Multiple sequence alignment - TraesCS3A01G188800

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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 TraesCS3A01G188800 chr3A 100.000 2225 0 0 1 2225 230228759 230226535 0.000000e+00 4109
1 TraesCS3A01G188800 chr3A 96.304 1028 27 4 1201 2225 66030073 66029054 0.000000e+00 1677
2 TraesCS3A01G188800 chr3A 96.610 236 8 0 1 236 386565901 386566136 2.070000e-105 392
3 TraesCS3A01G188800 chr3A 96.186 236 9 0 1 236 236288576 236288341 9.640000e-104 387
4 TraesCS3A01G188800 chr3A 96.186 236 9 0 1 236 238580386 238580151 9.640000e-104 387
5 TraesCS3A01G188800 chr2A 96.142 1996 64 6 233 2225 750453357 750451372 0.000000e+00 3247
6 TraesCS3A01G188800 chr2A 97.034 236 7 0 1 236 312477319 312477084 4.450000e-107 398
7 TraesCS3A01G188800 chr2A 96.186 236 9 0 1 236 125874049 125873814 9.640000e-104 387
8 TraesCS3A01G188800 chr3B 96.092 1996 65 7 233 2225 483333445 483335430 0.000000e+00 3241
9 TraesCS3A01G188800 chr3B 95.593 1997 73 8 233 2225 575839508 575837523 0.000000e+00 3186
10 TraesCS3A01G188800 chr4B 96.042 1996 65 10 233 2225 209242791 209244775 0.000000e+00 3236
11 TraesCS3A01G188800 chr6A 95.990 1995 68 8 233 2225 155857533 155859517 0.000000e+00 3230
12 TraesCS3A01G188800 chr6A 95.338 1995 80 6 233 2225 375860525 375858542 0.000000e+00 3157
13 TraesCS3A01G188800 chr6A 96.186 236 9 0 1 236 215462363 215462128 9.640000e-104 387
14 TraesCS3A01G188800 chr4A 95.637 1994 75 6 233 2224 350172474 350174457 0.000000e+00 3190
15 TraesCS3A01G188800 chr7B 97.581 1075 23 3 233 1306 716784841 716785913 0.000000e+00 1838
16 TraesCS3A01G188800 chr4D 97.243 1088 25 5 233 1318 123350355 123351439 0.000000e+00 1838
17 TraesCS3A01G188800 chrUn 96.304 1028 27 4 1201 2225 261512824 261511805 0.000000e+00 1677
18 TraesCS3A01G188800 chr6B 91.472 727 57 5 1054 1777 401858415 401859139 0.000000e+00 994
19 TraesCS3A01G188800 chr1A 95.763 236 10 0 1 236 245357171 245356936 4.480000e-102 381
20 TraesCS3A01G188800 chr1A 95.763 236 10 0 1 236 352350589 352350354 4.480000e-102 381
21 TraesCS3A01G188800 chr5A 93.927 247 15 0 1 247 292714214 292713968 7.500000e-100 374


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 TraesCS3A01G188800 chr3A 230226535 230228759 2224 True 4109 4109 100.000 1 2225 1 chr3A.!!$R2 2224
1 TraesCS3A01G188800 chr3A 66029054 66030073 1019 True 1677 1677 96.304 1201 2225 1 chr3A.!!$R1 1024
2 TraesCS3A01G188800 chr2A 750451372 750453357 1985 True 3247 3247 96.142 233 2225 1 chr2A.!!$R3 1992
3 TraesCS3A01G188800 chr3B 483333445 483335430 1985 False 3241 3241 96.092 233 2225 1 chr3B.!!$F1 1992
4 TraesCS3A01G188800 chr3B 575837523 575839508 1985 True 3186 3186 95.593 233 2225 1 chr3B.!!$R1 1992
5 TraesCS3A01G188800 chr4B 209242791 209244775 1984 False 3236 3236 96.042 233 2225 1 chr4B.!!$F1 1992
6 TraesCS3A01G188800 chr6A 155857533 155859517 1984 False 3230 3230 95.990 233 2225 1 chr6A.!!$F1 1992
7 TraesCS3A01G188800 chr6A 375858542 375860525 1983 True 3157 3157 95.338 233 2225 1 chr6A.!!$R2 1992
8 TraesCS3A01G188800 chr4A 350172474 350174457 1983 False 3190 3190 95.637 233 2224 1 chr4A.!!$F1 1991
9 TraesCS3A01G188800 chr7B 716784841 716785913 1072 False 1838 1838 97.581 233 1306 1 chr7B.!!$F1 1073
10 TraesCS3A01G188800 chr4D 123350355 123351439 1084 False 1838 1838 97.243 233 1318 1 chr4D.!!$F1 1085
11 TraesCS3A01G188800 chrUn 261511805 261512824 1019 True 1677 1677 96.304 1201 2225 1 chrUn.!!$R1 1024
12 TraesCS3A01G188800 chr6B 401858415 401859139 724 False 994 994 91.472 1054 1777 1 chr6B.!!$F1 723

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
224 225 0.037512 TCGGTGGCGTCGGATAAAAA 60.038 50.0 0.0 0.0 0.0 1.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1902 1909 1.301677 GACTGCAGCCCCGAGAAAAG 61.302 60.0 15.27 0.0 0.0 2.27 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
28 29 2.950433 GGTGAGACCGAAACATTACGA 58.050 47.619 0.00 0.00 0.00 3.43
29 30 3.319755 GGTGAGACCGAAACATTACGAA 58.680 45.455 0.00 0.00 0.00 3.85
30 31 3.367025 GGTGAGACCGAAACATTACGAAG 59.633 47.826 0.00 0.00 0.00 3.79
31 32 3.367025 GTGAGACCGAAACATTACGAAGG 59.633 47.826 0.00 0.00 0.00 3.46
32 33 2.928116 GAGACCGAAACATTACGAAGGG 59.072 50.000 0.00 0.00 0.00 3.95
