Multiple sequence alignment - TraesCS2A01G255900

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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 TraesCS2A01G255900 chr2A 100.000 2729 0 0 1 2729 392448679 392451407 0.000000e+00 5040.0
1 TraesCS2A01G255900 chr2D 95.010 2385 88 22 362 2729 325760927 325758557 0.000000e+00 3716.0
2 TraesCS2A01G255900 chr2B 94.360 2376 76 29 367 2729 394952782 394950452 0.000000e+00 3592.0
3 TraesCS2A01G255900 chr3B 86.667 75 6 2 61 131 157365493 157365419 2.250000e-11 80.5


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 TraesCS2A01G255900 chr2A 392448679 392451407 2728 False 5040 5040 100.00 1 2729 1 chr2A.!!$F1 2728
1 TraesCS2A01G255900 chr2D 325758557 325760927 2370 True 3716 3716 95.01 362 2729 1 chr2D.!!$R1 2367
2 TraesCS2A01G255900 chr2B 394950452 394952782 2330 True 3592 3592 94.36 367 2729 1 chr2B.!!$R1 2362

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
57 58 0.036164 TTTCTGTGGTATGGCGTGCT 59.964 50.0 0.0 0.0 0.0 4.40 F
170 171 0.036388 ATTAGGTGAGTGTGCGTGGG 60.036 55.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 1617 0.764271 TCACTTGATGCTGGTGACCA 59.236 50.00 3.4 3.4 35.44 4.02 R
1795 1833 4.712476 AGAAGAACTGAAGCATGAACACT 58.288 39.13 0.0 0.0 0.00 3.55 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 8.884124 TTCCTGAATTTATTTCATGTTCTCCT 57.116 30.769 0.00 0.00 43.30 3.69
29 30 8.284945 TCCTGAATTTATTTCATGTTCTCCTG 57.715 34.615 0.00 0.00 43.30 3.86
30 31 6.976925 CCTGAATTTATTTCATGTTCTCCTGC 59.023 38.462 0.00 0.00 43.30 4.85
31 32 6.554419 TGAATTTATTTCATGTTCTCCTGCG 58.446 36.000 0.00 0.00 39.44 5.18
32 33 4.355543 TTTATTTCATGTTCTCCTGCGC 57.644 40.909 0.00 0.00 0.00 6.09
33 34 2.119801 ATTTCATGTTCTCCTGCGCT 57.880 45.000 9.73 0.00 0.00 5.92
34 35 2.760634 TTTCATGTTCTCCTGCGCTA 57.239 45.000 9.73 0.00 0.00 4.26
35 36 2.988010 TTCATGTTCTCCTGCGCTAT 57.012 45.000 9.73 0.00 0.00 2.97
36 37 2.988010 TCATGTTCTCCTGCGCTATT 57.012 45.000 9.73 0.00 0.00 1.73
37 38 2.826428 TCATGTTCTCCTGCGCTATTC 58.174 47.619 9.73 0.00 0.00 1.75
38 39 2.432146 TCATGTTCTCCTGCGCTATTCT 59.568 45.455 9.73 0.00 0.00 2.40
39 40 3.118629 TCATGTTCTCCTGCGCTATTCTT 60.119 43.478 9.73 0.00 0.00 2.52
40 41 3.334583 TGTTCTCCTGCGCTATTCTTT 57.665 42.857 9.73 0.00 0.00 2.52
41 42 3.262420 TGTTCTCCTGCGCTATTCTTTC 58.738 45.455 9.73 0.00 0.00 2.62
42 43 3.055819 TGTTCTCCTGCGCTATTCTTTCT 60.056 43.478 9.73 0.00 0.00 2.52
43 44 3.170791 TCTCCTGCGCTATTCTTTCTG 57.829 47.619 9.73 0.00 0.00 3.02
44 45 2.497675 TCTCCTGCGCTATTCTTTCTGT 59.502 45.455 9.73 0.00 0.00 3.41
45 46 2.606725 CTCCTGCGCTATTCTTTCTGTG 59.393 50.000 9.73 0.00 0.00 3.66
46 47 1.667724 CCTGCGCTATTCTTTCTGTGG 59.332 52.381 9.73 0.00 0.00 4.17
47 48 2.350522 CTGCGCTATTCTTTCTGTGGT 58.649 47.619 9.73 0.00 0.00 4.16
48 49 3.521560 CTGCGCTATTCTTTCTGTGGTA 58.478 45.455 9.73 0.00 0.00 3.25
49 50 4.122776 CTGCGCTATTCTTTCTGTGGTAT 58.877 43.478 9.73 0.00 0.00 2.73
50 51 3.871006 TGCGCTATTCTTTCTGTGGTATG 59.129 43.478 9.73 0.00 0.00 2.39
51 52 3.248602 GCGCTATTCTTTCTGTGGTATGG 59.751 47.826 0.00 0.00 0.00 2.74
52 53 3.248602 CGCTATTCTTTCTGTGGTATGGC 59.751 47.826 0.00 0.00 0.00 4.40
53 54 3.248602 GCTATTCTTTCTGTGGTATGGCG 59.751 47.826 0.00 0.00 0.00 5.69
54 55 2.851263 TTCTTTCTGTGGTATGGCGT 57.149 45.000 0.00 0.00 0.00 5.68
55 56 2.093306 TCTTTCTGTGGTATGGCGTG 57.907 50.000 0.00 0.00 0.00 5.34
56 57 0.447801 CTTTCTGTGGTATGGCGTGC 59.552 55.000 0.00 0.00 0.00 5.34
57 58 0.036164 TTTCTGTGGTATGGCGTGCT 59.964 50.000 0.00 0.00 0.00 4.40
58 59 0.391130 TTCTGTGGTATGGCGTGCTC 60.391 55.000 0.00 0.00 0.00 4.26
59 60 1.079197 CTGTGGTATGGCGTGCTCA 60.079 57.895 0.00 0.00 0.00 4.26
60 61 0.462581 CTGTGGTATGGCGTGCTCAT 60.463 55.000 0.00 0.00 0.00 2.90
61 62 0.461870 TGTGGTATGGCGTGCTCATC 60.462 55.000 0.00 0.00 0.00 2.92
62 63 0.461870 GTGGTATGGCGTGCTCATCA 60.462 55.000 0.00 0.00 0.00 3.07
63 64 0.251634 TGGTATGGCGTGCTCATCAA 59.748 50.000 0.00 0.00 0.00 2.57
64 65 0.657840 GGTATGGCGTGCTCATCAAC 59.342 55.000 0.00 0.00 0.00 3.18
65 66 1.656652 GTATGGCGTGCTCATCAACT 58.343 50.000 0.00 0.00 0.00 3.16
66 67 2.483013 GGTATGGCGTGCTCATCAACTA 60.483 50.000 0.00 0.00 0.00 2.24
67 68 2.627515 ATGGCGTGCTCATCAACTAT 57.372 45.000 0.00 0.00 0.00 2.12
68 69 1.655484 TGGCGTGCTCATCAACTATG 58.345 50.000 0.00 0.00 36.88 2.23
69 70 1.206849 TGGCGTGCTCATCAACTATGA 59.793 47.619 0.00 0.00 42.48 2.15
80 81 5.863965 TCATCAACTATGAGGTGTTTGTGA 58.136 37.500 0.00 0.00 39.77 3.58
81 82 6.475504 TCATCAACTATGAGGTGTTTGTGAT 58.524 36.000 0.00 0.00 39.77 3.06
82 83 6.372381 TCATCAACTATGAGGTGTTTGTGATG 59.628 38.462 0.00 0.00 39.77 3.07
83 84 5.863965 TCAACTATGAGGTGTTTGTGATGA 58.136 37.500 0.00 0.00 33.77 2.92
84 85 5.700832 TCAACTATGAGGTGTTTGTGATGAC 59.299 40.000 0.00 0.00 33.77 3.06
85 86 5.489792 ACTATGAGGTGTTTGTGATGACT 57.510 39.130 0.00 0.00 0.00 3.41
86 87 5.869579 ACTATGAGGTGTTTGTGATGACTT 58.130 37.500 0.00 0.00 0.00 3.01
87 88 5.934625 ACTATGAGGTGTTTGTGATGACTTC 59.065 40.000 0.00 0.00 0.00 3.01
88 89 4.149511 TGAGGTGTTTGTGATGACTTCA 57.850 40.909 0.00 0.00 0.00 3.02
89 90 4.717877 TGAGGTGTTTGTGATGACTTCAT 58.282 39.130 0.00 0.00 36.54 2.57
104 105 6.462552 TGACTTCATCAACCTCTAGATCTG 57.537 41.667 5.18 0.00 33.02 2.90
