Multiple sequence alignment - TraesCS1B01G131900

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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 TraesCS1B01G131900 chr1B 100.000 2707 0 0 945 3651 165077836 165075130 0.000000e+00 5000.0
1 TraesCS1B01G131900 chr1B 100.000 472 0 0 1 472 165078780 165078309 0.000000e+00 872.0
2 TraesCS1B01G131900 chr1B 78.070 114 14 10 103 209 363730924 363730815 1.090000e-05 62.1
3 TraesCS1B01G131900 chr1B 100.000 30 0 0 228 257 11923923 11923952 5.090000e-04 56.5
4 TraesCS1B01G131900 chr1D 95.585 2061 58 16 945 2999 109478511 109476478 0.000000e+00 3271.0
5 TraesCS1B01G131900 chr1D 97.872 329 7 0 3323 3651 109476088 109475760 1.470000e-158 569.0
6 TraesCS1B01G131900 chr1D 95.848 289 8 2 2994 3282 109476369 109476085 7.140000e-127 464.0
7 TraesCS1B01G131900 chr1D 96.970 231 4 3 231 461 109479437 109479210 5.720000e-103 385.0
8 TraesCS1B01G131900 chr1D 91.743 109 8 1 104 212 30624313 30624420 2.270000e-32 150.0
9 TraesCS1B01G131900 chr1D 86.486 111 12 2 2889 2999 246649981 246650088 6.400000e-23 119.0
10 TraesCS1B01G131900 chr1D 83.784 111 15 1 2889 2999 156133492 156133385 6.450000e-18 102.0
11 TraesCS1B01G131900 chr1A 92.769 1051 59 6 945 1992 112944307 112943271 0.000000e+00 1504.0
12 TraesCS1B01G131900 chr1A 93.421 684 30 11 2163 2841 112943150 112942477 0.000000e+00 1000.0
13 TraesCS1B01G131900 chr1A 92.754 621 28 3 3031 3651 112942391 112941788 0.000000e+00 881.0
14 TraesCS1B01G131900 chr1A 93.697 238 8 3 231 467 112944935 112944704 2.090000e-92 350.0
15 TraesCS1B01G131900 chr3D 83.654 208 29 5 2241 2445 453630093 453630298 1.340000e-44 191.0
16 TraesCS1B01G131900 chr3D 87.838 148 18 0 1384 1531 453629845 453629992 1.350000e-39 174.0
17 TraesCS1B01G131900 chr3A 84.324 185 23 6 2241 2422 595644844 595645025 3.750000e-40 176.0
18 TraesCS1B01G131900 chr3A 87.838 148 18 0 1384 1531 595644596 595644743 1.350000e-39 174.0
19 TraesCS1B01G131900 chr3A 84.956 113 15 2 2888 2999 310692089 310691978 2.980000e-21 113.0
20 TraesCS1B01G131900 chr3B 87.838 148 18 0 1384 1531 596048076 596048223 1.350000e-39 174.0
21 TraesCS1B01G131900 chr3B 81.776 214 32 6 2241 2450 596048323 596048533 4.850000e-39 172.0
22 TraesCS1B01G131900 chr3B 84.685 111 16 1 2889 2999 328715444 328715553 3.850000e-20 110.0
23 TraesCS1B01G131900 chr7B 91.525 118 9 1 103 220 689899905 689899789 1.050000e-35 161.0
24 TraesCS1B01G131900 chr7B 89.831 118 11 1 103 220 689901473 689901357 2.270000e-32 150.0
25 TraesCS1B01G131900 chr2A 87.826 115 11 3 2885 2999 715335108 715334997 8.230000e-27 132.0
26 TraesCS1B01G131900 chr6B 85.217 115 13 3 2885 2999 537553838 537553948 8.280000e-22 115.0
27 TraesCS1B01G131900 chr6B 81.944 72 10 3 101 170 663859463 663859393 1.420000e-04 58.4
28 TraesCS1B01G131900 chr6B 90.476 42 3 1 217 257 358614138 358614097 2.000000e-03 54.7
29 TraesCS1B01G131900 chr5A 85.586 111 11 2 2889 2999 321920781 321920676 1.070000e-20 111.0
30 TraesCS1B01G131900 chr7A 84.211 114 17 1 2886 2999 709640308 709640420 3.850000e-20 110.0
31 TraesCS1B01G131900 chr4A 79.646 113 21 2 103 214 729348607 729348496 3.020000e-11 80.5
32 TraesCS1B01G131900 chr4A 97.143 35 0 1 49 82 705885881 705885915 1.420000e-04 58.4
33 TraesCS1B01G131900 chr4A 97.143 35 0 1 49 82 707399350 707399384 1.420000e-04 58.4
34 TraesCS1B01G131900 chr5B 88.710 62 7 0 103 164 31110802 31110863 3.910000e-10 76.8
35 TraesCS1B01G131900 chr2B 81.319 91 15 2 95 184 371795726 371795815 5.060000e-09 73.1
36 TraesCS1B01G131900 chr2B 88.889 45 3 2 218 261 728343344 728343301 2.000000e-03 54.7
37 TraesCS1B01G131900 chr2B 96.875 32 0 1 223 254 732556580 732556610 7.000000e-03 52.8
38 TraesCS1B01G131900 chr7D 95.238 42 2 0 102 143 262703824 262703865 2.350000e-07 67.6
39 TraesCS1B01G131900 chr5D 97.143 35 1 0 227 261 135662835 135662801 3.940000e-05 60.2
40 TraesCS1B01G131900 chr4D 96.875 32 1 0 231 262 213708389 213708420 2.000000e-03 54.7