33 34 2.564062 AGACCGAAACATTACGAAGGGA 59.436 45.455 0.00 0.00 0.00 4.20
34 35 3.007182 AGACCGAAACATTACGAAGGGAA 59.993 43.478 0.00 0.00 0.00 3.97
35 36 3.742385 ACCGAAACATTACGAAGGGAAA 58.258 40.909 0.00 0.00 0.00 3.13
36 37 4.136051 ACCGAAACATTACGAAGGGAAAA 58.864 39.130 0.00 0.00 0.00 2.29
37 38 4.023792 ACCGAAACATTACGAAGGGAAAAC 60.024 41.667 0.00 0.00 0.00 2.43
38 39 4.023878 CCGAAACATTACGAAGGGAAAACA 60.024 41.667 0.00 0.00 0.00 2.83
39 40 5.144359 CGAAACATTACGAAGGGAAAACAG 58.856 41.667 0.00 0.00 0.00 3.16
40 41 5.049954 CGAAACATTACGAAGGGAAAACAGA 60.050 40.000 0.00 0.00 0.00 3.41
41 42 5.941948 AACATTACGAAGGGAAAACAGAG 57.058 39.130 0.00 0.00 0.00 3.35
42 43 5.223449 ACATTACGAAGGGAAAACAGAGA 57.777 39.130 0.00 0.00 0.00 3.10
43 44 5.238583 ACATTACGAAGGGAAAACAGAGAG 58.761 41.667 0.00 0.00 0.00 3.20
44 45 4.950205 TTACGAAGGGAAAACAGAGAGT 57.050 40.909 0.00 0.00 0.00 3.24
45 46 3.840124 ACGAAGGGAAAACAGAGAGTT 57.160 42.857 0.00 0.00 43.89 3.01
59 60 6.734104 ACAGAGAGTTTACATTGCAATCTC 57.266 37.500 9.53 12.50 33.51 2.75
60 61 5.349817 ACAGAGAGTTTACATTGCAATCTCG 59.650 40.000 9.53 10.56 37.40 4.04
61 62 4.872691 AGAGAGTTTACATTGCAATCTCGG 59.127 41.667 9.53 0.46 37.40 4.63
62 63 4.579869 AGAGTTTACATTGCAATCTCGGT 58.420 39.130 9.53 7.16 30.44 4.69
63 64 4.393062 AGAGTTTACATTGCAATCTCGGTG 59.607 41.667 9.53 0.90 30.44 4.94
64 65 3.440173 AGTTTACATTGCAATCTCGGTGG 59.560 43.478 9.53 0.00 0.00 4.61
65 66 2.036958 TACATTGCAATCTCGGTGGG 57.963 50.000 9.53 0.00 0.00 4.61
66 67 0.327924 ACATTGCAATCTCGGTGGGA 59.672 50.000 9.53 0.00 0.00 4.37
67 68 0.734889 CATTGCAATCTCGGTGGGAC 59.265 55.000 9.53 0.00 0.00 4.46
68 69 0.394352 ATTGCAATCTCGGTGGGACC 60.394 55.000 5.99 0.00 34.05 4.46
77 78 3.458163 GGTGGGACCGATCGCTCA 61.458 66.667 10.32 0.00 38.59 4.26
78 79 2.797278 GGTGGGACCGATCGCTCAT 61.797 63.158 10.32 0.00 38.59 2.90
79 80 1.300233 GTGGGACCGATCGCTCATC 60.300 63.158 10.32 4.04 38.59 2.92
80 81 1.455773 TGGGACCGATCGCTCATCT 60.456 57.895 10.32 0.00 38.59 2.90
81 82 1.287503 GGGACCGATCGCTCATCTC 59.712 63.158 10.32 0.12 34.96 2.75
82 83 1.081774 GGACCGATCGCTCATCTCG 60.082 63.158 10.32 0.00 0.00 4.04
84 85 3.034878 CCGATCGCTCATCTCGGT 58.965 61.111 10.32 0.00 45.30 4.69
85 86 1.371022 CCGATCGCTCATCTCGGTG 60.371 63.158 10.32 0.00 45.30 4.94
86 87 1.649267 CGATCGCTCATCTCGGTGA 59.351 57.895 0.26 0.00 0.00 4.02
87 88 0.385348 CGATCGCTCATCTCGGTGAG 60.385 60.000 0.26 2.83 46.59 3.51
88 89 0.947960 GATCGCTCATCTCGGTGAGA 59.052 55.000 11.21 0.00 46.77 3.27
89 90 0.665835 ATCGCTCATCTCGGTGAGAC 59.334 55.000 11.21 2.20 46.77 3.36
90 91 1.064946 CGCTCATCTCGGTGAGACC 59.935 63.158 11.21 0.00 46.77 3.85
102 103 2.950433 GGTGAGACCGAAATGTTACGA 58.050 47.619 0.00 0.00 0.00 3.43
103 104 3.319755 GGTGAGACCGAAATGTTACGAA 58.680 45.455 0.00 0.00 0.00 3.85
104 105 3.367025 GGTGAGACCGAAATGTTACGAAG 59.633 47.826 0.00 0.00 0.00 3.79
105 106 3.367025 GTGAGACCGAAATGTTACGAAGG 59.633 47.826 0.00 0.00 0.00 3.46
106 107 2.928116 GAGACCGAAATGTTACGAAGGG 59.072 50.000 0.00 0.00 0.00 3.95
107 108 2.564062 AGACCGAAATGTTACGAAGGGA 59.436 45.455 0.00 0.00 0.00 4.20
108 109 3.007182 AGACCGAAATGTTACGAAGGGAA 59.993 43.478 0.00 0.00 0.00 3.97
109 110 3.742385 ACCGAAATGTTACGAAGGGAAA 58.258 40.909 0.00 0.00 0.00 3.13
110 111 3.499537 ACCGAAATGTTACGAAGGGAAAC 59.500 43.478 0.00 0.00 0.00 2.78
111 112 3.499157 CCGAAATGTTACGAAGGGAAACA 59.501 43.478 0.00 0.00 37.51 2.83
112 113 4.378046 CCGAAATGTTACGAAGGGAAACAG 60.378 45.833 0.00 0.00 36.62 3.16
113 114 4.449743 CGAAATGTTACGAAGGGAAACAGA 59.550 41.667 0.00 0.00 36.62 3.41
114 115 5.389516 CGAAATGTTACGAAGGGAAACAGAG 60.390 44.000 0.00 0.00 36.62 3.35
115 116 4.884668 ATGTTACGAAGGGAAACAGAGA 57.115 40.909 0.00 0.00 36.62 3.10
116 117 4.252971 TGTTACGAAGGGAAACAGAGAG 57.747 45.455 0.00 0.00 0.00 3.20
117 118 3.893200 TGTTACGAAGGGAAACAGAGAGA 59.107 43.478 0.00 0.00 0.00 3.10
118 119 4.527038 TGTTACGAAGGGAAACAGAGAGAT 59.473 41.667 0.00 0.00 0.00 2.75
119 120 5.011738 TGTTACGAAGGGAAACAGAGAGATT 59.988 40.000 0.00 0.00 0.00 2.40
120 121 6.209986 TGTTACGAAGGGAAACAGAGAGATTA 59.790 38.462 0.00 0.00 0.00 1.75
121 122 5.074584 ACGAAGGGAAACAGAGAGATTAC 57.925 43.478 0.00 0.00 0.00 1.89
