Multiple sequence alignment - TraesCS4B01G144600

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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 TraesCS4B01G144600 chr4B 100.000 2480 0 0 1 2480 195447151 195449630 0.000000e+00 4580
1 TraesCS4B01G144600 chr4B 91.713 181 9 4 1 178 295703672 295703495 1.900000e-61 246
2 TraesCS4B01G144600 chr2B 95.361 1552 65 5 177 1722 283289389 283290939 0.000000e+00 2460
3 TraesCS4B01G144600 chr2B 94.494 781 28 6 1710 2480 283293194 283293969 0.000000e+00 1190
4 TraesCS4B01G144600 chr2B 84.876 443 45 12 495 916 169499724 169500165 6.340000e-116 427
5 TraesCS4B01G144600 chr7D 84.815 731 72 23 915 1615 521759220 521759941 0.000000e+00 699
6 TraesCS4B01G144600 chr7A 88.989 445 36 7 913 1351 19173302 19173739 2.810000e-149 538
7 TraesCS4B01G144600 chr7A 86.508 252 16 13 1358 1593 19173780 19174029 6.800000e-66 261
8 TraesCS4B01G144600 chr4D 93.370 181 6 4 1 178 452250396 452250219 1.890000e-66 263
9 TraesCS4B01G144600 chr5B 91.979 187 11 2 1 183 490728696 490728882 2.450000e-65 259
10 TraesCS4B01G144600 chr3B 91.304 184 9 5 1 180 758446171 758446351 6.850000e-61 244
11 TraesCS4B01G144600 chr6B 91.209 182 9 6 1 178 640543197 640543375 8.860000e-60 241
12 TraesCS4B01G144600 chr6D 85.083 181 4 4 1 178 417347399 417347239 1.970000e-36 163


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 TraesCS4B01G144600 chr4B 195447151 195449630 2479 False 4580.0 4580 100.0000 1 2480 1 chr4B.!!$F1 2479
1 TraesCS4B01G144600 chr2B 283289389 283293969 4580 False 1825.0 2460 94.9275 177 2480 2 chr2B.!!$F2 2303
2 TraesCS4B01G144600 chr7D 521759220 521759941 721 False 699.0 699 84.8150 915 1615 1 chr7D.!!$F1 700
3 TraesCS4B01G144600 chr7A 19173302 19174029 727 False 399.5 538 87.7485 913 1593 2 chr7A.!!$F1 680

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
624 625 0.250684 TGCTGCTCGTTTGGATCCAA 60.251 50.0 23.63 23.63 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2410 4773 1.888215 ATGCACCTTCACACTCACAG 58.112 50.0 0.0 0.0 0.0 3.66 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
25 26 8.051901 GTATACTAATTTTGCAAACCCTCTGT 57.948 34.615 12.39 8.82 0.00 3.41
26 27 9.169592 GTATACTAATTTTGCAAACCCTCTGTA 57.830 33.333 12.39 10.60 0.00 2.74
27 28 8.823220 ATACTAATTTTGCAAACCCTCTGTAT 57.177 30.769 12.39 12.22 0.00 2.29
28 29 7.158099 ACTAATTTTGCAAACCCTCTGTATC 57.842 36.000 12.39 0.00 0.00 2.24
29 30 6.719370 ACTAATTTTGCAAACCCTCTGTATCA 59.281 34.615 12.39 0.00 0.00 2.15
30 31 6.418057 AATTTTGCAAACCCTCTGTATCAA 57.582 33.333 12.39 0.00 0.00 2.57
31 32 6.610075 ATTTTGCAAACCCTCTGTATCAAT 57.390 33.333 12.39 0.00 0.00 2.57
32 33 5.643379 TTTGCAAACCCTCTGTATCAATC 57.357 39.130 8.05 0.00 0.00 2.67
33 34 3.620488 TGCAAACCCTCTGTATCAATCC 58.380 45.455 0.00 0.00 0.00 3.01
34 35 2.952310 GCAAACCCTCTGTATCAATCCC 59.048 50.000 0.00 0.00 0.00 3.85
35 36 3.372025 GCAAACCCTCTGTATCAATCCCT 60.372 47.826 0.00 0.00 0.00 4.20
36 37 4.202441 CAAACCCTCTGTATCAATCCCTG 58.798 47.826 0.00 0.00 0.00 4.45
37 38 3.136641 ACCCTCTGTATCAATCCCTGT 57.863 47.619 0.00 0.00 0.00 4.00
38 39 2.774234 ACCCTCTGTATCAATCCCTGTG 59.226 50.000 0.00 0.00 0.00 3.66
39 40 2.774234 CCCTCTGTATCAATCCCTGTGT 59.226 50.000 0.00 0.00 0.00 3.72
40 41 3.967326 CCCTCTGTATCAATCCCTGTGTA 59.033 47.826 0.00 0.00 0.00 2.90
41 42 4.202264 CCCTCTGTATCAATCCCTGTGTAC 60.202 50.000 0.00 0.00 0.00 2.90
42 43 4.202264 CCTCTGTATCAATCCCTGTGTACC 60.202 50.000 0.00 0.00 0.00 3.34
43 44 4.358214 TCTGTATCAATCCCTGTGTACCA 58.642 43.478 0.00 0.00 0.00 3.25
44 45 4.780554 TCTGTATCAATCCCTGTGTACCAA 59.219 41.667 0.00 0.00 0.00 3.67
45 46 5.249622 TCTGTATCAATCCCTGTGTACCAAA 59.750 40.000 0.00 0.00 0.00 3.28
46 47 6.069673 TCTGTATCAATCCCTGTGTACCAAAT 60.070 38.462 0.00 0.00 0.00 2.32
47 48 7.126573 TCTGTATCAATCCCTGTGTACCAAATA 59.873 37.037 0.00 0.00 0.00 1.40
48 49 7.279615 TGTATCAATCCCTGTGTACCAAATAG 58.720 38.462 0.00 0.00 0.00 1.73
49 50 6.575244 ATCAATCCCTGTGTACCAAATAGA 57.425 37.500 0.00 0.00 0.00 1.98
50 51 6.381498 TCAATCCCTGTGTACCAAATAGAA 57.619 37.500 0.00 0.00 0.00 2.10
51 52 6.414732 TCAATCCCTGTGTACCAAATAGAAG 58.585 40.000 0.00 0.00 0.00 2.85
52 53 4.837093 TCCCTGTGTACCAAATAGAAGG 57.163 45.455 0.00 0.00 0.00 3.46
