Multiple sequence alignment - TraesCS7D01G398700

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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 TraesCS7D01G398700 chr7D 100.000 2588 0 0 1 2588 514986548 514983961 0.000000e+00 4780
1 TraesCS7D01G398700 chr7D 94.009 2387 84 9 215 2588 226096035 226098375 0.000000e+00 3561
2 TraesCS7D01G398700 chr7D 93.258 2388 118 7 215 2588 327054291 327056649 0.000000e+00 3478
3 TraesCS7D01G398700 chr2D 94.505 2384 89 14 215 2588 50981669 50979318 0.000000e+00 3639
4 TraesCS7D01G398700 chr2D 93.569 2379 105 14 225 2588 519136888 519139233 0.000000e+00 3502
5 TraesCS7D01G398700 chr2D 92.269 2393 151 24 213 2588 314492429 314490054 0.000000e+00 3363
6 TraesCS7D01G398700 chr2D 92.256 2376 114 21 215 2588 591322571 591324878 0.000000e+00 3304
7 TraesCS7D01G398700 chr1D 93.543 2385 93 26 213 2588 257424183 257421851 0.000000e+00 3494
8 TraesCS7D01G398700 chr1D 90.798 2380 198 16 215 2588 92051337 92053701 0.000000e+00 3162
9 TraesCS7D01G398700 chr6B 92.758 2389 127 8 215 2588 514284087 514281730 0.000000e+00 3411
10 TraesCS7D01G398700 chr6B 91.053 2213 166 10 215 2409 415774018 415771820 0.000000e+00 2961
11 TraesCS7D01G398700 chr6B 92.697 671 32 7 206 861 472597128 472597796 0.000000e+00 952
12 TraesCS7D01G398700 chr3D 92.872 2357 123 23 245 2588 415994498 415996822 0.000000e+00 3380
13 TraesCS7D01G398700 chr7B 94.325 1956 70 12 657 2588 654031110 654033048 0.000000e+00 2959
14 TraesCS7D01G398700 chr7B 81.651 218 32 7 1 214 696239496 696239283 9.520000e-40 174
15 TraesCS7D01G398700 chr5B 93.207 2002 112 8 598 2588 539171250 539169262 0.000000e+00 2922
16 TraesCS7D01G398700 chr5D 91.158 1787 120 19 215 1994 522765571 522767326 0.000000e+00 2390
17 TraesCS7D01G398700 chr2B 89.161 775 57 10 215 981 238968864 238968109 0.000000e+00 941
18 TraesCS7D01G398700 chr5A 82.710 214 37 0 1 214 2616856 2617069 9.450000e-45 191


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 TraesCS7D01G398700 chr7D 514983961 514986548 2587 True 4780 4780 100.000 1 2588 1 chr7D.!!$R1 2587
1 TraesCS7D01G398700 chr7D 226096035 226098375 2340 False 3561 3561 94.009 215 2588 1 chr7D.!!$F1 2373
2 TraesCS7D01G398700 chr7D 327054291 327056649 2358 False 3478 3478 93.258 215 2588 1 chr7D.!!$F2 2373
3 TraesCS7D01G398700 chr2D 50979318 50981669 2351 True 3639 3639 94.505 215 2588 1 chr2D.!!$R1 2373
4 TraesCS7D01G398700 chr2D 519136888 519139233 2345 False 3502 3502 93.569 225 2588 1 chr2D.!!$F1 2363
5 TraesCS7D01G398700 chr2D 314490054 314492429 2375 True 3363 3363 92.269 213 2588 1 chr2D.!!$R2 2375
6 TraesCS7D01G398700 chr2D 591322571 591324878 2307 False 3304 3304 92.256 215 2588 1 chr2D.!!$F2 2373
7 TraesCS7D01G398700 chr1D 257421851 257424183 2332 True 3494 3494 93.543 213 2588 1 chr1D.!!$R1 2375
8 TraesCS7D01G398700 chr1D 92051337 92053701 2364 False 3162 3162 90.798 215 2588 1 chr1D.!!$F1 2373
9 TraesCS7D01G398700 chr6B 514281730 514284087 2357 True 3411 3411 92.758 215 2588 1 chr6B.!!$R2 2373