41 TraesCS1B01G131900 chr4B 96.875 32 0 1 223 254 298685947 298685977 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 TraesCS1B01G131900 chr1B 165075130 165078780 3650 True 2936.00 5000 100.00000 1 3651 2 chr1B.!!$R2 3650
1 TraesCS1B01G131900 chr1D 109475760 109479437 3677 True 1172.25 3271 96.56875 231 3651 4 chr1D.!!$R2 3420
2 TraesCS1B01G131900 chr1A 112941788 112944935 3147 True 933.75 1504 93.16025 231 3651 4 chr1A.!!$R1 3420

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
199 200 0.109504 GCATCTCTAGCCGTCGGATC 60.110 60.0 17.49 0.0 0.00 3.36 F
206 207 0.323178 TAGCCGTCGGATCCCCTATC 60.323 60.0 17.49 0.0 0.00 2.08 F
208 209 0.323178 GCCGTCGGATCCCCTATCTA 60.323 60.0 17.49 0.0 34.75 1.98 F
463 464 0.458370 GCGCCCATTGTGTCCAAATC 60.458 55.0 0.00 0.0 33.44 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2165 2416 0.442699 GCACTTCGATCGGTTCAACC 59.557 55.000 16.41 0.00 34.05 3.77 R
2205 2456 3.788163 CCAAGCTACGCGTTAAGTAGTAC 59.212 47.826 20.78 0.00 42.49 2.73 R
2208 2459 2.597305 CACCAAGCTACGCGTTAAGTAG 59.403 50.000 20.78 9.76 43.16 2.57 R
2669 2920 2.821991 AGAAGCTCACAGTTAACGCT 57.178 45.000 0.00 0.00 0.00 5.07 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
46 47 9.477484 AGATATGAACAAACATATACTTCGTCC 57.523 33.333 0.00 0.00 41.60 4.79
47 48 6.920569 ATGAACAAACATATACTTCGTCCC 57.079 37.500 0.00 0.00 0.00 4.46
48 49 4.865925 TGAACAAACATATACTTCGTCCCG 59.134 41.667 0.00 0.00 0.00 5.14
49 50 3.192466 ACAAACATATACTTCGTCCCGC 58.808 45.455 0.00 0.00 0.00 6.13
50 51 2.521105 AACATATACTTCGTCCCGCC 57.479 50.000 0.00 0.00 0.00 6.13
51 52 0.677842 ACATATACTTCGTCCCGCCC 59.322 55.000 0.00 0.00 0.00 6.13
52 53 0.677288 CATATACTTCGTCCCGCCCA 59.323 55.000 0.00 0.00 0.00 5.36
53 54 1.275291 CATATACTTCGTCCCGCCCAT 59.725 52.381 0.00 0.00 0.00 4.00
54 55 2.291209 TATACTTCGTCCCGCCCATA 57.709 50.000 0.00 0.00 0.00 2.74
55 56 1.416243 ATACTTCGTCCCGCCCATAA 58.584 50.000 0.00 0.00 0.00 1.90
56 57 1.416243 TACTTCGTCCCGCCCATAAT 58.584 50.000 0.00 0.00 0.00 1.28
57 58 1.416243 ACTTCGTCCCGCCCATAATA 58.584 50.000 0.00 0.00 0.00 0.98
58 59 1.975680 ACTTCGTCCCGCCCATAATAT 59.024 47.619 0.00 0.00 0.00 1.28
59 60 2.370849 ACTTCGTCCCGCCCATAATATT 59.629 45.455 0.00 0.00 0.00 1.28
60 61 3.579586 ACTTCGTCCCGCCCATAATATTA 59.420 43.478 0.00 0.00 0.00 0.98
61 62 3.880047 TCGTCCCGCCCATAATATTAG 57.120 47.619 1.02 0.00 0.00 1.73
62 63 3.433343 TCGTCCCGCCCATAATATTAGA 58.567 45.455 1.02 0.00 0.00 2.10
63 64 4.028131 TCGTCCCGCCCATAATATTAGAT 58.972 43.478 1.02 0.00 0.00 1.98
64 65 4.119862 CGTCCCGCCCATAATATTAGATG 58.880 47.826 1.02 0.00 0.00 2.90
65 66 4.382685 CGTCCCGCCCATAATATTAGATGT 60.383 45.833 1.02 0.00 0.00 3.06
66 67 5.497474 GTCCCGCCCATAATATTAGATGTT 58.503 41.667 1.02 0.00 0.00 2.71
67 68 6.628621 CGTCCCGCCCATAATATTAGATGTTA 60.629 42.308 1.02 0.00 0.00 2.41
68 69 7.280356 GTCCCGCCCATAATATTAGATGTTAT 58.720 38.462 1.02 0.00 0.00 1.89
69 70 7.773690 GTCCCGCCCATAATATTAGATGTTATT 59.226 37.037 1.02 0.00 0.00 1.40
70 71 8.994500 TCCCGCCCATAATATTAGATGTTATTA 58.006 33.333 1.02 0.00 0.00 0.98
71 72 9.052759 CCCGCCCATAATATTAGATGTTATTAC 57.947 37.037 1.02 0.00 0.00 1.89
72 73 9.607988 CCGCCCATAATATTAGATGTTATTACA 57.392 33.333 1.02 0.00 38.95 2.41
85 86 8.518430 AGATGTTATTACAACCAATATGCACA 57.482 30.769 0.00 0.00 37.91 4.57
86 87 9.135189 AGATGTTATTACAACCAATATGCACAT 57.865 29.630 0.00 0.00 37.91 3.21
90 91 9.541724 GTTATTACAACCAATATGCACATATCG 57.458 33.333 3.70 1.02 33.13 2.92
91 92 6.552859 TTACAACCAATATGCACATATCGG 57.447 37.500 6.14 6.14 34.71 4.18
92 93 3.253188 ACAACCAATATGCACATATCGGC 59.747 43.478 7.41 0.00 32.35 5.54
93 94 2.436417 ACCAATATGCACATATCGGCC 58.564 47.619 7.41 0.00 32.35 6.13
94 95 1.745087 CCAATATGCACATATCGGCCC 59.255 52.381 0.00 0.00 33.13 5.80
95 96 1.745087 CAATATGCACATATCGGCCCC 59.255 52.381 0.00 0.00 33.13 5.80
96 97 0.991146 ATATGCACATATCGGCCCCA 59.009 50.000 0.00 0.00 28.24 4.96
97 98 0.767998 TATGCACATATCGGCCCCAA 59.232 50.000 0.00 0.00 0.00 4.12
98 99 0.112995 ATGCACATATCGGCCCCAAT 59.887 50.000 0.00 0.00 0.00 3.16
99 100 0.822944 TGCACATATCGGCCCCAATG 60.823 55.000 0.00 0.17 0.00 2.82
100 101 0.537143 GCACATATCGGCCCCAATGA 60.537 55.000 11.67 0.00 0.00 2.57
