTAGGGCCATGTGATGATAT 57.001 40.909 6.18 0.00 0.00 1.63
583 606 1.141019 GGCGCTCCGTCATCTACAA 59.859 57.895 7.64 0.00 0.00 2.41
623 646 4.592351 TGGTGATTTGTTGGGTTGATGATT 59.408 37.500 0.00 0.00 0.00 2.57
659 682 1.486726 GGATCTCGATTGTTGGGAGGT 59.513 52.381 0.00 0.00 0.00 3.85
660 683 1.202698 GGGATCTCGATTGTTGGGAGG 60.203 57.143 0.00 0.00 0.00 4.30
670 695 4.916314 ACGCCCCGGGATCTCGAT 62.916 66.667 26.32 7.71 0.00 3.59
673 698 4.222847 GTGACGCCCCGGGATCTC 62.223 72.222 26.32 13.23 0.00 2.75
698 723 1.277557 AGATGCAGTGGAGGAAGTGAC 59.722 52.381 0.00 0.00 0.00 3.67
750 775 3.717294 GGGATGGACGGCAGTGGT 61.717 66.667 0.00 0.00 0.00 4.16
779 804 1.135315 GCTGTCTGAGAGTGAGCTGAG 60.135 57.143 3.61 0.00 0.00 3.35
792 817 1.649664 CTTTGGATCCTCGCTGTCTG 58.350 55.000 14.23 0.00 0.00 3.51
793 818 0.539051 CCTTTGGATCCTCGCTGTCT 59.461 55.000 14.23 0.00 0.00 3.41
805 830 3.952508 TGCTCGGCTGCCTTTGGA 61.953 61.111 17.92 5.45 0.00 3.53
809 834 4.269523 TTGGTGCTCGGCTGCCTT 62.270 61.111 17.92 0.00 0.00 4.35
822 847 1.471676 GCGAGATCAGATTCCGTTGGT 60.472 52.381 0.00 0.00 0.00 3.67
922 947 0.468226 TGTTGGAGCTTCGTTGGAGT 59.532 50.000 0.00 0.00 0.00 3.85
950 976 0.398381 GAGATGAGGGCAGGGAGAGT 60.398 60.000 0.00 0.00 0.00 3.24
956 982 1.704007 GGGAAGGAGATGAGGGCAGG 61.704 65.000 0.00 0.00 0.00 4.85
985 1011 3.849951 CATGGTCGTCGGAGGGGG 61.850 72.222 0.00 0.00 0.00 5.40
1800 1855 2.997315 TCGGCCCCTGTCAGTCTG 60.997 66.667 0.00 0.00 0.00 3.51
1801 1856 2.681778 CTCGGCCCCTGTCAGTCT 60.682 66.667 0.00 0.00 0.00 3.24
1803 1858 2.526873 AACTCGGCCCCTGTCAGT 60.527 61.111 0.00 0.00 0.00 3.41
1809 1864 2.203938 TTCCAGAACTCGGCCCCT 60.204 61.111 0.00 0.00 0.00 4.79
1812 1867 1.376037 CACCTTCCAGAACTCGGCC 60.376 63.158 0.00 0.00 0.00 6.13
2169 2224 1.443872 CGAGAACGTGAACCTCCGG 60.444 63.158 0.00 0.00 34.56 5.14
2517 2572 0.038744 AGGCATTGTTGTAGGCTGCT 59.961 50.000 3.77 0.00 36.75 4.24
2627 2682 1.138859 GGTTTTCTGCAAGCCCACTTT 59.861 47.619 0.00 0.00 32.29 2.66
2739 2795 3.440522 AGCTCTCCTCGGTTTAATTTTGC 59.559 43.478 0.00 0.00 0.00 3.68
2755 2811 2.157738 ACAAGTTGCATGGAAGCTCTC 58.842 47.619 0.00 0.00 34.99 3.20
3055 3123 6.566753 GCTTCGAGCTTGTCTTTGTTAAGAAT 60.567 38.462 0.00 0.00 38.99 2.40
3059 3127 3.250040 GGCTTCGAGCTTGTCTTTGTTAA 59.750 43.478 0.00 0.00 41.99 2.01
3188 3257 7.996644 TGGTATTTGTATATTTCCTGACCCTTC 59.003 37.037 0.00 0.00 0.00 3.46
3237 3309 7.824289 AGCTAGCACAAATGTCAACTAATCTTA 59.176 33.333 18.83 0.00 0.00 2.10
3295 3367 3.317711 TGTTGGTGAGTTTGCTAACATGG 59.682 43.478 13.46 0.00 36.70 3.66
3311 3383 1.417890 AGTAGAGTGCAAGCTGTTGGT 59.582 47.619 0.00 0.00 33.87 3.67
3330 3402 6.426328 GGTTTCTCATATCATAGCTGTCCAAG 59.574 42.308 0.00 0.00 0.00 3.61
3370 3442 6.366061 CGTTGATATGACACATACATACCCTG 59.634 42.308 0.00 0.00 33.89 4.45
3371 3443 6.455647 CGTTGATATGACACATACATACCCT 58.544 40.000 0.00 0.00 33.89 4.34
3408 3485 2.301583 GGCATCTAGAGGGAAGATGGTC 59.698 54.545 6.52 0.30 46.88 4.02
3507 3584 5.242838 TCAGGGTTATTTGGAAATGACACAC 59.757 40.000 10.78 0.45 39.84 3.82
3558 3635 6.415573 GTGGTTCAGAGGTAAAATAGACCAT 58.584 40.000 0.00 0.00 39.65 3.55


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

AutoCloner maintained by Alex Coulton.