Multiple sequence alignment - TraesCS3D01G244800

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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 TraesCS3D01G244800 chr3D 100.000 2417 0 0 1 2417 340068670 340071086 0.000000e+00 4464.0
1 TraesCS3D01G244800 chr3B 90.078 1794 53 36 451 2170 438930057 438931799 0.000000e+00 2211.0
2 TraesCS3D01G244800 chr3B 96.016 251 6 1 2167 2417 438934025 438934271 2.890000e-109 405.0
3 TraesCS3D01G244800 chr3B 89.868 227 12 6 230 446 438929855 438930080 5.090000e-72 281.0
4 TraesCS3D01G244800 chr3B 88.166 169 19 1 4 171 438923259 438923427 1.470000e-47 200.0
5 TraesCS3D01G244800 chr3B 97.778 45 1 0 169 213 438929821 438929865 7.160000e-11 78.7
6 TraesCS3D01G244800 chr3A 92.958 1065 33 5 563 1586 464797439 464796376 0.000000e+00 1513.0
7 TraesCS3D01G244800 chr3A 90.781 781 30 17 1672 2417 464795696 464794923 0.000000e+00 1005.0
8 TraesCS3D01G244800 chr3A 93.069 303 19 2 230 530 464797739 464797437 2.210000e-120 442.0
9 TraesCS3D01G244800 chr3A 84.977 213 30 2 2 213 230089041 230089252 5.230000e-52 215.0
10 TraesCS3D01G244800 chr1A 87.797 295 27 5 1134 1419 562902607 562902901 1.070000e-88 337.0
11 TraesCS3D01G244800 chr1A 87.059 85 10 1 230 314 225517697 225517614 7.110000e-16 95.3
12 TraesCS3D01G244800 chr1D 87.713 293 27 7 1134 1417 469795672 469795964 1.380000e-87 333.0
13 TraesCS3D01G244800 chr1D 85.953 299 32 7 1129 1417 469815181 469814883 6.490000e-81 311.0
14 TraesCS3D01G244800 chr1B 87.586 290 30 4 1134 1417 649670329 649670618 4.980000e-87 331.0
15 TraesCS3D01G244800 chr7D 86.007 293 32 6 1134 1417 561875576 561875868 3.020000e-79 305.0
16 TraesCS3D01G244800 chr7B 84.762 315 36 10 1115 1417 722094452 722094766 3.020000e-79 305.0
17 TraesCS3D01G244800 chr6B 84.300 293 37 6 1134 1417 578774765 578775057 6.580000e-71 278.0


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 TraesCS3D01G244800 chr3D 340068670 340071086 2416 False 4464.000000 4464 100.000000 1 2417 1 chr3D.!!$F1 2416
1 TraesCS3D01G244800 chr3B 438929821 438934271 4450 False 743.925000 2211 93.435000 169 2417 4 chr3B.!!$F2 2248
2 TraesCS3D01G244800 chr3A 464794923 464797739 2816 True 986.666667 1513 92.269333 230 2417 3 chr3A.!!$R1 2187

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
161 162 0.03392 TCGATGTGCTCAGTGTGCTT 59.966 50.0 17.38 3.57 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1472 1535 1.594331 GATCCAACGGCCAGGATTAC 58.406 55.0 19.18 7.15 44.44 1.89 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
20 21 2.531771 TGGATCTTGTCAACCTACGGA 58.468 47.619 0.00 0.00 0.00 4.69
21 22 2.901192 TGGATCTTGTCAACCTACGGAA 59.099 45.455 0.00 0.00 0.00 4.30
22 23 3.259902 GGATCTTGTCAACCTACGGAAC 58.740 50.000 0.00 0.00 0.00 3.62
23 24 3.056035 GGATCTTGTCAACCTACGGAACT 60.056 47.826 0.00 0.00 0.00 3.01
24 25 3.655276 TCTTGTCAACCTACGGAACTC 57.345 47.619 0.00 0.00 0.00 3.01
25 26 2.960384 TCTTGTCAACCTACGGAACTCA 59.040 45.455 0.00 0.00 0.00 3.41
26 27 2.806608 TGTCAACCTACGGAACTCAC 57.193 50.000 0.00 0.00 0.00 3.51
27 28 2.033372 TGTCAACCTACGGAACTCACA 58.967 47.619 0.00 0.00 0.00 3.58
28 29 2.631062 TGTCAACCTACGGAACTCACAT 59.369 45.455 0.00 0.00 0.00 3.21
29 30 3.251571 GTCAACCTACGGAACTCACATC 58.748 50.000 0.00 0.00 0.00 3.06
30 31 2.894765 TCAACCTACGGAACTCACATCA 59.105 45.455 0.00 0.00 0.00 3.07
31 32 3.322541 TCAACCTACGGAACTCACATCAA 59.677 43.478 0.00 0.00 0.00 2.57
32 33 4.062293 CAACCTACGGAACTCACATCAAA 58.938 43.478 0.00 0.00 0.00 2.69
33 34 4.345859 ACCTACGGAACTCACATCAAAA 57.654 40.909 0.00 0.00 0.00 2.44
34 35 4.906618 ACCTACGGAACTCACATCAAAAT 58.093 39.130 0.00 0.00 0.00 1.82
35 36 5.313712 ACCTACGGAACTCACATCAAAATT 58.686 37.500 0.00 0.00 0.00 1.82
36 37 5.411669 ACCTACGGAACTCACATCAAAATTC 59.588 40.000 0.00 0.00 0.00 2.17
37 38 5.411361 CCTACGGAACTCACATCAAAATTCA 59.589 40.000 0.00 0.00 0.00 2.57