101 102 1.238439 CACATATCGGCCCCAATGAC 58.762 55.000 11.67 0.00 0.00 3.06
102 103 0.843309 ACATATCGGCCCCAATGACA 59.157 50.000 11.67 0.00 0.00 3.58
103 104 1.425066 ACATATCGGCCCCAATGACAT 59.575 47.619 11.67 0.00 0.00 3.06
104 105 2.158475 ACATATCGGCCCCAATGACATT 60.158 45.455 11.67 0.00 0.00 2.71
105 106 2.746279 TATCGGCCCCAATGACATTT 57.254 45.000 0.00 0.00 0.00 2.32
106 107 2.746279 ATCGGCCCCAATGACATTTA 57.254 45.000 0.00 0.00 0.00 1.40
107 108 2.051334 TCGGCCCCAATGACATTTAG 57.949 50.000 0.00 0.00 0.00 1.85
108 109 1.032014 CGGCCCCAATGACATTTAGG 58.968 55.000 0.00 3.52 0.00 2.69
109 110 1.409521 CGGCCCCAATGACATTTAGGA 60.410 52.381 14.77 0.00 0.00 2.94
110 111 2.031870 GGCCCCAATGACATTTAGGAC 58.968 52.381 14.77 9.64 0.00 3.85
111 112 2.622977 GGCCCCAATGACATTTAGGACA 60.623 50.000 14.77 0.00 0.00 4.02
112 113 2.689983 GCCCCAATGACATTTAGGACAG 59.310 50.000 14.77 2.38 0.00 3.51
113 114 3.877735 GCCCCAATGACATTTAGGACAGT 60.878 47.826 14.77 0.00 0.00 3.55
114 115 4.627741 GCCCCAATGACATTTAGGACAGTA 60.628 45.833 14.77 0.00 0.00 2.74
115 116 5.694995 CCCCAATGACATTTAGGACAGTAT 58.305 41.667 13.45 0.00 0.00 2.12
116 117 6.690460 GCCCCAATGACATTTAGGACAGTATA 60.690 42.308 14.77 0.00 0.00 1.47
117 118 7.287061 CCCCAATGACATTTAGGACAGTATAA 58.713 38.462 13.45 0.00 0.00 0.98
118 119 7.228706 CCCCAATGACATTTAGGACAGTATAAC 59.771 40.741 13.45 0.00 0.00 1.89
119 120 7.228706 CCCAATGACATTTAGGACAGTATAACC 59.771 40.741 7.90 0.00 0.00 2.85
120 121 7.042051 CCAATGACATTTAGGACAGTATAACCG 60.042 40.741 0.00 0.00 0.00 4.44
121 122 6.778834 TGACATTTAGGACAGTATAACCGA 57.221 37.500 0.00 0.00 0.00 4.69
122 123 6.802608 TGACATTTAGGACAGTATAACCGAG 58.197 40.000 0.00 0.00 0.00 4.63
123 124 5.598769 ACATTTAGGACAGTATAACCGAGC 58.401 41.667 0.00 0.00 0.00 5.03
124 125 4.660789 TTTAGGACAGTATAACCGAGCC 57.339 45.455 0.00 0.00 0.00 4.70
125 126 2.456073 AGGACAGTATAACCGAGCCT 57.544 50.000 0.00 0.00 0.00 4.58
126 127 3.589951 AGGACAGTATAACCGAGCCTA 57.410 47.619 0.00 0.00 0.00 3.93
127 128 3.907221 AGGACAGTATAACCGAGCCTAA 58.093 45.455 0.00 0.00 0.00 2.69
128 129 4.284178 AGGACAGTATAACCGAGCCTAAA 58.716 43.478 0.00 0.00 0.00 1.85
129 130 4.341520 AGGACAGTATAACCGAGCCTAAAG 59.658 45.833 0.00 0.00 0.00 1.85
130 131 4.501058 GGACAGTATAACCGAGCCTAAAGG 60.501 50.000 0.00 0.00 38.53 3.11
131 132 3.387050 ACAGTATAACCGAGCCTAAAGGG 59.613 47.826 0.00 0.00 35.18 3.95
139 140 3.408251 AGCCTAAAGGGTGCTCTCT 57.592 52.632 0.00 0.00 45.50 3.10
140 141 1.199615 AGCCTAAAGGGTGCTCTCTC 58.800 55.000 0.00 0.00 45.50 3.20
141 142 0.905357 GCCTAAAGGGTGCTCTCTCA 59.095 55.000 0.00 0.00 37.43 3.27
142 143 1.134551 GCCTAAAGGGTGCTCTCTCAG 60.135 57.143 0.00 0.00 37.43 3.35
143 144 4.943757 GCCTAAAGGGTGCTCTCTCAGC 62.944 59.091 0.00 0.00 41.54 4.26
161 162 1.538276 GCGATTTGCATTTCTGACCG 58.462 50.000 0.00 0.00 45.45 4.79
162 163 1.135689 GCGATTTGCATTTCTGACCGT 60.136 47.619 0.00 0.00 45.45 4.83
163 164 2.774007 CGATTTGCATTTCTGACCGTC 58.226 47.619 0.00 0.00 0.00 4.79
164 165 2.416547 CGATTTGCATTTCTGACCGTCT 59.583 45.455 0.00 0.00 0.00 4.18
165 166 3.725895 CGATTTGCATTTCTGACCGTCTG 60.726 47.826 0.00 0.00 0.00 3.51
166 167 2.542020 TTGCATTTCTGACCGTCTGA 57.458 45.000 4.11 4.11 0.00 3.27
167 168 2.768253 TGCATTTCTGACCGTCTGAT 57.232 45.000 8.74 0.00 0.00 2.90
168 169 3.057969 TGCATTTCTGACCGTCTGATT 57.942 42.857 8.74 0.00 0.00 2.57
169 170 3.411446 TGCATTTCTGACCGTCTGATTT 58.589 40.909 8.74 0.00 0.00 2.17
170 171 3.189080 TGCATTTCTGACCGTCTGATTTG 59.811 43.478 8.74 10.09 0.00 2.32
171 172 3.426695 GCATTTCTGACCGTCTGATTTGG 60.427 47.826 8.74 2.06 0.00 3.28
172 173 1.808411 TTCTGACCGTCTGATTTGGC 58.192 50.000 8.74 0.00 0.00 4.52
173 174 0.389817 TCTGACCGTCTGATTTGGCG 60.390 55.000 4.11 0.00 0.00 5.69
174 175 0.389817 CTGACCGTCTGATTTGGCGA 60.390 55.000 0.00 0.00 0.00 5.54
175 176 0.249120 TGACCGTCTGATTTGGCGAT 59.751 50.000 0.00 0.00 0.00 4.58
176 177 0.931005 GACCGTCTGATTTGGCGATC 59.069 55.000 0.00 0.00 0.00 3.69
177 178 0.537188 ACCGTCTGATTTGGCGATCT 59.463 50.000 0.00 0.00 0.00 2.75