122 123 4.527038 ACGAAGGGAAACAGAGAGATTACA 59.473 41.667 0.00 0.00 0.00 2.41
123 124 5.011738 ACGAAGGGAAACAGAGAGATTACAA 59.988 40.000 0.00 0.00 0.00 2.41
124 125 5.348997 CGAAGGGAAACAGAGAGATTACAAC 59.651 44.000 0.00 0.00 0.00 3.32
125 126 5.167303 AGGGAAACAGAGAGATTACAACC 57.833 43.478 0.00 0.00 0.00 3.77
126 127 4.019231 AGGGAAACAGAGAGATTACAACCC 60.019 45.833 0.00 0.00 0.00 4.11
127 128 4.262617 GGAAACAGAGAGATTACAACCCC 58.737 47.826 0.00 0.00 0.00 4.95
128 129 4.263331 GGAAACAGAGAGATTACAACCCCA 60.263 45.833 0.00 0.00 0.00 4.96
129 130 5.501156 GAAACAGAGAGATTACAACCCCAT 58.499 41.667 0.00 0.00 0.00 4.00
130 131 6.352737 GGAAACAGAGAGATTACAACCCCATA 60.353 42.308 0.00 0.00 0.00 2.74
131 132 6.831664 AACAGAGAGATTACAACCCCATAT 57.168 37.500 0.00 0.00 0.00 1.78
132 133 6.426646 ACAGAGAGATTACAACCCCATATC 57.573 41.667 0.00 0.00 0.00 1.63
133 134 5.011125 ACAGAGAGATTACAACCCCATATCG 59.989 44.000 0.00 0.00 0.00 2.92
134 135 4.528596 AGAGAGATTACAACCCCATATCGG 59.471 45.833 0.00 0.00 0.00 4.18
135 136 4.232091 AGAGATTACAACCCCATATCGGT 58.768 43.478 0.00 0.00 34.07 4.69
136 137 4.040461 AGAGATTACAACCCCATATCGGTG 59.960 45.833 0.00 0.00 32.55 4.94
137 138 3.971305 AGATTACAACCCCATATCGGTGA 59.029 43.478 0.00 0.00 32.55 4.02
138 139 3.830744 TTACAACCCCATATCGGTGAG 57.169 47.619 0.00 0.00 32.55 3.51
139 140 1.874129 ACAACCCCATATCGGTGAGA 58.126 50.000 0.00 0.00 32.55 3.27
140 141 1.485066 ACAACCCCATATCGGTGAGAC 59.515 52.381 0.00 0.00 32.55 3.36
141 142 1.129058 AACCCCATATCGGTGAGACC 58.871 55.000 0.00 0.00 32.55 3.85
150 151 4.688770 GGTGAGACCGAGATCCCT 57.311 61.111 0.00 0.00 0.00 4.20
151 152 3.823369 GGTGAGACCGAGATCCCTA 57.177 57.895 0.00 0.00 0.00 3.53
152 153 2.296073 GGTGAGACCGAGATCCCTAT 57.704 55.000 0.00 0.00 0.00 2.57
153 154 2.599677 GGTGAGACCGAGATCCCTATT 58.400 52.381 0.00 0.00 0.00 1.73
154 155 2.297597 GGTGAGACCGAGATCCCTATTG 59.702 54.545 0.00 0.00 0.00 1.90
155 156 2.297597 GTGAGACCGAGATCCCTATTGG 59.702 54.545 0.00 0.00 0.00 3.16
156 157 2.091278 TGAGACCGAGATCCCTATTGGT 60.091 50.000 0.00 0.00 34.77 3.67
157 158 2.297597 GAGACCGAGATCCCTATTGGTG 59.702 54.545 0.00 0.00 34.77 4.17
158 159 2.091278 AGACCGAGATCCCTATTGGTGA 60.091 50.000 0.00 0.00 34.77 4.02
159 160 2.297597 GACCGAGATCCCTATTGGTGAG 59.702 54.545 0.00 0.00 34.77 3.51
160 161 2.091278 ACCGAGATCCCTATTGGTGAGA 60.091 50.000 0.00 0.00 34.77 3.27
161 162 3.169099 CCGAGATCCCTATTGGTGAGAT 58.831 50.000 0.00 0.00 34.77 2.75
162 163 3.194542 CCGAGATCCCTATTGGTGAGATC 59.805 52.174 3.77 3.77 34.79 2.75
163 164 3.119673 CGAGATCCCTATTGGTGAGATCG 60.120 52.174 5.67 6.28 38.67 3.69
164 165 4.082845 GAGATCCCTATTGGTGAGATCGA 58.917 47.826 0.00 0.00 38.67 3.59
165 166 4.682563 AGATCCCTATTGGTGAGATCGAT 58.317 43.478 0.00 0.00 38.67 3.59
166 167 5.090139 AGATCCCTATTGGTGAGATCGATT 58.910 41.667 0.00 0.00 38.67 3.34
167 168 5.545723 AGATCCCTATTGGTGAGATCGATTT 59.454 40.000 0.00 0.00 38.67 2.17
168 169 4.960938 TCCCTATTGGTGAGATCGATTTG 58.039 43.478 0.00 0.00 34.77 2.32
169 170 3.499918 CCCTATTGGTGAGATCGATTTGC 59.500 47.826 0.00 0.00 0.00 3.68
170 171 3.499918 CCTATTGGTGAGATCGATTTGCC 59.500 47.826 0.00 0.00 0.00 4.52
171 172 2.787473 TTGGTGAGATCGATTTGCCT 57.213 45.000 0.00 0.00 0.00 4.75
172 173 3.904800 TTGGTGAGATCGATTTGCCTA 57.095 42.857 0.00 0.00 0.00 3.93
173 174 3.459232 TGGTGAGATCGATTTGCCTAG 57.541 47.619 0.00 0.00 0.00 3.02
174 175 2.103094 TGGTGAGATCGATTTGCCTAGG 59.897 50.000 3.67 3.67 0.00 3.02
175 176 2.548920 GGTGAGATCGATTTGCCTAGGG 60.549 54.545 11.72 0.00 0.00 3.53
176 177 2.103263 GTGAGATCGATTTGCCTAGGGT 59.897 50.000 11.72 0.00 0.00 4.34
177 178 2.771943 TGAGATCGATTTGCCTAGGGTT 59.228 45.455 11.72 0.00 0.00 4.11
178 179 3.199946 TGAGATCGATTTGCCTAGGGTTT 59.800 43.478 11.72 0.00 0.00 3.27
179 180 3.545703 AGATCGATTTGCCTAGGGTTTG 58.454 45.455 11.72 0.00 0.00 2.93
180 181 2.871096 TCGATTTGCCTAGGGTTTGT 57.129 45.000 11.72 0.00 0.00 2.83
181 182 2.432444 TCGATTTGCCTAGGGTTTGTG 58.568 47.619 11.72 0.00 0.00 3.33
182 183 1.472480 CGATTTGCCTAGGGTTTGTGG 59.528 52.381 11.72 0.00 0.00 4.17
183 184 1.204704 GATTTGCCTAGGGTTTGTGGC 59.795 52.381 11.72 0.00 45.10 5.01
185 186 4.002797 GCCTAGGGTTTGTGGCAG 57.997 61.111 11.72 0.00 44.34 4.85
186 187 1.074951 GCCTAGGGTTTGTGGCAGT 59.925 57.895 11.72 0.00 44.34 4.40