38 39 5.108385 ACGGAACTCACATCAAAATTCAC 57.892 39.130 0.00 0.00 0.00 3.18
39 40 4.151070 CGGAACTCACATCAAAATTCACG 58.849 43.478 0.00 0.00 0.00 4.35
40 41 4.319477 CGGAACTCACATCAAAATTCACGT 60.319 41.667 0.00 0.00 0.00 4.49
41 42 5.519722 GGAACTCACATCAAAATTCACGTT 58.480 37.500 0.00 0.00 0.00 3.99
42 43 5.625311 GGAACTCACATCAAAATTCACGTTC 59.375 40.000 0.00 0.00 0.00 3.95
43 44 4.772434 ACTCACATCAAAATTCACGTTCG 58.228 39.130 0.00 0.00 0.00 3.95
44 45 4.140518 TCACATCAAAATTCACGTTCGG 57.859 40.909 0.00 0.00 0.00 4.30
45 46 3.562141 TCACATCAAAATTCACGTTCGGT 59.438 39.130 0.00 0.00 0.00 4.69
46 47 4.035792 TCACATCAAAATTCACGTTCGGTT 59.964 37.500 0.00 0.00 0.00 4.44
47 48 4.146271 CACATCAAAATTCACGTTCGGTTG 59.854 41.667 0.00 0.00 0.00 3.77
48 49 2.722071 TCAAAATTCACGTTCGGTTGC 58.278 42.857 0.00 0.00 0.00 4.17
49 50 1.446465 CAAAATTCACGTTCGGTTGCG 59.554 47.619 0.00 0.00 0.00 4.85
50 51 0.040781 AAATTCACGTTCGGTTGCGG 60.041 50.000 0.00 0.00 0.00 5.69
51 52 2.452366 AATTCACGTTCGGTTGCGGC 62.452 55.000 0.00 0.00 0.00 6.53
61 62 2.817834 GTTGCGGCGCCTGTCATA 60.818 61.111 30.82 5.38 0.00 2.15
62 63 2.817834 TTGCGGCGCCTGTCATAC 60.818 61.111 30.82 5.31 0.00 2.39
63 64 3.597675 TTGCGGCGCCTGTCATACA 62.598 57.895 30.82 3.60 0.00 2.29
64 65 2.817834 GCGGCGCCTGTCATACAA 60.818 61.111 26.68 0.00 0.00 2.41
65 66 2.813179 GCGGCGCCTGTCATACAAG 61.813 63.158 26.68 5.48 0.00 3.16
66 67 1.153647 CGGCGCCTGTCATACAAGA 60.154 57.895 26.68 0.00 0.00 3.02
67 68 0.739462 CGGCGCCTGTCATACAAGAA 60.739 55.000 26.68 0.00 0.00 2.52
68 69 1.668419 GGCGCCTGTCATACAAGAAT 58.332 50.000 22.15 0.00 0.00 2.40
69 70 2.017049 GGCGCCTGTCATACAAGAATT 58.983 47.619 22.15 0.00 0.00 2.17
84 85 4.679662 CAAGAATTGGAGAATGTCATGCC 58.320 43.478 0.00 0.00 43.94 4.40
85 86 4.246712 AGAATTGGAGAATGTCATGCCT 57.753 40.909 0.00 0.00 0.00 4.75
86 87 5.378230 AGAATTGGAGAATGTCATGCCTA 57.622 39.130 0.00 0.00 0.00 3.93
87 88 5.374921 AGAATTGGAGAATGTCATGCCTAG 58.625 41.667 0.00 0.00 0.00 3.02
88 89 4.785346 ATTGGAGAATGTCATGCCTAGT 57.215 40.909 0.00 0.00 0.00 2.57
89 90 4.574674 TTGGAGAATGTCATGCCTAGTT 57.425 40.909 0.00 0.00 0.00 2.24
90 91 4.574674 TGGAGAATGTCATGCCTAGTTT 57.425 40.909 0.00 0.00 0.00 2.66
91 92 4.922206 TGGAGAATGTCATGCCTAGTTTT 58.078 39.130 0.00 0.00 0.00 2.43
92 93 5.324409 TGGAGAATGTCATGCCTAGTTTTT 58.676 37.500 0.00 0.00 0.00 1.94
93 94 5.415701 TGGAGAATGTCATGCCTAGTTTTTC 59.584 40.000 0.00 0.00 0.00 2.29
94 95 5.649831 GGAGAATGTCATGCCTAGTTTTTCT 59.350 40.000 0.00 0.00 0.00 2.52
95 96 6.151817 GGAGAATGTCATGCCTAGTTTTTCTT 59.848 38.462 0.00 0.00 0.00 2.52
96 97 7.309438 GGAGAATGTCATGCCTAGTTTTTCTTT 60.309 37.037 0.00 0.00 0.00 2.52
97 98 7.373493 AGAATGTCATGCCTAGTTTTTCTTTG 58.627 34.615 0.00 0.00 0.00 2.77
98 99 6.655078 ATGTCATGCCTAGTTTTTCTTTGT 57.345 33.333 0.00 0.00 0.00 2.83
99 100 6.463995 TGTCATGCCTAGTTTTTCTTTGTT 57.536 33.333 0.00 0.00 0.00 2.83
100 101 6.872920 TGTCATGCCTAGTTTTTCTTTGTTT 58.127 32.000 0.00 0.00 0.00 2.83
101 102 7.327214 TGTCATGCCTAGTTTTTCTTTGTTTT 58.673 30.769 0.00 0.00 0.00 2.43
102 103 7.491048 TGTCATGCCTAGTTTTTCTTTGTTTTC 59.509 33.333 0.00 0.00 0.00 2.29
103 104 6.695278 TCATGCCTAGTTTTTCTTTGTTTTCG 59.305 34.615 0.00 0.00 0.00 3.46
104 105 5.344884 TGCCTAGTTTTTCTTTGTTTTCGG 58.655 37.500 0.00 0.00 0.00 4.30
105 106 5.105675 TGCCTAGTTTTTCTTTGTTTTCGGT 60.106 36.000 0.00 0.00 0.00 4.69
106 107 5.808540 GCCTAGTTTTTCTTTGTTTTCGGTT 59.191 36.000 0.00 0.00 0.00 4.44
107 108 6.020121 GCCTAGTTTTTCTTTGTTTTCGGTTC 60.020 38.462 0.00 0.00 0.00 3.62
108 109 6.195798 CCTAGTTTTTCTTTGTTTTCGGTTCG 59.804 38.462 0.00 0.00 0.00 3.95
109 110 5.463286 AGTTTTTCTTTGTTTTCGGTTCGT 58.537 33.333 0.00 0.00 0.00 3.85
110 111 5.570206 AGTTTTTCTTTGTTTTCGGTTCGTC 59.430 36.000 0.00 0.00 0.00 4.20
111 112 4.681835 TTTCTTTGTTTTCGGTTCGTCA 57.318 36.364 0.00 0.00 0.00 4.35
112 113 4.886247 TTCTTTGTTTTCGGTTCGTCAT 57.114 36.364 0.00 0.00 0.00 3.06