178 179 1.754803 ACCGTCTGATTTGGCGATCTA 59.245 47.619 0.00 0.00 0.00 1.98
179 180 2.223829 ACCGTCTGATTTGGCGATCTAG 60.224 50.000 0.00 0.00 0.00 2.43
180 181 2.398498 CGTCTGATTTGGCGATCTAGG 58.602 52.381 0.00 0.00 0.00 3.02
181 182 2.139118 GTCTGATTTGGCGATCTAGGC 58.861 52.381 0.00 0.00 37.19 3.93
182 183 1.762370 TCTGATTTGGCGATCTAGGCA 59.238 47.619 0.00 0.00 45.22 4.75
183 184 2.369860 TCTGATTTGGCGATCTAGGCAT 59.630 45.455 0.00 0.00 46.15 4.40
184 185 2.740981 CTGATTTGGCGATCTAGGCATC 59.259 50.000 0.00 0.00 46.15 3.91
185 186 2.369860 TGATTTGGCGATCTAGGCATCT 59.630 45.455 0.00 0.00 46.15 2.90
186 187 2.533266 TTTGGCGATCTAGGCATCTC 57.467 50.000 0.00 0.00 46.15 2.75
187 188 1.709578 TTGGCGATCTAGGCATCTCT 58.290 50.000 0.00 0.00 46.15 3.10
188 189 2.586648 TGGCGATCTAGGCATCTCTA 57.413 50.000 0.00 0.00 41.94 2.43
189 190 2.441410 TGGCGATCTAGGCATCTCTAG 58.559 52.381 0.00 0.00 41.94 2.43
190 191 1.134175 GGCGATCTAGGCATCTCTAGC 59.866 57.143 0.00 0.00 37.30 3.42
196 197 2.336809 GGCATCTCTAGCCGTCGG 59.663 66.667 6.99 6.99 43.15 4.79
197 198 2.194212 GGCATCTCTAGCCGTCGGA 61.194 63.158 17.49 0.00 43.15 4.55
198 199 1.528292 GGCATCTCTAGCCGTCGGAT 61.528 60.000 17.49 12.48 43.15 4.18
199 200 0.109504 GCATCTCTAGCCGTCGGATC 60.110 60.000 17.49 0.00 0.00 3.36
200 201 0.523966 CATCTCTAGCCGTCGGATCC 59.476 60.000 17.49 0.00 0.00 3.36
201 202 0.609681 ATCTCTAGCCGTCGGATCCC 60.610 60.000 17.49 0.00 0.00 3.85
202 203 2.203451 TCTAGCCGTCGGATCCCC 60.203 66.667 17.49 0.00 0.00 4.81
203 204 2.203509 CTAGCCGTCGGATCCCCT 60.204 66.667 17.49 4.37 0.00 4.79
204 205 1.074423 CTAGCCGTCGGATCCCCTA 59.926 63.158 17.49 5.42 0.00 3.53
205 206 0.323542 CTAGCCGTCGGATCCCCTAT 60.324 60.000 17.49 0.00 0.00 2.57
206 207 0.323178 TAGCCGTCGGATCCCCTATC 60.323 60.000 17.49 0.00 0.00 2.08
207 208 1.606889 GCCGTCGGATCCCCTATCT 60.607 63.158 17.49 0.00 34.75 1.98
208 209 0.323178 GCCGTCGGATCCCCTATCTA 60.323 60.000 17.49 0.00 34.75 1.98
209 210 1.461559 CCGTCGGATCCCCTATCTAC 58.538 60.000 4.91 0.00 34.75 2.59
210 211 1.271762 CCGTCGGATCCCCTATCTACA 60.272 57.143 4.91 0.00 34.75 2.74
211 212 2.085320 CGTCGGATCCCCTATCTACAG 58.915 57.143 6.06 0.00 34.75 2.74
212 213 1.819903 GTCGGATCCCCTATCTACAGC 59.180 57.143 6.06 0.00 34.75 4.40
213 214 1.187087 CGGATCCCCTATCTACAGCC 58.813 60.000 6.06 0.00 34.75 4.85
214 215 1.187087 GGATCCCCTATCTACAGCCG 58.813 60.000 0.00 0.00 34.75 5.52
215 216 1.550409 GGATCCCCTATCTACAGCCGT 60.550 57.143 0.00 0.00 34.75 5.68
216 217 1.819903 GATCCCCTATCTACAGCCGTC 59.180 57.143 0.00 0.00 0.00 4.79
217 218 0.851469 TCCCCTATCTACAGCCGTCT 59.149 55.000 0.00 0.00 0.00 4.18
218 219 0.962489 CCCCTATCTACAGCCGTCTG 59.038 60.000 0.00 0.00 45.71 3.51
461 462 1.184322 ATGCGCCCATTGTGTCCAAA 61.184 50.000 4.18 0.00 33.44 3.28
462 463 1.184322 TGCGCCCATTGTGTCCAAAT 61.184 50.000 4.18 0.00 33.44 2.32
463 464 0.458370 GCGCCCATTGTGTCCAAATC 60.458 55.000 0.00 0.00 33.44 2.17
467 468 3.381272 CGCCCATTGTGTCCAAATCTAAT 59.619 43.478 0.00 0.00 33.44 1.73
469 470 4.646492 GCCCATTGTGTCCAAATCTAATCT 59.354 41.667 0.00 0.00 33.44 2.40
470 471 5.450965 GCCCATTGTGTCCAAATCTAATCTG 60.451 44.000 0.00 0.00 33.44 2.90
1032 1266 4.730657 CAAGGTATGCTCAAAGCTCAAAG 58.269 43.478 0.11 0.00 42.97 2.77
1062 1296 5.784177 TCCGAAATACCAAGCTAGATCATC 58.216 41.667 0.00 0.00 0.00 2.92
1257 1493 2.029623 GAATGGCAGCAAGACCATGAT 58.970 47.619 0.00 0.00 46.04 2.45
1580 1816 4.717233 TTGCTTGCTCTTTGACTTTCAA 57.283 36.364 0.00 0.00 34.03 2.69
1603 1839 6.673839 ACATAGCTTACTTCTATCCCTTCC 57.326 41.667 0.00 0.00 0.00 3.46
1909 2146 1.014044 TCGCCTGTGCATCTTTCGTC 61.014 55.000 0.00 0.00 37.32 4.20
1981 2220 3.257873 ACGATGTTTGCATCCCAAAATCA 59.742 39.130 0.00 0.00 46.56 2.57
1982 2221 3.613737 CGATGTTTGCATCCCAAAATCAC 59.386 43.478 0.00 0.00 46.56 3.06
2024 2270 6.489603 TCCCCAAATCAAGTTAGCTCAAATA 58.510 36.000 0.00 0.00 0.00 1.40
2058 2304 7.814642 TGTTTGTGCATCTTTTGTTTCATTTT 58.185 26.923 0.00 0.00 0.00 1.82
2059 2305 7.749570 TGTTTGTGCATCTTTTGTTTCATTTTG 59.250 29.630 0.00 0.00 0.00 2.44
2060 2306 5.808403 TGTGCATCTTTTGTTTCATTTTGC 58.192 33.333 0.00 0.00 0.00 3.68