53 54 3.521937 TCCCTGTGTACCAAATAGAAGGG 59.478 47.826 0.00 0.00 43.84 3.95
54 55 3.371595 CCCTGTGTACCAAATAGAAGGGG 60.372 52.174 0.00 0.00 39.62 4.79
55 56 3.265995 CCTGTGTACCAAATAGAAGGGGT 59.734 47.826 0.00 0.00 37.43 4.95
56 57 4.261801 CTGTGTACCAAATAGAAGGGGTG 58.738 47.826 0.00 0.00 34.88 4.61
57 58 3.653836 TGTGTACCAAATAGAAGGGGTGT 59.346 43.478 0.00 0.00 34.88 4.16
58 59 4.007659 GTGTACCAAATAGAAGGGGTGTG 58.992 47.826 0.00 0.00 34.88 3.82
59 60 3.653836 TGTACCAAATAGAAGGGGTGTGT 59.346 43.478 0.00 0.00 34.88 3.72
60 61 3.154827 ACCAAATAGAAGGGGTGTGTG 57.845 47.619 0.00 0.00 31.04 3.82
61 62 2.714250 ACCAAATAGAAGGGGTGTGTGA 59.286 45.455 0.00 0.00 31.04 3.58
62 63 3.244911 ACCAAATAGAAGGGGTGTGTGAG 60.245 47.826 0.00 0.00 31.04 3.51
63 64 3.347216 CAAATAGAAGGGGTGTGTGAGG 58.653 50.000 0.00 0.00 0.00 3.86
64 65 1.584724 ATAGAAGGGGTGTGTGAGGG 58.415 55.000 0.00 0.00 0.00 4.30
65 66 0.546747 TAGAAGGGGTGTGTGAGGGG 60.547 60.000 0.00 0.00 0.00 4.79
66 67 2.038762 AAGGGGTGTGTGAGGGGT 60.039 61.111 0.00 0.00 0.00 4.95
67 68 1.699930 AAGGGGTGTGTGAGGGGTT 60.700 57.895 0.00 0.00 0.00 4.11
68 69 1.293683 AAGGGGTGTGTGAGGGGTTT 61.294 55.000 0.00 0.00 0.00 3.27
69 70 1.530655 GGGGTGTGTGAGGGGTTTG 60.531 63.158 0.00 0.00 0.00 2.93
70 71 1.534697 GGGTGTGTGAGGGGTTTGA 59.465 57.895 0.00 0.00 0.00 2.69
71 72 0.537371 GGGTGTGTGAGGGGTTTGAG 60.537 60.000 0.00 0.00 0.00 3.02
72 73 0.472471 GGTGTGTGAGGGGTTTGAGA 59.528 55.000 0.00 0.00 0.00 3.27
73 74 1.543429 GGTGTGTGAGGGGTTTGAGAG 60.543 57.143 0.00 0.00 0.00 3.20
74 75 0.764890 TGTGTGAGGGGTTTGAGAGG 59.235 55.000 0.00 0.00 0.00 3.69
75 76 1.056660 GTGTGAGGGGTTTGAGAGGA 58.943 55.000 0.00 0.00 0.00 3.71
76 77 1.630878 GTGTGAGGGGTTTGAGAGGAT 59.369 52.381 0.00 0.00 0.00 3.24
77 78 2.040412 GTGTGAGGGGTTTGAGAGGATT 59.960 50.000 0.00 0.00 0.00 3.01
78 79 2.716424 TGTGAGGGGTTTGAGAGGATTT 59.284 45.455 0.00 0.00 0.00 2.17
79 80 3.084786 GTGAGGGGTTTGAGAGGATTTG 58.915 50.000 0.00 0.00 0.00 2.32
80 81 2.041620 TGAGGGGTTTGAGAGGATTTGG 59.958 50.000 0.00 0.00 0.00 3.28
81 82 1.359130 AGGGGTTTGAGAGGATTTGGG 59.641 52.381 0.00 0.00 0.00 4.12
82 83 1.357761 GGGGTTTGAGAGGATTTGGGA 59.642 52.381 0.00 0.00 0.00 4.37
83 84 2.621668 GGGGTTTGAGAGGATTTGGGAG 60.622 54.545 0.00 0.00 0.00 4.30
84 85 2.621668 GGGTTTGAGAGGATTTGGGAGG 60.622 54.545 0.00 0.00 0.00 4.30
85 86 2.308866 GGTTTGAGAGGATTTGGGAGGA 59.691 50.000 0.00 0.00 0.00 3.71
86 87 3.053320 GGTTTGAGAGGATTTGGGAGGAT 60.053 47.826 0.00 0.00 0.00 3.24
87 88 4.570719 GGTTTGAGAGGATTTGGGAGGATT 60.571 45.833 0.00 0.00 0.00 3.01
88 89 4.953781 TTGAGAGGATTTGGGAGGATTT 57.046 40.909 0.00 0.00 0.00 2.17
89 90 4.240881 TGAGAGGATTTGGGAGGATTTG 57.759 45.455 0.00 0.00 0.00 2.32
90 91 3.851976 TGAGAGGATTTGGGAGGATTTGA 59.148 43.478 0.00 0.00 0.00 2.69
91 92 4.292041 TGAGAGGATTTGGGAGGATTTGAA 59.708 41.667 0.00 0.00 0.00 2.69
92 93 5.222316 TGAGAGGATTTGGGAGGATTTGAAA 60.222 40.000 0.00 0.00 0.00 2.69
93 94 5.267587 AGAGGATTTGGGAGGATTTGAAAG 58.732 41.667 0.00 0.00 0.00 2.62
94 95 4.356436 AGGATTTGGGAGGATTTGAAAGG 58.644 43.478 0.00 0.00 0.00 3.11
95 96 4.045846 AGGATTTGGGAGGATTTGAAAGGA 59.954 41.667 0.00 0.00 0.00 3.36
96 97 4.964897 GGATTTGGGAGGATTTGAAAGGAT 59.035 41.667 0.00 0.00 0.00 3.24
97 98 5.426509 GGATTTGGGAGGATTTGAAAGGATT 59.573 40.000 0.00 0.00 0.00 3.01
98 99 5.743636 TTTGGGAGGATTTGAAAGGATTG 57.256 39.130 0.00 0.00 0.00 2.67
99 100 3.711863 TGGGAGGATTTGAAAGGATTGG 58.288 45.455 0.00 0.00 0.00 3.16
100 101 3.033909 GGGAGGATTTGAAAGGATTGGG 58.966 50.000 0.00 0.00 0.00 4.12
101 102 3.566553 GGGAGGATTTGAAAGGATTGGGT 60.567 47.826 0.00 0.00 0.00 4.51
102 103 3.448660 GGAGGATTTGAAAGGATTGGGTG 59.551 47.826 0.00 0.00 0.00 4.61
103 104 3.444029 AGGATTTGAAAGGATTGGGTGG 58.556 45.455 0.00 0.00 0.00 4.61
104 105 3.077391 AGGATTTGAAAGGATTGGGTGGA 59.923 43.478 0.00 0.00 0.00 4.02
105 106 3.837731 GGATTTGAAAGGATTGGGTGGAA 59.162 43.478 0.00 0.00 0.00 3.53
106 107 4.081476 GGATTTGAAAGGATTGGGTGGAAG 60.081 45.833 0.00 0.00 0.00 3.46
107 108 3.893753 TTGAAAGGATTGGGTGGAAGA 57.106 42.857 0.00 0.00 0.00 2.87
108 109 3.439857 TGAAAGGATTGGGTGGAAGAG 57.560 47.619 0.00 0.00 0.00 2.85
109 110 2.986019 TGAAAGGATTGGGTGGAAGAGA 59.014 45.455 0.00 0.00 0.00 3.10
110 111 3.009473 TGAAAGGATTGGGTGGAAGAGAG 59.991 47.826 0.00 0.00 0.00 3.20