105 106 5.954752 TGACTTCATCAACCTCTAGATCTGT 59.045 40.000 5.18 0.00 33.02 3.41
106 107 6.096141 TGACTTCATCAACCTCTAGATCTGTC 59.904 42.308 5.18 0.00 33.02 3.51
107 108 5.067153 ACTTCATCAACCTCTAGATCTGTCG 59.933 44.000 5.18 0.00 0.00 4.35
108 109 4.781934 TCATCAACCTCTAGATCTGTCGA 58.218 43.478 5.18 0.00 0.00 4.20
109 110 4.576873 TCATCAACCTCTAGATCTGTCGAC 59.423 45.833 9.11 9.11 0.00 4.20
110 111 4.223556 TCAACCTCTAGATCTGTCGACT 57.776 45.455 17.92 0.00 0.00 4.18
111 112 4.193090 TCAACCTCTAGATCTGTCGACTC 58.807 47.826 17.92 6.13 0.00 3.36
112 113 2.828877 ACCTCTAGATCTGTCGACTCG 58.171 52.381 17.92 8.07 0.00 4.18
113 114 2.139917 CCTCTAGATCTGTCGACTCGG 58.860 57.143 17.92 7.23 0.00 4.63
114 115 2.484065 CCTCTAGATCTGTCGACTCGGT 60.484 54.545 17.92 3.86 0.00 4.69
115 116 2.798283 CTCTAGATCTGTCGACTCGGTC 59.202 54.545 17.92 13.15 0.00 4.79
116 117 2.431419 TCTAGATCTGTCGACTCGGTCT 59.569 50.000 17.92 19.13 0.00 3.85
117 118 1.658994 AGATCTGTCGACTCGGTCTC 58.341 55.000 17.92 5.24 0.00 3.36
118 119 1.208535 AGATCTGTCGACTCGGTCTCT 59.791 52.381 17.92 7.36 0.00 3.10
119 120 2.011222 GATCTGTCGACTCGGTCTCTT 58.989 52.381 17.92 0.00 0.00 2.85
120 121 2.756840 TCTGTCGACTCGGTCTCTTA 57.243 50.000 17.92 0.00 0.00 2.10
121 122 2.619147 TCTGTCGACTCGGTCTCTTAG 58.381 52.381 17.92 1.37 0.00 2.18
122 123 2.233186 TCTGTCGACTCGGTCTCTTAGA 59.767 50.000 17.92 3.96 0.00 2.10
123 124 2.605818 CTGTCGACTCGGTCTCTTAGAG 59.394 54.545 17.92 2.23 37.96 2.43
124 125 1.935199 GTCGACTCGGTCTCTTAGAGG 59.065 57.143 8.70 0.00 36.40 3.69
125 126 1.554160 TCGACTCGGTCTCTTAGAGGT 59.446 52.381 9.58 0.00 36.40 3.85
126 127 1.666700 CGACTCGGTCTCTTAGAGGTG 59.333 57.143 9.58 0.07 36.40 4.00
127 128 1.402613 GACTCGGTCTCTTAGAGGTGC 59.597 57.143 9.58 0.65 36.40 5.01
128 129 1.004979 ACTCGGTCTCTTAGAGGTGCT 59.995 52.381 9.58 0.00 36.40 4.40
129 130 1.673920 CTCGGTCTCTTAGAGGTGCTC 59.326 57.143 9.58 0.00 0.00 4.26
130 131 1.004394 TCGGTCTCTTAGAGGTGCTCA 59.996 52.381 9.58 0.00 32.06 4.26
131 132 1.403679 CGGTCTCTTAGAGGTGCTCAG 59.596 57.143 9.58 0.00 32.06 3.35
132 133 1.754226 GGTCTCTTAGAGGTGCTCAGG 59.246 57.143 9.58 0.00 32.06 3.86
133 134 1.754226 GTCTCTTAGAGGTGCTCAGGG 59.246 57.143 9.58 0.00 32.06 4.45
134 135 1.641192 TCTCTTAGAGGTGCTCAGGGA 59.359 52.381 9.58 0.00 32.06 4.20
135 136 2.031120 CTCTTAGAGGTGCTCAGGGAG 58.969 57.143 0.41 0.00 32.06 4.30
136 137 1.359474 TCTTAGAGGTGCTCAGGGAGT 59.641 52.381 0.00 0.00 32.06 3.85
137 138 1.480137 CTTAGAGGTGCTCAGGGAGTG 59.520 57.143 0.00 0.00 32.06 3.51
138 139 0.972983 TAGAGGTGCTCAGGGAGTGC 60.973 60.000 0.00 0.00 37.26 4.40
139 140 3.655810 GAGGTGCTCAGGGAGTGCG 62.656 68.421 0.00 0.00 39.54 5.34
140 141 4.008933 GGTGCTCAGGGAGTGCGT 62.009 66.667 0.00 0.00 39.54 5.24
141 142 2.740055 GTGCTCAGGGAGTGCGTG 60.740 66.667 0.00 0.00 39.54 5.34
142 143 3.233980 TGCTCAGGGAGTGCGTGT 61.234 61.111 4.20 0.00 39.54 4.49
143 144 2.433318 GCTCAGGGAGTGCGTGTC 60.433 66.667 4.20 0.00 31.39 3.67
144 145 2.936912 GCTCAGGGAGTGCGTGTCT 61.937 63.158 4.20 0.00 31.39 3.41
145 146 1.080230 CTCAGGGAGTGCGTGTCTG 60.080 63.158 4.20 0.00 0.00 3.51
146 147 2.740055 CAGGGAGTGCGTGTCTGC 60.740 66.667 0.00 0.00 0.00 4.26
147 148 4.363990 AGGGAGTGCGTGTCTGCG 62.364 66.667 0.00 0.00 37.81 5.18
148 149 4.664677 GGGAGTGCGTGTCTGCGT 62.665 66.667 0.00 0.00 37.81 5.24
149 150 2.661866 GGAGTGCGTGTCTGCGTT 60.662 61.111 0.00 0.00 37.81 4.84
150 151 2.658707 GGAGTGCGTGTCTGCGTTC 61.659 63.158 0.00 0.00 37.81 3.95
151 152 1.949133 GAGTGCGTGTCTGCGTTCA 60.949 57.895 0.00 0.00 37.81 3.18
152 153 1.284982 GAGTGCGTGTCTGCGTTCAT 61.285 55.000 0.00 0.00 37.81 2.57
153 154 0.880278 AGTGCGTGTCTGCGTTCATT 60.880 50.000 0.00 0.00 37.81 2.57
154 155 0.787787 GTGCGTGTCTGCGTTCATTA 59.212 50.000 0.00 0.00 37.81 1.90
155 156 1.067693 TGCGTGTCTGCGTTCATTAG 58.932 50.000 0.00 0.00 37.81 1.73
156 157 0.370273 GCGTGTCTGCGTTCATTAGG 59.630 55.000 0.00 0.00 0.00 2.69
157 158 1.710013 CGTGTCTGCGTTCATTAGGT 58.290 50.000 0.00 0.00 0.00 3.08
158 159 1.390123 CGTGTCTGCGTTCATTAGGTG 59.610 52.381 0.00 0.00 0.00 4.00
159 160 2.683968 GTGTCTGCGTTCATTAGGTGA 58.316 47.619 0.00 0.00 34.25 4.02
160 161 2.668457 GTGTCTGCGTTCATTAGGTGAG 59.332 50.000 0.00 0.00 38.29 3.51
161 162 2.299013 TGTCTGCGTTCATTAGGTGAGT 59.701 45.455 0.00 0.00 38.29 3.41
162 163 2.668457 GTCTGCGTTCATTAGGTGAGTG 59.332 50.000 0.00 0.00 38.29 3.51
163 164 2.299013 TCTGCGTTCATTAGGTGAGTGT 59.701 45.455 0.00 0.00 38.29 3.55
164 165 2.412870 TGCGTTCATTAGGTGAGTGTG 58.587 47.619 0.00 0.00 38.29 3.82
165 166 1.128692 GCGTTCATTAGGTGAGTGTGC 59.871 52.381 0.00 0.00 38.29 4.57
166 167 1.390123 CGTTCATTAGGTGAGTGTGCG 59.610 52.381 0.00 0.00 38.29 5.34
167 168 2.413837 GTTCATTAGGTGAGTGTGCGT 58.586 47.619 0.00 0.00 38.29 5.24
168 169 2.078849 TCATTAGGTGAGTGTGCGTG 57.921 50.000 0.00 0.00 31.80 5.34
169 170 1.078709 CATTAGGTGAGTGTGCGTGG 58.921 55.000 0.00 0.00 0.00 4.94
170 171 0.036388 ATTAGGTGAGTGTGCGTGGG 60.036 55.000 0.00 0.00 0.00 4.61
171 172 1.404479 TTAGGTGAGTGTGCGTGGGT 61.404 55.000 0.00 0.00 0.00 4.51
172 173 2.094757 TAGGTGAGTGTGCGTGGGTG 62.095 60.000 0.00 0.00 0.00 4.61
173 174 2.203015 GTGAGTGTGCGTGGGTGT 60.203 61.111 0.00 0.00 0.00 4.16