2122 2373 7.402054 TCAGTTAGCTCAAATCCTTCCAAATA 58.598 34.615 0.00 0.00 0.00 1.40
2123 2374 7.888021 TCAGTTAGCTCAAATCCTTCCAAATAA 59.112 33.333 0.00 0.00 0.00 1.40
2165 2416 6.029607 CCGTATGAAAATGAAATCCACACAG 58.970 40.000 0.00 0.00 0.00 3.66
2197 2448 3.157881 TCGAAGTGCTCCAGGGATATAG 58.842 50.000 0.00 0.00 0.00 1.31
2201 2452 2.452823 AGTGCTCCAGGGATATAGTCCT 59.547 50.000 0.00 0.00 46.91 3.85
2205 2456 5.830991 GTGCTCCAGGGATATAGTCCTATAG 59.169 48.000 0.00 0.00 46.91 1.31
2208 2459 6.999871 GCTCCAGGGATATAGTCCTATAGTAC 59.000 46.154 0.00 0.00 46.91 2.73
2665 2916 1.356938 GTTGAGGCCGTTGTACTAGC 58.643 55.000 0.00 0.00 0.00 3.42
2666 2917 1.067071 GTTGAGGCCGTTGTACTAGCT 60.067 52.381 0.00 0.00 0.00 3.32
2668 2919 1.621814 TGAGGCCGTTGTACTAGCTTT 59.378 47.619 0.00 0.00 0.00 3.51
2669 2920 2.827322 TGAGGCCGTTGTACTAGCTTTA 59.173 45.455 0.00 0.00 0.00 1.85
2670 2921 3.119245 TGAGGCCGTTGTACTAGCTTTAG 60.119 47.826 0.00 0.00 0.00 1.85
2671 2922 1.931841 GGCCGTTGTACTAGCTTTAGC 59.068 52.381 0.00 0.00 42.49 3.09
2782 3037 7.992608 ACAGGCTTTTTCTGGAAATTATTTTGT 59.007 29.630 0.00 0.00 36.62 2.83
2866 3121 7.625553 CGAGCAAAATTATACTCCAGAAAGAG 58.374 38.462 0.00 0.00 39.91 2.85
2901 3156 4.708909 CCTACCTAGTTACTCCTTCCGTTT 59.291 45.833 0.00 0.00 0.00 3.60
2902 3157 5.186603 CCTACCTAGTTACTCCTTCCGTTTT 59.813 44.000 0.00 0.00 0.00 2.43
2963 3218 6.650390 TGGATGTATAGACACGCGTTATAGTA 59.350 38.462 10.22 2.64 38.76 1.82
2971 3226 5.865552 AGACACGCGTTATAGTATGTTTGTT 59.134 36.000 10.22 0.00 0.00 2.83
2991 3246 7.425577 TTGTTCACTCATTTCAGTCTGTATG 57.574 36.000 0.00 5.69 0.00 2.39
3024 3393 2.706190 GCATAGGAATAGGGGTGTCACT 59.294 50.000 2.35 0.00 0.00 3.41
3036 3405 2.615240 GGGTGTCACTGCACATGATACA 60.615 50.000 18.92 5.08 39.28 2.29
3069 3438 6.429692 CCATATGAGGTGTGTTTGTTTGACTA 59.570 38.462 3.65 0.00 0.00 2.59
3075 3444 5.650266 AGGTGTGTTTGTTTGACTACATTGA 59.350 36.000 0.00 0.00 0.00 2.57
3090 3459 7.443272 TGACTACATTGAGATCTTTGCATATGG 59.557 37.037 4.56 0.00 0.00 2.74
3239 3608 5.071653 TCTCCCCATACATCGATTGATTTGA 59.928 40.000 0.00 0.00 30.49 2.69
3240 3609 5.879763 TCCCCATACATCGATTGATTTGAT 58.120 37.500 0.00 0.00 30.49 2.57
3241 3610 5.939883 TCCCCATACATCGATTGATTTGATC 59.060 40.000 0.00 0.00 30.49 2.92
3242 3611 5.942236 CCCCATACATCGATTGATTTGATCT 59.058 40.000 0.00 0.00 30.49 2.75
3293 3662 2.605837 TAAGAACAACGTCAGTGGCA 57.394 45.000 0.00 0.00 0.00 4.92
3362 3731 5.974108 TGAAATGGCAAGGTAGTACTACTC 58.026 41.667 27.71 19.13 36.36 2.59
3369 3738 5.397786 GGCAAGGTAGTACTACTCTACTCCT 60.398 48.000 27.71 14.80 38.16 3.69
3407 3776 3.577649 TTTGACTTCTAGCTGTCCTCG 57.422 47.619 0.00 0.00 32.67 4.63
3590 3959 9.097257 TCAAGATTTCAAAATCAAAAGGTTGAC 57.903 29.630 15.75 0.00 46.40 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 5.099042 ACATCTAATATTATGGGCGGGAC 57.901 43.478 0.00 0.00 0.00 4.46
44 45 5.772393 AACATCTAATATTATGGGCGGGA 57.228 39.130 0.00 0.00 0.00 5.14
45 46 9.052759 GTAATAACATCTAATATTATGGGCGGG 57.947 37.037 0.00 0.00 0.00 6.13
46 47 9.607988 TGTAATAACATCTAATATTATGGGCGG 57.392 33.333 0.00 0.00 0.00 6.13
59 60 9.620259 TGTGCATATTGGTTGTAATAACATCTA 57.380 29.630 0.00 0.00 34.97 1.98
60 61 8.518430 TGTGCATATTGGTTGTAATAACATCT 57.482 30.769 0.00 0.00 34.97 2.90
64 65 9.541724 CGATATGTGCATATTGGTTGTAATAAC 57.458 33.333 0.00 0.00 34.36 1.89
65 66 8.726068 CCGATATGTGCATATTGGTTGTAATAA 58.274 33.333 21.97 0.00 44.76 1.40
66 67 8.262715 CCGATATGTGCATATTGGTTGTAATA 57.737 34.615 21.97 0.00 44.76 0.98
67 68 7.144722 CCGATATGTGCATATTGGTTGTAAT 57.855 36.000 21.97 0.00 44.76 1.89
68 69 6.552859 CCGATATGTGCATATTGGTTGTAA 57.447 37.500 21.97 0.00 44.76 2.41
75 76 1.745087 GGGGCCGATATGTGCATATTG 59.255 52.381 0.00 10.89 34.36 1.90
76 77 1.354031 TGGGGCCGATATGTGCATATT 59.646 47.619 0.00 0.00 34.36 1.28
77 78 0.991146 TGGGGCCGATATGTGCATAT 59.009 50.000 0.31 0.31 36.75 1.78
78 79 0.767998 TTGGGGCCGATATGTGCATA 59.232 50.000 0.00 0.00 0.00 3.14
79 80 0.112995 ATTGGGGCCGATATGTGCAT 59.887 50.000 0.00 0.00 0.00 3.96
80 81 0.822944 CATTGGGGCCGATATGTGCA 60.823 55.000 0.00 0.00 0.00 4.57