113 114 4.203950 TCTTTGTTTTCGGTTCGTCATG 57.796 40.909 0.00 0.00 0.00 3.07
114 115 3.623960 TCTTTGTTTTCGGTTCGTCATGT 59.376 39.130 0.00 0.00 0.00 3.21
115 116 4.095185 TCTTTGTTTTCGGTTCGTCATGTT 59.905 37.500 0.00 0.00 0.00 2.71
116 117 3.326733 TGTTTTCGGTTCGTCATGTTG 57.673 42.857 0.00 0.00 0.00 3.33
117 118 2.032302 TGTTTTCGGTTCGTCATGTTGG 59.968 45.455 0.00 0.00 0.00 3.77
118 119 1.956297 TTTCGGTTCGTCATGTTGGT 58.044 45.000 0.00 0.00 0.00 3.67
119 120 2.816204 TTCGGTTCGTCATGTTGGTA 57.184 45.000 0.00 0.00 0.00 3.25
120 121 2.357327 TCGGTTCGTCATGTTGGTAG 57.643 50.000 0.00 0.00 0.00 3.18
121 122 1.067425 TCGGTTCGTCATGTTGGTAGG 60.067 52.381 0.00 0.00 0.00 3.18
122 123 1.734163 GGTTCGTCATGTTGGTAGGG 58.266 55.000 0.00 0.00 0.00 3.53
123 124 1.276989 GGTTCGTCATGTTGGTAGGGA 59.723 52.381 0.00 0.00 0.00 4.20
124 125 2.344025 GTTCGTCATGTTGGTAGGGAC 58.656 52.381 0.00 0.00 0.00 4.46
126 127 0.107848 CGTCATGTTGGTAGGGACCC 60.108 60.000 0.59 0.59 46.32 4.46
127 128 0.107848 GTCATGTTGGTAGGGACCCG 60.108 60.000 4.40 0.00 46.32 5.28
128 129 1.223487 CATGTTGGTAGGGACCCGG 59.777 63.158 4.40 0.00 46.32 5.73
129 130 1.081462 ATGTTGGTAGGGACCCGGA 59.919 57.895 0.73 0.00 46.32 5.14
130 131 0.327191 ATGTTGGTAGGGACCCGGAT 60.327 55.000 0.73 0.00 46.32 4.18
131 132 0.548197 TGTTGGTAGGGACCCGGATT 60.548 55.000 0.73 0.00 46.32 3.01
132 133 0.622136 GTTGGTAGGGACCCGGATTT 59.378 55.000 0.73 0.00 46.32 2.17
133 134 0.913924 TTGGTAGGGACCCGGATTTC 59.086 55.000 0.73 0.00 46.32 2.17
134 135 0.984432 TGGTAGGGACCCGGATTTCC 60.984 60.000 0.73 5.48 46.32 3.13
144 145 2.594592 GGATTTCCCGGCCCATCG 60.595 66.667 0.00 0.00 0.00 3.84
145 146 2.508928 GATTTCCCGGCCCATCGA 59.491 61.111 0.00 0.00 0.00 3.59
146 147 1.073199 GATTTCCCGGCCCATCGAT 59.927 57.895 0.00 0.00 0.00 3.59
147 148 1.228245 ATTTCCCGGCCCATCGATG 60.228 57.895 18.76 18.76 0.00 3.84
148 149 1.994885 ATTTCCCGGCCCATCGATGT 61.995 55.000 23.27 0.00 0.00 3.06
149 150 2.884997 TTTCCCGGCCCATCGATGTG 62.885 60.000 23.27 14.09 0.00 3.21
151 152 4.552365 CCGGCCCATCGATGTGCT 62.552 66.667 27.97 0.00 31.59 4.40
152 153 2.969238 CGGCCCATCGATGTGCTC 60.969 66.667 27.97 18.40 31.59 4.26
153 154 2.190313 GGCCCATCGATGTGCTCA 59.810 61.111 27.97 0.00 31.59 4.26
154 155 1.890979 GGCCCATCGATGTGCTCAG 60.891 63.158 27.97 10.83 31.59 3.35
155 156 1.153289 GCCCATCGATGTGCTCAGT 60.153 57.895 23.36 0.00 0.00 3.41
156 157 1.434622 GCCCATCGATGTGCTCAGTG 61.435 60.000 23.36 6.36 0.00 3.66
157 158 0.107993 CCCATCGATGTGCTCAGTGT 60.108 55.000 23.27 0.00 0.00 3.55
158 159 1.004595 CCATCGATGTGCTCAGTGTG 58.995 55.000 23.27 0.83 0.00 3.82
159 160 0.372679 CATCGATGTGCTCAGTGTGC 59.627 55.000 17.50 10.23 0.00 4.57
160 161 0.248565 ATCGATGTGCTCAGTGTGCT 59.751 50.000 17.38 0.00 0.00 4.40
161 162 0.033920 TCGATGTGCTCAGTGTGCTT 59.966 50.000 17.38 3.57 0.00 3.91
162 163 0.165295 CGATGTGCTCAGTGTGCTTG 59.835 55.000 17.38 0.00 0.00 4.01
163 164 1.233019 GATGTGCTCAGTGTGCTTGT 58.767 50.000 17.38 4.01 0.00 3.16
164 165 2.416747 GATGTGCTCAGTGTGCTTGTA 58.583 47.619 17.38 2.93 0.00 2.41
165 166 1.581934 TGTGCTCAGTGTGCTTGTAC 58.418 50.000 17.38 8.28 0.00 2.90
166 167 0.508641 GTGCTCAGTGTGCTTGTACG 59.491 55.000 17.38 0.00 0.00 3.67
167 168 0.104120 TGCTCAGTGTGCTTGTACGT 59.896 50.000 17.38 0.00 0.00 3.57
212 213 6.602410 TTGATCAAAGCCCATATTTTGTCA 57.398 33.333 5.45 0.69 36.09 3.58
213 214 6.602410 TGATCAAAGCCCATATTTTGTCAA 57.398 33.333 0.00 0.00 36.09 3.18
214 215 6.397272 TGATCAAAGCCCATATTTTGTCAAC 58.603 36.000 0.00 0.00 36.09 3.18
215 216 6.211184 TGATCAAAGCCCATATTTTGTCAACT 59.789 34.615 0.00 0.00 36.09 3.16
216 217 6.418057 TCAAAGCCCATATTTTGTCAACTT 57.582 33.333 0.00 0.00 36.09 2.66
217 218 6.825610 TCAAAGCCCATATTTTGTCAACTTT 58.174 32.000 0.00 0.00 36.09 2.66
218 219 7.278875 TCAAAGCCCATATTTTGTCAACTTTT 58.721 30.769 0.00 0.00 36.09 2.27
