Multiple sequence alignment - TraesCS1D01G296200

Loading Multiple Alignment...

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 TraesCS1D01G296200 chr1D 100.000 2463 0 0 1 2463 394402508 394404970 0.000000e+00 4549
1 TraesCS1D01G296200 chr6D 95.837 2138 76 9 328 2463 380132545 380130419 0.000000e+00 3443
2 TraesCS1D01G296200 chr6D 95.043 1977 91 7 490 2462 8984286 8982313 0.000000e+00 3101
3 TraesCS1D01G296200 chr7D 94.329 2222 103 14 253 2463 203174047 203176256 0.000000e+00 3384
4 TraesCS1D01G296200 chr7D 95.192 1976 89 6 490 2462 618425407 618427379 0.000000e+00 3118
5 TraesCS1D01G296200 chr7D 91.321 265 20 3 249 511 167578979 167579242 2.330000e-95 359
6 TraesCS1D01G296200 chr7B 93.318 2215 140 6 254 2463 79030482 79032693 0.000000e+00 3264
7 TraesCS1D01G296200 chr7B 94.795 1979 94 9 489 2462 500735991 500737965 0.000000e+00 3075
8 TraesCS1D01G296200 chr6B 93.225 2214 134 14 255 2462 695814136 695816339 0.000000e+00 3243
9 TraesCS1D01G296200 chr3D 91.964 2215 167 11 254 2463 21222263 21224471 0.000000e+00 3094
10 TraesCS1D01G296200 chr3D 94.929 1972 95 5 490 2459 64343281 64341313 0.000000e+00 3083
11 TraesCS1D01G296200 chr3B 91.140 1693 127 10 255 1947 173242223 173240554 0.000000e+00 2274
12 TraesCS1D01G296200 chr2D 91.997 1512 95 7 254 1758 6991212 6989720 0.000000e+00 2098
13 TraesCS1D01G296200 chr7A 86.269 335 40 6 252 584 729017313 729017643 2.330000e-95 359
14 TraesCS1D01G296200 chr4B 87.336 229 23 3 1 223 326096705 326096477 8.740000e-65 257


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 TraesCS1D01G296200 chr1D 394402508 394404970 2462 False 4549 4549 100.000 1 2463 1 chr1D.!!$F1 2462
1 TraesCS1D01G296200 chr6D 380130419 380132545 2126 True 3443 3443 95.837 328 2463 1 chr6D.!!$R2 2135
2 TraesCS1D01G296200 chr6D 8982313 8984286 1973 True 3101 3101 95.043 490 2462 1 chr6D.!!$R1 1972
3 TraesCS1D01G296200 chr7D 203174047 203176256 2209 False 3384 3384 94.329 253 2463 1 chr7D.!!$F2 2210
4 TraesCS1D01G296200 chr7D 618425407 618427379 1972 False 3118 3118 95.192 490 2462 1 chr7D.!!$F3 1972
5 TraesCS1D01G296200 chr7B 79030482 79032693 2211 False 3264 3264 93.318 254 2463 1 chr7B.!!$F1 2209
6 TraesCS1D01G296200 chr7B 500735991 500737965 1974 False 3075 3075 94.795 489 2462 1 chr7B.!!$F2 1973
7 TraesCS1D01G296200 chr6B 695814136 695816339 2203 False 3243 3243 93.225 255 2462 1 chr6B.!!$F1 2207
8 TraesCS1D01G296200 chr3D 21222263 21224471 2208 False 3094 3094 91.964 254 2463 1 chr3D.!!$F1 2209
9 TraesCS1D01G296200 chr3D 64341313 64343281 1968 True 3083 3083 94.929 490 2459 1 chr3D.!!$R1 1969
10 TraesCS1D01G296200 chr3B 173240554 173242223 1669 True 2274 2274 91.140 255 1947 1 chr3B.!!$R1 1692
11 TraesCS1D01G296200 chr2D 6989720 6991212 1492 True 2098 2098 91.997 254 1758 1 chr2D.!!$R1 1504

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
194 195 0.10852 GGCATCCGTCCGTTGAGTTA 60.109 55.0 0.0 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1732 1791 0.108138 CGTGAACCCCTCCTCATCAC 60.108 60.0 0.0 0.0 37.6 3.06 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 2.756400 TTGGGGTGAGCGCAATCT 59.244 55.556 11.47 0.00 0.00 2.40
18 19 1.675310 TTGGGGTGAGCGCAATCTG 60.675 57.895 11.47 0.00 0.00 2.90
19 20 2.825836 GGGGTGAGCGCAATCTGG 60.826 66.667 11.47 0.00 0.00 3.86
20 21 2.268920 GGGTGAGCGCAATCTGGA 59.731 61.111 11.47 0.00 0.00 3.86
21 22 2.109126 GGGTGAGCGCAATCTGGAC 61.109 63.158 11.47 0.00 0.00 4.02
22 23 2.456119 GGTGAGCGCAATCTGGACG 61.456 63.158 11.47 0.00 0.00 4.79
23 24 1.738099 GTGAGCGCAATCTGGACGT 60.738 57.895 11.47 0.00 0.00 4.34
24 25 0.457853 GTGAGCGCAATCTGGACGTA 60.458 55.000 11.47 0.00 0.00 3.57
25 26 0.245266 TGAGCGCAATCTGGACGTAA 59.755 50.000 11.47 0.00 0.00 3.18
26 27 1.134818 TGAGCGCAATCTGGACGTAAT 60.135 47.619 11.47 0.00 0.00 1.89
27 28 2.100087 TGAGCGCAATCTGGACGTAATA 59.900 45.455 11.47 0.00 0.00 0.98
28 29 3.120792 GAGCGCAATCTGGACGTAATAA 58.879 45.455 11.47 0.00 0.00 1.40