111 112 1.589414 AGGATTGGGTGGAAGAGAGG 58.411 55.000 0.00 0.00 0.00 3.69
112 113 0.548510 GGATTGGGTGGAAGAGAGGG 59.451 60.000 0.00 0.00 0.00 4.30
113 114 1.584724 GATTGGGTGGAAGAGAGGGA 58.415 55.000 0.00 0.00 0.00 4.20
114 115 1.916181 GATTGGGTGGAAGAGAGGGAA 59.084 52.381 0.00 0.00 0.00 3.97
115 116 2.059756 TTGGGTGGAAGAGAGGGAAT 57.940 50.000 0.00 0.00 0.00 3.01
116 117 1.584724 TGGGTGGAAGAGAGGGAATC 58.415 55.000 0.00 0.00 0.00 2.52
117 118 1.203428 TGGGTGGAAGAGAGGGAATCA 60.203 52.381 0.00 0.00 0.00 2.57
118 119 1.210722 GGGTGGAAGAGAGGGAATCAC 59.789 57.143 0.00 0.00 0.00 3.06
119 120 1.210722 GGTGGAAGAGAGGGAATCACC 59.789 57.143 0.00 0.00 36.78 4.02
120 121 1.909302 GTGGAAGAGAGGGAATCACCA 59.091 52.381 0.00 0.00 41.20 4.17
121 122 2.305927 GTGGAAGAGAGGGAATCACCAA 59.694 50.000 0.00 0.00 41.20 3.67
122 123 2.986019 TGGAAGAGAGGGAATCACCAAA 59.014 45.455 0.00 0.00 41.20 3.28
123 124 3.593328 TGGAAGAGAGGGAATCACCAAAT 59.407 43.478 0.00 0.00 41.20 2.32
124 125 4.203226 GGAAGAGAGGGAATCACCAAATC 58.797 47.826 0.00 0.00 41.20 2.17
125 126 3.941704 AGAGAGGGAATCACCAAATCC 57.058 47.619 0.00 0.00 41.20 3.01
126 127 3.468850 AGAGAGGGAATCACCAAATCCT 58.531 45.455 0.00 0.00 41.20 3.24
127 128 3.457749 AGAGAGGGAATCACCAAATCCTC 59.542 47.826 0.00 0.00 40.61 3.71
128 129 2.511637 AGAGGGAATCACCAAATCCTCC 59.488 50.000 0.00 0.00 41.06 4.30
129 130 1.570979 AGGGAATCACCAAATCCTCCC 59.429 52.381 0.00 0.00 42.52 4.30
130 131 1.287739 GGGAATCACCAAATCCTCCCA 59.712 52.381 0.00 0.00 41.91 4.37
131 132 2.292192 GGGAATCACCAAATCCTCCCAA 60.292 50.000 0.00 0.00 41.91 4.12
132 133 3.440127 GGAATCACCAAATCCTCCCAAA 58.560 45.455 0.00 0.00 38.79 3.28
133 134 4.033009 GGAATCACCAAATCCTCCCAAAT 58.967 43.478 0.00 0.00 38.79 2.32
134 135 4.100035 GGAATCACCAAATCCTCCCAAATC 59.900 45.833 0.00 0.00 38.79 2.17
135 136 3.100207 TCACCAAATCCTCCCAAATCC 57.900 47.619 0.00 0.00 0.00 3.01
136 137 2.110578 CACCAAATCCTCCCAAATCCC 58.889 52.381 0.00 0.00 0.00 3.85
137 138 1.008327 ACCAAATCCTCCCAAATCCCC 59.992 52.381 0.00 0.00 0.00 4.81
138 139 1.291939 CCAAATCCTCCCAAATCCCCT 59.708 52.381 0.00 0.00 0.00 4.79
139 140 2.670939 CAAATCCTCCCAAATCCCCTC 58.329 52.381 0.00 0.00 0.00 4.30
140 141 1.235756 AATCCTCCCAAATCCCCTCC 58.764 55.000 0.00 0.00 0.00 4.30
141 142 0.351998 ATCCTCCCAAATCCCCTCCT 59.648 55.000 0.00 0.00 0.00 3.69
142 143 1.031939 TCCTCCCAAATCCCCTCCTA 58.968 55.000 0.00 0.00 0.00 2.94
143 144 1.371774 TCCTCCCAAATCCCCTCCTAA 59.628 52.381 0.00 0.00 0.00 2.69
144 145 2.214201 CCTCCCAAATCCCCTCCTAAA 58.786 52.381 0.00 0.00 0.00 1.85
145 146 2.585432 CCTCCCAAATCCCCTCCTAAAA 59.415 50.000 0.00 0.00 0.00 1.52
146 147 3.627492 CCTCCCAAATCCCCTCCTAAAAC 60.627 52.174 0.00 0.00 0.00 2.43
147 148 2.313643 TCCCAAATCCCCTCCTAAAACC 59.686 50.000 0.00 0.00 0.00 3.27
148 149 2.314852 CCCAAATCCCCTCCTAAAACCT 59.685 50.000 0.00 0.00 0.00 3.50
149 150 3.627492 CCCAAATCCCCTCCTAAAACCTC 60.627 52.174 0.00 0.00 0.00 3.85
150 151 3.269643 CCAAATCCCCTCCTAAAACCTCT 59.730 47.826 0.00 0.00 0.00 3.69
151 152 4.527944 CAAATCCCCTCCTAAAACCTCTC 58.472 47.826 0.00 0.00 0.00 3.20
152 153 3.508952 ATCCCCTCCTAAAACCTCTCA 57.491 47.619 0.00 0.00 0.00 3.27
153 154 3.285290 TCCCCTCCTAAAACCTCTCAA 57.715 47.619 0.00 0.00 0.00 3.02
154 155 3.604787 TCCCCTCCTAAAACCTCTCAAA 58.395 45.455 0.00 0.00 0.00 2.69
155 156 4.183916 TCCCCTCCTAAAACCTCTCAAAT 58.816 43.478 0.00 0.00 0.00 2.32
156 157 5.355711 TCCCCTCCTAAAACCTCTCAAATA 58.644 41.667 0.00 0.00 0.00 1.40
157 158 5.191124 TCCCCTCCTAAAACCTCTCAAATAC 59.809 44.000 0.00 0.00 0.00 1.89
158 159 5.191921 CCCCTCCTAAAACCTCTCAAATACT 59.808 44.000 0.00 0.00 0.00 2.12
159 160 6.350103 CCCTCCTAAAACCTCTCAAATACTC 58.650 44.000 0.00 0.00 0.00 2.59
160 161 6.157123 CCCTCCTAAAACCTCTCAAATACTCT 59.843 42.308 0.00 0.00 0.00 3.24
161 162 7.311360 CCCTCCTAAAACCTCTCAAATACTCTT 60.311 40.741 0.00 0.00 0.00 2.85
162 163 8.103935 CCTCCTAAAACCTCTCAAATACTCTTT 58.896 37.037 0.00 0.00 0.00 2.52
163 164 9.508642 CTCCTAAAACCTCTCAAATACTCTTTT 57.491 33.333 0.00 0.00 0.00 2.27
167 168 8.990163 AAAACCTCTCAAATACTCTTTTACCA 57.010 30.769 0.00 0.00 0.00 3.25
168 169 8.990163 AAACCTCTCAAATACTCTTTTACCAA 57.010 30.769 0.00 0.00 0.00 3.67
169 170 8.990163 AACCTCTCAAATACTCTTTTACCAAA 57.010 30.769 0.00 0.00 0.00 3.28