174 175 1.068417 GTGAGTGTGCGTGGGTGTA 59.932 57.895 0.00 0.00 0.00 2.90
175 176 0.320421 GTGAGTGTGCGTGGGTGTAT 60.320 55.000 0.00 0.00 0.00 2.29
176 177 0.320334 TGAGTGTGCGTGGGTGTATG 60.320 55.000 0.00 0.00 0.00 2.39
177 178 1.635663 GAGTGTGCGTGGGTGTATGC 61.636 60.000 0.00 0.00 0.00 3.14
178 179 2.740440 TGTGCGTGGGTGTATGCG 60.740 61.111 0.00 0.00 35.34 4.73
179 180 2.433491 GTGCGTGGGTGTATGCGA 60.433 61.111 0.00 0.00 35.34 5.10
180 181 2.125713 TGCGTGGGTGTATGCGAG 60.126 61.111 0.00 0.00 35.34 5.03
181 182 3.564027 GCGTGGGTGTATGCGAGC 61.564 66.667 0.00 0.00 0.00 5.03
182 183 3.254654 CGTGGGTGTATGCGAGCG 61.255 66.667 0.00 0.00 0.00 5.03
183 184 2.125673 GTGGGTGTATGCGAGCGT 60.126 61.111 0.00 0.00 0.00 5.07
184 185 2.165301 GTGGGTGTATGCGAGCGTC 61.165 63.158 0.00 0.00 0.00 5.19
185 186 2.348104 TGGGTGTATGCGAGCGTCT 61.348 57.895 0.00 0.00 0.00 4.18
186 187 1.878522 GGGTGTATGCGAGCGTCTG 60.879 63.158 0.00 0.00 0.00 3.51
187 188 1.153823 GGTGTATGCGAGCGTCTGT 60.154 57.895 0.00 0.00 0.00 3.41
188 189 1.413767 GGTGTATGCGAGCGTCTGTG 61.414 60.000 0.00 0.00 0.00 3.66
189 190 0.732880 GTGTATGCGAGCGTCTGTGT 60.733 55.000 0.00 0.00 0.00 3.72
190 191 0.038618 TGTATGCGAGCGTCTGTGTT 60.039 50.000 0.00 0.00 0.00 3.32
191 192 1.068474 GTATGCGAGCGTCTGTGTTT 58.932 50.000 0.00 0.00 0.00 2.83
192 193 1.067693 TATGCGAGCGTCTGTGTTTG 58.932 50.000 0.00 0.00 0.00 2.93
193 194 0.880278 ATGCGAGCGTCTGTGTTTGT 60.880 50.000 0.00 0.00 0.00 2.83
194 195 0.249114 TGCGAGCGTCTGTGTTTGTA 60.249 50.000 0.00 0.00 0.00 2.41
195 196 1.068474 GCGAGCGTCTGTGTTTGTAT 58.932 50.000 0.00 0.00 0.00 2.29
196 197 1.059264 GCGAGCGTCTGTGTTTGTATC 59.941 52.381 0.00 0.00 0.00 2.24
197 198 2.324860 CGAGCGTCTGTGTTTGTATCA 58.675 47.619 0.00 0.00 0.00 2.15
198 199 2.923655 CGAGCGTCTGTGTTTGTATCAT 59.076 45.455 0.00 0.00 0.00 2.45
199 200 3.241773 CGAGCGTCTGTGTTTGTATCATG 60.242 47.826 0.00 0.00 0.00 3.07
200 201 3.664107 AGCGTCTGTGTTTGTATCATGT 58.336 40.909 0.00 0.00 0.00 3.21
201 202 4.065088 AGCGTCTGTGTTTGTATCATGTT 58.935 39.130 0.00 0.00 0.00 2.71
202 203 4.515191 AGCGTCTGTGTTTGTATCATGTTT 59.485 37.500 0.00 0.00 0.00 2.83
203 204 4.612614 GCGTCTGTGTTTGTATCATGTTTG 59.387 41.667 0.00 0.00 0.00 2.93
204 205 5.747565 CGTCTGTGTTTGTATCATGTTTGT 58.252 37.500 0.00 0.00 0.00 2.83
205 206 6.565060 GCGTCTGTGTTTGTATCATGTTTGTA 60.565 38.462 0.00 0.00 0.00 2.41
206 207 7.348956 CGTCTGTGTTTGTATCATGTTTGTAA 58.651 34.615 0.00 0.00 0.00 2.41
207 208 7.853437 CGTCTGTGTTTGTATCATGTTTGTAAA 59.147 33.333 0.00 0.00 0.00 2.01
208 209 9.509855 GTCTGTGTTTGTATCATGTTTGTAAAA 57.490 29.630 0.00 0.00 0.00 1.52
257 258 6.005583 TCAGATTTCATTTGTCACTTGAGC 57.994 37.500 0.00 0.00 0.00 4.26
258 259 5.532032 TCAGATTTCATTTGTCACTTGAGCA 59.468 36.000 0.00 0.00 0.00 4.26
259 260 6.208007 TCAGATTTCATTTGTCACTTGAGCAT 59.792 34.615 0.00 0.00 0.00 3.79
260 261 6.866770 CAGATTTCATTTGTCACTTGAGCATT 59.133 34.615 0.00 0.00 0.00 3.56
261 262 8.024865 CAGATTTCATTTGTCACTTGAGCATTA 58.975 33.333 0.00 0.00 0.00 1.90
262 263 8.579006 AGATTTCATTTGTCACTTGAGCATTAA 58.421 29.630 0.00 0.00 0.00 1.40
263 264 7.928908 TTTCATTTGTCACTTGAGCATTAAC 57.071 32.000 0.00 0.00 0.00 2.01
264 265 6.631971 TCATTTGTCACTTGAGCATTAACA 57.368 33.333 0.00 0.00 0.00 2.41
265 266 7.218228 TCATTTGTCACTTGAGCATTAACAT 57.782 32.000 0.00 0.00 0.00 2.71
266 267 8.334263 TCATTTGTCACTTGAGCATTAACATA 57.666 30.769 0.00 0.00 0.00 2.29
267 268 8.959548 TCATTTGTCACTTGAGCATTAACATAT 58.040 29.630 0.00 0.00 0.00 1.78
268 269 9.016623 CATTTGTCACTTGAGCATTAACATATG 57.983 33.333 0.00 0.00 0.00 1.78
278 279 5.376854 GCATTAACATATGCTAACCAGGG 57.623 43.478 1.58 0.00 45.80 4.45
279 280 5.070001 GCATTAACATATGCTAACCAGGGA 58.930 41.667 1.58 0.00 45.80 4.20
280 281 5.711976 GCATTAACATATGCTAACCAGGGAT 59.288 40.000 1.58 0.00 45.80 3.85
281 282 6.349611 GCATTAACATATGCTAACCAGGGATG 60.350 42.308 1.58 0.00 45.80 3.51
282 283 6.508030 TTAACATATGCTAACCAGGGATGA 57.492 37.500 1.58 0.00 0.00 2.92
283 284 5.387113 AACATATGCTAACCAGGGATGAA 57.613 39.130 1.58 0.00 0.00 2.57
284 285 4.978099 ACATATGCTAACCAGGGATGAAG 58.022 43.478 1.58 0.00 0.00 3.02
285 286 4.660303 ACATATGCTAACCAGGGATGAAGA 59.340 41.667 1.58 0.00 0.00 2.87
286 287 3.853355 ATGCTAACCAGGGATGAAGAG 57.147 47.619 0.00 0.00 0.00 2.85
287 288 1.839994 TGCTAACCAGGGATGAAGAGG 59.160 52.381 0.00 0.00 0.00 3.69
288 289 1.475930 GCTAACCAGGGATGAAGAGGC 60.476 57.143 0.00 0.00 0.00 4.70
289 290 0.830648 TAACCAGGGATGAAGAGGCG 59.169 55.000 0.00 0.00 0.00 5.52
290 291 0.909610 AACCAGGGATGAAGAGGCGA 60.910 55.000 0.00 0.00 0.00 5.54
291 292 1.333636 ACCAGGGATGAAGAGGCGAG 61.334 60.000 0.00 0.00 0.00 5.03
292 293 1.445095 CAGGGATGAAGAGGCGAGG 59.555 63.158 0.00 0.00 0.00 4.63
293 294 1.045350 CAGGGATGAAGAGGCGAGGA 61.045 60.000 0.00 0.00 0.00 3.71
294 295 0.758685 AGGGATGAAGAGGCGAGGAG 60.759 60.000 0.00 0.00 0.00 3.69
295 296 1.745264 GGATGAAGAGGCGAGGAGG 59.255 63.158 0.00 0.00 0.00 4.30
304 305 3.394836 GCGAGGAGGCTCACCCTT 61.395 66.667 17.69 0.00 46.60 3.95
305 306 2.896443 CGAGGAGGCTCACCCTTC 59.104 66.667 17.69 4.70 46.60 3.46
306 307 2.726351 CGAGGAGGCTCACCCTTCC 61.726 68.421 17.69 0.00 46.60 3.46
307 308 1.306568 GAGGAGGCTCACCCTTCCT 60.307 63.158 17.69 2.45 46.60 3.36