29 30 3.123804 AGCGCAATCTGGACGTAATAAG 58.876 45.455 11.47 0.00 0.00 1.73
30 31 2.348591 GCGCAATCTGGACGTAATAAGC 60.349 50.000 0.30 0.00 0.00 3.09
31 32 3.123804 CGCAATCTGGACGTAATAAGCT 58.876 45.455 0.00 0.00 0.00 3.74
32 33 3.555956 CGCAATCTGGACGTAATAAGCTT 59.444 43.478 3.48 3.48 0.00 3.74
33 34 4.550831 CGCAATCTGGACGTAATAAGCTTG 60.551 45.833 9.86 0.00 0.00 4.01
34 35 4.332819 GCAATCTGGACGTAATAAGCTTGT 59.667 41.667 9.86 0.00 0.00 3.16
35 36 5.502544 GCAATCTGGACGTAATAAGCTTGTC 60.503 44.000 9.86 7.28 0.00 3.18
36 37 3.766151 TCTGGACGTAATAAGCTTGTCG 58.234 45.455 9.86 5.98 0.00 4.35
37 38 2.858344 CTGGACGTAATAAGCTTGTCGG 59.142 50.000 9.86 0.00 0.00 4.79
38 39 2.231964 TGGACGTAATAAGCTTGTCGGT 59.768 45.455 9.86 1.25 0.00 4.69
39 40 2.601763 GGACGTAATAAGCTTGTCGGTG 59.398 50.000 9.86 0.00 0.00 4.94
40 41 3.504863 GACGTAATAAGCTTGTCGGTGA 58.495 45.455 9.86 0.00 0.00 4.02
41 42 3.248266 ACGTAATAAGCTTGTCGGTGAC 58.752 45.455 9.86 0.00 0.00 3.67
42 43 3.247442 CGTAATAAGCTTGTCGGTGACA 58.753 45.455 9.86 0.00 41.09 3.58
50 51 1.847818 TTGTCGGTGACAAGAACGAG 58.152 50.000 8.21 0.00 45.88 4.18
51 52 1.026584 TGTCGGTGACAAGAACGAGA 58.973 50.000 0.00 0.00 39.78 4.04
52 53 1.406180 TGTCGGTGACAAGAACGAGAA 59.594 47.619 0.00 0.00 39.78 2.87
53 54 1.785430 GTCGGTGACAAGAACGAGAAC 59.215 52.381 0.00 0.00 35.88 3.01
54 55 0.776451 CGGTGACAAGAACGAGAACG 59.224 55.000 0.00 0.00 45.75 3.95
55 56 1.598676 CGGTGACAAGAACGAGAACGA 60.599 52.381 0.00 0.00 42.66 3.85
56 57 2.052157 GGTGACAAGAACGAGAACGAG 58.948 52.381 0.00 0.00 42.66 4.18
57 58 2.052157 GTGACAAGAACGAGAACGAGG 58.948 52.381 0.00 0.00 42.66 4.63
58 59 1.679680 TGACAAGAACGAGAACGAGGT 59.320 47.619 0.00 0.00 42.66 3.85
59 60 2.052157 GACAAGAACGAGAACGAGGTG 58.948 52.381 0.00 0.00 42.66 4.00
60 61 1.269621 ACAAGAACGAGAACGAGGTGG 60.270 52.381 0.00 0.00 42.66 4.61
61 62 0.319641 AAGAACGAGAACGAGGTGGC 60.320 55.000 0.00 0.00 42.66 5.01
62 63 1.737008 GAACGAGAACGAGGTGGCC 60.737 63.158 0.00 0.00 42.66 5.36
63 64 3.569049 AACGAGAACGAGGTGGCCG 62.569 63.158 0.00 0.00 42.66 6.13
64 65 4.796231 CGAGAACGAGGTGGCCGG 62.796 72.222 0.00 0.00 42.66 6.13
70 71 4.473520 CGAGGTGGCCGGCAGATT 62.474 66.667 30.85 10.95 0.00 2.40
71 72 2.044946 GAGGTGGCCGGCAGATTT 60.045 61.111 30.85 9.28 0.00 2.17
72 73 1.678970 GAGGTGGCCGGCAGATTTT 60.679 57.895 30.85 8.04 0.00 1.82
73 74 1.657751 GAGGTGGCCGGCAGATTTTC 61.658 60.000 30.85 13.61 0.00 2.29
74 75 2.710902 GGTGGCCGGCAGATTTTCC 61.711 63.158 30.85 14.54 0.00 3.13
75 76 1.976474 GTGGCCGGCAGATTTTCCA 60.976 57.895 30.85 11.59 0.00 3.53
76 77 1.678635 TGGCCGGCAGATTTTCCAG 60.679 57.895 30.85 0.00 0.00 3.86
77 78 2.418083 GGCCGGCAGATTTTCCAGG 61.418 63.158 30.85 0.00 0.00 4.45
78 79 1.678970 GCCGGCAGATTTTCCAGGT 60.679 57.895 24.80 0.00 0.00 4.00
79 80 0.393808 GCCGGCAGATTTTCCAGGTA 60.394 55.000 24.80 0.00 0.00 3.08
80 81 1.379527 CCGGCAGATTTTCCAGGTAC 58.620 55.000 0.00 0.00 0.00 3.34
81 82 1.339631 CCGGCAGATTTTCCAGGTACA 60.340 52.381 0.00 0.00 0.00 2.90
82 83 1.737793 CGGCAGATTTTCCAGGTACAC 59.262 52.381 0.00 0.00 0.00 2.90
83 84 1.737793 GGCAGATTTTCCAGGTACACG 59.262 52.381 0.00 0.00 0.00 4.49
84 85 2.614481 GGCAGATTTTCCAGGTACACGA 60.614 50.000 0.00 0.00 0.00 4.35
85 86 2.673368 GCAGATTTTCCAGGTACACGAG 59.327 50.000 0.00 0.00 0.00 4.18
86 87 3.616560 GCAGATTTTCCAGGTACACGAGA 60.617 47.826 0.00 0.00 0.00 4.04
87 88 4.177026 CAGATTTTCCAGGTACACGAGAG 58.823 47.826 0.00 0.00 0.00 3.20
88 89 4.082190 CAGATTTTCCAGGTACACGAGAGA 60.082 45.833 0.00 0.00 0.00 3.10
89 90 4.527038 AGATTTTCCAGGTACACGAGAGAA 59.473 41.667 0.00 0.00 0.00 2.87
90 91 4.675976 TTTTCCAGGTACACGAGAGAAA 57.324 40.909 0.00 0.00 0.00 2.52
91 92 4.675976 TTTCCAGGTACACGAGAGAAAA 57.324 40.909 0.00 0.00 0.00 2.29
92 93 3.655276 TCCAGGTACACGAGAGAAAAC 57.345 47.619 0.00 0.00 0.00 2.43
93 94 2.298163 TCCAGGTACACGAGAGAAAACC 59.702 50.000 0.00 0.00 0.00 3.27