81 82 0.537143 TCATTGGGGCCGATATGTGC 60.537 55.000 0.00 0.00 0.00 4.57
82 83 1.238439 GTCATTGGGGCCGATATGTG 58.762 55.000 0.00 0.00 0.00 3.21
83 84 0.843309 TGTCATTGGGGCCGATATGT 59.157 50.000 0.00 0.00 0.00 2.29
84 85 2.205022 ATGTCATTGGGGCCGATATG 57.795 50.000 0.00 0.86 0.00 1.78
85 86 2.978156 AATGTCATTGGGGCCGATAT 57.022 45.000 0.00 0.00 0.00 1.63
86 87 2.746279 AAATGTCATTGGGGCCGATA 57.254 45.000 0.00 0.00 0.00 2.92
87 88 2.586425 CTAAATGTCATTGGGGCCGAT 58.414 47.619 0.00 0.00 0.00 4.18
88 89 1.409521 CCTAAATGTCATTGGGGCCGA 60.410 52.381 0.00 0.00 0.00 5.54
89 90 1.032014 CCTAAATGTCATTGGGGCCG 58.968 55.000 0.00 0.00 0.00 6.13
90 91 2.031870 GTCCTAAATGTCATTGGGGCC 58.968 52.381 14.24 0.00 0.00 5.80
91 92 2.689983 CTGTCCTAAATGTCATTGGGGC 59.310 50.000 12.76 12.76 0.00 5.80
92 93 3.968265 ACTGTCCTAAATGTCATTGGGG 58.032 45.455 14.24 11.97 0.00 4.96
93 94 7.228706 GGTTATACTGTCCTAAATGTCATTGGG 59.771 40.741 0.00 5.30 0.00 4.12
94 95 7.042051 CGGTTATACTGTCCTAAATGTCATTGG 60.042 40.741 0.00 0.00 0.00 3.16
95 96 7.709182 TCGGTTATACTGTCCTAAATGTCATTG 59.291 37.037 0.00 0.00 0.00 2.82
96 97 7.788026 TCGGTTATACTGTCCTAAATGTCATT 58.212 34.615 0.00 0.00 0.00 2.57
97 98 7.356089 TCGGTTATACTGTCCTAAATGTCAT 57.644 36.000 0.00 0.00 0.00 3.06
98 99 6.682113 GCTCGGTTATACTGTCCTAAATGTCA 60.682 42.308 0.00 0.00 0.00 3.58
99 100 5.690857 GCTCGGTTATACTGTCCTAAATGTC 59.309 44.000 0.00 0.00 0.00 3.06
100 101 5.452917 GGCTCGGTTATACTGTCCTAAATGT 60.453 44.000 0.00 0.00 0.00 2.71
101 102 4.989168 GGCTCGGTTATACTGTCCTAAATG 59.011 45.833 0.00 0.00 0.00 2.32
102 103 4.900054 AGGCTCGGTTATACTGTCCTAAAT 59.100 41.667 0.00 0.00 30.87 1.40
103 104 4.284178 AGGCTCGGTTATACTGTCCTAAA 58.716 43.478 0.00 0.00 30.87 1.85
104 105 3.907221 AGGCTCGGTTATACTGTCCTAA 58.093 45.455 0.00 0.00 30.87 2.69
105 106 3.589951 AGGCTCGGTTATACTGTCCTA 57.410 47.619 0.00 0.00 30.87 2.94
106 107 2.456073 AGGCTCGGTTATACTGTCCT 57.544 50.000 0.00 0.00 0.00 3.85
107 108 4.501058 CCTTTAGGCTCGGTTATACTGTCC 60.501 50.000 0.00 0.00 0.00 4.02
108 109 4.501058 CCCTTTAGGCTCGGTTATACTGTC 60.501 50.000 0.00 0.00 0.00 3.51
109 110 3.387050 CCCTTTAGGCTCGGTTATACTGT 59.613 47.826 0.00 0.00 0.00 3.55
110 111 3.387050 ACCCTTTAGGCTCGGTTATACTG 59.613 47.826 0.00 0.00 40.58 2.74
111 112 3.387050 CACCCTTTAGGCTCGGTTATACT 59.613 47.826 0.00 0.00 40.58 2.12
112 113 3.725490 CACCCTTTAGGCTCGGTTATAC 58.275 50.000 0.00 0.00 40.58 1.47
113 114 2.103601 GCACCCTTTAGGCTCGGTTATA 59.896 50.000 0.00 0.00 40.58 0.98
114 115 1.134189 GCACCCTTTAGGCTCGGTTAT 60.134 52.381 0.00 0.00 40.58 1.89
115 116 0.251073 GCACCCTTTAGGCTCGGTTA 59.749 55.000 0.00 0.00 40.58 2.85
116 117 1.002502 GCACCCTTTAGGCTCGGTT 60.003 57.895 0.00 0.00 40.58 4.44
117 118 1.900545 GAGCACCCTTTAGGCTCGGT 61.901 60.000 0.00 0.00 43.83 4.69
118 119 1.153349 GAGCACCCTTTAGGCTCGG 60.153 63.158 0.00 0.00 43.83 4.63
119 120 4.522971 GAGCACCCTTTAGGCTCG 57.477 61.111 0.00 0.00 43.83 5.03
121 122 1.199615 GAGAGAGCACCCTTTAGGCT 58.800 55.000 0.00 0.00 40.58 4.58
122 123 0.905357 TGAGAGAGCACCCTTTAGGC 59.095 55.000 0.00 0.00 40.58 3.93
123 124 2.977772 CTGAGAGAGCACCCTTTAGG 57.022 55.000 0.00 0.00 43.78 2.69
133 134 1.297664 ATGCAAATCGCTGAGAGAGC 58.702 50.000 0.00 0.00 45.20 4.09
134 135 3.622163 AGAAATGCAAATCGCTGAGAGAG 59.378 43.478 0.00 0.00 43.06 3.20
135 136 3.373130 CAGAAATGCAAATCGCTGAGAGA 59.627 43.478 0.00 0.00 43.06 3.10
136 137 3.373130 TCAGAAATGCAAATCGCTGAGAG 59.627 43.478 0.00 0.00 43.06 3.20
137 138 3.125829 GTCAGAAATGCAAATCGCTGAGA 59.874 43.478 0.00 0.00 43.06 3.27
138 139 3.423571 GTCAGAAATGCAAATCGCTGAG 58.576 45.455 0.00 0.00 43.06 3.35
139 140 2.162208 GGTCAGAAATGCAAATCGCTGA 59.838 45.455 0.00 0.00 43.06 4.26
140 141 2.523015 GGTCAGAAATGCAAATCGCTG 58.477 47.619 0.00 0.00 43.06 5.18
141 142 1.131126 CGGTCAGAAATGCAAATCGCT 59.869 47.619 0.00 0.00 43.06 4.93
142 143 1.135689 ACGGTCAGAAATGCAAATCGC 60.136 47.619 0.00 0.00 42.89 4.58
143 144 2.416547 AGACGGTCAGAAATGCAAATCG 59.583 45.455 11.27 0.00 0.00 3.34