170 171 8.392372 ACCTCTCAAATACTCTTTTACCAAAC 57.608 34.615 0.00 0.00 0.00 2.93
171 172 7.172703 ACCTCTCAAATACTCTTTTACCAAACG 59.827 37.037 0.00 0.00 0.00 3.60
172 173 7.386848 CCTCTCAAATACTCTTTTACCAAACGA 59.613 37.037 0.00 0.00 0.00 3.85
173 174 8.306680 TCTCAAATACTCTTTTACCAAACGAG 57.693 34.615 0.00 4.21 0.00 4.18
174 175 7.386848 TCTCAAATACTCTTTTACCAAACGAGG 59.613 37.037 9.19 0.00 0.00 4.63
175 176 5.874895 AATACTCTTTTACCAAACGAGGC 57.125 39.130 9.19 0.00 0.00 4.70
193 194 2.029666 CTTATGAGGCCGGCGGAG 59.970 66.667 33.44 12.64 0.00 4.63
234 235 4.096003 CCTCCCCCACGCGACATT 62.096 66.667 15.93 0.00 0.00 2.71
246 247 1.351707 CGACATTGAAATCCCGCCG 59.648 57.895 0.00 0.00 0.00 6.46
278 279 1.226575 CGATTACGCTCACGCCTCA 60.227 57.895 0.00 0.00 45.53 3.86
372 373 4.394712 CTCCCCACGCACTCCCAC 62.395 72.222 0.00 0.00 0.00 4.61
401 402 0.666577 GGTACTATGTCATCGCGCCC 60.667 60.000 0.00 0.00 0.00 6.13
624 625 0.250684 TGCTGCTCGTTTGGATCCAA 60.251 50.000 23.63 23.63 0.00 3.53
647 648 2.885644 CGCCTCGTGATGGGTTCG 60.886 66.667 0.00 0.00 0.00 3.95
652 653 4.147322 CGTGATGGGTTCGTGCGC 62.147 66.667 0.00 0.00 0.00 6.09
658 659 4.778143 GGGTTCGTGCGCAGGGAT 62.778 66.667 27.93 0.00 0.00 3.85
663 664 3.869272 CGTGCGCAGGGATGCTTC 61.869 66.667 21.95 0.11 0.00 3.86
681 682 4.391830 TGCTTCGATCAATCTAGCGTTTTT 59.608 37.500 0.00 0.00 35.92 1.94
682 683 5.579119 TGCTTCGATCAATCTAGCGTTTTTA 59.421 36.000 0.00 0.00 35.92 1.52
743 744 9.084164 CCAATCTGAATTTTCATGATTGACTTC 57.916 33.333 26.18 0.00 44.44 3.01
747 748 8.631797 TCTGAATTTTCATGATTGACTTCACAA 58.368 29.630 0.00 0.00 36.46 3.33
891 892 9.547753 TGGCTACTATGTCATTTCTTTATCTTC 57.452 33.333 0.00 0.00 0.00 2.87
920 921 8.565896 TGTTTCAAGATTATATTCTGCTGTGT 57.434 30.769 0.00 0.00 0.00 3.72
923 924 8.893219 TTCAAGATTATATTCTGCTGTGTAGG 57.107 34.615 0.00 0.00 0.00 3.18
983 987 6.409524 AAAGAACCAATTCTGAATTCAGCA 57.590 33.333 27.45 19.48 44.82 4.41
1015 1019 4.526970 GAAAGTTATGAGGAGGAATGGCA 58.473 43.478 0.00 0.00 0.00 4.92
1080 1085 4.527038 CGGGCTACTTATCCAATCCTAAGA 59.473 45.833 0.00 0.00 0.00 2.10
1096 1101 8.969267 CAATCCTAAGACTTGTATATCAACGAC 58.031 37.037 0.00 0.00 32.18 4.34
1114 1119 2.945008 CGACCAAATGCATACAGTGGAT 59.055 45.455 19.82 8.58 41.06 3.41
1170 1175 1.079543 AGATGCTGCTTTCGACGCT 60.080 52.632 0.00 0.00 0.00 5.07
1287 1292 4.459089 GAGGCTGAGGGACGTGCC 62.459 72.222 19.86 19.86 45.21 5.01
1325 1332 0.236711 GCACTTGCAGCAGTGTACAG 59.763 55.000 17.59 7.26 45.31 2.74
1341 1348 6.488683 CAGTGTACAGGGGAAAAATTCAGTTA 59.511 38.462 0.00 0.00 0.00 2.24
1389 1430 1.344114 GCACTGAAGAAAAATGCCCCA 59.656 47.619 0.00 0.00 0.00 4.96
1394 1435 4.060205 CTGAAGAAAAATGCCCCAAACAG 58.940 43.478 0.00 0.00 0.00 3.16
1405 1485 3.525609 TGCCCCAAACAGGTATCTGAATA 59.474 43.478 10.76 0.00 43.49 1.75
1519 1600 3.637229 CGTGGAGACCATACCTTCATAGT 59.363 47.826 0.00 0.00 35.28 2.12
1570 1651 1.156736 GTTGTCTGAATGGTGTCCCG 58.843 55.000 0.00 0.00 0.00 5.14
1643 1729 7.815840 TTGTCATAAATCAACCTCTGTTTCA 57.184 32.000 0.00 0.00 30.42 2.69
1710 1796 4.576463 GCAGATTGAATAGATGAACCGGTT 59.424 41.667 22.50 22.50 0.00 4.44
1725 4079 6.893759 TGAACCGGTTTATTTATGATATGCG 58.106 36.000 23.22 0.00 0.00 4.73
1826 4180 6.729690 ATATGATCTGCCTAATAGCTCTCC 57.270 41.667 0.00 0.00 0.00 3.71
1827 4181 4.125124 TGATCTGCCTAATAGCTCTCCT 57.875 45.455 0.00 0.00 0.00 3.69
1828 4182 4.085733 TGATCTGCCTAATAGCTCTCCTC 58.914 47.826 0.00 0.00 0.00 3.71
1829 4183 2.509569 TCTGCCTAATAGCTCTCCTCG 58.490 52.381 0.00 0.00 0.00 4.63
1841 4195 4.279145 AGCTCTCCTCGGTTTATAACAGA 58.721 43.478 0.00 0.00 34.47 3.41
1871 4225 5.066375 TGCATGATAATAAGAAGTGTGGCAC 59.934 40.000 11.55 11.55 34.10 5.01
1949 4303 2.565841 ACTTGACACTTGGTGCTCTTC 58.434 47.619 0.00 0.00 36.98 2.87
1993 4347 7.897575 TTAAATTAGCACGCCAATTCAAATT 57.102 28.000 0.00 0.00 0.00 1.82
1998 4352 4.626042 AGCACGCCAATTCAAATTTGTAA 58.374 34.783 17.47 10.91 0.00 2.41
2012 4366 8.177119 TCAAATTTGTAATGTATAGCCATCCC 57.823 34.615 17.47 0.00 0.00 3.85
2025 4379 1.915141 CCATCCCAAACTGCAGTCTT 58.085 50.000 21.95 13.58 0.00 3.01
2034 4388 6.719370 TCCCAAACTGCAGTCTTATTTAATGT 59.281 34.615 21.95 0.00 0.00 2.71
2153 4507 5.722021 AGAAATCAACGCCTAAAACCAAT 57.278 34.783 0.00 0.00 0.00 3.16