94 95 2.325761 CAGGTACACGAGAGAAAACCG 58.674 52.381 0.00 0.00 35.59 4.44
95 96 1.271656 AGGTACACGAGAGAAAACCGG 59.728 52.381 0.00 0.00 35.59 5.28
96 97 1.270550 GGTACACGAGAGAAAACCGGA 59.729 52.381 9.46 0.00 0.00 5.14
97 98 2.323059 GTACACGAGAGAAAACCGGAC 58.677 52.381 9.46 0.00 0.00 4.79
98 99 1.038280 ACACGAGAGAAAACCGGACT 58.962 50.000 9.46 1.07 0.00 3.85
99 100 2.233271 ACACGAGAGAAAACCGGACTA 58.767 47.619 9.46 0.00 0.00 2.59
100 101 2.624838 ACACGAGAGAAAACCGGACTAA 59.375 45.455 9.46 0.00 0.00 2.24
101 102 3.257624 ACACGAGAGAAAACCGGACTAAT 59.742 43.478 9.46 0.00 0.00 1.73
102 103 4.243270 CACGAGAGAAAACCGGACTAATT 58.757 43.478 9.46 0.00 0.00 1.40
103 104 4.689345 CACGAGAGAAAACCGGACTAATTT 59.311 41.667 9.46 0.68 0.00 1.82
104 105 4.689345 ACGAGAGAAAACCGGACTAATTTG 59.311 41.667 9.46 0.00 0.00 2.32
105 106 4.435651 CGAGAGAAAACCGGACTAATTTGC 60.436 45.833 9.46 0.00 0.00 3.68
106 107 3.435671 AGAGAAAACCGGACTAATTTGCG 59.564 43.478 9.46 0.00 0.00 4.85
107 108 3.404899 AGAAAACCGGACTAATTTGCGA 58.595 40.909 9.46 0.00 30.79 5.10
108 109 3.435671 AGAAAACCGGACTAATTTGCGAG 59.564 43.478 9.46 0.00 30.79 5.03
109 110 2.754946 AACCGGACTAATTTGCGAGA 57.245 45.000 9.46 0.00 30.79 4.04
110 111 2.295253 ACCGGACTAATTTGCGAGAG 57.705 50.000 9.46 0.00 30.79 3.20
111 112 1.822990 ACCGGACTAATTTGCGAGAGA 59.177 47.619 9.46 0.00 30.79 3.10
112 113 2.232941 ACCGGACTAATTTGCGAGAGAA 59.767 45.455 9.46 0.00 30.79 2.87
113 114 3.259064 CCGGACTAATTTGCGAGAGAAA 58.741 45.455 0.00 0.00 30.79 2.52
114 115 3.871594 CCGGACTAATTTGCGAGAGAAAT 59.128 43.478 0.00 0.00 30.79 2.17
115 116 5.047847 CCGGACTAATTTGCGAGAGAAATA 58.952 41.667 0.00 0.00 30.79 1.40
116 117 5.050972 CCGGACTAATTTGCGAGAGAAATAC 60.051 44.000 0.00 0.00 30.79 1.89
117 118 5.050972 CGGACTAATTTGCGAGAGAAATACC 60.051 44.000 0.00 0.00 30.79 2.73
118 119 5.815740 GGACTAATTTGCGAGAGAAATACCA 59.184 40.000 0.00 0.00 0.00 3.25
119 120 6.238130 GGACTAATTTGCGAGAGAAATACCAC 60.238 42.308 0.00 0.00 0.00 4.16
120 121 4.965119 AATTTGCGAGAGAAATACCACC 57.035 40.909 0.00 0.00 0.00 4.61
121 122 3.410631 TTTGCGAGAGAAATACCACCA 57.589 42.857 0.00 0.00 0.00 4.17
122 123 3.627395 TTGCGAGAGAAATACCACCAT 57.373 42.857 0.00 0.00 0.00 3.55
123 124 3.179443 TGCGAGAGAAATACCACCATC 57.821 47.619 0.00 0.00 0.00 3.51
124 125 2.128035 GCGAGAGAAATACCACCATCG 58.872 52.381 0.00 0.00 0.00 3.84
125 126 2.743938 CGAGAGAAATACCACCATCGG 58.256 52.381 0.00 0.00 0.00 4.18
126 127 2.484889 GAGAGAAATACCACCATCGGC 58.515 52.381 0.00 0.00 0.00 5.54
127 128 1.202533 AGAGAAATACCACCATCGGCG 60.203 52.381 0.00 0.00 0.00 6.46
128 129 0.179056 AGAAATACCACCATCGGCGG 60.179 55.000 7.21 0.00 0.00 6.13
129 130 0.179067 GAAATACCACCATCGGCGGA 60.179 55.000 7.21 0.00 0.00 5.54
130 131 0.472471 AAATACCACCATCGGCGGAT 59.528 50.000 7.21 0.04 0.00 4.18
151 152 3.423344 TTTTTAGCAGTCCCGCCAA 57.577 47.368 0.00 0.00 0.00 4.52
152 153 1.243902 TTTTTAGCAGTCCCGCCAAG 58.756 50.000 0.00 0.00 0.00 3.61
153 154 0.398696 TTTTAGCAGTCCCGCCAAGA 59.601 50.000 0.00 0.00 0.00 3.02
154 155 0.321298 TTTAGCAGTCCCGCCAAGAC 60.321 55.000 0.00 0.00 34.31 3.01
155 156 1.476845 TTAGCAGTCCCGCCAAGACA 61.477 55.000 0.00 0.00 36.68 3.41
156 157 1.476845 TAGCAGTCCCGCCAAGACAA 61.477 55.000 0.00 0.00 36.68 3.18
157 158 2.617274 GCAGTCCCGCCAAGACAAC 61.617 63.158 0.00 0.00 36.68 3.32
158 159 1.227823 CAGTCCCGCCAAGACAACA 60.228 57.895 0.00 0.00 36.68 3.33
159 160 0.606401 CAGTCCCGCCAAGACAACAT 60.606 55.000 0.00 0.00 36.68 2.71
160 161 0.606401 AGTCCCGCCAAGACAACATG 60.606 55.000 0.00 0.00 36.68 3.21
161 162 0.605319 GTCCCGCCAAGACAACATGA 60.605 55.000 0.00 0.00 34.27 3.07
162 163 0.605319 TCCCGCCAAGACAACATGAC 60.605 55.000 0.00 0.00 0.00 3.06
163 164 1.497278 CCGCCAAGACAACATGACG 59.503 57.895 0.00 0.00 0.00 4.35
164 165 1.227999 CCGCCAAGACAACATGACGT 61.228 55.000 0.00 0.00 0.00 4.34
165 166 0.586319 CGCCAAGACAACATGACGTT 59.414 50.000 0.00 0.00 38.83 3.99
166 167 1.002900 CGCCAAGACAACATGACGTTT 60.003 47.619 0.00 0.00 34.86 3.60