187 188 1.244019 GCCTAGGGTTTGTGGCAGTG 61.244 60.000 11.72 0.00 44.34 3.66
188 189 0.609131 CCTAGGGTTTGTGGCAGTGG 60.609 60.000 0.00 0.00 0.00 4.00
189 190 1.228429 TAGGGTTTGTGGCAGTGGC 60.228 57.895 10.30 10.30 40.13 5.01
190 191 1.715019 TAGGGTTTGTGGCAGTGGCT 61.715 55.000 18.53 0.00 40.87 4.75
191 192 1.228429 GGGTTTGTGGCAGTGGCTA 60.228 57.895 18.53 4.16 40.87 3.93
192 193 0.611896 GGGTTTGTGGCAGTGGCTAT 60.612 55.000 18.53 0.00 40.87 2.97
193 194 0.527565 GGTTTGTGGCAGTGGCTATG 59.472 55.000 18.53 0.00 40.87 2.23
194 195 1.533625 GTTTGTGGCAGTGGCTATGA 58.466 50.000 18.53 0.00 40.87 2.15
195 196 1.200020 GTTTGTGGCAGTGGCTATGAC 59.800 52.381 18.53 8.05 40.87 3.06
196 197 0.399833 TTGTGGCAGTGGCTATGACA 59.600 50.000 18.53 10.70 40.87 3.58
197 198 0.620030 TGTGGCAGTGGCTATGACAT 59.380 50.000 18.53 0.00 38.15 3.06
198 199 1.004628 TGTGGCAGTGGCTATGACATT 59.995 47.619 18.53 0.00 38.15 2.71
199 200 2.094675 GTGGCAGTGGCTATGACATTT 58.905 47.619 18.53 0.00 38.15 2.32
200 201 2.093890 TGGCAGTGGCTATGACATTTG 58.906 47.619 18.53 0.00 40.87 2.32
201 202 2.290832 TGGCAGTGGCTATGACATTTGA 60.291 45.455 18.53 0.00 40.87 2.69
202 203 2.754552 GGCAGTGGCTATGACATTTGAA 59.245 45.455 9.90 0.00 40.87 2.69
203 204 3.193267 GGCAGTGGCTATGACATTTGAAA 59.807 43.478 9.90 0.00 40.87 2.69
204 205 4.168760 GCAGTGGCTATGACATTTGAAAC 58.831 43.478 0.00 0.00 36.96 2.78
205 206 4.082571 GCAGTGGCTATGACATTTGAAACT 60.083 41.667 0.00 0.00 36.96 2.66
206 207 5.634896 CAGTGGCTATGACATTTGAAACTC 58.365 41.667 0.00 0.00 0.00 3.01
207 208 4.393062 AGTGGCTATGACATTTGAAACTCG 59.607 41.667 0.00 0.00 0.00 4.18
208 209 3.689161 TGGCTATGACATTTGAAACTCGG 59.311 43.478 0.00 0.00 0.00 4.63
209 210 3.689649 GGCTATGACATTTGAAACTCGGT 59.310 43.478 0.00 0.00 0.00 4.69
210 211 4.437390 GGCTATGACATTTGAAACTCGGTG 60.437 45.833 0.00 0.00 0.00 4.94
211 212 4.437390 GCTATGACATTTGAAACTCGGTGG 60.437 45.833 0.00 0.00 0.00 4.61
212 213 1.606668 TGACATTTGAAACTCGGTGGC 59.393 47.619 0.00 0.00 0.00 5.01
213 214 0.591170 ACATTTGAAACTCGGTGGCG 59.409 50.000 0.00 0.00 0.00 5.69
214 215 0.591170 CATTTGAAACTCGGTGGCGT 59.409 50.000 0.00 0.00 0.00 5.68
215 216 0.872388 ATTTGAAACTCGGTGGCGTC 59.128 50.000 0.00 0.00 0.00 5.19
216 217 1.492319 TTTGAAACTCGGTGGCGTCG 61.492 55.000 0.00 0.00 0.00 5.12
217 218 3.110178 GAAACTCGGTGGCGTCGG 61.110 66.667 0.00 0.00 0.00 4.79
218 219 3.562779 GAAACTCGGTGGCGTCGGA 62.563 63.158 0.00 0.00 0.00 4.55
219 220 2.830704 GAAACTCGGTGGCGTCGGAT 62.831 60.000 0.00 0.00 0.00 4.18
220 221 1.597797 AAACTCGGTGGCGTCGGATA 61.598 55.000 0.00 0.00 0.00 2.59
221 222 1.597797 AACTCGGTGGCGTCGGATAA 61.598 55.000 0.00 0.00 0.00 1.75
222 223 1.140161 CTCGGTGGCGTCGGATAAA 59.860 57.895 0.00 0.00 0.00 1.40
223 224 0.458889 CTCGGTGGCGTCGGATAAAA 60.459 55.000 0.00 0.00 0.00 1.52
224 225 0.037512 TCGGTGGCGTCGGATAAAAA 60.038 50.000 0.00 0.00 0.00 1.94
225 226 0.372334 CGGTGGCGTCGGATAAAAAG 59.628 55.000 0.00 0.00 0.00 2.27
226 227 1.729284 GGTGGCGTCGGATAAAAAGA 58.271 50.000 0.00 0.00 0.00 2.52
227 228 2.078392 GGTGGCGTCGGATAAAAAGAA 58.922 47.619 0.00 0.00 0.00 2.52
228 229 2.681344 GGTGGCGTCGGATAAAAAGAAT 59.319 45.455 0.00 0.00 0.00 2.40
229 230 3.242641 GGTGGCGTCGGATAAAAAGAATC 60.243 47.826 0.00 0.00 0.00 2.52
230 231 2.605818 TGGCGTCGGATAAAAAGAATCG 59.394 45.455 0.00 0.00 0.00 3.34
231 232 2.861935 GGCGTCGGATAAAAAGAATCGA 59.138 45.455 0.00 0.00 0.00 3.59
400 401 4.034510 CGAATGCCACTAGACAGAATTTCC 59.965 45.833 0.00 0.00 0.00 3.13
546 547 9.699703 TTTGCCTTACCTGTGAATTAATAAAAC 57.300 29.630 0.00 0.00 0.00 2.43
617 618 5.199982 TGAACCCCAATAGGCTATTTTGA 57.800 39.130 16.95 1.07 0.00 2.69
620 621 5.669798 ACCCCAATAGGCTATTTTGAGAT 57.330 39.130 16.95 0.00 0.00 2.75
979 980 6.183360 ACAACGAAGGAAAAACATGACAAGAT 60.183 34.615 0.00 0.00 0.00 2.40
1144 1146 9.814899 CATTGGCTAAACAATCATTTGGTTATA 57.185 29.630 0.00 0.00 42.57 0.98
1240 1242 6.031417 CGTTTTCTGATCGCATAAAAAGTCAC 59.969 38.462 0.00 0.00 33.61 3.67
1346 1350 4.408270 CCTATCCGATGGATGAATGAGGAT 59.592 45.833 8.59 0.00 43.06 3.24
1378 1383 8.919777 TCGAGTAGTGAAATGATAGGATTCTA 57.080 34.615 0.00 0.00 0.00 2.10
1399 1404 6.936374 TCTACTTTTCAGTTAAACCGAAACG 58.064 36.000 0.00 0.00 34.06 3.60
1458 1463 0.391793 AGCGGTCAAAGCTAGAAGCC 60.392 55.000 0.00 1.74 43.77 4.35