308 309 0.912006 GAGGAGGCTCACCCTTCCTT 60.912 60.000 17.69 0.00 46.60 3.36
309 310 0.476611 AGGAGGCTCACCCTTCCTTT 60.477 55.000 17.69 0.00 46.60 3.11
310 311 0.405973 GGAGGCTCACCCTTCCTTTT 59.594 55.000 17.69 0.00 46.60 2.27
311 312 1.614583 GGAGGCTCACCCTTCCTTTTC 60.615 57.143 17.69 0.00 46.60 2.29
312 313 1.352687 GAGGCTCACCCTTCCTTTTCT 59.647 52.381 10.25 0.00 46.60 2.52
313 314 1.352687 AGGCTCACCCTTCCTTTTCTC 59.647 52.381 0.00 0.00 43.06 2.87
314 315 1.073923 GGCTCACCCTTCCTTTTCTCA 59.926 52.381 0.00 0.00 0.00 3.27
315 316 2.489073 GGCTCACCCTTCCTTTTCTCAA 60.489 50.000 0.00 0.00 0.00 3.02
316 317 3.222603 GCTCACCCTTCCTTTTCTCAAA 58.777 45.455 0.00 0.00 0.00 2.69
317 318 3.004839 GCTCACCCTTCCTTTTCTCAAAC 59.995 47.826 0.00 0.00 0.00 2.93
318 319 4.207165 CTCACCCTTCCTTTTCTCAAACA 58.793 43.478 0.00 0.00 0.00 2.83
319 320 4.605183 TCACCCTTCCTTTTCTCAAACAA 58.395 39.130 0.00 0.00 0.00 2.83
320 321 5.020132 TCACCCTTCCTTTTCTCAAACAAA 58.980 37.500 0.00 0.00 0.00 2.83
321 322 5.660864 TCACCCTTCCTTTTCTCAAACAAAT 59.339 36.000 0.00 0.00 0.00 2.32
322 323 6.156083 TCACCCTTCCTTTTCTCAAACAAATT 59.844 34.615 0.00 0.00 0.00 1.82
323 324 7.343316 TCACCCTTCCTTTTCTCAAACAAATTA 59.657 33.333 0.00 0.00 0.00 1.40
324 325 7.984617 CACCCTTCCTTTTCTCAAACAAATTAA 59.015 33.333 0.00 0.00 0.00 1.40
325 326 7.985184 ACCCTTCCTTTTCTCAAACAAATTAAC 59.015 33.333 0.00 0.00 0.00 2.01
326 327 7.984617 CCCTTCCTTTTCTCAAACAAATTAACA 59.015 33.333 0.00 0.00 0.00 2.41
327 328 8.817100 CCTTCCTTTTCTCAAACAAATTAACAC 58.183 33.333 0.00 0.00 0.00 3.32
328 329 9.364989 CTTCCTTTTCTCAAACAAATTAACACA 57.635 29.630 0.00 0.00 0.00 3.72
329 330 9.883142 TTCCTTTTCTCAAACAAATTAACACAT 57.117 25.926 0.00 0.00 0.00 3.21
330 331 9.311916 TCCTTTTCTCAAACAAATTAACACATG 57.688 29.630 0.00 0.00 0.00 3.21
331 332 9.097257 CCTTTTCTCAAACAAATTAACACATGT 57.903 29.630 0.00 0.00 0.00 3.21
335 336 8.795786 TCTCAAACAAATTAACACATGTTAGC 57.204 30.769 0.00 0.00 41.03 3.09
336 337 8.629158 TCTCAAACAAATTAACACATGTTAGCT 58.371 29.630 0.00 0.00 41.03 3.32
337 338 8.795786 TCAAACAAATTAACACATGTTAGCTC 57.204 30.769 0.00 0.00 41.03 4.09
338 339 8.409371 TCAAACAAATTAACACATGTTAGCTCA 58.591 29.630 0.00 0.00 41.03 4.26
339 340 9.195411 CAAACAAATTAACACATGTTAGCTCAT 57.805 29.630 0.00 0.00 41.03 2.90
341 342 8.109705 ACAAATTAACACATGTTAGCTCATGA 57.890 30.769 19.28 0.00 45.41 3.07
342 343 8.742777 ACAAATTAACACATGTTAGCTCATGAT 58.257 29.630 19.28 9.29 45.41 2.45
345 346 9.836864 AATTAACACATGTTAGCTCATGATAGA 57.163 29.630 19.28 4.74 45.41 1.98
349 350 8.414629 ACACATGTTAGCTCATGATAGATAGA 57.585 34.615 19.28 0.00 45.41 1.98
350 351 9.033711 ACACATGTTAGCTCATGATAGATAGAT 57.966 33.333 19.28 0.00 45.41 1.98
351 352 9.303537 CACATGTTAGCTCATGATAGATAGATG 57.696 37.037 19.28 3.36 45.41 2.90
352 353 9.252635 ACATGTTAGCTCATGATAGATAGATGA 57.747 33.333 19.28 0.00 45.41 2.92
355 356 8.526978 TGTTAGCTCATGATAGATAGATGAACC 58.473 37.037 0.00 0.00 0.00 3.62
356 357 8.748412 GTTAGCTCATGATAGATAGATGAACCT 58.252 37.037 0.00 0.00 0.00 3.50
357 358 9.981460 TTAGCTCATGATAGATAGATGAACCTA 57.019 33.333 0.00 0.00 0.00 3.08
358 359 8.891985 AGCTCATGATAGATAGATGAACCTAA 57.108 34.615 0.00 0.00 0.00 2.69
359 360 8.748412 AGCTCATGATAGATAGATGAACCTAAC 58.252 37.037 0.00 0.00 0.00 2.34
360 361 8.526978 GCTCATGATAGATAGATGAACCTAACA 58.473 37.037 0.00 0.00 0.00 2.41
508 514 9.378551 CATTAACTAGCAGGTGAAAGTATTGTA 57.621 33.333 0.00 0.00 0.00 2.41
563 569 3.760684 GCATCCACTGGAGTTGAAAGAAT 59.239 43.478 3.62 0.00 34.05 2.40
597 603 7.781324 ATGGATATGTCTGGTGAAACTTTTT 57.219 32.000 0.00 0.00 36.74 1.94
598 604 8.877864 ATGGATATGTCTGGTGAAACTTTTTA 57.122 30.769 0.00 0.00 36.74 1.52
599 605 8.106247 TGGATATGTCTGGTGAAACTTTTTAC 57.894 34.615 0.00 0.00 36.74 2.01
600 606 7.175990 TGGATATGTCTGGTGAAACTTTTTACC 59.824 37.037 8.38 8.38 44.49 2.85
601 607 4.886247 TGTCTGGTGAAACTTTTTACCG 57.114 40.909 10.20 6.29 46.46 4.02
602 608 4.515361 TGTCTGGTGAAACTTTTTACCGA 58.485 39.130 10.20 8.05 46.46 4.69
603 609 4.942483 TGTCTGGTGAAACTTTTTACCGAA 59.058 37.500 10.20 0.11 46.46 4.30
604 610 5.415077 TGTCTGGTGAAACTTTTTACCGAAA 59.585 36.000 10.20 4.53 46.46 3.46
605 611 6.072064 TGTCTGGTGAAACTTTTTACCGAAAA 60.072 34.615 10.20 0.00 46.46 2.29
606 612 6.807720 GTCTGGTGAAACTTTTTACCGAAAAA 59.192 34.615 10.20 0.00 46.46 1.94
616 622 6.512342 TTTTTACCGAAAAAGTCTGGTGAA 57.488 33.333 0.00 0.00 39.16 3.18
617 623 6.512342 TTTTACCGAAAAAGTCTGGTGAAA 57.488 33.333 0.00 0.00 36.74 2.69
618 624 5.488645 TTACCGAAAAAGTCTGGTGAAAC 57.511 39.130 0.00 0.00 35.58 2.78
619 625 3.617284 ACCGAAAAAGTCTGGTGAAACT 58.383 40.909 0.00 0.00 36.74 2.66
620 626 4.014406 ACCGAAAAAGTCTGGTGAAACTT 58.986 39.130 0.00 0.00 37.32 2.66
621 627 4.461431 ACCGAAAAAGTCTGGTGAAACTTT 59.539 37.500 0.00 0.00 45.21 2.66
700 735 8.978472 ACTCAGATATTAGCTAGTGGTAAACAA 58.022 33.333 0.00 0.00 39.23 2.83
758 793 7.239166 GTGTATCTCACATCAAACATGGTAG 57.761 40.000 0.00 0.00 45.51 3.18
830 865 6.529696 ACATGTAAACGCAAACAACAAAAAG 58.470 32.000 0.00 0.00 0.00 2.27
831 866 6.366332 ACATGTAAACGCAAACAACAAAAAGA 59.634 30.769 0.00 0.00 0.00 2.52
839 874 3.586100 AACAACAAAAAGAACAGCGGT 57.414 38.095 0.00 0.00 0.00 5.68