167 168 2.540769 CGCCAAGACAACATGACGTTTT 60.541 45.455 0.00 0.00 34.86 2.43
168 169 2.788786 GCCAAGACAACATGACGTTTTG 59.211 45.455 0.00 7.55 34.86 2.44
169 170 2.788786 CCAAGACAACATGACGTTTTGC 59.211 45.455 0.00 0.00 34.86 3.68
171 172 0.770008 GACAACATGACGTTTTGCGC 59.230 50.000 0.00 0.00 46.11 6.09
172 173 0.593773 ACAACATGACGTTTTGCGCC 60.594 50.000 4.18 0.00 46.11 6.53
173 174 0.593518 CAACATGACGTTTTGCGCCA 60.594 50.000 4.18 0.00 46.11 5.69
174 175 0.313672 AACATGACGTTTTGCGCCAT 59.686 45.000 4.18 0.00 44.30 4.40
175 176 4.866088 ATGACGTTTTGCGCCATG 57.134 50.000 4.18 0.00 41.96 3.66
176 177 1.212490 ATGACGTTTTGCGCCATGG 59.788 52.632 7.63 7.63 41.96 3.66
177 178 2.804931 GACGTTTTGCGCCATGGC 60.805 61.111 27.67 27.67 46.11 4.40
178 179 3.550339 GACGTTTTGCGCCATGGCA 62.550 57.895 34.93 15.49 46.11 4.92
179 180 2.125991 CGTTTTGCGCCATGGCAT 60.126 55.556 34.93 0.00 43.52 4.40
180 181 2.160221 CGTTTTGCGCCATGGCATC 61.160 57.895 34.93 25.25 43.52 3.91
181 182 1.810853 GTTTTGCGCCATGGCATCC 60.811 57.895 34.93 22.30 43.52 3.51
182 183 3.353770 TTTTGCGCCATGGCATCCG 62.354 57.895 34.93 20.21 43.52 4.18
187 188 4.856801 GCCATGGCATCCGTCCGT 62.857 66.667 32.08 0.00 41.49 4.69
188 189 2.124736 CCATGGCATCCGTCCGTT 60.125 61.111 0.00 0.00 0.00 4.44
189 190 2.472059 CCATGGCATCCGTCCGTTG 61.472 63.158 0.00 0.00 0.00 4.10
190 191 1.449423 CATGGCATCCGTCCGTTGA 60.449 57.895 0.00 0.00 0.00 3.18
191 192 1.153369 ATGGCATCCGTCCGTTGAG 60.153 57.895 0.00 0.00 0.00 3.02
192 193 1.899437 ATGGCATCCGTCCGTTGAGT 61.899 55.000 0.00 0.00 0.00 3.41
193 194 1.375523 GGCATCCGTCCGTTGAGTT 60.376 57.895 0.00 0.00 0.00 3.01
194 195 0.108520 GGCATCCGTCCGTTGAGTTA 60.109 55.000 0.00 0.00 0.00 2.24
195 196 1.278238 GCATCCGTCCGTTGAGTTAG 58.722 55.000 0.00 0.00 0.00 2.34
196 197 1.278238 CATCCGTCCGTTGAGTTAGC 58.722 55.000 0.00 0.00 0.00 3.09
197 198 0.179145 ATCCGTCCGTTGAGTTAGCG 60.179 55.000 0.00 0.00 0.00 4.26
198 199 1.210931 CCGTCCGTTGAGTTAGCGA 59.789 57.895 0.00 0.00 34.68 4.93
199 200 0.387622 CCGTCCGTTGAGTTAGCGAA 60.388 55.000 0.00 0.00 34.68 4.70
200 201 1.411394 CGTCCGTTGAGTTAGCGAAA 58.589 50.000 0.00 0.00 34.68 3.46
201 202 1.788308 CGTCCGTTGAGTTAGCGAAAA 59.212 47.619 0.00 0.00 34.68 2.29
202 203 2.219216 CGTCCGTTGAGTTAGCGAAAAA 59.781 45.455 0.00 0.00 34.68 1.94
203 204 3.120786 CGTCCGTTGAGTTAGCGAAAAAT 60.121 43.478 0.00 0.00 34.68 1.82
204 205 4.148891 GTCCGTTGAGTTAGCGAAAAATG 58.851 43.478 0.00 0.00 34.68 2.32
205 206 3.187637 TCCGTTGAGTTAGCGAAAAATGG 59.812 43.478 0.00 3.95 34.68 3.16
206 207 2.908626 CGTTGAGTTAGCGAAAAATGGC 59.091 45.455 0.00 0.00 34.68 4.40
207 208 2.892373 TGAGTTAGCGAAAAATGGCG 57.108 45.000 0.00 0.00 0.00 5.69
208 209 1.466950 TGAGTTAGCGAAAAATGGCGG 59.533 47.619 0.00 0.00 0.00 6.13
209 210 0.170339 AGTTAGCGAAAAATGGCGGC 59.830 50.000 0.00 0.00 0.00 6.53
210 211 1.131618 GTTAGCGAAAAATGGCGGCG 61.132 55.000 0.51 0.51 0.00 6.46
213 214 2.875711 CGAAAAATGGCGGCGCAG 60.876 61.111 34.36 6.41 0.00 5.18
234 235 2.154007 GCTTCTGCTATACAATCGTCGC 59.846 50.000 0.00 0.00 36.03 5.19
235 236 2.032414 TCTGCTATACAATCGTCGCG 57.968 50.000 0.00 0.00 0.00 5.87
236 237 0.431233 CTGCTATACAATCGTCGCGC 59.569 55.000 0.00 0.00 0.00 6.86
237 238 0.248702 TGCTATACAATCGTCGCGCA 60.249 50.000 8.75 0.00 0.00 6.09
238 239 0.158928 GCTATACAATCGTCGCGCAC 59.841 55.000 8.75 3.87 0.00 5.34
241 242 2.877360 ATACAATCGTCGCGCACGGT 62.877 55.000 24.69 18.73 46.80 4.83
242 243 4.191485 CAATCGTCGCGCACGGTC 62.191 66.667 24.69 3.95 42.72 4.79
401 404 1.210931 CCGTTGTCTTAGGCGTCGA 59.789 57.895 0.00 0.00 0.00 4.20
523 528 3.183775 CACTTAGGCGTCACACTTGTAAC 59.816 47.826 0.00 0.00 0.00 2.50
554 559 1.196808 CGTTTCTTAGGCGTTGCACAT 59.803 47.619 0.00 0.00 0.00 3.21
640 678 1.356398 CCACCCAAACCCTTAGCCTTA 59.644 52.381 0.00 0.00 0.00 2.69
689 731 4.574013 CCCTCTCAAATCCTTCTCAAATCG 59.426 45.833 0.00 0.00 0.00 3.34