1507 1512 3.484649 CCGATGAGTATTTTCGTACCACG 59.515 47.826 0.00 0.00 44.19 4.94
1568 1574 4.989168 GGCGAGACATAAGTTATCGGAATT 59.011 41.667 5.93 0.00 37.58 2.17
1572 1578 6.401047 AGACATAAGTTATCGGAATTCGGA 57.599 37.500 16.94 16.94 39.77 4.55
1752 1759 2.540383 AGTGCCCTCTCAAGTGTCATA 58.460 47.619 0.00 0.00 0.00 2.15
1854 1861 2.404083 CCTTGCGGGAATGCGTATT 58.596 52.632 0.00 0.00 37.81 1.89
1902 1909 2.033424 ACTTGCTTTTCCGAACTGCTTC 59.967 45.455 6.22 0.00 0.00 3.86
2104 2111 7.015877 TGGGAAAGAAGAGCAAGTAAGTAAGTA 59.984 37.037 0.00 0.00 0.00 2.24
2105 2112 7.876582 GGGAAAGAAGAGCAAGTAAGTAAGTAA 59.123 37.037 0.00 0.00 0.00 2.24
2106 2113 9.438228 GGAAAGAAGAGCAAGTAAGTAAGTAAT 57.562 33.333 0.00 0.00 0.00 1.89
2108 2115 9.998106 AAAGAAGAGCAAGTAAGTAAGTAATGA 57.002 29.630 0.00 0.00 0.00 2.57
2109 2116 9.998106 AAGAAGAGCAAGTAAGTAAGTAATGAA 57.002 29.630 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.950433 TCGTAATGTTTCGGTCTCACC 58.050 47.619 0.00 0.00 34.05 4.02
9 10 3.367025 CCTTCGTAATGTTTCGGTCTCAC 59.633 47.826 0.00 0.00 0.00 3.51
10 11 3.581755 CCTTCGTAATGTTTCGGTCTCA 58.418 45.455 0.00 0.00 0.00 3.27
11 12 2.928116 CCCTTCGTAATGTTTCGGTCTC 59.072 50.000 0.00 0.00 0.00 3.36
12 13 2.564062 TCCCTTCGTAATGTTTCGGTCT 59.436 45.455 0.00 0.00 0.00 3.85
13 14 2.963432 TCCCTTCGTAATGTTTCGGTC 58.037 47.619 0.00 0.00 0.00 4.79
14 15 3.405823 TTCCCTTCGTAATGTTTCGGT 57.594 42.857 0.00 0.00 0.00 4.69
15 16 4.023878 TGTTTTCCCTTCGTAATGTTTCGG 60.024 41.667 0.00 0.00 0.00 4.30
16 17 5.049954 TCTGTTTTCCCTTCGTAATGTTTCG 60.050 40.000 0.00 0.00 0.00 3.46
17 18 6.204108 TCTCTGTTTTCCCTTCGTAATGTTTC 59.796 38.462 0.00 0.00 0.00 2.78
18 19 6.059484 TCTCTGTTTTCCCTTCGTAATGTTT 58.941 36.000 0.00 0.00 0.00 2.83
19 20 5.617252 TCTCTGTTTTCCCTTCGTAATGTT 58.383 37.500 0.00 0.00 0.00 2.71
20 21 5.221661 ACTCTCTGTTTTCCCTTCGTAATGT 60.222 40.000 0.00 0.00 0.00 2.71
21 22 5.238583 ACTCTCTGTTTTCCCTTCGTAATG 58.761 41.667 0.00 0.00 0.00 1.90
22 23 5.485209 ACTCTCTGTTTTCCCTTCGTAAT 57.515 39.130 0.00 0.00 0.00 1.89
23 24 4.950205 ACTCTCTGTTTTCCCTTCGTAA 57.050 40.909 0.00 0.00 0.00 3.18
24 25 4.950205 AACTCTCTGTTTTCCCTTCGTA 57.050 40.909 0.00 0.00 34.84 3.43
25 26 3.840124 AACTCTCTGTTTTCCCTTCGT 57.160 42.857 0.00 0.00 34.84 3.85
26 27 5.054477 TGTAAACTCTCTGTTTTCCCTTCG 58.946 41.667 0.00 0.00 45.69 3.79
27 28 7.363431 CAATGTAAACTCTCTGTTTTCCCTTC 58.637 38.462 0.00 0.00 45.69 3.46
28 29 6.239036 GCAATGTAAACTCTCTGTTTTCCCTT 60.239 38.462 0.00 0.00 45.69 3.95
29 30 5.241728 GCAATGTAAACTCTCTGTTTTCCCT 59.758 40.000 0.00 0.00 45.69 4.20
30 31 5.009610 TGCAATGTAAACTCTCTGTTTTCCC 59.990 40.000 0.00 0.00 45.69 3.97
31 32 6.072112 TGCAATGTAAACTCTCTGTTTTCC 57.928 37.500 0.00 0.00 45.69 3.13
32 33 8.078596 AGATTGCAATGTAAACTCTCTGTTTTC 58.921 33.333 18.59 0.00 45.69 2.29
33 34 7.945134 AGATTGCAATGTAAACTCTCTGTTTT 58.055 30.769 18.59 0.00 45.69 2.43
35 36 6.128445 CGAGATTGCAATGTAAACTCTCTGTT 60.128 38.462 18.59 0.00 41.29 3.16
36 37 5.349817 CGAGATTGCAATGTAAACTCTCTGT 59.650 40.000 18.59 0.00 0.00 3.41
37 38 5.220548 CCGAGATTGCAATGTAAACTCTCTG 60.221 44.000 18.59 8.66 0.00 3.35
38 39 4.872691 CCGAGATTGCAATGTAAACTCTCT 59.127 41.667 18.59 4.75 0.00 3.10
39 40 4.631813 ACCGAGATTGCAATGTAAACTCTC 59.368 41.667 18.59 14.58 0.00 3.20
40 41 4.393062 CACCGAGATTGCAATGTAAACTCT 59.607 41.667 18.59 6.41 0.00 3.24
41 42 4.437390 CCACCGAGATTGCAATGTAAACTC 60.437 45.833 18.59 14.97 0.00 3.01
42 43 3.440173 CCACCGAGATTGCAATGTAAACT 59.560 43.478 18.59 7.00 0.00 2.66
43 44 3.427503 CCCACCGAGATTGCAATGTAAAC 60.428 47.826 18.59 1.32 0.00 2.01
44 45 2.752354 CCCACCGAGATTGCAATGTAAA 59.248 45.455 18.59 0.00 0.00 2.01
45 46 2.026729 TCCCACCGAGATTGCAATGTAA 60.027 45.455 18.59 0.00 0.00 2.41
46 47 1.557371 TCCCACCGAGATTGCAATGTA 59.443 47.619 18.59 0.00 0.00 2.29
47 48 0.327924 TCCCACCGAGATTGCAATGT 59.672 50.000 18.59 13.79 0.00 2.71
48 49 0.734889 GTCCCACCGAGATTGCAATG 59.265 55.000 18.59 4.68 0.00 2.82
49 50 0.394352 GGTCCCACCGAGATTGCAAT 60.394 55.000 12.83 12.83 0.00 3.56
50 51 1.002624 GGTCCCACCGAGATTGCAA 60.003 57.895 0.00 0.00 0.00 4.08
51 52 2.668632 GGTCCCACCGAGATTGCA 59.331 61.111 0.00 0.00 0.00 4.08
60 61 2.701163 GATGAGCGATCGGTCCCACC 62.701 65.000 36.26 21.72 41.45 4.61