2318 4681 7.291566 TCCCTCTACATTTCCTTGTTTAAACA 58.708 34.615 17.01 17.01 37.08 2.83
2322 4685 9.329913 CTCTACATTTCCTTGTTTAAACAATCG 57.670 33.333 28.88 22.09 46.71 3.34
2344 4707 5.032220 CGGGAATTAAAGTTTACGGAATGC 58.968 41.667 0.00 0.00 0.00 3.56
2402 4765 5.555017 CTGGCCTAGCATAGTGAATGTAAT 58.445 41.667 3.32 0.00 36.82 1.89
2416 4779 8.539770 AGTGAATGTAATTGTACTTCTGTGAG 57.460 34.615 0.00 0.00 36.07 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.051901 ACAGAGGGTTTGCAAAATTAGTATAC 57.948 34.615 14.67 0.00 0.00 1.47
1 2 9.914834 ATACAGAGGGTTTGCAAAATTAGTATA 57.085 29.630 14.67 3.12 0.00 1.47
2 3 8.823220 ATACAGAGGGTTTGCAAAATTAGTAT 57.177 30.769 14.67 13.67 0.00 2.12
3 4 7.885922 TGATACAGAGGGTTTGCAAAATTAGTA 59.114 33.333 14.67 12.11 0.00 1.82
4 5 6.719370 TGATACAGAGGGTTTGCAAAATTAGT 59.281 34.615 14.67 10.38 0.00 2.24
5 6 7.156876 TGATACAGAGGGTTTGCAAAATTAG 57.843 36.000 14.67 4.88 0.00 1.73
6 7 7.531857 TTGATACAGAGGGTTTGCAAAATTA 57.468 32.000 14.67 0.00 0.00 1.40
7 8 6.418057 TTGATACAGAGGGTTTGCAAAATT 57.582 33.333 14.67 2.03 0.00 1.82
8 9 6.351286 GGATTGATACAGAGGGTTTGCAAAAT 60.351 38.462 14.67 2.75 0.00 1.82
9 10 5.047377 GGATTGATACAGAGGGTTTGCAAAA 60.047 40.000 14.67 0.00 0.00 2.44
10 11 4.462483 GGATTGATACAGAGGGTTTGCAAA 59.538 41.667 8.05 8.05 0.00 3.68
11 12 4.016444 GGATTGATACAGAGGGTTTGCAA 58.984 43.478 0.00 0.00 0.00 4.08
12 13 3.620488 GGATTGATACAGAGGGTTTGCA 58.380 45.455 0.00 0.00 0.00 4.08
13 14 2.952310 GGGATTGATACAGAGGGTTTGC 59.048 50.000 0.00 0.00 0.00 3.68
14 15 4.202441 CAGGGATTGATACAGAGGGTTTG 58.798 47.826 0.00 0.00 0.00 2.93
15 16 3.852578 ACAGGGATTGATACAGAGGGTTT 59.147 43.478 0.00 0.00 0.00 3.27
16 17 3.200825 CACAGGGATTGATACAGAGGGTT 59.799 47.826 0.00 0.00 0.00 4.11
17 18 2.774234 CACAGGGATTGATACAGAGGGT 59.226 50.000 0.00 0.00 0.00 4.34
18 19 2.774234 ACACAGGGATTGATACAGAGGG 59.226 50.000 0.00 0.00 0.00 4.30
19 20 4.202264 GGTACACAGGGATTGATACAGAGG 60.202 50.000 0.00 0.00 0.00 3.69
20 21 4.405680 TGGTACACAGGGATTGATACAGAG 59.594 45.833 0.00 0.00 0.00 3.35
21 22 4.358214 TGGTACACAGGGATTGATACAGA 58.642 43.478 0.00 0.00 0.00 3.41
22 23 4.753516 TGGTACACAGGGATTGATACAG 57.246 45.455 0.00 0.00 0.00 2.74
23 24 5.506730 TTTGGTACACAGGGATTGATACA 57.493 39.130 0.00 0.00 39.29 2.29
24 25 7.506114 TCTATTTGGTACACAGGGATTGATAC 58.494 38.462 0.00 0.00 39.29 2.24
25 26 7.684317 TCTATTTGGTACACAGGGATTGATA 57.316 36.000 0.00 0.00 39.29 2.15
26 27 6.575244 TCTATTTGGTACACAGGGATTGAT 57.425 37.500 0.00 0.00 39.29 2.57
27 28 6.381498 TTCTATTTGGTACACAGGGATTGA 57.619 37.500 0.00 0.00 39.29 2.57
28 29 5.590259 CCTTCTATTTGGTACACAGGGATTG 59.410 44.000 0.00 0.00 39.29 2.67
29 30 5.340027 CCCTTCTATTTGGTACACAGGGATT 60.340 44.000 0.00 0.00 39.29 3.01
30 31 4.166144 CCCTTCTATTTGGTACACAGGGAT 59.834 45.833 0.00 0.00 39.29 3.85
31 32 3.521937 CCCTTCTATTTGGTACACAGGGA 59.478 47.826 0.00 0.00 39.29 4.20
32 33 3.371595 CCCCTTCTATTTGGTACACAGGG 60.372 52.174 0.00 0.00 39.29 4.45
33 34 3.265995 ACCCCTTCTATTTGGTACACAGG 59.734 47.826 0.00 0.00 39.29 4.00
34 35 4.261801 CACCCCTTCTATTTGGTACACAG 58.738 47.826 0.00 0.00 39.29 3.66
35 36 3.653836 ACACCCCTTCTATTTGGTACACA 59.346 43.478 0.00 0.00 39.29 3.72
36 37 4.007659 CACACCCCTTCTATTTGGTACAC 58.992 47.826 0.00 0.00 39.29 2.90
37 38 3.653836 ACACACCCCTTCTATTTGGTACA 59.346 43.478 0.00 0.00 0.00 2.90
38 39 4.007659 CACACACCCCTTCTATTTGGTAC 58.992 47.826 0.00 0.00 0.00 3.34
39 40 3.911260 TCACACACCCCTTCTATTTGGTA 59.089 43.478 0.00 0.00 0.00 3.25
40 41 2.714250 TCACACACCCCTTCTATTTGGT 59.286 45.455 0.00 0.00 0.00 3.67
41 42 3.347216 CTCACACACCCCTTCTATTTGG 58.653 50.000 0.00 0.00 0.00 3.28
42 43 3.347216 CCTCACACACCCCTTCTATTTG 58.653 50.000 0.00 0.00 0.00 2.32
43 44 2.308866 CCCTCACACACCCCTTCTATTT 59.691 50.000 0.00 0.00 0.00 1.40
44 45 1.916181 CCCTCACACACCCCTTCTATT 59.084 52.381 0.00 0.00 0.00 1.73
45 46 1.584724 CCCTCACACACCCCTTCTAT 58.415 55.000 0.00 0.00 0.00 1.98
46 47 0.546747 CCCCTCACACACCCCTTCTA 60.547 60.000 0.00 0.00 0.00 2.10
47 48 1.847968 CCCCTCACACACCCCTTCT 60.848 63.158 0.00 0.00 0.00 2.85
48 49 1.716028 AACCCCTCACACACCCCTTC 61.716 60.000 0.00 0.00 0.00 3.46
49 50 1.293683 AAACCCCTCACACACCCCTT 61.294 55.000 0.00 0.00 0.00 3.95
50 51 1.699930 AAACCCCTCACACACCCCT 60.700 57.895 0.00 0.00 0.00 4.79