876 920 9.624697 TGAATCATGTTATGTTTCTTTGCTAAC 57.375 29.630 11.63 0.00 38.91 2.34
1265 1320 2.031683 CCAAGTGACGTTGTTGAGTTCC 59.968 50.000 6.96 0.00 0.00 3.62
1302 1357 4.125703 GTTGGTTTTGAAATGCACATCCA 58.874 39.130 0.00 0.00 0.00 3.41
1400 1455 2.685388 GCTCTTGAGTTATTTGCCTCCC 59.315 50.000 0.00 0.00 0.00 4.30
1432 1487 7.517614 TGTGTCTACTTTGCATTTGGATTTA 57.482 32.000 0.00 0.00 0.00 1.40
1441 1496 4.561105 TGCATTTGGATTTAAACCGGAAC 58.439 39.130 9.46 0.00 0.00 3.62
1454 1509 2.285592 GGAACCCCCTCCCCGTTA 60.286 66.667 0.00 0.00 0.00 3.18
1555 1611 1.960689 CCCGACTCCAAACAACCAAAT 59.039 47.619 0.00 0.00 0.00 2.32
1583 1642 5.647225 AGCTTTTGAAGAGGAGAATGATGAC 59.353 40.000 0.00 0.00 0.00 3.06
1587 1646 6.857437 TTGAAGAGGAGAATGATGACTACA 57.143 37.500 0.00 0.00 0.00 2.74
1664 1723 6.379133 ACCAATATCATGTGCAAGAGACAATT 59.621 34.615 0.00 0.00 0.00 2.32
1732 1791 1.539065 CGATGGTCCCGATGAAGAAGG 60.539 57.143 0.00 0.00 0.00 3.46
1891 1950 0.393132 GCTAGGCCAAGTTCTCACCC 60.393 60.000 5.01 0.00 0.00 4.61
1904 1963 4.290722 AGTTCTCACCCTGATTTGGAAGAT 59.709 41.667 0.00 0.00 0.00 2.40
2177 2236 0.512952 GCGAGCTTGTGTACCAACAG 59.487 55.000 2.14 0.00 35.91 3.16
2194 2253 1.407618 ACAGCACAGACAACTCACGTA 59.592 47.619 0.00 0.00 0.00 3.57
2209 2268 3.386486 TCACGTACGAGTTCATTGCTTT 58.614 40.909 24.41 0.00 0.00 3.51
2425 2484 1.178534 ACAAACCCAGGCATGGTTCG 61.179 55.000 17.55 3.39 45.23 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.675310 CAGATTGCGCTCACCCCAA 60.675 57.895 9.73 0.00 0.00 4.12
1 2 2.046023 CAGATTGCGCTCACCCCA 60.046 61.111 9.73 0.00 0.00 4.96
2 3 2.825836 CCAGATTGCGCTCACCCC 60.826 66.667 9.73 0.00 0.00 4.95
3 4 2.109126 GTCCAGATTGCGCTCACCC 61.109 63.158 9.73 0.00 0.00 4.61
4 5 2.456119 CGTCCAGATTGCGCTCACC 61.456 63.158 9.73 0.00 0.00 4.02
5 6 0.457853 TACGTCCAGATTGCGCTCAC 60.458 55.000 9.73 0.00 0.00 3.51
6 7 0.245266 TTACGTCCAGATTGCGCTCA 59.755 50.000 9.73 0.00 0.00 4.26
7 8 1.571919 ATTACGTCCAGATTGCGCTC 58.428 50.000 9.73 0.00 0.00 5.03
8 9 2.882927 TATTACGTCCAGATTGCGCT 57.117 45.000 9.73 0.00 0.00 5.92
9 10 2.348591 GCTTATTACGTCCAGATTGCGC 60.349 50.000 0.00 0.00 0.00 6.09
10 11 3.123804 AGCTTATTACGTCCAGATTGCG 58.876 45.455 0.00 0.00 0.00 4.85
11 12 4.332819 ACAAGCTTATTACGTCCAGATTGC 59.667 41.667 0.00 2.25 36.35 3.56
12 13 5.276395 CGACAAGCTTATTACGTCCAGATTG 60.276 44.000 0.00 10.77 38.37 2.67
13 14 4.804139 CGACAAGCTTATTACGTCCAGATT 59.196 41.667 0.00 0.00 0.00 2.40
14 15 4.360563 CGACAAGCTTATTACGTCCAGAT 58.639 43.478 0.00 0.00 0.00 2.90
15 16 3.428452 CCGACAAGCTTATTACGTCCAGA 60.428 47.826 0.00 0.00 0.00 3.86
16 17 2.858344 CCGACAAGCTTATTACGTCCAG 59.142 50.000 0.00 0.00 0.00 3.86
17 18 2.231964 ACCGACAAGCTTATTACGTCCA 59.768 45.455 0.00 0.00 0.00 4.02
18 19 2.601763 CACCGACAAGCTTATTACGTCC 59.398 50.000 0.00 0.00 0.00 4.79
19 20 3.302699 GTCACCGACAAGCTTATTACGTC 59.697 47.826 0.00 0.76 32.09 4.34
20 21 3.248266 GTCACCGACAAGCTTATTACGT 58.752 45.455 0.00 0.00 32.09 3.57
21 22 3.247442 TGTCACCGACAAGCTTATTACG 58.753 45.455 0.00 2.79 39.78 3.18
32 33 1.026584 TCTCGTTCTTGTCACCGACA 58.973 50.000 0.00 0.00 41.09 4.35
33 34 1.785430 GTTCTCGTTCTTGTCACCGAC 59.215 52.381 0.00 0.00 0.00 4.79
34 35 1.598676 CGTTCTCGTTCTTGTCACCGA 60.599 52.381 0.00 0.00 0.00 4.69
35 36 0.776451 CGTTCTCGTTCTTGTCACCG 59.224 55.000 0.00 0.00 0.00 4.94
36 37 2.052157 CTCGTTCTCGTTCTTGTCACC 58.948 52.381 0.00 0.00 38.33 4.02
37 38 2.052157 CCTCGTTCTCGTTCTTGTCAC 58.948 52.381 0.00 0.00 38.33 3.67
38 39 1.679680 ACCTCGTTCTCGTTCTTGTCA 59.320 47.619 0.00 0.00 38.33 3.58
39 40 2.052157 CACCTCGTTCTCGTTCTTGTC 58.948 52.381 0.00 0.00 38.33 3.18
40 41 1.269621 CCACCTCGTTCTCGTTCTTGT 60.270 52.381 0.00 0.00 38.33 3.16
41 42 1.419374 CCACCTCGTTCTCGTTCTTG 58.581 55.000 0.00 0.00 38.33 3.02
42 43 0.319641 GCCACCTCGTTCTCGTTCTT 60.320 55.000 0.00 0.00 38.33 2.52
43 44 1.289380 GCCACCTCGTTCTCGTTCT 59.711 57.895 0.00 0.00 38.33 3.01
44 45 1.737008 GGCCACCTCGTTCTCGTTC 60.737 63.158 0.00 0.00 38.33 3.95