61 62 1.300233 GATGAGCGATCGGTCCCAC 60.300 63.158 36.26 25.07 41.45 4.61
62 63 1.455773 AGATGAGCGATCGGTCCCA 60.456 57.895 36.26 24.17 41.45 4.37
63 64 1.287503 GAGATGAGCGATCGGTCCC 59.712 63.158 36.26 28.38 41.45 4.46
64 65 1.081774 CGAGATGAGCGATCGGTCC 60.082 63.158 36.26 24.94 41.45 4.46
65 66 4.524305 CGAGATGAGCGATCGGTC 57.476 61.111 34.11 34.11 42.37 4.79
68 69 0.385348 CTCACCGAGATGAGCGATCG 60.385 60.000 11.69 11.69 39.77 3.69
69 70 0.947960 TCTCACCGAGATGAGCGATC 59.052 55.000 0.00 0.00 44.94 3.69
70 71 0.665835 GTCTCACCGAGATGAGCGAT 59.334 55.000 0.00 0.00 44.94 4.58
71 72 1.377366 GGTCTCACCGAGATGAGCGA 61.377 60.000 0.00 0.00 44.94 4.93
72 73 1.064946 GGTCTCACCGAGATGAGCG 59.935 63.158 0.00 0.00 44.94 5.03
82 83 2.950433 TCGTAACATTTCGGTCTCACC 58.050 47.619 0.00 0.00 34.05 4.02
83 84 3.367025 CCTTCGTAACATTTCGGTCTCAC 59.633 47.826 0.00 0.00 0.00 3.51
84 85 3.581755 CCTTCGTAACATTTCGGTCTCA 58.418 45.455 0.00 0.00 0.00 3.27
85 86 2.928116 CCCTTCGTAACATTTCGGTCTC 59.072 50.000 0.00 0.00 0.00 3.36
86 87 2.564062 TCCCTTCGTAACATTTCGGTCT 59.436 45.455 0.00 0.00 0.00 3.85
87 88 2.963432 TCCCTTCGTAACATTTCGGTC 58.037 47.619 0.00 0.00 0.00 4.79
88 89 3.405823 TTCCCTTCGTAACATTTCGGT 57.594 42.857 0.00 0.00 0.00 4.69
89 90 3.499157 TGTTTCCCTTCGTAACATTTCGG 59.501 43.478 0.00 0.00 0.00 4.30
90 91 4.449743 TCTGTTTCCCTTCGTAACATTTCG 59.550 41.667 0.00 0.00 31.96 3.46
91 92 5.699458 TCTCTGTTTCCCTTCGTAACATTTC 59.301 40.000 0.00 0.00 31.96 2.17
92 93 5.617252 TCTCTGTTTCCCTTCGTAACATTT 58.383 37.500 0.00 0.00 31.96 2.32
93 94 5.011738 TCTCTCTGTTTCCCTTCGTAACATT 59.988 40.000 0.00 0.00 31.96 2.71
94 95 4.527038 TCTCTCTGTTTCCCTTCGTAACAT 59.473 41.667 0.00 0.00 31.96 2.71
95 96 3.893200 TCTCTCTGTTTCCCTTCGTAACA 59.107 43.478 0.00 0.00 0.00 2.41
96 97 4.516365 TCTCTCTGTTTCCCTTCGTAAC 57.484 45.455 0.00 0.00 0.00 2.50
97 98 5.740290 AATCTCTCTGTTTCCCTTCGTAA 57.260 39.130 0.00 0.00 0.00 3.18
98 99 5.713389 TGTAATCTCTCTGTTTCCCTTCGTA 59.287 40.000 0.00 0.00 0.00 3.43
99 100 4.527038 TGTAATCTCTCTGTTTCCCTTCGT 59.473 41.667 0.00 0.00 0.00 3.85
100 101 5.073311 TGTAATCTCTCTGTTTCCCTTCG 57.927 43.478 0.00 0.00 0.00 3.79
101 102 5.644206 GGTTGTAATCTCTCTGTTTCCCTTC 59.356 44.000 0.00 0.00 0.00 3.46
102 103 5.515008 GGGTTGTAATCTCTCTGTTTCCCTT 60.515 44.000 0.00 0.00 0.00 3.95
103 104 4.019231 GGGTTGTAATCTCTCTGTTTCCCT 60.019 45.833 0.00 0.00 0.00 4.20
104 105 4.262617 GGGTTGTAATCTCTCTGTTTCCC 58.737 47.826 0.00 0.00 0.00 3.97
105 106 4.262617 GGGGTTGTAATCTCTCTGTTTCC 58.737 47.826 0.00 0.00 0.00 3.13
106 107 4.906618 TGGGGTTGTAATCTCTCTGTTTC 58.093 43.478 0.00 0.00 0.00 2.78
107 108 4.993705 TGGGGTTGTAATCTCTCTGTTT 57.006 40.909 0.00 0.00 0.00 2.83
108 109 6.463049 CGATATGGGGTTGTAATCTCTCTGTT 60.463 42.308 0.00 0.00 0.00 3.16
109 110 5.011125 CGATATGGGGTTGTAATCTCTCTGT 59.989 44.000 0.00 0.00 0.00 3.41
110 111 5.473931 CGATATGGGGTTGTAATCTCTCTG 58.526 45.833 0.00 0.00 0.00 3.35
111 112 4.528596 CCGATATGGGGTTGTAATCTCTCT 59.471 45.833 0.00 0.00 0.00 3.10
112 113 4.283722 ACCGATATGGGGTTGTAATCTCTC 59.716 45.833 8.78 0.00 44.64 3.20
113 114 4.040461 CACCGATATGGGGTTGTAATCTCT 59.960 45.833 8.78 0.00 44.64 3.10
114 115 4.039973 TCACCGATATGGGGTTGTAATCTC 59.960 45.833 8.78 0.00 43.99 2.75
115 116 3.971305 TCACCGATATGGGGTTGTAATCT 59.029 43.478 8.78 0.00 43.99 2.40
116 117 4.039973 TCTCACCGATATGGGGTTGTAATC 59.960 45.833 8.78 0.00 43.99 1.75
117 118 3.971305 TCTCACCGATATGGGGTTGTAAT 59.029 43.478 8.78 0.00 43.99 1.89
118 119 3.133362 GTCTCACCGATATGGGGTTGTAA 59.867 47.826 8.78 0.00 43.99 2.41
119 120 2.696707 GTCTCACCGATATGGGGTTGTA 59.303 50.000 8.78 0.00 43.99 2.41
120 121 1.485066 GTCTCACCGATATGGGGTTGT 59.515 52.381 8.78 0.00 43.99 3.32
121 122 1.202651 GGTCTCACCGATATGGGGTTG 60.203 57.143 8.78 0.00 43.99 3.77
122 123 1.129058 GGTCTCACCGATATGGGGTT 58.871 55.000 8.78 0.00 43.99 4.11
123 124 2.836020 GGTCTCACCGATATGGGGT 58.164 57.895 8.78 0.00 43.99 4.95
133 134 2.296073 ATAGGGATCTCGGTCTCACC 57.704 55.000 0.00 0.00 34.05 4.02
134 135 2.297597 CCAATAGGGATCTCGGTCTCAC 59.702 54.545 0.00 0.00 40.01 3.51
135 136 2.091278 ACCAATAGGGATCTCGGTCTCA 60.091 50.000 0.00 0.00 41.15 3.27
136 137 2.297597 CACCAATAGGGATCTCGGTCTC 59.702 54.545 0.00 0.00 41.15 3.36