144 145 3.436704 TCAGACGGTCAGAAATGCAAATC 59.563 43.478 11.27 0.00 0.00 2.17
145 146 3.411446 TCAGACGGTCAGAAATGCAAAT 58.589 40.909 11.27 0.00 0.00 2.32
146 147 2.844946 TCAGACGGTCAGAAATGCAAA 58.155 42.857 11.27 0.00 0.00 3.68
147 148 2.542020 TCAGACGGTCAGAAATGCAA 57.458 45.000 11.27 0.00 0.00 4.08
148 149 2.768253 ATCAGACGGTCAGAAATGCA 57.232 45.000 11.27 0.00 0.00 3.96
149 150 3.426695 CCAAATCAGACGGTCAGAAATGC 60.427 47.826 11.27 0.00 0.00 3.56
150 151 3.426695 GCCAAATCAGACGGTCAGAAATG 60.427 47.826 11.27 10.57 0.00 2.32
151 152 2.749621 GCCAAATCAGACGGTCAGAAAT 59.250 45.455 11.27 0.00 0.00 2.17
152 153 2.151202 GCCAAATCAGACGGTCAGAAA 58.849 47.619 11.27 0.00 0.00 2.52
153 154 1.808411 GCCAAATCAGACGGTCAGAA 58.192 50.000 11.27 0.00 0.00 3.02
154 155 0.389817 CGCCAAATCAGACGGTCAGA 60.390 55.000 11.27 8.39 0.00 3.27
155 156 0.389817 TCGCCAAATCAGACGGTCAG 60.390 55.000 11.27 2.08 0.00 3.51
156 157 0.249120 ATCGCCAAATCAGACGGTCA 59.751 50.000 11.27 0.00 0.00 4.02
157 158 0.931005 GATCGCCAAATCAGACGGTC 59.069 55.000 0.00 0.00 0.00 4.79
158 159 0.537188 AGATCGCCAAATCAGACGGT 59.463 50.000 0.00 0.00 0.00 4.83
159 160 2.398498 CTAGATCGCCAAATCAGACGG 58.602 52.381 0.00 0.00 0.00 4.79
160 161 2.398498 CCTAGATCGCCAAATCAGACG 58.602 52.381 0.00 0.00 0.00 4.18
161 162 2.139118 GCCTAGATCGCCAAATCAGAC 58.861 52.381 0.00 0.00 0.00 3.51
162 163 1.762370 TGCCTAGATCGCCAAATCAGA 59.238 47.619 0.00 0.00 0.00 3.27
163 164 2.245159 TGCCTAGATCGCCAAATCAG 57.755 50.000 0.00 0.00 0.00 2.90
164 165 2.369860 AGATGCCTAGATCGCCAAATCA 59.630 45.455 0.00 0.00 0.00 2.57
165 166 2.999355 GAGATGCCTAGATCGCCAAATC 59.001 50.000 0.00 0.00 0.00 2.17
166 167 2.636893 AGAGATGCCTAGATCGCCAAAT 59.363 45.455 0.00 0.00 0.00 2.32
167 168 2.042464 AGAGATGCCTAGATCGCCAAA 58.958 47.619 0.00 0.00 0.00 3.28
168 169 1.709578 AGAGATGCCTAGATCGCCAA 58.290 50.000 0.00 0.00 0.00 4.52
169 170 2.441410 CTAGAGATGCCTAGATCGCCA 58.559 52.381 0.00 0.00 38.68 5.69
170 171 1.134175 GCTAGAGATGCCTAGATCGCC 59.866 57.143 0.00 0.00 38.68 5.54
171 172 1.134175 GGCTAGAGATGCCTAGATCGC 59.866 57.143 0.00 0.00 46.38 4.58
179 180 1.528292 ATCCGACGGCTAGAGATGCC 61.528 60.000 9.66 0.00 46.42 4.40
180 181 0.109504 GATCCGACGGCTAGAGATGC 60.110 60.000 9.66 0.00 0.00 3.91
181 182 0.523966 GGATCCGACGGCTAGAGATG 59.476 60.000 9.66 0.00 0.00 2.90
182 183 0.609681 GGGATCCGACGGCTAGAGAT 60.610 60.000 9.66 0.00 0.00 2.75
183 184 1.228184 GGGATCCGACGGCTAGAGA 60.228 63.158 9.66 0.00 0.00 3.10
184 185 2.269529 GGGGATCCGACGGCTAGAG 61.270 68.421 9.66 0.00 0.00 2.43
185 186 1.421346 TAGGGGATCCGACGGCTAGA 61.421 60.000 9.66 0.00 38.33 2.43
186 187 0.323542 ATAGGGGATCCGACGGCTAG 60.324 60.000 9.66 0.00 38.33 3.42
187 188 0.323178 GATAGGGGATCCGACGGCTA 60.323 60.000 9.66 4.76 38.33 3.93
188 189 1.606889 GATAGGGGATCCGACGGCT 60.607 63.158 9.66 0.00 38.33 5.52
189 190 0.323178 TAGATAGGGGATCCGACGGC 60.323 60.000 9.66 0.00 38.33 5.68
190 191 1.271762 TGTAGATAGGGGATCCGACGG 60.272 57.143 7.84 7.84 38.33 4.79
191 192 2.085320 CTGTAGATAGGGGATCCGACG 58.915 57.143 5.45 0.00 38.33 5.12
192 193 1.819903 GCTGTAGATAGGGGATCCGAC 59.180 57.143 5.45 0.77 38.33 4.79
193 194 1.272536 GGCTGTAGATAGGGGATCCGA 60.273 57.143 5.45 0.00 38.33 4.55
194 195 1.187087 GGCTGTAGATAGGGGATCCG 58.813 60.000 5.45 0.00 38.33 4.18
195 196 1.187087 CGGCTGTAGATAGGGGATCC 58.813 60.000 1.92 1.92 34.80 3.36
196 197 1.819903 GACGGCTGTAGATAGGGGATC 59.180 57.143 0.00 0.00 34.40 3.36
197 198 1.429687 AGACGGCTGTAGATAGGGGAT 59.570 52.381 0.00 0.00 0.00 3.85
198 199 0.851469 AGACGGCTGTAGATAGGGGA 59.149 55.000 0.00 0.00 0.00 4.81
199 200 0.962489 CAGACGGCTGTAGATAGGGG 59.038 60.000 11.12 0.00 37.37 4.79
210 211 9.476928 AATATAATATCCTTAGTACAGACGGCT 57.523 33.333 0.00 0.00 0.00 5.52
223 224 9.187376 CCCTCCATCCCATAATATAATATCCTT 57.813 37.037 0.00 0.00 0.00 3.36
224 225 8.540278 TCCCTCCATCCCATAATATAATATCCT 58.460 37.037 0.00 0.00 0.00 3.24
225 226 8.757307 TCCCTCCATCCCATAATATAATATCC 57.243 38.462 0.00 0.00 0.00 2.59
226 227 9.398921 ACTCCCTCCATCCCATAATATAATATC 57.601 37.037 0.00 0.00 0.00 1.63