10 TraesCS7D01G398700 chr6B 415771820 415774018 2198 True 2961 2961 91.053 215 2409 1 chr6B.!!$R1 2194
11 TraesCS7D01G398700 chr6B 472597128 472597796 668 False 952 952 92.697 206 861 1 chr6B.!!$F1 655
12 TraesCS7D01G398700 chr3D 415994498 415996822 2324 False 3380 3380 92.872 245 2588 1 chr3D.!!$F1 2343
13 TraesCS7D01G398700 chr7B 654031110 654033048 1938 False 2959 2959 94.325 657 2588 1 chr7B.!!$F1 1931
14 TraesCS7D01G398700 chr5B 539169262 539171250 1988 True 2922 2922 93.207 598 2588 1 chr5B.!!$R1 1990
15 TraesCS7D01G398700 chr5D 522765571 522767326 1755 False 2390 2390 91.158 215 1994 1 chr5D.!!$F1 1779
16 TraesCS7D01G398700 chr2B 238968109 238968864 755 True 941 941 89.161 215 981 1 chr2B.!!$R1 766

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
53 54 0.036388 TCTAGACGCTTTTGCCCAGG 60.036 55.0 0.0 0.0 43.93 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 2190 1.523934 GAATGACGAACAACGAACGGT 59.476 47.619 0.0 0.0 45.77 4.83 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 4.966787 TCAAAGGTGGCGGGGTGC 62.967 66.667 0.00 0.00 45.38 5.01
18 19 4.974721 CAAAGGTGGCGGGGTGCT 62.975 66.667 0.00 0.00 45.43 4.40
19 20 4.660938 AAAGGTGGCGGGGTGCTC 62.661 66.667 0.00 0.00 45.43 4.26
22 23 4.966787 GGTGGCGGGGTGCTCAAA 62.967 66.667 0.00 0.00 45.43 2.69
23 24 3.365265 GTGGCGGGGTGCTCAAAG 61.365 66.667 0.00 0.00 45.43 2.77
24 25 4.659172 TGGCGGGGTGCTCAAAGG 62.659 66.667 0.00 0.00 45.43 3.11
27 28 3.646715 CGGGGTGCTCAAAGGGGA 61.647 66.667 0.00 0.00 0.00 4.81
28 29 2.035783 GGGGTGCTCAAAGGGGAC 59.964 66.667 0.00 0.00 0.00 4.46
41 42 1.558233 AGGGGACTTGGTTCTAGACG 58.442 55.000 0.00 0.00 37.44 4.18
42 43 0.108281 GGGGACTTGGTTCTAGACGC 60.108 60.000 0.00 0.00 0.00 5.19
43 44 0.896226 GGGACTTGGTTCTAGACGCT 59.104 55.000 0.00 0.00 0.00 5.07
44 45 1.275573 GGGACTTGGTTCTAGACGCTT 59.724 52.381 0.00 0.00 0.00 4.68
45 46 2.289506 GGGACTTGGTTCTAGACGCTTT 60.290 50.000 0.00 0.00 0.00 3.51
46 47 3.400255 GGACTTGGTTCTAGACGCTTTT 58.600 45.455 0.00 0.00 0.00 2.27
47 48 3.186613 GGACTTGGTTCTAGACGCTTTTG 59.813 47.826 0.00 0.00 0.00 2.44
48 49 2.548480 ACTTGGTTCTAGACGCTTTTGC 59.452 45.455 0.00 0.00 43.23 3.68
49 50 1.519408 TGGTTCTAGACGCTTTTGCC 58.481 50.000 0.00 0.00 43.93 4.52
50 51 0.803117 GGTTCTAGACGCTTTTGCCC 59.197 55.000 0.00 0.00 43.93 5.36
51 52 1.519408 GTTCTAGACGCTTTTGCCCA 58.481 50.000 0.00 0.00 43.93 5.36
52 53 1.464997 GTTCTAGACGCTTTTGCCCAG 59.535 52.381 0.00 0.00 43.93 4.45
53 54 0.036388 TCTAGACGCTTTTGCCCAGG 60.036 55.000 0.00 0.00 43.93 4.45
54 55 0.321653 CTAGACGCTTTTGCCCAGGT 60.322 55.000 0.00 0.00 43.93 4.00
55 56 0.978151 TAGACGCTTTTGCCCAGGTA 59.022 50.000 0.00 0.00 43.93 3.08
56 57 0.321653 AGACGCTTTTGCCCAGGTAG 60.322 55.000 0.00 0.00 43.93 3.18
57 58 1.303317 ACGCTTTTGCCCAGGTAGG 60.303 57.895 0.00 0.00 43.93 3.18
66 67 3.483869 CCAGGTAGGGGCTCCAGC 61.484 72.222 4.79 0.00 41.14 4.85
67 68 2.366167 CAGGTAGGGGCTCCAGCT 60.366 66.667 4.79 2.71 41.70 4.24
68 69 2.366167 AGGTAGGGGCTCCAGCTG 60.366 66.667 4.79 6.78 41.70 4.24
69 70 4.182433 GGTAGGGGCTCCAGCTGC 62.182 72.222 4.79 0.00 41.70 5.25