45 46 2.342648 GGCCACCTCGTTCTCGTT 59.657 61.111 0.00 0.00 38.33 3.85
46 47 4.052229 CGGCCACCTCGTTCTCGT 62.052 66.667 2.24 0.00 38.33 4.18
47 48 4.796231 CCGGCCACCTCGTTCTCG 62.796 72.222 2.24 0.00 38.55 4.04
53 54 3.976701 AAATCTGCCGGCCACCTCG 62.977 63.158 26.77 5.27 0.00 4.63
54 55 1.657751 GAAAATCTGCCGGCCACCTC 61.658 60.000 26.77 9.29 0.00 3.85
55 56 1.678970 GAAAATCTGCCGGCCACCT 60.679 57.895 26.77 2.63 0.00 4.00
56 57 2.710902 GGAAAATCTGCCGGCCACC 61.711 63.158 26.77 12.45 0.00 4.61
57 58 1.937546 CTGGAAAATCTGCCGGCCAC 61.938 60.000 26.77 6.98 0.00 5.01
58 59 1.678635 CTGGAAAATCTGCCGGCCA 60.679 57.895 26.77 11.47 0.00 5.36
59 60 2.418083 CCTGGAAAATCTGCCGGCC 61.418 63.158 26.77 5.93 0.00 6.13
60 61 0.393808 TACCTGGAAAATCTGCCGGC 60.394 55.000 22.73 22.73 0.00 6.13
61 62 1.339631 TGTACCTGGAAAATCTGCCGG 60.340 52.381 0.00 0.00 0.00 6.13
62 63 1.737793 GTGTACCTGGAAAATCTGCCG 59.262 52.381 0.00 0.00 0.00 5.69
63 64 1.737793 CGTGTACCTGGAAAATCTGCC 59.262 52.381 0.00 0.00 0.00 4.85
64 65 2.673368 CTCGTGTACCTGGAAAATCTGC 59.327 50.000 0.00 0.00 0.00 4.26
65 66 4.082190 TCTCTCGTGTACCTGGAAAATCTG 60.082 45.833 0.00 0.00 0.00 2.90
66 67 4.087182 TCTCTCGTGTACCTGGAAAATCT 58.913 43.478 0.00 0.00 0.00 2.40
67 68 4.451629 TCTCTCGTGTACCTGGAAAATC 57.548 45.455 0.00 0.00 0.00 2.17
68 69 4.884668 TTCTCTCGTGTACCTGGAAAAT 57.115 40.909 0.00 0.00 0.00 1.82
69 70 4.675976 TTTCTCTCGTGTACCTGGAAAA 57.324 40.909 0.00 0.00 0.00 2.29
70 71 4.374399 GTTTTCTCTCGTGTACCTGGAAA 58.626 43.478 0.00 0.00 0.00 3.13
71 72 3.243975 GGTTTTCTCTCGTGTACCTGGAA 60.244 47.826 0.00 0.00 0.00 3.53
72 73 2.298163 GGTTTTCTCTCGTGTACCTGGA 59.702 50.000 0.00 0.00 0.00 3.86
73 74 2.685100 GGTTTTCTCTCGTGTACCTGG 58.315 52.381 0.00 0.00 0.00 4.45
74 75 2.325761 CGGTTTTCTCTCGTGTACCTG 58.674 52.381 0.00 0.00 0.00 4.00
75 76 1.271656 CCGGTTTTCTCTCGTGTACCT 59.728 52.381 0.00 0.00 0.00 3.08
76 77 1.270550 TCCGGTTTTCTCTCGTGTACC 59.729 52.381 0.00 0.00 0.00 3.34
77 78 2.030451 AGTCCGGTTTTCTCTCGTGTAC 60.030 50.000 0.00 0.00 0.00 2.90
78 79 2.233271 AGTCCGGTTTTCTCTCGTGTA 58.767 47.619 0.00 0.00 0.00 2.90
79 80 1.038280 AGTCCGGTTTTCTCTCGTGT 58.962 50.000 0.00 0.00 0.00 4.49
80 81 3.293311 TTAGTCCGGTTTTCTCTCGTG 57.707 47.619 0.00 0.00 0.00 4.35
81 82 4.532314 AATTAGTCCGGTTTTCTCTCGT 57.468 40.909 0.00 0.00 0.00 4.18
82 83 4.435651 GCAAATTAGTCCGGTTTTCTCTCG 60.436 45.833 0.00 0.00 0.00 4.04
83 84 4.435651 CGCAAATTAGTCCGGTTTTCTCTC 60.436 45.833 0.00 0.00 0.00 3.20
84 85 3.435671 CGCAAATTAGTCCGGTTTTCTCT 59.564 43.478 0.00 0.00 0.00 3.10
85 86 3.434299 TCGCAAATTAGTCCGGTTTTCTC 59.566 43.478 0.00 0.00 0.00 2.87
86 87 3.404899 TCGCAAATTAGTCCGGTTTTCT 58.595 40.909 0.00 0.00 0.00 2.52
87 88 3.434299 TCTCGCAAATTAGTCCGGTTTTC 59.566 43.478 0.00 0.00 0.00 2.29
88 89 3.404899 TCTCGCAAATTAGTCCGGTTTT 58.595 40.909 0.00 0.00 0.00 2.43
89 90 3.000727 CTCTCGCAAATTAGTCCGGTTT 58.999 45.455 0.00 0.00 0.00 3.27
90 91 2.232941 TCTCTCGCAAATTAGTCCGGTT 59.767 45.455 0.00 0.00 0.00 4.44
91 92 1.822990 TCTCTCGCAAATTAGTCCGGT 59.177 47.619 0.00 0.00 0.00 5.28
92 93 2.579207 TCTCTCGCAAATTAGTCCGG 57.421 50.000 0.00 0.00 0.00 5.14
93 94 5.050972 GGTATTTCTCTCGCAAATTAGTCCG 60.051 44.000 0.00 0.00 0.00 4.79
94 95 5.815740 TGGTATTTCTCTCGCAAATTAGTCC 59.184 40.000 0.00 0.00 0.00 3.85
95 96 6.238130 GGTGGTATTTCTCTCGCAAATTAGTC 60.238 42.308 0.00 0.00 0.00 2.59
96 97 5.585047 GGTGGTATTTCTCTCGCAAATTAGT 59.415 40.000 0.00 0.00 0.00 2.24
97 98 5.584649 TGGTGGTATTTCTCTCGCAAATTAG 59.415 40.000 0.00 0.00 0.00 1.73
98 99 5.492895 TGGTGGTATTTCTCTCGCAAATTA 58.507 37.500 0.00 0.00 0.00 1.40
99 100 4.331968 TGGTGGTATTTCTCTCGCAAATT 58.668 39.130 0.00 0.00 0.00 1.82
100 101 3.950397 TGGTGGTATTTCTCTCGCAAAT 58.050 40.909 0.00 0.00 0.00 2.32
101 102 3.410631 TGGTGGTATTTCTCTCGCAAA 57.589 42.857 0.00 0.00 0.00 3.68
102 103 3.531538 GATGGTGGTATTTCTCTCGCAA 58.468 45.455 0.00 0.00 0.00 4.85