219 220 7.772757 TCAAAGCCCATATTTTGTCAACTTTTT 59.227 29.630 0.00 0.00 36.09 1.94
220 221 7.728847 AAGCCCATATTTTGTCAACTTTTTC 57.271 32.000 0.00 0.00 0.00 2.29
221 222 7.066307 AGCCCATATTTTGTCAACTTTTTCT 57.934 32.000 0.00 0.00 0.00 2.52
222 223 6.930722 AGCCCATATTTTGTCAACTTTTTCTG 59.069 34.615 0.00 0.00 0.00 3.02
223 224 6.347644 GCCCATATTTTGTCAACTTTTTCTGC 60.348 38.462 0.00 0.00 0.00 4.26
224 225 6.128849 CCCATATTTTGTCAACTTTTTCTGCG 60.129 38.462 0.00 0.00 0.00 5.18
225 226 6.640499 CCATATTTTGTCAACTTTTTCTGCGA 59.360 34.615 0.00 0.00 0.00 5.10
226 227 7.148918 CCATATTTTGTCAACTTTTTCTGCGAG 60.149 37.037 0.00 0.00 0.00 5.03
227 228 3.691049 TTGTCAACTTTTTCTGCGAGG 57.309 42.857 0.00 0.00 0.00 4.63
228 229 2.639065 TGTCAACTTTTTCTGCGAGGT 58.361 42.857 0.00 0.00 0.00 3.85
272 273 2.289444 CGGGCAGATTGTAACCGGATAT 60.289 50.000 9.46 0.00 40.79 1.63
308 317 4.301072 AAGTCCCAATTCGATGGAAAGA 57.699 40.909 6.63 0.00 43.54 2.52
380 392 9.130312 CTCAACTCTAATGTACAGTAACTTGAC 57.870 37.037 4.39 0.00 0.00 3.18
430 442 9.659830 GAAAAATACAAGTCAAGTAACACGAAT 57.340 29.630 0.00 0.00 0.00 3.34
495 507 1.891150 ACGAGACCGGATAGTGTTGTT 59.109 47.619 9.46 0.00 40.78 2.83
500 512 2.496470 GACCGGATAGTGTTGTTCTCCT 59.504 50.000 9.46 0.00 0.00 3.69
531 543 0.109597 GGTCATGCTCAACAAAGCGG 60.110 55.000 0.00 0.00 45.54 5.52
553 565 5.294552 CGGTATCCTTGGAATCTTGTTTCTC 59.705 44.000 0.00 0.00 0.00 2.87
554 566 6.180472 GGTATCCTTGGAATCTTGTTTCTCA 58.820 40.000 0.00 0.00 0.00 3.27
555 567 6.317391 GGTATCCTTGGAATCTTGTTTCTCAG 59.683 42.308 0.00 0.00 0.00 3.35
556 568 5.567037 TCCTTGGAATCTTGTTTCTCAGA 57.433 39.130 0.00 0.00 0.00 3.27
557 569 5.555017 TCCTTGGAATCTTGTTTCTCAGAG 58.445 41.667 0.00 0.00 0.00 3.35
558 570 4.155644 CCTTGGAATCTTGTTTCTCAGAGC 59.844 45.833 0.00 0.00 0.00 4.09
559 571 3.679389 TGGAATCTTGTTTCTCAGAGCC 58.321 45.455 0.00 0.00 0.00 4.70
560 572 3.072915 TGGAATCTTGTTTCTCAGAGCCA 59.927 43.478 0.00 0.00 0.00 4.75
561 573 3.688673 GGAATCTTGTTTCTCAGAGCCAG 59.311 47.826 0.00 0.00 0.00 4.85
617 629 1.953686 ACACCCGAAAATTCCACACTG 59.046 47.619 0.00 0.00 0.00 3.66
881 923 4.385865 CCTCCCTCCTCGCTGTATATATCT 60.386 50.000 0.00 0.00 0.00 1.98
920 962 1.896183 CCATCACACACACGCCCAA 60.896 57.895 0.00 0.00 0.00 4.12
922 964 1.153066 ATCACACACACGCCCAACA 60.153 52.632 0.00 0.00 0.00 3.33
927 969 2.126888 CACACGCCCAACAATCGC 60.127 61.111 0.00 0.00 0.00 4.58
928 970 2.593148 ACACGCCCAACAATCGCA 60.593 55.556 0.00 0.00 0.00 5.10
929 971 2.176546 CACGCCCAACAATCGCAG 59.823 61.111 0.00 0.00 0.00 5.18
1592 1675 2.160205 ACAGACAGCTAGCGTTACTGA 58.840 47.619 27.14 0.00 35.38 3.41
1597 1680 4.627467 AGACAGCTAGCGTTACTGATTTTG 59.373 41.667 9.55 0.00 35.38 2.44
1645 2348 3.953712 TGTGAATACGGAAGAAGAGCA 57.046 42.857 0.00 0.00 0.00 4.26
1648 2351 3.557595 GTGAATACGGAAGAAGAGCATGG 59.442 47.826 0.00 0.00 0.00 3.66
1683 2386 3.060740 CGTCTGTACAGTTTGTCGTTTCC 60.061 47.826 21.99 0.00 0.00 3.13
1699 2402 4.998672 TCGTTTCCATTTCCGAGTTAATGT 59.001 37.500 0.00 0.00 31.38 2.71
1749 2453 2.264813 CTGCGGCCTGAAATTTCATTG 58.735 47.619 20.76 15.51 36.46 2.82
1753 2457 2.417243 CGGCCTGAAATTTCATTGTCCC 60.417 50.000 20.76 14.41 36.46 4.46
1814 2518 0.719465 GTACACGGACGCTTGATTGG 59.281 55.000 0.00 0.00 0.00 3.16
1836 2540 3.480470 AGTCATGGTTGGTTGTTGAGAG 58.520 45.455 0.00 0.00 0.00 3.20
1916 2622 4.181309 TCATGTCATGCGTACAGTACAA 57.819 40.909 11.37 0.00 30.70 2.41
2111 2827 9.427821 AACTAGTCTTGGATTAGTCATCATACT 57.572 33.333 0.00 0.00 34.75 2.12
2201 5160 2.202743 GCTGCGCAGGTCGTCATA 60.203 61.111 36.47 0.00 41.07 2.15
2224 5183 2.027192 TGTACCTCATGAAACTCCAGGC 60.027 50.000 0.00 0.00 0.00 4.85
2231 5190 0.249868 TGAAACTCCAGGCTCGTGTG 60.250 55.000 0.00 0.00 0.00 3.82
2272 5231 0.183492 TAAGCAGTGATGGGATGGCC 59.817 55.000 0.00 0.00 0.00 5.36
2295 5254 2.186891 CCGGAAAAACGACCACAAAAC 58.813 47.619 0.00 0.00 35.47 2.43