1795 1833 1.001745 CAACTCGATCGTGTGCGTGA 61.002 55.000 22.14 0.00 39.49 4.35
1857 1895 9.267096 CTCTATTTCGTTTGTGCTTAATTCTTC 57.733 33.333 0.00 0.00 0.00 2.87
1892 1931 8.682710 CCTTAGTCAATTTATCCGAATCCAAAA 58.317 33.333 0.00 0.00 0.00 2.44
1919 1958 8.331022 GCTTGTTTCTCTACATATGTGTGTATG 58.669 37.037 18.81 3.23 39.39 2.39
2162 2201 7.061566 TCCATGGATCATTCATAGTCGTAAA 57.938 36.000 11.44 0.00 0.00 2.01
2240 2281 7.704789 AAATGTGAAGCAGAAACTCAAATTC 57.295 32.000 0.00 0.00 0.00 2.17
2257 2298 9.550406 ACTCAAATTCATTGACAAAACATCAAT 57.450 25.926 0.00 0.00 45.57 2.57
2509 2551 1.741401 TTTGCCTCGTGATGCCTCG 60.741 57.895 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.456822 GCGCAGGAGAACATGAAATAAATTC 59.543 40.000 0.30 0.00 38.60 2.17
9 10 5.126061 AGCGCAGGAGAACATGAAATAAATT 59.874 36.000 11.47 0.00 0.00 1.82
10 11 4.641989 AGCGCAGGAGAACATGAAATAAAT 59.358 37.500 11.47 0.00 0.00 1.40
11 12 4.009675 AGCGCAGGAGAACATGAAATAAA 58.990 39.130 11.47 0.00 0.00 1.40
12 13 3.609853 AGCGCAGGAGAACATGAAATAA 58.390 40.909 11.47 0.00 0.00 1.40
13 14 3.266510 AGCGCAGGAGAACATGAAATA 57.733 42.857 11.47 0.00 0.00 1.40
14 15 2.119801 AGCGCAGGAGAACATGAAAT 57.880 45.000 11.47 0.00 0.00 2.17
15 16 2.760634 TAGCGCAGGAGAACATGAAA 57.239 45.000 11.47 0.00 0.00 2.69
16 17 2.988010 ATAGCGCAGGAGAACATGAA 57.012 45.000 11.47 0.00 0.00 2.57
17 18 2.432146 AGAATAGCGCAGGAGAACATGA 59.568 45.455 11.47 0.00 0.00 3.07
18 19 2.831333 AGAATAGCGCAGGAGAACATG 58.169 47.619 11.47 0.00 0.00 3.21
19 20 3.550437 AAGAATAGCGCAGGAGAACAT 57.450 42.857 11.47 0.00 0.00 2.71
20 21 3.055819 AGAAAGAATAGCGCAGGAGAACA 60.056 43.478 11.47 0.00 0.00 3.18
21 22 3.308323 CAGAAAGAATAGCGCAGGAGAAC 59.692 47.826 11.47 0.00 0.00 3.01
22 23 3.055819 ACAGAAAGAATAGCGCAGGAGAA 60.056 43.478 11.47 0.00 0.00 2.87
23 24 2.497675 ACAGAAAGAATAGCGCAGGAGA 59.502 45.455 11.47 0.00 0.00 3.71
24 25 2.606725 CACAGAAAGAATAGCGCAGGAG 59.393 50.000 11.47 0.00 0.00 3.69
25 26 2.621338 CACAGAAAGAATAGCGCAGGA 58.379 47.619 11.47 0.00 0.00 3.86
26 27 1.667724 CCACAGAAAGAATAGCGCAGG 59.332 52.381 11.47 0.00 0.00 4.85
27 28 2.350522 ACCACAGAAAGAATAGCGCAG 58.649 47.619 11.47 0.00 0.00 5.18
28 29 2.472695 ACCACAGAAAGAATAGCGCA 57.527 45.000 11.47 0.00 0.00 6.09
29 30 3.248602 CCATACCACAGAAAGAATAGCGC 59.751 47.826 0.00 0.00 0.00 5.92
30 31 3.248602 GCCATACCACAGAAAGAATAGCG 59.751 47.826 0.00 0.00 0.00 4.26
31 32 3.248602 CGCCATACCACAGAAAGAATAGC 59.751 47.826 0.00 0.00 0.00 2.97
32 33 4.271049 CACGCCATACCACAGAAAGAATAG 59.729 45.833 0.00 0.00 0.00 1.73
33 34 4.188462 CACGCCATACCACAGAAAGAATA 58.812 43.478 0.00 0.00 0.00 1.75
34 35 3.009723 CACGCCATACCACAGAAAGAAT 58.990 45.455 0.00 0.00 0.00 2.40
35 36 2.422597 CACGCCATACCACAGAAAGAA 58.577 47.619 0.00 0.00 0.00 2.52
36 37 1.943968 GCACGCCATACCACAGAAAGA 60.944 52.381 0.00 0.00 0.00 2.52
37 38 0.447801 GCACGCCATACCACAGAAAG 59.552 55.000 0.00 0.00 0.00 2.62
38 39 0.036164 AGCACGCCATACCACAGAAA 59.964 50.000 0.00 0.00 0.00 2.52
39 40 0.391130 GAGCACGCCATACCACAGAA 60.391 55.000 0.00 0.00 0.00 3.02
40 41 1.218047 GAGCACGCCATACCACAGA 59.782 57.895 0.00 0.00 0.00 3.41
41 42 0.462581 ATGAGCACGCCATACCACAG 60.463 55.000 0.00 0.00 0.00 3.66
42 43 0.461870 GATGAGCACGCCATACCACA 60.462 55.000 0.00 0.00 0.00 4.17
43 44 0.461870 TGATGAGCACGCCATACCAC 60.462 55.000 0.00 0.00 0.00 4.16
44 45 0.251634 TTGATGAGCACGCCATACCA 59.748 50.000 0.00 0.00 0.00 3.25
45 46 0.657840 GTTGATGAGCACGCCATACC 59.342 55.000 0.00 0.00 0.00 2.73
46 47 1.656652 AGTTGATGAGCACGCCATAC 58.343 50.000 0.00 0.00 0.00 2.39
47 48 3.069443 TCATAGTTGATGAGCACGCCATA 59.931 43.478 0.00 0.00 39.78 2.74
48 49 2.158914 TCATAGTTGATGAGCACGCCAT 60.159 45.455 0.00 0.00 39.78 4.40
49 50 1.206849 TCATAGTTGATGAGCACGCCA 59.793 47.619 0.00 0.00 39.78 5.69
50 51 1.939974 TCATAGTTGATGAGCACGCC 58.060 50.000 0.00 0.00 39.78 5.68
57 58 5.863965 TCACAAACACCTCATAGTTGATGA 58.136 37.500 0.00 0.00 42.55 2.92
58 59 6.372381 TCATCACAAACACCTCATAGTTGATG 59.628 38.462 0.00 0.00 36.82 3.07
59 60 6.372659 GTCATCACAAACACCTCATAGTTGAT 59.627 38.462 0.00 0.00 0.00 2.57
60 61 5.700832 GTCATCACAAACACCTCATAGTTGA 59.299 40.000 0.00 0.00 0.00 3.18
61 62 5.702670 AGTCATCACAAACACCTCATAGTTG 59.297 40.000 0.00 0.00 0.00 3.16
62 63 5.869579 AGTCATCACAAACACCTCATAGTT 58.130 37.500 0.00 0.00 0.00 2.24
63 64 5.489792 AGTCATCACAAACACCTCATAGT 57.510 39.130 0.00 0.00 0.00 2.12
64 65 5.934043 TGAAGTCATCACAAACACCTCATAG 59.066 40.000 0.00 0.00 31.50 2.23
65 66 5.863965 TGAAGTCATCACAAACACCTCATA 58.136 37.500 0.00 0.00 31.50 2.15
66 67 4.717877 TGAAGTCATCACAAACACCTCAT 58.282 39.130 0.00 0.00 31.50 2.90
67 68 4.149511 TGAAGTCATCACAAACACCTCA 57.850 40.909 0.00 0.00 31.50 3.86
80 81 6.610830 ACAGATCTAGAGGTTGATGAAGTCAT 59.389 38.462 0.00 0.00 36.54 3.06
81 82 5.954752 ACAGATCTAGAGGTTGATGAAGTCA 59.045 40.000 0.00 0.00 34.25 3.41
82 83 6.463995 ACAGATCTAGAGGTTGATGAAGTC 57.536 41.667 0.00 0.00 0.00 3.01
83 84 5.067153 CGACAGATCTAGAGGTTGATGAAGT 59.933 44.000 0.00 0.00 0.00 3.01
84 85 5.298026 TCGACAGATCTAGAGGTTGATGAAG 59.702 44.000 0.00 0.00 0.00 3.02
85 86 5.066634 GTCGACAGATCTAGAGGTTGATGAA 59.933 44.000 11.55 0.00 0.00 2.57
86 87 4.576873 GTCGACAGATCTAGAGGTTGATGA 59.423 45.833 11.55 5.87 0.00 2.92