137 138 2.091278 TCACCAATAGGGATCTCGGTCT 60.091 50.000 0.00 0.00 41.15 3.85
138 139 2.297597 CTCACCAATAGGGATCTCGGTC 59.702 54.545 0.00 0.00 41.15 4.79
139 140 2.091278 TCTCACCAATAGGGATCTCGGT 60.091 50.000 0.00 0.00 41.15 4.69
140 141 2.598565 TCTCACCAATAGGGATCTCGG 58.401 52.381 0.00 0.00 41.15 4.63
141 142 3.119673 CGATCTCACCAATAGGGATCTCG 60.120 52.174 0.00 0.00 41.15 4.04
142 143 4.082845 TCGATCTCACCAATAGGGATCTC 58.917 47.826 0.00 0.00 41.15 2.75
143 144 4.119556 TCGATCTCACCAATAGGGATCT 57.880 45.455 0.00 0.00 41.15 2.75
144 145 5.413309 AATCGATCTCACCAATAGGGATC 57.587 43.478 0.00 0.00 41.15 3.36
145 146 5.555017 CAAATCGATCTCACCAATAGGGAT 58.445 41.667 0.00 0.00 41.15 3.85
146 147 4.743651 GCAAATCGATCTCACCAATAGGGA 60.744 45.833 0.00 0.00 41.15 4.20
147 148 3.499918 GCAAATCGATCTCACCAATAGGG 59.500 47.826 0.00 0.00 44.81 3.53
148 149 3.499918 GGCAAATCGATCTCACCAATAGG 59.500 47.826 0.00 0.00 42.21 2.57
149 150 4.384056 AGGCAAATCGATCTCACCAATAG 58.616 43.478 0.00 0.00 0.00 1.73
150 151 4.422073 AGGCAAATCGATCTCACCAATA 57.578 40.909 0.00 0.00 0.00 1.90
151 152 3.287867 AGGCAAATCGATCTCACCAAT 57.712 42.857 0.00 0.00 0.00 3.16
152 153 2.787473 AGGCAAATCGATCTCACCAA 57.213 45.000 0.00 0.00 0.00 3.67
153 154 2.103094 CCTAGGCAAATCGATCTCACCA 59.897 50.000 0.00 0.00 0.00 4.17
154 155 2.548920 CCCTAGGCAAATCGATCTCACC 60.549 54.545 2.05 0.00 0.00 4.02
155 156 2.103263 ACCCTAGGCAAATCGATCTCAC 59.897 50.000 2.05 0.00 0.00 3.51
156 157 2.398588 ACCCTAGGCAAATCGATCTCA 58.601 47.619 2.05 0.00 0.00 3.27
157 158 3.477210 AACCCTAGGCAAATCGATCTC 57.523 47.619 2.05 0.00 0.00 2.75
158 159 3.054361 ACAAACCCTAGGCAAATCGATCT 60.054 43.478 2.05 0.00 0.00 2.75
159 160 3.065371 CACAAACCCTAGGCAAATCGATC 59.935 47.826 2.05 0.00 0.00 3.69
160 161 3.016736 CACAAACCCTAGGCAAATCGAT 58.983 45.455 2.05 0.00 0.00 3.59
161 162 2.432444 CACAAACCCTAGGCAAATCGA 58.568 47.619 2.05 0.00 0.00 3.59
162 163 1.472480 CCACAAACCCTAGGCAAATCG 59.528 52.381 2.05 0.00 0.00 3.34
163 164 1.204704 GCCACAAACCCTAGGCAAATC 59.795 52.381 2.05 0.00 46.26 2.17
164 165 1.266178 GCCACAAACCCTAGGCAAAT 58.734 50.000 2.05 0.00 46.26 2.32
165 166 2.740121 GCCACAAACCCTAGGCAAA 58.260 52.632 2.05 0.00 46.26 3.68
166 167 4.511838 GCCACAAACCCTAGGCAA 57.488 55.556 2.05 0.00 46.26 4.52
169 170 0.609131 CCACTGCCACAAACCCTAGG 60.609 60.000 0.06 0.06 0.00 3.02
170 171 1.244019 GCCACTGCCACAAACCCTAG 61.244 60.000 0.00 0.00 0.00 3.02
171 172 1.228429 GCCACTGCCACAAACCCTA 60.228 57.895 0.00 0.00 0.00 3.53
172 173 1.715019 TAGCCACTGCCACAAACCCT 61.715 55.000 0.00 0.00 38.69 4.34
173 174 0.611896 ATAGCCACTGCCACAAACCC 60.612 55.000 0.00 0.00 38.69 4.11
174 175 0.527565 CATAGCCACTGCCACAAACC 59.472 55.000 0.00 0.00 38.69 3.27
175 176 1.200020 GTCATAGCCACTGCCACAAAC 59.800 52.381 0.00 0.00 38.69 2.93
176 177 1.202867 TGTCATAGCCACTGCCACAAA 60.203 47.619 0.00 0.00 38.69 2.83
177 178 0.399833 TGTCATAGCCACTGCCACAA 59.600 50.000 0.00 0.00 38.69 3.33
178 179 0.620030 ATGTCATAGCCACTGCCACA 59.380 50.000 0.00 0.00 38.69 4.17
179 180 1.755179 AATGTCATAGCCACTGCCAC 58.245 50.000 0.00 0.00 38.69 5.01
180 181 2.093890 CAAATGTCATAGCCACTGCCA 58.906 47.619 0.00 0.00 38.69 4.92
181 182 2.368439 TCAAATGTCATAGCCACTGCC 58.632 47.619 0.00 0.00 38.69 4.85
182 183 4.082571 AGTTTCAAATGTCATAGCCACTGC 60.083 41.667 0.00 0.00 37.95 4.40
183 184 5.633830 AGTTTCAAATGTCATAGCCACTG 57.366 39.130 0.00 0.00 0.00 3.66
184 185 4.393062 CGAGTTTCAAATGTCATAGCCACT 59.607 41.667 0.00 0.00 0.00 4.00
185 186 4.437390 CCGAGTTTCAAATGTCATAGCCAC 60.437 45.833 0.00 0.00 0.00 5.01
186 187 3.689161 CCGAGTTTCAAATGTCATAGCCA 59.311 43.478 0.00 0.00 0.00 4.75
187 188 3.689649 ACCGAGTTTCAAATGTCATAGCC 59.310 43.478 0.00 0.00 0.00 3.93
188 189 4.437390 CCACCGAGTTTCAAATGTCATAGC 60.437 45.833 0.00 0.00 0.00 2.97
189 190 4.437390 GCCACCGAGTTTCAAATGTCATAG 60.437 45.833 0.00 0.00 0.00 2.23
190 191 3.438781 GCCACCGAGTTTCAAATGTCATA 59.561 43.478 0.00 0.00 0.00 2.15
191 192 2.228822 GCCACCGAGTTTCAAATGTCAT 59.771 45.455 0.00 0.00 0.00 3.06
192 193 1.606668 GCCACCGAGTTTCAAATGTCA 59.393 47.619 0.00 0.00 0.00 3.58
193 194 1.399727 CGCCACCGAGTTTCAAATGTC 60.400 52.381 0.00 0.00 36.29 3.06
194 195 0.591170 CGCCACCGAGTTTCAAATGT 59.409 50.000 0.00 0.00 36.29 2.71