2338 5297 1.462616 ATTAATTGCTCGTGCTGCCA 58.537 45.000 11.19 0.00 40.48 4.92
2339 5298 1.242989 TTAATTGCTCGTGCTGCCAA 58.757 45.000 11.19 0.00 40.48 4.52
2340 5299 0.804364 TAATTGCTCGTGCTGCCAAG 59.196 50.000 11.19 0.00 40.48 3.61
2341 5300 1.870055 AATTGCTCGTGCTGCCAAGG 61.870 55.000 11.19 0.00 40.48 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 6.307155 GTGAATTTTGATGTGAGTTCCGTAG 58.693 40.000 0.00 0.00 0.00 3.51
15 16 5.107259 CGTGAATTTTGATGTGAGTTCCGTA 60.107 40.000 0.00 0.00 0.00 4.02
16 17 4.319477 CGTGAATTTTGATGTGAGTTCCGT 60.319 41.667 0.00 0.00 0.00 4.69
17 18 4.151070 CGTGAATTTTGATGTGAGTTCCG 58.849 43.478 0.00 0.00 0.00 4.30
18 19 5.108385 ACGTGAATTTTGATGTGAGTTCC 57.892 39.130 0.00 0.00 0.00 3.62
19 20 5.336990 CGAACGTGAATTTTGATGTGAGTTC 59.663 40.000 0.00 0.00 0.00 3.01
20 21 5.204833 CGAACGTGAATTTTGATGTGAGTT 58.795 37.500 0.00 0.00 0.00 3.01
21 22 4.319477 CCGAACGTGAATTTTGATGTGAGT 60.319 41.667 0.00 0.00 0.00 3.41
22 23 4.151070 CCGAACGTGAATTTTGATGTGAG 58.849 43.478 0.00 0.00 0.00 3.51
23 24 3.562141 ACCGAACGTGAATTTTGATGTGA 59.438 39.130 0.00 0.00 0.00 3.58
24 25 3.884169 ACCGAACGTGAATTTTGATGTG 58.116 40.909 0.00 0.00 0.00 3.21
25 26 4.286910 CAACCGAACGTGAATTTTGATGT 58.713 39.130 0.00 0.00 0.00 3.06
26 27 3.119463 GCAACCGAACGTGAATTTTGATG 59.881 43.478 0.00 0.00 0.00 3.07
27 28 3.305110 GCAACCGAACGTGAATTTTGAT 58.695 40.909 0.00 0.00 0.00 2.57
28 29 2.722071 GCAACCGAACGTGAATTTTGA 58.278 42.857 0.00 0.00 0.00 2.69
29 30 1.446465 CGCAACCGAACGTGAATTTTG 59.554 47.619 0.00 0.00 36.29 2.44
30 31 1.598430 CCGCAACCGAACGTGAATTTT 60.598 47.619 0.00 0.00 36.29 1.82
31 32 0.040781 CCGCAACCGAACGTGAATTT 60.041 50.000 0.00 0.00 36.29 1.82
32 33 1.572447 CCGCAACCGAACGTGAATT 59.428 52.632 0.00 0.00 36.29 2.17
33 34 2.961669 GCCGCAACCGAACGTGAAT 61.962 57.895 0.00 0.00 36.29 2.57
34 35 3.641986 GCCGCAACCGAACGTGAA 61.642 61.111 0.00 0.00 36.29 3.18
44 45 2.817834 TATGACAGGCGCCGCAAC 60.818 61.111 23.20 14.45 0.00 4.17
45 46 2.817834 GTATGACAGGCGCCGCAA 60.818 61.111 23.20 8.86 0.00 4.85
46 47 3.597675 TTGTATGACAGGCGCCGCA 62.598 57.895 23.20 20.85 0.00 5.69
47 48 2.813179 CTTGTATGACAGGCGCCGC 61.813 63.158 23.20 15.42 0.00 6.53
48 49 0.739462 TTCTTGTATGACAGGCGCCG 60.739 55.000 23.20 18.60 0.00 6.46
49 50 1.668419 ATTCTTGTATGACAGGCGCC 58.332 50.000 21.89 21.89 0.00 6.53
50 51 2.223340 CCAATTCTTGTATGACAGGCGC 60.223 50.000 0.00 0.00 0.00 6.53
51 52 3.270027 TCCAATTCTTGTATGACAGGCG 58.730 45.455 0.00 0.00 0.00 5.52
52 53 4.517285 TCTCCAATTCTTGTATGACAGGC 58.483 43.478 0.00 0.00 0.00 4.85
53 54 6.600822 ACATTCTCCAATTCTTGTATGACAGG 59.399 38.462 0.00 0.00 0.00 4.00
54 55 7.335171 TGACATTCTCCAATTCTTGTATGACAG 59.665 37.037 0.00 0.00 0.00 3.51
55 56 7.167535 TGACATTCTCCAATTCTTGTATGACA 58.832 34.615 0.00 0.00 0.00 3.58
56 57 7.615582 TGACATTCTCCAATTCTTGTATGAC 57.384 36.000 0.00 0.00 0.00 3.06
57 58 7.201758 GCATGACATTCTCCAATTCTTGTATGA 60.202 37.037 0.00 0.00 0.00 2.15
58 59 6.916387 GCATGACATTCTCCAATTCTTGTATG 59.084 38.462 0.00 0.00 0.00 2.39
59 60 6.040166 GGCATGACATTCTCCAATTCTTGTAT 59.960 38.462 0.00 0.00 0.00 2.29
60 61 5.357878 GGCATGACATTCTCCAATTCTTGTA 59.642 40.000 0.00 0.00 0.00 2.41
61 62 4.159135 GGCATGACATTCTCCAATTCTTGT 59.841 41.667 0.00 0.00 0.00 3.16
62 63 4.401519 AGGCATGACATTCTCCAATTCTTG 59.598 41.667 0.00 0.00 0.00 3.02
63 64 4.607239 AGGCATGACATTCTCCAATTCTT 58.393 39.130 0.00 0.00 0.00 2.52
64 65 4.246712 AGGCATGACATTCTCCAATTCT 57.753 40.909 0.00 0.00 0.00 2.40
65 66 5.128919 ACTAGGCATGACATTCTCCAATTC 58.871 41.667 0.00 0.00 0.00 2.17
66 67 5.121380 ACTAGGCATGACATTCTCCAATT 57.879 39.130 0.00 0.00 0.00 2.32
67 68 4.785346 ACTAGGCATGACATTCTCCAAT 57.215 40.909 0.00 0.00 0.00 3.16
68 69 4.574674 AACTAGGCATGACATTCTCCAA 57.425 40.909 0.00 0.00 0.00 3.53
69 70 4.574674 AAACTAGGCATGACATTCTCCA 57.425 40.909 0.00 0.00 0.00 3.86
70 71 5.649831 AGAAAAACTAGGCATGACATTCTCC 59.350 40.000 0.00 0.00 0.00 3.71