51 52 1.530655 CAAACCCCTCACACACCCC 60.531 63.158 0.00 0.00 0.00 4.95
52 53 0.537371 CTCAAACCCCTCACACACCC 60.537 60.000 0.00 0.00 0.00 4.61
53 54 0.472471 TCTCAAACCCCTCACACACC 59.528 55.000 0.00 0.00 0.00 4.16
54 55 1.543429 CCTCTCAAACCCCTCACACAC 60.543 57.143 0.00 0.00 0.00 3.82
55 56 0.764890 CCTCTCAAACCCCTCACACA 59.235 55.000 0.00 0.00 0.00 3.72
56 57 1.056660 TCCTCTCAAACCCCTCACAC 58.943 55.000 0.00 0.00 0.00 3.82
57 58 2.044793 ATCCTCTCAAACCCCTCACA 57.955 50.000 0.00 0.00 0.00 3.58
58 59 3.084786 CAAATCCTCTCAAACCCCTCAC 58.915 50.000 0.00 0.00 0.00 3.51
59 60 2.041620 CCAAATCCTCTCAAACCCCTCA 59.958 50.000 0.00 0.00 0.00 3.86
60 61 2.621668 CCCAAATCCTCTCAAACCCCTC 60.622 54.545 0.00 0.00 0.00 4.30
61 62 1.359130 CCCAAATCCTCTCAAACCCCT 59.641 52.381 0.00 0.00 0.00 4.79
62 63 1.357761 TCCCAAATCCTCTCAAACCCC 59.642 52.381 0.00 0.00 0.00 4.95
63 64 2.621668 CCTCCCAAATCCTCTCAAACCC 60.622 54.545 0.00 0.00 0.00 4.11
64 65 2.308866 TCCTCCCAAATCCTCTCAAACC 59.691 50.000 0.00 0.00 0.00 3.27
65 66 3.721087 TCCTCCCAAATCCTCTCAAAC 57.279 47.619 0.00 0.00 0.00 2.93
66 67 4.953781 AATCCTCCCAAATCCTCTCAAA 57.046 40.909 0.00 0.00 0.00 2.69
67 68 4.292041 TCAAATCCTCCCAAATCCTCTCAA 59.708 41.667 0.00 0.00 0.00 3.02
68 69 3.851976 TCAAATCCTCCCAAATCCTCTCA 59.148 43.478 0.00 0.00 0.00 3.27
69 70 4.510167 TCAAATCCTCCCAAATCCTCTC 57.490 45.455 0.00 0.00 0.00 3.20
70 71 4.953781 TTCAAATCCTCCCAAATCCTCT 57.046 40.909 0.00 0.00 0.00 3.69
71 72 4.403752 CCTTTCAAATCCTCCCAAATCCTC 59.596 45.833 0.00 0.00 0.00 3.71
72 73 4.045846 TCCTTTCAAATCCTCCCAAATCCT 59.954 41.667 0.00 0.00 0.00 3.24
73 74 4.352893 TCCTTTCAAATCCTCCCAAATCC 58.647 43.478 0.00 0.00 0.00 3.01
74 75 6.343703 CAATCCTTTCAAATCCTCCCAAATC 58.656 40.000 0.00 0.00 0.00 2.17
75 76 5.190330 CCAATCCTTTCAAATCCTCCCAAAT 59.810 40.000 0.00 0.00 0.00 2.32
76 77 4.531732 CCAATCCTTTCAAATCCTCCCAAA 59.468 41.667 0.00 0.00 0.00 3.28
77 78 4.095946 CCAATCCTTTCAAATCCTCCCAA 58.904 43.478 0.00 0.00 0.00 4.12
78 79 3.566332 CCCAATCCTTTCAAATCCTCCCA 60.566 47.826 0.00 0.00 0.00 4.37
79 80 3.033909 CCCAATCCTTTCAAATCCTCCC 58.966 50.000 0.00 0.00 0.00 4.30
80 81 3.448660 CACCCAATCCTTTCAAATCCTCC 59.551 47.826 0.00 0.00 0.00 4.30
81 82 3.448660 CCACCCAATCCTTTCAAATCCTC 59.551 47.826 0.00 0.00 0.00 3.71
82 83 3.077391 TCCACCCAATCCTTTCAAATCCT 59.923 43.478 0.00 0.00 0.00 3.24
83 84 3.440127 TCCACCCAATCCTTTCAAATCC 58.560 45.455 0.00 0.00 0.00 3.01
84 85 4.772100 TCTTCCACCCAATCCTTTCAAATC 59.228 41.667 0.00 0.00 0.00 2.17
85 86 4.750941 TCTTCCACCCAATCCTTTCAAAT 58.249 39.130 0.00 0.00 0.00 2.32
86 87 4.141041 TCTCTTCCACCCAATCCTTTCAAA 60.141 41.667 0.00 0.00 0.00 2.69
87 88 3.397618 TCTCTTCCACCCAATCCTTTCAA 59.602 43.478 0.00 0.00 0.00 2.69
88 89 2.986019 TCTCTTCCACCCAATCCTTTCA 59.014 45.455 0.00 0.00 0.00 2.69
89 90 3.615155 CTCTCTTCCACCCAATCCTTTC 58.385 50.000 0.00 0.00 0.00 2.62
90 91 2.310052 CCTCTCTTCCACCCAATCCTTT 59.690 50.000 0.00 0.00 0.00 3.11
91 92 1.918957 CCTCTCTTCCACCCAATCCTT 59.081 52.381 0.00 0.00 0.00 3.36
92 93 1.589414 CCTCTCTTCCACCCAATCCT 58.411 55.000 0.00 0.00 0.00 3.24
93 94 0.548510 CCCTCTCTTCCACCCAATCC 59.451 60.000 0.00 0.00 0.00 3.01
94 95 1.584724 TCCCTCTCTTCCACCCAATC 58.415 55.000 0.00 0.00 0.00 2.67
95 96 2.059756 TTCCCTCTCTTCCACCCAAT 57.940 50.000 0.00 0.00 0.00 3.16
96 97 1.916181 GATTCCCTCTCTTCCACCCAA 59.084 52.381 0.00 0.00 0.00 4.12
97 98 1.203428 TGATTCCCTCTCTTCCACCCA 60.203 52.381 0.00 0.00 0.00 4.51
98 99 1.210722 GTGATTCCCTCTCTTCCACCC 59.789 57.143 0.00 0.00 0.00 4.61
99 100 1.210722 GGTGATTCCCTCTCTTCCACC 59.789 57.143 0.00 0.00 36.27 4.61
100 101 1.909302 TGGTGATTCCCTCTCTTCCAC 59.091 52.381 0.00 0.00 34.77 4.02
101 102 2.342406 TGGTGATTCCCTCTCTTCCA 57.658 50.000 0.00 0.00 34.77 3.53
102 103 3.721087 TTTGGTGATTCCCTCTCTTCC 57.279 47.619 0.00 0.00 34.77 3.46
103 104 4.080072 AGGATTTGGTGATTCCCTCTCTTC 60.080 45.833 0.00 0.00 34.77 2.87
104 105 3.854994 AGGATTTGGTGATTCCCTCTCTT 59.145 43.478 0.00 0.00 34.77 2.85
105 106 3.457749 GAGGATTTGGTGATTCCCTCTCT 59.542 47.826 0.00 0.00 37.71 3.10
106 107 3.434310 GGAGGATTTGGTGATTCCCTCTC 60.434 52.174 0.00 0.00 39.91 3.20
107 108 2.511637 GGAGGATTTGGTGATTCCCTCT 59.488 50.000 0.00 0.00 39.91 3.69
108 109 2.423517 GGGAGGATTTGGTGATTCCCTC 60.424 54.545 0.00 0.00 40.86 4.30