228 229 9.898576 CTACTCCCTCCATCCCATAATATAATA 57.101 37.037 0.00 0.00 0.00 0.98
229 230 8.362998 ACTACTCCCTCCATCCCATAATATAAT 58.637 37.037 0.00 0.00 0.00 1.28
243 244 2.185387 GGCTACAAACTACTCCCTCCA 58.815 52.381 0.00 0.00 0.00 3.86
315 316 9.525826 AATTCTCTTTGAGTCATCCATTAGTTT 57.474 29.630 0.00 0.00 0.00 2.66
1032 1266 3.939592 AGCTTGGTATTTCGGAAAGTAGC 59.060 43.478 9.30 11.52 0.00 3.58
1084 1318 5.730550 ACTAGAGACGGTGCATGAATTTAA 58.269 37.500 0.00 0.00 0.00 1.52
1153 1389 3.368323 CCAACTAATTCCATTGCCACACC 60.368 47.826 0.00 0.00 0.00 4.16
1257 1493 5.333581 TCACTCTTGATCTTCTTCCCTACA 58.666 41.667 0.00 0.00 0.00 2.74
1296 1532 4.241555 GCCGCCATCATCCGGTCT 62.242 66.667 0.00 0.00 45.98 3.85
1580 1816 5.244178 CGGAAGGGATAGAAGTAAGCTATGT 59.756 44.000 0.00 0.00 0.00 2.29
1603 1839 1.391485 CCAGTTCATTTCACGAGCTCG 59.609 52.381 33.45 33.45 46.33 5.03
1970 2209 6.070881 TCGATTTGGATTTGTGATTTTGGGAT 60.071 34.615 0.00 0.00 0.00 3.85
1981 2220 4.010349 GGGAGACTTCGATTTGGATTTGT 58.990 43.478 0.00 0.00 0.00 2.83
1982 2221 3.378427 GGGGAGACTTCGATTTGGATTTG 59.622 47.826 0.00 0.00 0.00 2.32
2024 2270 5.772825 AAGATGCACAAACATTGTACACT 57.227 34.783 0.00 0.00 43.23 3.55
2058 2304 9.349713 TCTCTCTTCAAATAAAAGTAAAAGGCA 57.650 29.630 0.00 0.00 0.00 4.75
2076 2322 3.223423 TGAAGTCACGCATCTCTCTTC 57.777 47.619 0.00 0.00 34.02 2.87
2122 2373 7.876068 TCATACGGATAGTTCAACTCAACTTTT 59.124 33.333 0.00 0.00 37.75 2.27
2123 2374 7.383687 TCATACGGATAGTTCAACTCAACTTT 58.616 34.615 0.00 0.00 37.75 2.66
2165 2416 0.442699 GCACTTCGATCGGTTCAACC 59.557 55.000 16.41 0.00 34.05 3.77
2197 2448 6.532365 ACGCGTTAAGTAGTACTATAGGAC 57.468 41.667 5.58 7.05 0.00 3.85
2200 2451 7.344910 AGCTACGCGTTAAGTAGTACTATAG 57.655 40.000 20.78 4.00 42.49 1.31
2201 2452 7.307396 CCAAGCTACGCGTTAAGTAGTACTATA 60.307 40.741 20.78 0.00 42.49 1.31
2205 2456 3.788163 CCAAGCTACGCGTTAAGTAGTAC 59.212 47.826 20.78 0.00 42.49 2.73
2208 2459 2.597305 CACCAAGCTACGCGTTAAGTAG 59.403 50.000 20.78 9.76 43.16 2.57
2665 2916 4.686554 AGAAGCTCACAGTTAACGCTAAAG 59.313 41.667 5.53 0.82 0.00 1.85
2666 2917 4.628074 AGAAGCTCACAGTTAACGCTAAA 58.372 39.130 5.53 0.00 0.00 1.85
2668 2919 3.936372 AGAAGCTCACAGTTAACGCTA 57.064 42.857 5.53 0.00 0.00 4.26
2669 2920 2.821991 AGAAGCTCACAGTTAACGCT 57.178 45.000 0.00 0.00 0.00 5.07
2670 2921 3.545633 CAAAGAAGCTCACAGTTAACGC 58.454 45.455 0.00 0.00 0.00 4.84
2671 2922 3.807622 TCCAAAGAAGCTCACAGTTAACG 59.192 43.478 0.00 0.00 0.00 3.18
2672 2923 5.239525 ACATCCAAAGAAGCTCACAGTTAAC 59.760 40.000 0.00 0.00 0.00 2.01
2674 2925 4.973168 ACATCCAAAGAAGCTCACAGTTA 58.027 39.130 0.00 0.00 0.00 2.24
2680 2933 8.635765 AATTAAGTTACATCCAAAGAAGCTCA 57.364 30.769 0.00 0.00 0.00 4.26
2782 3037 2.823154 CTCCCCTGGACGCAAATTAAAA 59.177 45.455 0.00 0.00 0.00 1.52
2792 3047 1.450312 GCATGAACTCCCCTGGACG 60.450 63.158 0.00 0.00 0.00 4.79
2886 3141 9.983804 CTTATAATTCAAAACGGAAGGAGTAAC 57.016 33.333 0.00 0.00 0.00 2.50
2939 3194 5.936054 ACTATAACGCGTGTCTATACATCC 58.064 41.667 14.98 0.00 38.08 3.51
2952 3207 6.034150 TGAGTGAACAAACATACTATAACGCG 59.966 38.462 3.53 3.53 0.00 6.01
2963 3218 6.319658 ACAGACTGAAATGAGTGAACAAACAT 59.680 34.615 10.08 0.00 0.00 2.71
2971 3226 7.363007 GGACTACATACAGACTGAAATGAGTGA 60.363 40.741 21.47 8.83 0.00 3.41
2991 3246 5.992217 CCTATTCCTATGCTTGTTGGACTAC 59.008 44.000 0.00 0.00 0.00 2.73
3024 3393 2.434336 GGAGTAGGGTGTATCATGTGCA 59.566 50.000 0.00 0.00 0.00 4.57
3036 3405 3.309296 CACACCTCATATGGAGTAGGGT 58.691 50.000 11.71 5.29 42.40 4.34
3069 3438 5.698104 TCCCATATGCAAAGATCTCAATGT 58.302 37.500 0.00 0.00 0.00 2.71
3090 3459 0.536915 GAAGAGAGCCCCATGCATCC 60.537 60.000 0.00 0.00 44.83 3.51
3293 3662 6.817765 AGACAAACGGTTCACATGATATTT 57.182 33.333 0.00 0.00 0.00 1.40
3362 3731 2.894126 ACAGTTGTGGACAGAGGAGTAG 59.106 50.000 0.00 0.00 0.00 2.57
3369 3738 5.070446 AGTCAAATCTACAGTTGTGGACAGA 59.930 40.000 0.16 0.00 38.35 3.41
3407 3776 6.030228 GCATTACTAGTCAAAATCTTGCACC 58.970 40.000 0.00 0.00 32.14 5.01
3590 3959 1.300931 CACCATGGGATCTACGCCG 60.301 63.158 18.09 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.