71 72 6.749923 AGAAAAACTAGGCATGACATTCTC 57.250 37.500 0.00 0.00 0.00 2.87
72 73 7.014615 ACAAAGAAAAACTAGGCATGACATTCT 59.985 33.333 0.00 0.00 0.00 2.40
73 74 7.147976 ACAAAGAAAAACTAGGCATGACATTC 58.852 34.615 0.00 0.00 0.00 2.67
74 75 7.054491 ACAAAGAAAAACTAGGCATGACATT 57.946 32.000 0.00 0.00 0.00 2.71
75 76 6.655078 ACAAAGAAAAACTAGGCATGACAT 57.345 33.333 0.00 0.00 0.00 3.06
76 77 6.463995 AACAAAGAAAAACTAGGCATGACA 57.536 33.333 0.00 0.00 0.00 3.58
77 78 7.305993 CGAAAACAAAGAAAAACTAGGCATGAC 60.306 37.037 0.00 0.00 0.00 3.06
78 79 6.695278 CGAAAACAAAGAAAAACTAGGCATGA 59.305 34.615 0.00 0.00 0.00 3.07
79 80 6.074356 CCGAAAACAAAGAAAAACTAGGCATG 60.074 38.462 0.00 0.00 0.00 4.06
80 81 5.983118 CCGAAAACAAAGAAAAACTAGGCAT 59.017 36.000 0.00 0.00 0.00 4.40
81 82 5.105675 ACCGAAAACAAAGAAAAACTAGGCA 60.106 36.000 0.00 0.00 0.00 4.75
82 83 5.345702 ACCGAAAACAAAGAAAAACTAGGC 58.654 37.500 0.00 0.00 0.00 3.93
83 84 6.195798 CGAACCGAAAACAAAGAAAAACTAGG 59.804 38.462 0.00 0.00 0.00 3.02
84 85 6.744082 ACGAACCGAAAACAAAGAAAAACTAG 59.256 34.615 0.00 0.00 0.00 2.57
85 86 6.610456 ACGAACCGAAAACAAAGAAAAACTA 58.390 32.000 0.00 0.00 0.00 2.24
86 87 5.463286 ACGAACCGAAAACAAAGAAAAACT 58.537 33.333 0.00 0.00 0.00 2.66
87 88 5.342791 TGACGAACCGAAAACAAAGAAAAAC 59.657 36.000 0.00 0.00 0.00 2.43
88 89 5.458891 TGACGAACCGAAAACAAAGAAAAA 58.541 33.333 0.00 0.00 0.00 1.94
89 90 5.044428 TGACGAACCGAAAACAAAGAAAA 57.956 34.783 0.00 0.00 0.00 2.29
90 91 4.681835 TGACGAACCGAAAACAAAGAAA 57.318 36.364 0.00 0.00 0.00 2.52
91 92 4.095185 ACATGACGAACCGAAAACAAAGAA 59.905 37.500 0.00 0.00 0.00 2.52
92 93 3.623960 ACATGACGAACCGAAAACAAAGA 59.376 39.130 0.00 0.00 0.00 2.52
93 94 3.947626 ACATGACGAACCGAAAACAAAG 58.052 40.909 0.00 0.00 0.00 2.77
94 95 4.099120 CAACATGACGAACCGAAAACAAA 58.901 39.130 0.00 0.00 0.00 2.83
95 96 3.487711 CCAACATGACGAACCGAAAACAA 60.488 43.478 0.00 0.00 0.00 2.83
96 97 2.032302 CCAACATGACGAACCGAAAACA 59.968 45.455 0.00 0.00 0.00 2.83
97 98 2.032426 ACCAACATGACGAACCGAAAAC 59.968 45.455 0.00 0.00 0.00 2.43
98 99 2.290464 ACCAACATGACGAACCGAAAA 58.710 42.857 0.00 0.00 0.00 2.29
99 100 1.956297 ACCAACATGACGAACCGAAA 58.044 45.000 0.00 0.00 0.00 3.46
100 101 2.610976 CCTACCAACATGACGAACCGAA 60.611 50.000 0.00 0.00 0.00 4.30
101 102 1.067425 CCTACCAACATGACGAACCGA 60.067 52.381 0.00 0.00 0.00 4.69
102 103 1.355971 CCTACCAACATGACGAACCG 58.644 55.000 0.00 0.00 0.00 4.44
103 104 1.276989 TCCCTACCAACATGACGAACC 59.723 52.381 0.00 0.00 0.00 3.62
104 105 2.344025 GTCCCTACCAACATGACGAAC 58.656 52.381 0.00 0.00 0.00 3.95
105 106 1.276989 GGTCCCTACCAACATGACGAA 59.723 52.381 0.00 0.00 45.98 3.85
106 107 0.899720 GGTCCCTACCAACATGACGA 59.100 55.000 0.00 0.00 45.98 4.20
107 108 3.453559 GGTCCCTACCAACATGACG 57.546 57.895 0.00 0.00 45.98 4.35
116 117 1.834996 GGAAATCCGGGTCCCTACC 59.165 63.158 6.29 0.00 45.97 3.18
127 128 2.411765 ATCGATGGGCCGGGAAATCC 62.412 60.000 2.18 0.00 0.00 3.01
128 129 1.073199 ATCGATGGGCCGGGAAATC 59.927 57.895 2.18 0.00 0.00 2.17
129 130 1.228245 CATCGATGGGCCGGGAAAT 60.228 57.895 17.96 0.00 0.00 2.17
130 131 2.191908 CATCGATGGGCCGGGAAA 59.808 61.111 17.96 0.00 0.00 3.13
131 132 3.087253 ACATCGATGGGCCGGGAA 61.087 61.111 28.09 0.00 0.00 3.97
132 133 3.860605 CACATCGATGGGCCGGGA 61.861 66.667 28.09 0.00 0.00 5.14
138 139 0.107993 ACACTGAGCACATCGATGGG 60.108 55.000 28.09 25.97 0.00 4.00
139 140 1.004595 CACACTGAGCACATCGATGG 58.995 55.000 28.09 17.84 0.00 3.51
140 141 0.372679 GCACACTGAGCACATCGATG 59.627 55.000 23.68 23.68 0.00 3.84
141 142 0.248565 AGCACACTGAGCACATCGAT 59.751 50.000 0.00 0.00 0.00 3.59
142 143 0.033920 AAGCACACTGAGCACATCGA 59.966 50.000 1.10 0.00 0.00 3.59
143 144 0.165295 CAAGCACACTGAGCACATCG 59.835 55.000 1.10 0.00 0.00 3.84
144 145 1.233019 ACAAGCACACTGAGCACATC 58.767 50.000 1.10 0.00 0.00 3.06
145 146 2.146342 GTACAAGCACACTGAGCACAT 58.854 47.619 1.10 0.00 0.00 3.21