87 88 4.578516 AGTCGACAGATCTAGAGGTTGATG 59.421 45.833 19.50 2.59 0.00 3.07
88 89 4.787551 AGTCGACAGATCTAGAGGTTGAT 58.212 43.478 19.50 0.00 0.00 2.57
89 90 4.193090 GAGTCGACAGATCTAGAGGTTGA 58.807 47.826 19.50 3.43 0.00 3.18
90 91 3.001838 CGAGTCGACAGATCTAGAGGTTG 59.998 52.174 19.50 1.02 0.00 3.77
91 92 3.199677 CGAGTCGACAGATCTAGAGGTT 58.800 50.000 19.50 0.00 0.00 3.50
92 93 2.484065 CCGAGTCGACAGATCTAGAGGT 60.484 54.545 19.50 0.00 0.00 3.85
93 94 2.139917 CCGAGTCGACAGATCTAGAGG 58.860 57.143 19.50 3.39 0.00 3.69
94 95 2.798283 GACCGAGTCGACAGATCTAGAG 59.202 54.545 19.50 0.00 0.00 2.43
95 96 2.431419 AGACCGAGTCGACAGATCTAGA 59.569 50.000 19.50 0.00 37.67 2.43
96 97 2.798283 GAGACCGAGTCGACAGATCTAG 59.202 54.545 19.50 3.78 37.67 2.43
97 98 2.431419 AGAGACCGAGTCGACAGATCTA 59.569 50.000 19.50 0.00 37.67 1.98
98 99 1.208535 AGAGACCGAGTCGACAGATCT 59.791 52.381 19.50 12.95 37.67 2.75
99 100 1.658994 AGAGACCGAGTCGACAGATC 58.341 55.000 19.50 7.85 37.67 2.75
100 101 2.116827 AAGAGACCGAGTCGACAGAT 57.883 50.000 19.50 0.00 37.67 2.90
101 102 2.233186 TCTAAGAGACCGAGTCGACAGA 59.767 50.000 19.50 4.55 37.67 3.41
102 103 2.605818 CTCTAAGAGACCGAGTCGACAG 59.394 54.545 19.50 11.15 37.67 3.51
103 104 2.619147 CTCTAAGAGACCGAGTCGACA 58.381 52.381 19.50 0.00 37.67 4.35
104 105 1.935199 CCTCTAAGAGACCGAGTCGAC 59.065 57.143 15.64 7.70 37.67 4.20
105 106 1.554160 ACCTCTAAGAGACCGAGTCGA 59.446 52.381 15.64 0.00 37.67 4.20
106 107 1.666700 CACCTCTAAGAGACCGAGTCG 59.333 57.143 5.29 5.29 37.67 4.18
107 108 1.402613 GCACCTCTAAGAGACCGAGTC 59.597 57.143 0.00 0.00 0.00 3.36
108 109 1.004979 AGCACCTCTAAGAGACCGAGT 59.995 52.381 0.00 0.00 0.00 4.18
109 110 1.673920 GAGCACCTCTAAGAGACCGAG 59.326 57.143 0.00 0.00 0.00 4.63
110 111 1.004394 TGAGCACCTCTAAGAGACCGA 59.996 52.381 0.00 0.00 0.00 4.69
111 112 1.403679 CTGAGCACCTCTAAGAGACCG 59.596 57.143 0.00 0.00 0.00 4.79
112 113 1.754226 CCTGAGCACCTCTAAGAGACC 59.246 57.143 0.00 0.00 0.00 3.85
113 114 1.754226 CCCTGAGCACCTCTAAGAGAC 59.246 57.143 0.00 0.00 0.00 3.36
114 115 1.641192 TCCCTGAGCACCTCTAAGAGA 59.359 52.381 0.00 0.00 0.00 3.10
115 116 2.031120 CTCCCTGAGCACCTCTAAGAG 58.969 57.143 0.00 0.00 0.00 2.85
116 117 1.359474 ACTCCCTGAGCACCTCTAAGA 59.641 52.381 0.00 0.00 32.04 2.10
117 118 1.480137 CACTCCCTGAGCACCTCTAAG 59.520 57.143 0.00 0.00 32.04 2.18
118 119 1.561643 CACTCCCTGAGCACCTCTAA 58.438 55.000 0.00 0.00 32.04 2.10
119 120 0.972983 GCACTCCCTGAGCACCTCTA 60.973 60.000 0.00 0.00 32.04 2.43
120 121 2.289532 GCACTCCCTGAGCACCTCT 61.290 63.158 0.00 0.00 32.04 3.69
121 122 2.267324 GCACTCCCTGAGCACCTC 59.733 66.667 0.00 0.00 32.04 3.85
122 123 3.699894 CGCACTCCCTGAGCACCT 61.700 66.667 0.00 0.00 32.04 4.00
123 124 4.008933 ACGCACTCCCTGAGCACC 62.009 66.667 0.00 0.00 32.04 5.01
124 125 2.740055 CACGCACTCCCTGAGCAC 60.740 66.667 0.00 0.00 32.04 4.40
125 126 3.226429 GACACGCACTCCCTGAGCA 62.226 63.158 0.00 0.00 32.04 4.26
126 127 2.433318 GACACGCACTCCCTGAGC 60.433 66.667 0.00 0.00 32.04 4.26
127 128 1.080230 CAGACACGCACTCCCTGAG 60.080 63.158 0.00 0.00 35.52 3.35
128 129 3.051210 CAGACACGCACTCCCTGA 58.949 61.111 0.00 0.00 0.00 3.86
129 130 2.740055 GCAGACACGCACTCCCTG 60.740 66.667 0.00 0.00 0.00 4.45
130 131 4.363990 CGCAGACACGCACTCCCT 62.364 66.667 0.00 0.00 0.00 4.20
131 132 4.664677 ACGCAGACACGCACTCCC 62.665 66.667 0.00 0.00 36.19 4.30
132 133 2.658707 GAACGCAGACACGCACTCC 61.659 63.158 0.00 0.00 36.19 3.85
133 134 1.284982 ATGAACGCAGACACGCACTC 61.285 55.000 0.00 0.00 36.19 3.51
134 135 0.880278 AATGAACGCAGACACGCACT 60.880 50.000 0.00 0.00 36.19 4.40
135 136 0.787787 TAATGAACGCAGACACGCAC 59.212 50.000 0.00 0.00 36.19 5.34
136 137 1.067693 CTAATGAACGCAGACACGCA 58.932 50.000 0.00 0.00 36.19 5.24
137 138 0.370273 CCTAATGAACGCAGACACGC 59.630 55.000 0.00 0.00 36.19 5.34
138 139 1.390123 CACCTAATGAACGCAGACACG 59.610 52.381 0.00 0.00 39.50 4.49
139 140 2.668457 CTCACCTAATGAACGCAGACAC 59.332 50.000 0.00 0.00 36.69 3.67
140 141 2.299013 ACTCACCTAATGAACGCAGACA 59.701 45.455 0.00 0.00 36.69 3.41
141 142 2.668457 CACTCACCTAATGAACGCAGAC 59.332 50.000 0.00 0.00 36.69 3.51
142 143 2.299013 ACACTCACCTAATGAACGCAGA 59.701 45.455 0.00 0.00 36.69 4.26
143 144 2.413112 CACACTCACCTAATGAACGCAG 59.587 50.000 0.00 0.00 36.69 5.18
144 145 2.412870 CACACTCACCTAATGAACGCA 58.587 47.619 0.00 0.00 36.69 5.24
145 146 1.128692 GCACACTCACCTAATGAACGC 59.871 52.381 0.00 0.00 36.69 4.84
146 147 1.390123 CGCACACTCACCTAATGAACG 59.610 52.381 0.00 0.00 36.69 3.95
147 148 2.157668 CACGCACACTCACCTAATGAAC 59.842 50.000 0.00 0.00 36.69 3.18
148 149 2.412870 CACGCACACTCACCTAATGAA 58.587 47.619 0.00 0.00 36.69 2.57
149 150 1.337728 CCACGCACACTCACCTAATGA 60.338 52.381 0.00 0.00 35.45 2.57
150 151 1.078709 CCACGCACACTCACCTAATG 58.921 55.000 0.00 0.00 0.00 1.90
151 152 0.036388 CCCACGCACACTCACCTAAT 60.036 55.000 0.00 0.00 0.00 1.73
152 153 1.369692 CCCACGCACACTCACCTAA 59.630 57.895 0.00 0.00 0.00 2.69
153 154 1.835267 ACCCACGCACACTCACCTA 60.835 57.895 0.00 0.00 0.00 3.08
154 155 3.161450 ACCCACGCACACTCACCT 61.161 61.111 0.00 0.00 0.00 4.00
155 156 2.372040 TACACCCACGCACACTCACC 62.372 60.000 0.00 0.00 0.00 4.02
156 157 0.320421 ATACACCCACGCACACTCAC 60.320 55.000 0.00 0.00 0.00 3.51