103 104 2.481276 CGATGGTGGTATTTCTCTCGCA 60.481 50.000 0.00 0.00 0.00 5.10
104 105 2.128035 CGATGGTGGTATTTCTCTCGC 58.872 52.381 0.00 0.00 0.00 5.03
105 106 2.743938 CCGATGGTGGTATTTCTCTCG 58.256 52.381 0.00 0.00 0.00 4.04
106 107 2.484889 GCCGATGGTGGTATTTCTCTC 58.515 52.381 0.00 0.00 0.00 3.20
107 108 1.202533 CGCCGATGGTGGTATTTCTCT 60.203 52.381 0.00 0.00 0.00 3.10
108 109 1.217882 CGCCGATGGTGGTATTTCTC 58.782 55.000 0.00 0.00 0.00 2.87
109 110 3.379650 CGCCGATGGTGGTATTTCT 57.620 52.632 0.00 0.00 0.00 2.52
117 118 0.525761 AAAAACATCCGCCGATGGTG 59.474 50.000 17.57 0.00 46.07 4.17
133 134 1.202830 TCTTGGCGGGACTGCTAAAAA 60.203 47.619 3.54 0.00 34.79 1.94
134 135 0.398696 TCTTGGCGGGACTGCTAAAA 59.601 50.000 3.54 0.00 34.79 1.52
135 136 0.321298 GTCTTGGCGGGACTGCTAAA 60.321 55.000 3.54 0.00 34.79 1.85
136 137 1.295423 GTCTTGGCGGGACTGCTAA 59.705 57.895 2.82 2.36 34.02 3.09
137 138 1.476845 TTGTCTTGGCGGGACTGCTA 61.477 55.000 2.82 0.00 35.04 3.49
138 139 2.818169 TTGTCTTGGCGGGACTGCT 61.818 57.895 2.82 0.00 35.04 4.24
139 140 2.281484 TTGTCTTGGCGGGACTGC 60.281 61.111 10.19 0.00 35.04 4.40
140 141 0.606401 ATGTTGTCTTGGCGGGACTG 60.606 55.000 10.19 0.00 35.04 3.51
141 142 0.606401 CATGTTGTCTTGGCGGGACT 60.606 55.000 10.19 0.00 35.04 3.85
142 143 0.605319 TCATGTTGTCTTGGCGGGAC 60.605 55.000 0.00 3.24 0.00 4.46
143 144 0.605319 GTCATGTTGTCTTGGCGGGA 60.605 55.000 0.00 0.00 0.00 5.14
144 145 1.875963 GTCATGTTGTCTTGGCGGG 59.124 57.895 0.00 0.00 0.00 6.13
145 146 1.227999 ACGTCATGTTGTCTTGGCGG 61.228 55.000 11.38 0.00 46.20 6.13
146 147 0.586319 AACGTCATGTTGTCTTGGCG 59.414 50.000 6.57 6.57 46.91 5.69
147 148 2.774439 AAACGTCATGTTGTCTTGGC 57.226 45.000 0.00 0.00 40.84 4.52
148 149 2.788786 GCAAAACGTCATGTTGTCTTGG 59.211 45.455 7.78 0.01 40.84 3.61
149 150 2.463653 CGCAAAACGTCATGTTGTCTTG 59.536 45.455 0.00 0.00 40.84 3.02
150 151 2.715268 CGCAAAACGTCATGTTGTCTT 58.285 42.857 0.00 0.00 40.84 3.01
151 152 1.596954 GCGCAAAACGTCATGTTGTCT 60.597 47.619 0.30 0.00 46.11 3.41
152 153 0.770008 GCGCAAAACGTCATGTTGTC 59.230 50.000 0.30 0.00 46.11 3.18
153 154 2.866688 GCGCAAAACGTCATGTTGT 58.133 47.368 0.30 0.00 46.11 3.32
161 162 2.817470 GATGCCATGGCGCAAAACGT 62.817 55.000 30.87 9.51 43.24 3.99
162 163 2.125991 ATGCCATGGCGCAAAACG 60.126 55.556 30.87 0.00 43.24 3.60
163 164 1.810853 GGATGCCATGGCGCAAAAC 60.811 57.895 30.87 16.91 43.24 2.43
164 165 2.578128 GGATGCCATGGCGCAAAA 59.422 55.556 30.87 14.39 43.24 2.44
165 166 3.824469 CGGATGCCATGGCGCAAA 61.824 61.111 30.87 14.80 43.24 3.68
170 171 4.856801 ACGGACGGATGCCATGGC 62.857 66.667 30.54 30.54 42.35 4.40
171 172 2.124736 AACGGACGGATGCCATGG 60.125 61.111 7.63 7.63 0.00 3.66
172 173 1.431488 CTCAACGGACGGATGCCATG 61.431 60.000 0.00 0.00 0.00 3.66
173 174 1.153369 CTCAACGGACGGATGCCAT 60.153 57.895 0.00 0.00 0.00 4.40
174 175 2.107041 AACTCAACGGACGGATGCCA 62.107 55.000 0.00 0.00 0.00 4.92
175 176 0.108520 TAACTCAACGGACGGATGCC 60.109 55.000 0.00 0.00 0.00 4.40
176 177 1.278238 CTAACTCAACGGACGGATGC 58.722 55.000 0.00 0.00 0.00 3.91
177 178 1.278238 GCTAACTCAACGGACGGATG 58.722 55.000 0.00 0.00 0.00 3.51
178 179 0.179145 CGCTAACTCAACGGACGGAT 60.179 55.000 0.00 0.00 0.00 4.18
179 180 1.210931 CGCTAACTCAACGGACGGA 59.789 57.895 0.00 0.00 0.00 4.69
180 181 0.387622 TTCGCTAACTCAACGGACGG 60.388 55.000 0.00 0.00 0.00 4.79
181 182 1.411394 TTTCGCTAACTCAACGGACG 58.589 50.000 0.00 0.00 0.00 4.79
182 183 3.865224 TTTTTCGCTAACTCAACGGAC 57.135 42.857 0.00 0.00 0.00 4.79
183 184 3.187637 CCATTTTTCGCTAACTCAACGGA 59.812 43.478 0.00 0.00 0.00 4.69
184 185 3.488489 CCATTTTTCGCTAACTCAACGG 58.512 45.455 0.00 0.00 0.00 4.44
185 186 2.908626 GCCATTTTTCGCTAACTCAACG 59.091 45.455 0.00 0.00 0.00 4.10
186 187 2.908626 CGCCATTTTTCGCTAACTCAAC 59.091 45.455 0.00 0.00 0.00 3.18
187 188 2.095466 CCGCCATTTTTCGCTAACTCAA 60.095 45.455 0.00 0.00 0.00 3.02
188 189 1.466950 CCGCCATTTTTCGCTAACTCA 59.533 47.619 0.00 0.00 0.00 3.41