146 147 1.581934 GTACAAGCACACTGAGCACA 58.418 50.000 1.10 0.00 0.00 4.57
147 148 0.508641 CGTACAAGCACACTGAGCAC 59.491 55.000 1.10 0.00 0.00 4.40
148 149 0.104120 ACGTACAAGCACACTGAGCA 59.896 50.000 1.10 0.00 0.00 4.26
149 150 1.217882 AACGTACAAGCACACTGAGC 58.782 50.000 0.00 0.00 0.00 4.26
150 151 2.863740 TCAAACGTACAAGCACACTGAG 59.136 45.455 0.00 0.00 0.00 3.35
151 152 2.863740 CTCAAACGTACAAGCACACTGA 59.136 45.455 0.00 0.00 0.00 3.41
152 153 2.032894 CCTCAAACGTACAAGCACACTG 60.033 50.000 0.00 0.00 0.00 3.66
153 154 2.210116 CCTCAAACGTACAAGCACACT 58.790 47.619 0.00 0.00 0.00 3.55
154 155 1.263217 CCCTCAAACGTACAAGCACAC 59.737 52.381 0.00 0.00 0.00 3.82
155 156 1.134340 ACCCTCAAACGTACAAGCACA 60.134 47.619 0.00 0.00 0.00 4.57
156 157 1.589803 ACCCTCAAACGTACAAGCAC 58.410 50.000 0.00 0.00 0.00 4.40
157 158 2.758009 GTACCCTCAAACGTACAAGCA 58.242 47.619 0.00 0.00 35.86 3.91
158 159 1.723003 CGTACCCTCAAACGTACAAGC 59.277 52.381 0.00 0.00 35.59 4.01
159 160 2.030007 TCCGTACCCTCAAACGTACAAG 60.030 50.000 0.00 0.00 37.40 3.16
160 161 1.959985 TCCGTACCCTCAAACGTACAA 59.040 47.619 0.00 0.00 37.40 2.41
161 162 1.614996 TCCGTACCCTCAAACGTACA 58.385 50.000 0.00 0.00 37.40 2.90
162 163 2.947448 ATCCGTACCCTCAAACGTAC 57.053 50.000 0.00 0.00 37.40 3.67
163 164 3.620488 ACTATCCGTACCCTCAAACGTA 58.380 45.455 0.00 0.00 37.40 3.57
164 165 2.450476 ACTATCCGTACCCTCAAACGT 58.550 47.619 0.00 0.00 37.40 3.99
165 166 3.184541 CAACTATCCGTACCCTCAAACG 58.815 50.000 0.00 0.00 38.80 3.60
166 167 3.528532 CCAACTATCCGTACCCTCAAAC 58.471 50.000 0.00 0.00 0.00 2.93
167 168 2.093341 GCCAACTATCCGTACCCTCAAA 60.093 50.000 0.00 0.00 0.00 2.69
202 203 6.863126 CCTCGCAGAAAAAGTTGACAAAATAT 59.137 34.615 0.00 0.00 34.09 1.28
203 204 6.183360 ACCTCGCAGAAAAAGTTGACAAAATA 60.183 34.615 0.00 0.00 34.09 1.40
204 205 5.043248 CCTCGCAGAAAAAGTTGACAAAAT 58.957 37.500 0.00 0.00 34.09 1.82
205 206 4.082463 ACCTCGCAGAAAAAGTTGACAAAA 60.082 37.500 0.00 0.00 34.09 2.44
206 207 3.442273 ACCTCGCAGAAAAAGTTGACAAA 59.558 39.130 0.00 0.00 34.09 2.83
207 208 3.013921 ACCTCGCAGAAAAAGTTGACAA 58.986 40.909 0.00 0.00 34.09 3.18
208 209 2.639065 ACCTCGCAGAAAAAGTTGACA 58.361 42.857 0.00 0.00 34.09 3.58
209 210 4.056050 TCTACCTCGCAGAAAAAGTTGAC 58.944 43.478 0.00 0.00 34.09 3.18
210 211 4.330944 TCTACCTCGCAGAAAAAGTTGA 57.669 40.909 0.00 0.00 34.09 3.18
211 212 5.613358 AATCTACCTCGCAGAAAAAGTTG 57.387 39.130 0.00 0.00 34.09 3.16
212 213 6.039382 ACAAAATCTACCTCGCAGAAAAAGTT 59.961 34.615 0.00 0.00 34.09 2.66
213 214 5.531287 ACAAAATCTACCTCGCAGAAAAAGT 59.469 36.000 0.00 0.00 34.09 2.66
214 215 6.002062 ACAAAATCTACCTCGCAGAAAAAG 57.998 37.500 0.00 0.00 34.09 2.27
215 216 5.529430 TGACAAAATCTACCTCGCAGAAAAA 59.471 36.000 0.00 0.00 34.09 1.94
216 217 5.060506 TGACAAAATCTACCTCGCAGAAAA 58.939 37.500 0.00 0.00 34.09 2.29
217 218 4.637276 TGACAAAATCTACCTCGCAGAAA 58.363 39.130 0.00 0.00 34.09 2.52
218 219 4.265904 TGACAAAATCTACCTCGCAGAA 57.734 40.909 0.00 0.00 34.09 3.02
219 220 3.953712 TGACAAAATCTACCTCGCAGA 57.046 42.857 0.00 0.00 0.00 4.26
220 221 5.277058 GCTAATGACAAAATCTACCTCGCAG 60.277 44.000 0.00 0.00 0.00 5.18
221 222 4.570772 GCTAATGACAAAATCTACCTCGCA 59.429 41.667 0.00 0.00 0.00 5.10
222 223 4.570772 TGCTAATGACAAAATCTACCTCGC 59.429 41.667 0.00 0.00 0.00 5.03
223 224 5.277058 GCTGCTAATGACAAAATCTACCTCG 60.277 44.000 0.00 0.00 0.00 4.63
224 225 5.008118 GGCTGCTAATGACAAAATCTACCTC 59.992 44.000 0.00 0.00 0.00 3.85
225 226 4.884164 GGCTGCTAATGACAAAATCTACCT 59.116 41.667 0.00 0.00 0.00 3.08
226 227 4.884164 AGGCTGCTAATGACAAAATCTACC 59.116 41.667 0.00 0.00 0.00 3.18
227 228 6.292381 CGTAGGCTGCTAATGACAAAATCTAC 60.292 42.308 0.00 0.00 0.00 2.59
228 229 5.753438 CGTAGGCTGCTAATGACAAAATCTA 59.247 40.000 0.00 0.00 0.00 1.98
272 273 9.849166 GAATTGGGACTTTATTCAACGAAATAA 57.151 29.630 0.00 0.00 31.02 1.40