157 158 0.320334 CATACACCCACGCACACTCA 60.320 55.000 0.00 0.00 0.00 3.41
158 159 1.635663 GCATACACCCACGCACACTC 61.636 60.000 0.00 0.00 0.00 3.51
159 160 1.671054 GCATACACCCACGCACACT 60.671 57.895 0.00 0.00 0.00 3.55
160 161 2.867472 GCATACACCCACGCACAC 59.133 61.111 0.00 0.00 0.00 3.82
161 162 2.740440 CGCATACACCCACGCACA 60.740 61.111 0.00 0.00 0.00 4.57
162 163 2.433491 TCGCATACACCCACGCAC 60.433 61.111 0.00 0.00 0.00 5.34
163 164 2.125713 CTCGCATACACCCACGCA 60.126 61.111 0.00 0.00 0.00 5.24
164 165 3.564027 GCTCGCATACACCCACGC 61.564 66.667 0.00 0.00 0.00 5.34
165 166 3.254654 CGCTCGCATACACCCACG 61.255 66.667 0.00 0.00 0.00 4.94
166 167 2.125673 ACGCTCGCATACACCCAC 60.126 61.111 0.00 0.00 0.00 4.61
167 168 2.183300 GACGCTCGCATACACCCA 59.817 61.111 0.00 0.00 0.00 4.51
168 169 1.878522 CAGACGCTCGCATACACCC 60.879 63.158 0.00 0.00 0.00 4.61
169 170 1.153823 ACAGACGCTCGCATACACC 60.154 57.895 0.00 0.00 0.00 4.16
170 171 0.732880 ACACAGACGCTCGCATACAC 60.733 55.000 0.00 0.00 0.00 2.90
171 172 0.038618 AACACAGACGCTCGCATACA 60.039 50.000 0.00 0.00 0.00 2.29
172 173 1.068474 AAACACAGACGCTCGCATAC 58.932 50.000 0.00 0.00 0.00 2.39
173 174 1.067693 CAAACACAGACGCTCGCATA 58.932 50.000 0.00 0.00 0.00 3.14
174 175 0.880278 ACAAACACAGACGCTCGCAT 60.880 50.000 0.00 0.00 0.00 4.73
175 176 0.249114 TACAAACACAGACGCTCGCA 60.249 50.000 0.00 0.00 0.00 5.10
176 177 1.059264 GATACAAACACAGACGCTCGC 59.941 52.381 0.00 0.00 0.00 5.03
177 178 2.324860 TGATACAAACACAGACGCTCG 58.675 47.619 0.00 0.00 0.00 5.03
178 179 3.679980 ACATGATACAAACACAGACGCTC 59.320 43.478 0.00 0.00 0.00 5.03
179 180 3.664107 ACATGATACAAACACAGACGCT 58.336 40.909 0.00 0.00 0.00 5.07
180 181 4.404507 AACATGATACAAACACAGACGC 57.595 40.909 0.00 0.00 0.00 5.19
181 182 5.747565 ACAAACATGATACAAACACAGACG 58.252 37.500 0.00 0.00 0.00 4.18
182 183 9.509855 TTTTACAAACATGATACAAACACAGAC 57.490 29.630 0.00 0.00 0.00 3.51
231 232 8.239314 GCTCAAGTGACAAATGAAATCTGATTA 58.761 33.333 2.85 0.00 0.00 1.75
232 233 7.088905 GCTCAAGTGACAAATGAAATCTGATT 58.911 34.615 0.00 0.00 0.00 2.57
233 234 6.208007 TGCTCAAGTGACAAATGAAATCTGAT 59.792 34.615 0.00 0.00 0.00 2.90
234 235 5.532032 TGCTCAAGTGACAAATGAAATCTGA 59.468 36.000 0.00 0.00 0.00 3.27
235 236 5.765176 TGCTCAAGTGACAAATGAAATCTG 58.235 37.500 0.00 0.00 0.00 2.90
236 237 6.585695 ATGCTCAAGTGACAAATGAAATCT 57.414 33.333 0.00 0.00 0.00 2.40
237 238 8.642020 GTTAATGCTCAAGTGACAAATGAAATC 58.358 33.333 0.00 0.00 0.00 2.17
238 239 8.143193 TGTTAATGCTCAAGTGACAAATGAAAT 58.857 29.630 0.00 0.00 0.00 2.17
239 240 7.487484 TGTTAATGCTCAAGTGACAAATGAAA 58.513 30.769 0.00 0.00 0.00 2.69
240 241 7.036996 TGTTAATGCTCAAGTGACAAATGAA 57.963 32.000 0.00 0.00 0.00 2.57
241 242 6.631971 TGTTAATGCTCAAGTGACAAATGA 57.368 33.333 0.00 0.00 0.00 2.57
242 243 9.016623 CATATGTTAATGCTCAAGTGACAAATG 57.983 33.333 0.00 0.00 0.00 2.32
257 258 6.942005 TCATCCCTGGTTAGCATATGTTAATG 59.058 38.462 14.16 7.61 0.00 1.90
258 259 7.090319 TCATCCCTGGTTAGCATATGTTAAT 57.910 36.000 14.16 0.00 0.00 1.40
259 260 6.508030 TCATCCCTGGTTAGCATATGTTAA 57.492 37.500 7.83 7.83 0.00 2.01
260 261 6.328934 TCTTCATCCCTGGTTAGCATATGTTA 59.671 38.462 4.29 0.00 0.00 2.41
261 262 5.132648 TCTTCATCCCTGGTTAGCATATGTT 59.867 40.000 4.29 0.08 0.00 2.71
262 263 4.660303 TCTTCATCCCTGGTTAGCATATGT 59.340 41.667 4.29 0.00 0.00 2.29
263 264 5.233083 TCTTCATCCCTGGTTAGCATATG 57.767 43.478 0.00 0.00 0.00 1.78
264 265 4.288105 CCTCTTCATCCCTGGTTAGCATAT 59.712 45.833 0.00 0.00 0.00 1.78
265 266 3.648067 CCTCTTCATCCCTGGTTAGCATA 59.352 47.826 0.00 0.00 0.00 3.14
266 267 2.441001 CCTCTTCATCCCTGGTTAGCAT 59.559 50.000 0.00 0.00 0.00 3.79
267 268 1.839994 CCTCTTCATCCCTGGTTAGCA 59.160 52.381 0.00 0.00 0.00 3.49
268 269 1.475930 GCCTCTTCATCCCTGGTTAGC 60.476 57.143 0.00 0.00 0.00 3.09
269 270 1.202580 CGCCTCTTCATCCCTGGTTAG 60.203 57.143 0.00 0.00 0.00 2.34
270 271 0.830648 CGCCTCTTCATCCCTGGTTA 59.169 55.000 0.00 0.00 0.00 2.85
271 272 0.909610 TCGCCTCTTCATCCCTGGTT 60.910 55.000 0.00 0.00 0.00 3.67
272 273 1.306141 TCGCCTCTTCATCCCTGGT 60.306 57.895 0.00 0.00 0.00 4.00
273 274 1.445095 CTCGCCTCTTCATCCCTGG 59.555 63.158 0.00 0.00 0.00 4.45
274 275 1.045350 TCCTCGCCTCTTCATCCCTG 61.045 60.000 0.00 0.00 0.00 4.45
275 276 0.758685 CTCCTCGCCTCTTCATCCCT 60.759 60.000 0.00 0.00 0.00 4.20
276 277 1.745264 CTCCTCGCCTCTTCATCCC 59.255 63.158 0.00 0.00 0.00 3.85
277 278 1.745264 CCTCCTCGCCTCTTCATCC 59.255 63.158 0.00 0.00 0.00 3.51
278 279 1.068921 GCCTCCTCGCCTCTTCATC 59.931 63.158 0.00 0.00 0.00 2.92
279 280 1.382420 AGCCTCCTCGCCTCTTCAT 60.382 57.895 0.00 0.00 0.00 2.57
280 281 2.038007 AGCCTCCTCGCCTCTTCA 59.962 61.111 0.00 0.00 0.00 3.02
281 282 2.055042 TGAGCCTCCTCGCCTCTTC 61.055 63.158 0.00 0.00 41.13 2.87
282 283 2.038007 TGAGCCTCCTCGCCTCTT 59.962 61.111 0.00 0.00 41.13 2.85
283 284 2.757917 GTGAGCCTCCTCGCCTCT 60.758 66.667 0.00 0.00 41.64 3.69
287 288 3.378399 GAAGGGTGAGCCTCCTCGC 62.378 68.421 2.56 0.00 45.67 5.03
288 289 2.726351 GGAAGGGTGAGCCTCCTCG 61.726 68.421 2.56 0.00 41.13 4.63
289 290 0.912006 AAGGAAGGGTGAGCCTCCTC 60.912 60.000 17.80 7.77 38.19 3.71
290 291 0.476611 AAAGGAAGGGTGAGCCTCCT 60.477 55.000 2.56 9.67 40.14 3.69