109 110 1.570979 GGGAGGATTTGGTGATTCCCT 59.429 52.381 0.16 0.00 40.86 4.20
110 111 1.287739 TGGGAGGATTTGGTGATTCCC 59.712 52.381 0.40 0.40 43.67 3.97
111 112 2.826674 TGGGAGGATTTGGTGATTCC 57.173 50.000 0.00 0.00 0.00 3.01
112 113 4.100035 GGATTTGGGAGGATTTGGTGATTC 59.900 45.833 0.00 0.00 0.00 2.52
113 114 4.033009 GGATTTGGGAGGATTTGGTGATT 58.967 43.478 0.00 0.00 0.00 2.57
114 115 3.630828 GGGATTTGGGAGGATTTGGTGAT 60.631 47.826 0.00 0.00 0.00 3.06
115 116 2.292192 GGGATTTGGGAGGATTTGGTGA 60.292 50.000 0.00 0.00 0.00 4.02
116 117 2.110578 GGGATTTGGGAGGATTTGGTG 58.889 52.381 0.00 0.00 0.00 4.17
117 118 1.008327 GGGGATTTGGGAGGATTTGGT 59.992 52.381 0.00 0.00 0.00 3.67
118 119 1.291939 AGGGGATTTGGGAGGATTTGG 59.708 52.381 0.00 0.00 0.00 3.28
119 120 2.670939 GAGGGGATTTGGGAGGATTTG 58.329 52.381 0.00 0.00 0.00 2.32
120 121 1.575788 GGAGGGGATTTGGGAGGATTT 59.424 52.381 0.00 0.00 0.00 2.17
121 122 1.235756 GGAGGGGATTTGGGAGGATT 58.764 55.000 0.00 0.00 0.00 3.01
122 123 0.351998 AGGAGGGGATTTGGGAGGAT 59.648 55.000 0.00 0.00 0.00 3.24
123 124 1.031939 TAGGAGGGGATTTGGGAGGA 58.968 55.000 0.00 0.00 0.00 3.71
124 125 1.907240 TTAGGAGGGGATTTGGGAGG 58.093 55.000 0.00 0.00 0.00 4.30
125 126 3.627492 GGTTTTAGGAGGGGATTTGGGAG 60.627 52.174 0.00 0.00 0.00 4.30
126 127 2.313643 GGTTTTAGGAGGGGATTTGGGA 59.686 50.000 0.00 0.00 0.00 4.37
127 128 2.314852 AGGTTTTAGGAGGGGATTTGGG 59.685 50.000 0.00 0.00 0.00 4.12
128 129 3.269643 AGAGGTTTTAGGAGGGGATTTGG 59.730 47.826 0.00 0.00 0.00 3.28
129 130 4.018415 TGAGAGGTTTTAGGAGGGGATTTG 60.018 45.833 0.00 0.00 0.00 2.32
130 131 4.183916 TGAGAGGTTTTAGGAGGGGATTT 58.816 43.478 0.00 0.00 0.00 2.17
131 132 3.815507 TGAGAGGTTTTAGGAGGGGATT 58.184 45.455 0.00 0.00 0.00 3.01
132 133 3.508952 TGAGAGGTTTTAGGAGGGGAT 57.491 47.619 0.00 0.00 0.00 3.85
133 134 3.285290 TTGAGAGGTTTTAGGAGGGGA 57.715 47.619 0.00 0.00 0.00 4.81
134 135 4.592997 ATTTGAGAGGTTTTAGGAGGGG 57.407 45.455 0.00 0.00 0.00 4.79
135 136 6.157123 AGAGTATTTGAGAGGTTTTAGGAGGG 59.843 42.308 0.00 0.00 0.00 4.30
136 137 7.189079 AGAGTATTTGAGAGGTTTTAGGAGG 57.811 40.000 0.00 0.00 0.00 4.30
137 138 9.508642 AAAAGAGTATTTGAGAGGTTTTAGGAG 57.491 33.333 0.00 0.00 0.00 3.69
142 143 8.990163 TGGTAAAAGAGTATTTGAGAGGTTTT 57.010 30.769 0.00 0.00 0.00 2.43
143 144 8.990163 TTGGTAAAAGAGTATTTGAGAGGTTT 57.010 30.769 0.00 0.00 0.00 3.27
144 145 8.847196 GTTTGGTAAAAGAGTATTTGAGAGGTT 58.153 33.333 0.00 0.00 0.00 3.50
145 146 7.172703 CGTTTGGTAAAAGAGTATTTGAGAGGT 59.827 37.037 0.00 0.00 0.00 3.85
146 147 7.386848 TCGTTTGGTAAAAGAGTATTTGAGAGG 59.613 37.037 0.00 0.00 0.00 3.69
147 148 8.306680 TCGTTTGGTAAAAGAGTATTTGAGAG 57.693 34.615 0.00 0.00 0.00 3.20
148 149 7.386848 CCTCGTTTGGTAAAAGAGTATTTGAGA 59.613 37.037 13.43 0.00 42.86 3.27
149 150 7.519002 CCTCGTTTGGTAAAAGAGTATTTGAG 58.481 38.462 13.43 0.00 42.86 3.02
150 151 6.072893 GCCTCGTTTGGTAAAAGAGTATTTGA 60.073 38.462 13.43 0.00 42.86 2.69
151 152 6.084277 GCCTCGTTTGGTAAAAGAGTATTTG 58.916 40.000 13.43 2.93 42.86 2.32
152 153 5.182570 GGCCTCGTTTGGTAAAAGAGTATTT 59.817 40.000 13.43 0.00 42.86 1.40
153 154 4.698780 GGCCTCGTTTGGTAAAAGAGTATT 59.301 41.667 13.43 0.00 42.86 1.89
154 155 4.019591 AGGCCTCGTTTGGTAAAAGAGTAT 60.020 41.667 0.00 0.85 42.86 2.12
155 156 3.325716 AGGCCTCGTTTGGTAAAAGAGTA 59.674 43.478 0.00 0.00 42.86 2.59
156 157 2.105993 AGGCCTCGTTTGGTAAAAGAGT 59.894 45.455 0.00 0.00 42.86 3.24
157 158 2.779506 AGGCCTCGTTTGGTAAAAGAG 58.220 47.619 0.00 9.34 43.64 2.85
158 159 2.943036 AGGCCTCGTTTGGTAAAAGA 57.057 45.000 0.00 0.00 0.00 2.52
159 160 4.698304 TCATAAGGCCTCGTTTGGTAAAAG 59.302 41.667 5.23 0.00 0.00 2.27
160 161 4.653868 TCATAAGGCCTCGTTTGGTAAAA 58.346 39.130 5.23 0.00 0.00 1.52
161 162 4.258543 CTCATAAGGCCTCGTTTGGTAAA 58.741 43.478 5.23 0.00 0.00 2.01
162 163 3.370103 CCTCATAAGGCCTCGTTTGGTAA 60.370 47.826 5.23 0.00 35.37 2.85
163 164 2.169769 CCTCATAAGGCCTCGTTTGGTA 59.830 50.000 5.23 0.00 35.37 3.25
164 165 1.065418 CCTCATAAGGCCTCGTTTGGT 60.065 52.381 5.23 0.00 35.37 3.67
165 166 1.668419 CCTCATAAGGCCTCGTTTGG 58.332 55.000 5.23 2.26 35.37 3.28
175 176 3.521529 CTCCGCCGGCCTCATAAGG 62.522 68.421 23.46 14.80 46.44 2.69
193 194 1.810030 GCCGATGGGAGTCGTTGTC 60.810 63.158 0.00 0.00 39.89 3.18