313 322 0.467290 ACAAACCACTGGTGCGGATT 60.467 50.000 0.00 0.00 35.34 3.01
380 392 2.886081 CACCGATTCTCTCTGACTTGG 58.114 52.381 0.00 0.00 35.61 3.61
394 406 2.116827 TGTATTTTTCCCGCACCGAT 57.883 45.000 0.00 0.00 0.00 4.18
430 442 4.018506 TGTTGGCCTCCTGAATTCAGATTA 60.019 41.667 32.49 17.87 46.59 1.75
495 507 1.978580 GACCAAGGTCCTTTCAGGAGA 59.021 52.381 12.40 0.00 46.90 3.71
500 512 1.425066 AGCATGACCAAGGTCCTTTCA 59.575 47.619 16.18 4.86 43.97 2.69
531 543 7.106239 TCTGAGAAACAAGATTCCAAGGATAC 58.894 38.462 0.00 0.00 0.00 2.24
553 565 2.187424 GCTCTGGCTCTGGCTCTG 59.813 66.667 0.00 0.00 38.73 3.35
554 566 3.082701 GGCTCTGGCTCTGGCTCT 61.083 66.667 0.00 0.00 38.73 4.09
555 567 2.872931 CTTGGCTCTGGCTCTGGCTC 62.873 65.000 0.00 0.00 38.73 4.70
556 568 2.932194 TTGGCTCTGGCTCTGGCT 60.932 61.111 0.00 0.00 38.73 4.75
557 569 2.438075 CTTGGCTCTGGCTCTGGC 60.438 66.667 0.00 0.00 38.73 4.85
558 570 1.845627 TTCCTTGGCTCTGGCTCTGG 61.846 60.000 0.00 0.00 38.73 3.86
559 571 0.037303 TTTCCTTGGCTCTGGCTCTG 59.963 55.000 0.00 0.00 38.73 3.35
560 572 0.773644 TTTTCCTTGGCTCTGGCTCT 59.226 50.000 0.00 0.00 38.73 4.09
561 573 0.884514 GTTTTCCTTGGCTCTGGCTC 59.115 55.000 0.00 0.00 38.73 4.70
706 742 2.202756 GGATCCGTGACGACAGCC 60.203 66.667 6.54 0.16 0.00 4.85
920 962 0.249699 TGGTTCGTGTCTGCGATTGT 60.250 50.000 0.00 0.00 40.76 2.71
922 964 0.249699 TGTGGTTCGTGTCTGCGATT 60.250 50.000 0.00 0.00 40.76 3.34
927 969 1.157870 GGGTGTGTGGTTCGTGTCTG 61.158 60.000 0.00 0.00 0.00 3.51
928 970 1.145377 GGGTGTGTGGTTCGTGTCT 59.855 57.895 0.00 0.00 0.00 3.41
929 971 2.241880 CGGGTGTGTGGTTCGTGTC 61.242 63.158 0.00 0.00 0.00 3.67
992 1055 1.511887 GCTTGGTACATTGCGCACG 60.512 57.895 11.12 7.11 39.30 5.34
1472 1535 1.594331 GATCCAACGGCCAGGATTAC 58.406 55.000 19.18 7.15 44.44 1.89
1568 1651 2.821991 AACGCTAGCTGTCTGTTTCT 57.178 45.000 13.93 0.00 0.00 2.52
1592 1675 8.798402 TGACCAGACGAAATAAATTACCAAAAT 58.202 29.630 0.00 0.00 0.00 1.82
1597 1680 7.548196 TCATGACCAGACGAAATAAATTACC 57.452 36.000 0.00 0.00 0.00 2.85
1683 2386 7.307493 TCTGATTCACATTAACTCGGAAATG 57.693 36.000 0.52 0.52 38.71 2.32
1699 2402 4.736126 TCCGTAAGAAGCATCTGATTCA 57.264 40.909 10.47 0.00 42.42 2.57
1760 2464 5.574055 CAGACGCCTAACTTATGTTAACGAA 59.426 40.000 20.84 0.00 39.01 3.85
1761 2465 5.097529 CAGACGCCTAACTTATGTTAACGA 58.902 41.667 20.84 0.00 39.01 3.85
1762 2466 4.266976 CCAGACGCCTAACTTATGTTAACG 59.733 45.833 15.95 15.95 40.77 3.18
1763 2467 5.173664 ACCAGACGCCTAACTTATGTTAAC 58.826 41.667 0.00 0.00 38.09 2.01
1765 2469 5.410355 AACCAGACGCCTAACTTATGTTA 57.590 39.130 1.67 1.67 37.59 2.41
1767 2471 3.975168 AACCAGACGCCTAACTTATGT 57.025 42.857 0.00 0.00 0.00 2.29
1768 2472 4.201685 CGAAAACCAGACGCCTAACTTATG 60.202 45.833 0.00 0.00 0.00 1.90
1769 2473 3.930848 CGAAAACCAGACGCCTAACTTAT 59.069 43.478 0.00 0.00 0.00 1.73
1770 2474 3.243839 ACGAAAACCAGACGCCTAACTTA 60.244 43.478 0.00 0.00 0.00 2.24
1814 2518 3.476552 TCTCAACAACCAACCATGACTC 58.523 45.455 0.00 0.00 0.00 3.36
1836 2540 5.386958 TGCAGTAACATCGACCTATATCC 57.613 43.478 0.00 0.00 0.00 2.59
1916 2622 2.507471 GGACTGGAATGGAATCAGGAGT 59.493 50.000 0.00 0.00 33.19 3.85
2111 2827 5.880332 CCTGGCTGCAGTTTTATAACTAGAA 59.120 40.000 16.64 0.00 42.67 2.10
2201 5160 3.261897 CCTGGAGTTTCATGAGGTACACT 59.738 47.826 0.00 0.00 0.00 3.55
2224 5183 0.884259 TTGTCCACATGCCACACGAG 60.884 55.000 0.00 0.00 0.00 4.18
2231 5190 0.038892 CACTTGCTTGTCCACATGCC 60.039 55.000 13.38 0.00 43.75 4.40
2272 5231 1.281656 GTGGTCGTTTTTCCGGCTG 59.718 57.895 0.00 0.00 31.91 4.85
2338 5297 2.114506 TCCTCCTCTTCCTTCCTTCCTT 59.885 50.000 0.00 0.00 0.00 3.36
2339 5298 1.725182 TCCTCCTCTTCCTTCCTTCCT 59.275 52.381 0.00 0.00 0.00 3.36
2340 5299 2.255770 TCCTCCTCTTCCTTCCTTCC 57.744 55.000 0.00 0.00 0.00 3.46
2341 5300 3.777522 TGAATCCTCCTCTTCCTTCCTTC 59.222 47.826 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.