189 190 1.794076 GCCGCCATTTTTCGCTAACTC 60.794 52.381 0.00 0.00 0.00 3.01
190 191 0.170339 GCCGCCATTTTTCGCTAACT 59.830 50.000 0.00 0.00 0.00 2.24
191 192 1.131618 CGCCGCCATTTTTCGCTAAC 61.132 55.000 0.00 0.00 0.00 2.34
192 193 1.135731 CGCCGCCATTTTTCGCTAA 59.864 52.632 0.00 0.00 0.00 3.09
193 194 2.788581 CGCCGCCATTTTTCGCTA 59.211 55.556 0.00 0.00 0.00 4.26
194 195 4.776647 GCGCCGCCATTTTTCGCT 62.777 61.111 0.00 0.00 42.19 4.93
196 197 2.875711 CTGCGCCGCCATTTTTCG 60.876 61.111 6.63 0.00 0.00 3.46
197 198 3.181290 GCTGCGCCGCCATTTTTC 61.181 61.111 13.36 0.00 0.00 2.29
198 199 3.225069 AAGCTGCGCCGCCATTTTT 62.225 52.632 20.71 4.76 0.00 1.94
199 200 3.631487 GAAGCTGCGCCGCCATTTT 62.631 57.895 20.71 7.98 0.00 1.82
200 201 4.120331 GAAGCTGCGCCGCCATTT 62.120 61.111 20.71 8.37 0.00 2.32
213 214 2.154007 GCGACGATTGTATAGCAGAAGC 59.846 50.000 0.00 0.00 42.56 3.86
214 215 2.402049 CGCGACGATTGTATAGCAGAAG 59.598 50.000 0.00 0.00 0.00 2.85
215 216 2.381589 CGCGACGATTGTATAGCAGAA 58.618 47.619 0.00 0.00 0.00 3.02
216 217 1.924629 GCGCGACGATTGTATAGCAGA 60.925 52.381 12.10 0.00 0.00 4.26
217 218 0.431233 GCGCGACGATTGTATAGCAG 59.569 55.000 12.10 3.35 0.00 4.24
218 219 0.248702 TGCGCGACGATTGTATAGCA 60.249 50.000 12.10 5.13 0.00 3.49
219 220 0.158928 GTGCGCGACGATTGTATAGC 59.841 55.000 12.10 0.00 0.00 2.97
243 244 2.430704 TTTTCTGCCTGCCCCCTCTG 62.431 60.000 0.00 0.00 0.00 3.35
244 245 2.162906 TTTTCTGCCTGCCCCCTCT 61.163 57.895 0.00 0.00 0.00 3.69
245 246 1.979155 GTTTTCTGCCTGCCCCCTC 60.979 63.158 0.00 0.00 0.00 4.30
246 247 2.118294 GTTTTCTGCCTGCCCCCT 59.882 61.111 0.00 0.00 0.00 4.79
247 248 2.203625 TGTTTTCTGCCTGCCCCC 60.204 61.111 0.00 0.00 0.00 5.40
248 249 1.187567 ATGTGTTTTCTGCCTGCCCC 61.188 55.000 0.00 0.00 0.00 5.80
249 250 1.544724 TATGTGTTTTCTGCCTGCCC 58.455 50.000 0.00 0.00 0.00 5.36
250 251 3.874392 AATATGTGTTTTCTGCCTGCC 57.126 42.857 0.00 0.00 0.00 4.85
251 252 4.622740 GTCAAATATGTGTTTTCTGCCTGC 59.377 41.667 0.00 0.00 0.00 4.85
335 338 2.596046 TCGGGCGCCACACAAAAT 60.596 55.556 30.85 0.00 0.00 1.82
461 466 1.002746 TGTGGCGCCTATGCTTTGA 60.003 52.632 29.70 0.00 34.43 2.69
554 559 2.224281 CCAGCCTAAGTGACACACAGAA 60.224 50.000 8.59 0.00 36.74 3.02
640 678 2.364448 GGAAGAGAGGAGGGCCGT 60.364 66.667 0.00 0.00 39.96 5.68
689 731 3.181500 GGTCAAATACTCCGGATTTGCAC 60.181 47.826 19.72 17.39 41.86 4.57
876 920 5.930135 AGTATGAAGCCTAACCATACCAAG 58.070 41.667 0.00 0.00 41.97 3.61
1153 1208 1.550327 TGTCAAGCTCATCCGAGTCT 58.450 50.000 0.00 0.00 41.71 3.24
1265 1320 2.738743 ACCAACATTATGCCTTCCCTG 58.261 47.619 0.00 0.00 0.00 4.45
1321 1376 1.569493 CCAACGTTGCTCGGAGTTG 59.431 57.895 22.93 1.86 44.69 3.16
1400 1455 3.876914 TGCAAAGTAGACACAACCTTCTG 59.123 43.478 0.00 0.00 0.00 3.02
1432 1487 3.262468 GGGAGGGGGTTCCGGTTT 61.262 66.667 0.00 0.00 41.52 3.27
1441 1496 2.995547 CAACTAACGGGGAGGGGG 59.004 66.667 0.00 0.00 0.00 5.40
1454 1509 1.538876 TGGGGGAGTGCTAGCAACT 60.539 57.895 21.29 18.37 0.00 3.16
1555 1611 6.064060 TCATTCTCCTCTTCAAAAGCTTCAA 58.936 36.000 0.00 0.00 0.00 2.69
1583 1642 3.868757 TCGTTGTCATCCTCCTTGTAG 57.131 47.619 0.00 0.00 0.00 2.74
1587 1646 3.071023 TCAACTTCGTTGTCATCCTCCTT 59.929 43.478 6.62 0.00 43.23 3.36
1664 1723 3.440127 GGAAAAAGGGATGGATTGGTCA 58.560 45.455 0.00 0.00 0.00 4.02
1732 1791 0.108138 CGTGAACCCCTCCTCATCAC 60.108 60.000 0.00 0.00 37.60 3.06
1842 1901 5.895807 AGATATGCATTTACCACCATCCAT 58.104 37.500 3.54 0.00 0.00 3.41
1891 1950 4.673580 CGTTCTTGCCATCTTCCAAATCAG 60.674 45.833 0.00 0.00 0.00 2.90
1904 1963 3.695830 GGATATATCCCGTTCTTGCCA 57.304 47.619 19.69 0.00 41.20 4.92
2177 2236 0.776451 CGTACGTGAGTTGTCTGTGC 59.224 55.000 7.22 0.00 46.40 4.57
2194 2253 2.851195 ACCTGAAAGCAATGAACTCGT 58.149 42.857 0.00 0.00 0.00 4.18
2425 2484 2.401766 CCATGAGGCTCAACCACGC 61.402 63.158 22.84 0.00 43.14 5.34


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

AutoCloner maintained by Alex Coulton.