234 235 4.483243 GAGGGCGGCGGGATTTCA 62.483 66.667 9.78 0.00 0.00 2.69
278 279 1.313091 TGCTGGACATACGCGAGAGT 61.313 55.000 15.93 7.56 0.00 3.24
372 373 3.908081 ATAGTACCACCGGCGGCG 61.908 66.667 28.71 26.12 0.00 6.46
401 402 3.275832 AAAATTTGGGTCCGCCGCG 62.276 57.895 5.59 5.59 34.97 6.46
579 580 1.522355 AATCATGAGGAGGCACGCG 60.522 57.895 3.53 3.53 0.00 6.01
636 637 3.027170 CTGCGCACGAACCCATCAC 62.027 63.158 5.66 0.00 0.00 3.06
652 653 3.123157 AGATTGATCGAAGCATCCCTG 57.877 47.619 0.00 0.00 0.00 4.45
658 659 2.871182 ACGCTAGATTGATCGAAGCA 57.129 45.000 16.30 0.00 39.26 3.91
681 682 8.739039 CCAACAACCATGAGACAAATAAATCTA 58.261 33.333 0.00 0.00 0.00 1.98
682 683 7.233348 ACCAACAACCATGAGACAAATAAATCT 59.767 33.333 0.00 0.00 0.00 2.40
743 744 4.330250 AGGTCAAATGACAGGATCTTGTG 58.670 43.478 16.10 0.49 46.47 3.33
747 748 5.901853 TCATAGAGGTCAAATGACAGGATCT 59.098 40.000 14.93 13.04 46.47 2.75
801 802 8.944212 TCACGTATAACAGAATATCATGTACG 57.056 34.615 10.28 10.28 35.87 3.67
834 835 6.091713 CCAAGTACAAACCCGTTTATAGTCTG 59.908 42.308 0.00 0.00 0.00 3.51
891 892 9.499585 CAGCAGAATATAATCTTGAAACAACAG 57.500 33.333 0.00 0.00 0.00 3.16
902 903 6.042552 AGCACCTACACAGCAGAATATAATCT 59.957 38.462 0.00 0.00 0.00 2.40
920 921 1.350684 TCATGCAAAGTCCAGCACCTA 59.649 47.619 0.00 0.00 44.49 3.08
923 924 1.814394 TCATCATGCAAAGTCCAGCAC 59.186 47.619 0.00 0.00 44.49 4.40
983 987 6.139679 TCCTCATAACTTTCCAGGAACAAT 57.860 37.500 0.00 0.00 29.93 2.71
1034 1038 1.377725 CTTGCCTGGGCTCGTTGAT 60.378 57.895 13.05 0.00 42.51 2.57
1080 1085 5.645929 TGCATTTGGTCGTTGATATACAAGT 59.354 36.000 0.00 0.00 39.30 3.16
1096 1101 2.223876 GCCATCCACTGTATGCATTTGG 60.224 50.000 3.54 7.24 0.00 3.28
1287 1292 2.959484 ATGCAGTCCGGGGAGTGTG 61.959 63.158 20.60 5.98 44.85 3.82
1325 1332 4.462834 CCACCTCTAACTGAATTTTTCCCC 59.537 45.833 0.00 0.00 0.00 4.81
1341 1348 0.764369 TCCACTTGCAGTCCACCTCT 60.764 55.000 0.00 0.00 0.00 3.69
1389 1430 6.018433 AGGGCATTATTCAGATACCTGTTT 57.982 37.500 0.00 0.00 41.16 2.83
1394 1435 4.401925 AGCAAGGGCATTATTCAGATACC 58.598 43.478 0.00 0.00 44.61 2.73
1405 1485 1.279271 AGAGAACGTAGCAAGGGCATT 59.721 47.619 0.00 0.00 44.61 3.56
1519 1600 4.710375 GGTTCAGTCTATCTGGGACTTACA 59.290 45.833 0.00 0.00 41.45 2.41
1541 1622 3.181507 CCATTCAGACAACATTACGCTGG 60.182 47.826 0.00 0.00 0.00 4.85
1570 1651 2.099405 AGAACAGCAGAGCTCTAGGAC 58.901 52.381 17.75 6.52 36.40 3.85
1628 1714 6.713762 TTTGACAATGAAACAGAGGTTGAT 57.286 33.333 0.00 0.00 37.30 2.57
1643 1729 4.964593 ACCACCGTAGTACTTTTGACAAT 58.035 39.130 0.00 0.00 0.00 2.71
1710 1796 6.150976 CAGGAAAGGCCGCATATCATAAATAA 59.849 38.462 0.00 0.00 43.43 1.40
1725 4079 2.304221 AAACCTTACCAGGAAAGGCC 57.696 50.000 0.00 0.00 46.29 5.19
1826 4180 7.477144 TGCATATTGTCTGTTATAAACCGAG 57.523 36.000 0.00 0.00 0.00 4.63
1827 4181 7.713073 TCATGCATATTGTCTGTTATAAACCGA 59.287 33.333 0.00 0.00 0.00 4.69
1828 4182 7.860613 TCATGCATATTGTCTGTTATAAACCG 58.139 34.615 0.00 0.00 0.00 4.44
1871 4225 6.347160 CCAACATACTGATCGCATATTGTCTG 60.347 42.308 0.00 0.00 0.00 3.51
1949 4303 8.738645 ATTTAATCTACTTGGAGCTTAGGTTG 57.261 34.615 0.00 0.00 0.00 3.77
1993 4347 6.545666 CAGTTTGGGATGGCTATACATTACAA 59.454 38.462 0.00 0.00 0.00 2.41
1998 4352 3.117550 TGCAGTTTGGGATGGCTATACAT 60.118 43.478 0.00 0.00 0.00 2.29
2012 4366 7.329226 CCCAACATTAAATAAGACTGCAGTTTG 59.671 37.037 22.65 15.53 0.00 2.93
2025 4379 7.114095 GGTAAGTCCAGTCCCAACATTAAATA 58.886 38.462 0.00 0.00 35.97 1.40
2140 4494 2.745281 TCGAGGAAATTGGTTTTAGGCG 59.255 45.455 0.00 0.00 0.00 5.52
2153 4507 4.956085 TCACAGATTGAAACTCGAGGAAA 58.044 39.130 18.41 5.63 0.00 3.13
2221 4575 4.151867 GGAACTGACGTACAACAATCCTTC 59.848 45.833 0.00 0.00 0.00 3.46
2318 4681 7.477494 CATTCCGTAAACTTTAATTCCCGATT 58.523 34.615 0.00 0.00 0.00 3.34
2322 4685 5.032220 CGCATTCCGTAAACTTTAATTCCC 58.968 41.667 0.00 0.00 0.00 3.97
2365 4728 2.532843 AGGCCAGCAAATCACAGATTT 58.467 42.857 5.01 0.00 0.00 2.17
2402 4765 4.161565 ACCTTCACACTCACAGAAGTACAA 59.838 41.667 0.00 0.00 37.62 2.41
2410 4773 1.888215 ATGCACCTTCACACTCACAG 58.112 50.000 0.00 0.00 0.00 3.66
2416 4779 4.829064 TTGTAAGAATGCACCTTCACAC 57.171 40.909 6.47 2.72 0.00 3.82


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

AutoCloner maintained by Alex Coulton.