195 196 0.591170 ACGCCACCGAGTTTCAAATG 59.409 50.000 0.00 0.00 38.29 2.32
196 197 0.872388 GACGCCACCGAGTTTCAAAT 59.128 50.000 0.00 0.00 38.29 2.32
197 198 1.492319 CGACGCCACCGAGTTTCAAA 61.492 55.000 0.00 0.00 38.29 2.69
198 199 1.952133 CGACGCCACCGAGTTTCAA 60.952 57.895 0.00 0.00 38.29 2.69
199 200 2.355363 CGACGCCACCGAGTTTCA 60.355 61.111 0.00 0.00 38.29 2.69
200 201 2.830704 ATCCGACGCCACCGAGTTTC 62.831 60.000 0.00 0.00 38.29 2.78
201 202 1.597797 TATCCGACGCCACCGAGTTT 61.598 55.000 0.00 0.00 38.29 2.66
202 203 1.597797 TTATCCGACGCCACCGAGTT 61.598 55.000 0.00 0.00 38.29 3.01
203 204 1.597797 TTTATCCGACGCCACCGAGT 61.598 55.000 0.00 0.00 38.29 4.18
204 205 0.458889 TTTTATCCGACGCCACCGAG 60.459 55.000 0.00 0.00 38.29 4.63
205 206 0.037512 TTTTTATCCGACGCCACCGA 60.038 50.000 0.00 0.00 38.29 4.69
206 207 0.372334 CTTTTTATCCGACGCCACCG 59.628 55.000 0.00 0.00 41.14 4.94
207 208 1.729284 TCTTTTTATCCGACGCCACC 58.271 50.000 0.00 0.00 0.00 4.61
208 209 3.543460 CGATTCTTTTTATCCGACGCCAC 60.543 47.826 0.00 0.00 0.00 5.01
209 210 2.605818 CGATTCTTTTTATCCGACGCCA 59.394 45.455 0.00 0.00 0.00 5.69
210 211 2.861935 TCGATTCTTTTTATCCGACGCC 59.138 45.455 0.00 0.00 0.00 5.68
211 212 4.446234 CATCGATTCTTTTTATCCGACGC 58.554 43.478 0.00 0.00 0.00 5.19
212 213 4.084537 CCCATCGATTCTTTTTATCCGACG 60.085 45.833 0.00 0.00 0.00 5.12
213 214 4.814771 ACCCATCGATTCTTTTTATCCGAC 59.185 41.667 0.00 0.00 0.00 4.79
214 215 5.031066 ACCCATCGATTCTTTTTATCCGA 57.969 39.130 0.00 0.00 0.00 4.55
215 216 4.814234 TGACCCATCGATTCTTTTTATCCG 59.186 41.667 0.00 0.00 0.00 4.18
216 217 6.017852 GTCTGACCCATCGATTCTTTTTATCC 60.018 42.308 0.00 0.00 0.00 2.59
217 218 6.017852 GGTCTGACCCATCGATTCTTTTTATC 60.018 42.308 16.14 0.00 30.04 1.75
218 219 5.823045 GGTCTGACCCATCGATTCTTTTTAT 59.177 40.000 16.14 0.00 30.04 1.40
219 220 5.045869 AGGTCTGACCCATCGATTCTTTTTA 60.046 40.000 22.81 0.00 39.75 1.52
220 221 4.010349 GGTCTGACCCATCGATTCTTTTT 58.990 43.478 16.14 0.00 30.04 1.94
221 222 3.264450 AGGTCTGACCCATCGATTCTTTT 59.736 43.478 22.81 0.00 39.75 2.27
222 223 2.840651 AGGTCTGACCCATCGATTCTTT 59.159 45.455 22.81 0.00 39.75 2.52
223 224 2.472029 AGGTCTGACCCATCGATTCTT 58.528 47.619 22.81 0.00 39.75 2.52
224 225 2.166907 AGGTCTGACCCATCGATTCT 57.833 50.000 22.81 0.00 39.75 2.40
225 226 2.168521 TCAAGGTCTGACCCATCGATTC 59.831 50.000 22.81 0.00 39.75 2.52
226 227 2.187958 TCAAGGTCTGACCCATCGATT 58.812 47.619 22.81 7.06 39.75 3.34
227 228 1.866015 TCAAGGTCTGACCCATCGAT 58.134 50.000 22.81 0.35 39.75 3.59
228 229 1.482182 CATCAAGGTCTGACCCATCGA 59.518 52.381 22.81 14.09 39.75 3.59
229 230 1.945387 CATCAAGGTCTGACCCATCG 58.055 55.000 22.81 9.32 39.75 3.84
230 231 1.211457 AGCATCAAGGTCTGACCCATC 59.789 52.381 22.81 7.05 39.75 3.51
231 232 1.064906 CAGCATCAAGGTCTGACCCAT 60.065 52.381 22.81 9.96 39.75 4.00
400 401 9.736023 GTACTTAGAATGGCTTTTTCATATTGG 57.264 33.333 0.00 0.00 0.00 3.16
652 653 0.885150 TTGGTTTACGCATGGCACGA 60.885 50.000 4.40 0.00 0.00 4.35
1144 1146 3.056322 GTGAGAGCAAAGCCCAAAATGAT 60.056 43.478 0.00 0.00 0.00 2.45
1145 1147 2.297033 GTGAGAGCAAAGCCCAAAATGA 59.703 45.455 0.00 0.00 0.00 2.57
1346 1350 9.397280 CCTATCATTTCACTACTCGATATAGGA 57.603 37.037 8.32 1.71 36.07 2.94
1385 1390 2.033492 CGACTTGCGTTTCGGTTTAACT 60.033 45.455 0.00 0.00 34.64 2.24
1399 1404 3.016474 GCTTGAGTCGCCGACTTGC 62.016 63.158 22.17 20.33 43.53 4.01
1411 1416 2.037136 CCCGCACTCTTGGCTTGAG 61.037 63.158 5.93 5.93 37.55 3.02
1437 1442 1.673033 GCTTCTAGCTTTGACCGCTCA 60.673 52.381 0.00 0.00 38.45 4.26
1458 1463 3.721035 TCGTTCCAGCAGTCATGATATG 58.279 45.455 0.00 2.36 0.00 1.78
1507 1512 7.875971 ACACAATTGACTAAGAAGATTGGAAC 58.124 34.615 13.59 0.00 33.25 3.62
1568 1574 1.354101 TAGGGAAAAACAGGCTCCGA 58.646 50.000 0.00 0.00 0.00 4.55
1572 1578 3.181412 TGGGAAATAGGGAAAAACAGGCT 60.181 43.478 0.00 0.00 0.00 4.58
1634 1640 3.742882 GCTCCATTTCCAAAACTTTCTGC 59.257 43.478 0.00 0.00 0.00 4.26
1854 1861 3.364441 GGTGGCGATGCAGCAACA 61.364 61.111 1.53 0.00 42.69 3.33
1902 1909 1.301677 GACTGCAGCCCCGAGAAAAG 61.302 60.000 15.27 0.00 0.00 2.27
2077 2084 4.390264 ACTTACTTGCTCTTCTTTCCCAC 58.610 43.478 0.00 0.00 0.00 4.61


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

AutoCloner maintained by Alex Coulton.