291 292 0.405973 AAAAGGAAGGGTGAGCCTCC 59.594 55.000 2.56 7.35 34.45 4.30
292 293 1.352687 AGAAAAGGAAGGGTGAGCCTC 59.647 52.381 2.56 0.00 34.45 4.70
293 294 1.352687 GAGAAAAGGAAGGGTGAGCCT 59.647 52.381 0.00 0.00 34.45 4.58
294 295 1.073923 TGAGAAAAGGAAGGGTGAGCC 59.926 52.381 0.00 0.00 0.00 4.70
295 296 2.568623 TGAGAAAAGGAAGGGTGAGC 57.431 50.000 0.00 0.00 0.00 4.26
296 297 4.207165 TGTTTGAGAAAAGGAAGGGTGAG 58.793 43.478 0.00 0.00 0.00 3.51
297 298 4.243793 TGTTTGAGAAAAGGAAGGGTGA 57.756 40.909 0.00 0.00 0.00 4.02
298 299 5.337578 TTTGTTTGAGAAAAGGAAGGGTG 57.662 39.130 0.00 0.00 0.00 4.61
299 300 6.560003 AATTTGTTTGAGAAAAGGAAGGGT 57.440 33.333 0.00 0.00 0.00 4.34
300 301 7.984617 TGTTAATTTGTTTGAGAAAAGGAAGGG 59.015 33.333 0.00 0.00 0.00 3.95
301 302 8.817100 GTGTTAATTTGTTTGAGAAAAGGAAGG 58.183 33.333 0.00 0.00 0.00 3.46
302 303 9.364989 TGTGTTAATTTGTTTGAGAAAAGGAAG 57.635 29.630 0.00 0.00 0.00 3.46
303 304 9.883142 ATGTGTTAATTTGTTTGAGAAAAGGAA 57.117 25.926 0.00 0.00 0.00 3.36
304 305 9.311916 CATGTGTTAATTTGTTTGAGAAAAGGA 57.688 29.630 0.00 0.00 0.00 3.36
305 306 9.097257 ACATGTGTTAATTTGTTTGAGAAAAGG 57.903 29.630 0.00 0.00 0.00 3.11
309 310 9.243637 GCTAACATGTGTTAATTTGTTTGAGAA 57.756 29.630 0.00 0.00 39.70 2.87
310 311 8.629158 AGCTAACATGTGTTAATTTGTTTGAGA 58.371 29.630 0.00 0.00 39.70 3.27
311 312 8.801715 AGCTAACATGTGTTAATTTGTTTGAG 57.198 30.769 0.00 0.00 39.70 3.02
312 313 8.409371 TGAGCTAACATGTGTTAATTTGTTTGA 58.591 29.630 0.00 0.00 39.70 2.69
313 314 8.572828 TGAGCTAACATGTGTTAATTTGTTTG 57.427 30.769 0.00 0.00 39.70 2.93
314 315 9.195411 CATGAGCTAACATGTGTTAATTTGTTT 57.805 29.630 0.00 0.00 41.59 2.83
315 316 8.575589 TCATGAGCTAACATGTGTTAATTTGTT 58.424 29.630 13.44 0.00 45.21 2.83
316 317 8.109705 TCATGAGCTAACATGTGTTAATTTGT 57.890 30.769 13.44 0.00 45.21 2.83
319 320 9.836864 TCTATCATGAGCTAACATGTGTTAATT 57.163 29.630 13.44 0.00 45.21 1.40
323 324 8.864087 TCTATCTATCATGAGCTAACATGTGTT 58.136 33.333 13.44 3.64 45.21 3.32
324 325 8.414629 TCTATCTATCATGAGCTAACATGTGT 57.585 34.615 13.44 7.80 45.21 3.72
325 326 9.303537 CATCTATCTATCATGAGCTAACATGTG 57.696 37.037 13.44 7.15 45.21 3.21
326 327 9.252635 TCATCTATCTATCATGAGCTAACATGT 57.747 33.333 13.44 0.00 45.21 3.21
329 330 8.526978 GGTTCATCTATCTATCATGAGCTAACA 58.473 37.037 0.09 0.00 30.72 2.41
330 331 8.748412 AGGTTCATCTATCTATCATGAGCTAAC 58.252 37.037 0.09 0.00 30.72 2.34
331 332 8.891985 AGGTTCATCTATCTATCATGAGCTAA 57.108 34.615 0.09 0.00 30.72 3.09
332 333 9.981460 TTAGGTTCATCTATCTATCATGAGCTA 57.019 33.333 0.09 0.00 30.72 3.32
333 334 8.748412 GTTAGGTTCATCTATCTATCATGAGCT 58.252 37.037 0.09 0.00 30.72 4.09
334 335 8.526978 TGTTAGGTTCATCTATCTATCATGAGC 58.473 37.037 0.09 0.00 0.00 4.26
535 541 3.068024 TCAACTCCAGTGGATGCAAAAAC 59.932 43.478 13.56 0.00 0.00 2.43
563 569 5.480422 ACCAGACATATCCATAACGATAGCA 59.520 40.000 0.00 0.00 42.67 3.49
597 603 4.773013 AGTTTCACCAGACTTTTTCGGTA 58.227 39.130 0.00 0.00 32.10 4.02
598 604 3.617284 AGTTTCACCAGACTTTTTCGGT 58.383 40.909 0.00 0.00 33.12 4.69
599 605 4.632538 AAGTTTCACCAGACTTTTTCGG 57.367 40.909 0.00 0.00 32.43 4.30
604 610 8.984764 GTGTTTTAAAAAGTTTCACCAGACTTT 58.015 29.630 1.31 0.00 45.29 2.66
605 611 8.364894 AGTGTTTTAAAAAGTTTCACCAGACTT 58.635 29.630 1.31 0.00 37.69 3.01
606 612 7.892609 AGTGTTTTAAAAAGTTTCACCAGACT 58.107 30.769 1.31 0.00 0.00 3.24
607 613 9.628746 TTAGTGTTTTAAAAAGTTTCACCAGAC 57.371 29.630 1.31 0.00 0.00 3.51
608 614 9.849166 CTTAGTGTTTTAAAAAGTTTCACCAGA 57.151 29.630 1.31 0.00 0.00 3.86
609 615 9.634163 ACTTAGTGTTTTAAAAAGTTTCACCAG 57.366 29.630 1.31 7.71 0.00 4.00
675 683 9.817809 TTTGTTTACCACTAGCTAATATCTGAG 57.182 33.333 0.00 0.00 0.00 3.35
700 735 7.555195 ACCTAGCTAGTTTACAGTGTTTTTGTT 59.445 33.333 19.31 0.00 0.00 2.83
707 742 5.887035 CCTCTACCTAGCTAGTTTACAGTGT 59.113 44.000 19.31 9.66 0.00 3.55
758 793 2.353605 GCATAGCTAGCTGGGAGATGAC 60.354 54.545 27.68 13.51 0.00 3.06
810 845 6.582264 TGTTCTTTTTGTTGTTTGCGTTTAC 58.418 32.000 0.00 0.00 0.00 2.01
830 865 2.094182 TGTAGGAAGATGACCGCTGTTC 60.094 50.000 0.00 0.00 0.00 3.18
831 866 1.899814 TGTAGGAAGATGACCGCTGTT 59.100 47.619 0.00 0.00 0.00 3.16
839 874 6.070251 TGCCAAGTTAAGATGTAGGAAGATGA 60.070 38.462 0.00 0.00 0.00 2.92
1221 1259 2.892334 GCGGTGCACGTTCATGTGT 61.892 57.895 11.45 0.00 46.52 3.72
1268 1306 2.764128 GATGGTCTGGCGGGGAGA 60.764 66.667 0.00 0.00 0.00 3.71
1302 1340 3.204306 TGATGATCATGAGGGCTTGTC 57.796 47.619 14.30 0.00 0.00 3.18
1579 1617 0.764271 TCACTTGATGCTGGTGACCA 59.236 50.000 3.40 3.40 35.44 4.02
1795 1833 4.712476 AGAAGAACTGAAGCATGAACACT 58.288 39.130 0.00 0.00 0.00 3.55
1857 1895 7.428826 GGATAAATTGACTAAGGGCAATCAAG 58.571 38.462 0.00 0.00 34.71 3.02
1892 1931 6.467677 ACACACATATGTAGAGAAACAAGCT 58.532 36.000 8.32 0.00 36.72 3.74
1919 1958 5.748630 TGCAGAGTTCAATCGACATACATAC 59.251 40.000 0.00 0.00 0.00 2.39
2162 2201 5.687780 TCCTGATCAAACATCATGCACTAT 58.312 37.500 0.00 0.00 0.00 2.12
2240 2281 8.451687 ACAACGATATTGATGTTTTGTCAATG 57.548 30.769 10.65 0.00 43.90 2.82
2509 2551 2.486472 ATGCATGGCAGACTATAGGC 57.514 50.000 0.00 0.00 43.65 3.93


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

AutoCloner maintained by Alex Coulton.