70 71 3.086600 GTAGGGGCTCCAGCTGCT 61.087 66.667 4.79 0.00 41.70 4.24
71 72 3.085947 TAGGGGCTCCAGCTGCTG 61.086 66.667 22.44 22.44 41.70 4.41
85 86 3.053828 GCTGCTGGCATTGTTGGT 58.946 55.556 0.00 0.00 41.35 3.67
86 87 1.373748 GCTGCTGGCATTGTTGGTG 60.374 57.895 0.00 0.00 41.35 4.17
87 88 1.808531 GCTGCTGGCATTGTTGGTGA 61.809 55.000 0.00 0.00 41.35 4.02
88 89 0.675083 CTGCTGGCATTGTTGGTGAA 59.325 50.000 0.00 0.00 0.00 3.18
89 90 0.675083 TGCTGGCATTGTTGGTGAAG 59.325 50.000 0.00 0.00 0.00 3.02
90 91 0.961019 GCTGGCATTGTTGGTGAAGA 59.039 50.000 0.00 0.00 0.00 2.87
91 92 1.068055 GCTGGCATTGTTGGTGAAGAG 60.068 52.381 0.00 0.00 0.00 2.85
92 93 1.542915 CTGGCATTGTTGGTGAAGAGG 59.457 52.381 0.00 0.00 0.00 3.69
93 94 1.144708 TGGCATTGTTGGTGAAGAGGA 59.855 47.619 0.00 0.00 0.00 3.71
94 95 1.815003 GGCATTGTTGGTGAAGAGGAG 59.185 52.381 0.00 0.00 0.00 3.69
95 96 1.815003 GCATTGTTGGTGAAGAGGAGG 59.185 52.381 0.00 0.00 0.00 4.30
96 97 2.440409 CATTGTTGGTGAAGAGGAGGG 58.560 52.381 0.00 0.00 0.00 4.30
97 98 0.771127 TTGTTGGTGAAGAGGAGGGG 59.229 55.000 0.00 0.00 0.00 4.79
98 99 0.401395 TGTTGGTGAAGAGGAGGGGT 60.401 55.000 0.00 0.00 0.00 4.95
99 100 0.771755 GTTGGTGAAGAGGAGGGGTT 59.228 55.000 0.00 0.00 0.00 4.11
100 101 0.771127 TTGGTGAAGAGGAGGGGTTG 59.229 55.000 0.00 0.00 0.00 3.77
101 102 1.133809 TGGTGAAGAGGAGGGGTTGG 61.134 60.000 0.00 0.00 0.00 3.77
102 103 1.002011 GTGAAGAGGAGGGGTTGGC 60.002 63.158 0.00 0.00 0.00 4.52
103 104 2.269241 GAAGAGGAGGGGTTGGCG 59.731 66.667 0.00 0.00 0.00 5.69
104 105 3.330720 AAGAGGAGGGGTTGGCGG 61.331 66.667 0.00 0.00 0.00 6.13
105 106 4.658786 AGAGGAGGGGTTGGCGGT 62.659 66.667 0.00 0.00 0.00 5.68
106 107 3.647771 GAGGAGGGGTTGGCGGTT 61.648 66.667 0.00 0.00 0.00 4.44
107 108 3.182996 AGGAGGGGTTGGCGGTTT 61.183 61.111 0.00 0.00 0.00 3.27
108 109 2.203582 GGAGGGGTTGGCGGTTTT 60.204 61.111 0.00 0.00 0.00 2.43
109 110 2.273179 GGAGGGGTTGGCGGTTTTC 61.273 63.158 0.00 0.00 0.00 2.29
110 111 2.596338 AGGGGTTGGCGGTTTTCG 60.596 61.111 0.00 0.00 42.76 3.46
120 121 2.652548 CGGTTTTCGCCAATCATGC 58.347 52.632 0.00 0.00 0.00 4.06
121 122 0.801836 CGGTTTTCGCCAATCATGCC 60.802 55.000 0.00 0.00 0.00 4.40
122 123 0.246086 GGTTTTCGCCAATCATGCCA 59.754 50.000 0.00 0.00 0.00 4.92
123 124 1.134729 GGTTTTCGCCAATCATGCCAT 60.135 47.619 0.00 0.00 0.00 4.40
124 125 1.928503 GTTTTCGCCAATCATGCCATG 59.071 47.619 0.00 0.00 0.00 3.66
125 126 1.472188 TTTCGCCAATCATGCCATGA 58.528 45.000 10.29 10.29 44.55 3.07
126 127 0.740149 TTCGCCAATCATGCCATGAC 59.260 50.000 10.06 0.00 43.01 3.06
127 128 1.102809 TCGCCAATCATGCCATGACC 61.103 55.000 10.06 0.00 43.01 4.02
128 129 1.744014 GCCAATCATGCCATGACCC 59.256 57.895 10.06 0.00 43.01 4.46
129 130 0.757935 GCCAATCATGCCATGACCCT 60.758 55.000 10.06 0.00 43.01 4.34
130 131 1.325355 CCAATCATGCCATGACCCTC 58.675 55.000 10.06 0.00 43.01 4.30
131 132 0.949397 CAATCATGCCATGACCCTCG 59.051 55.000 10.06 0.00 43.01 4.63
132 133 0.820891 AATCATGCCATGACCCTCGC 60.821 55.000 10.06 0.00 43.01 5.03
133 134 2.687418 ATCATGCCATGACCCTCGCC 62.687 60.000 10.06 0.00 43.01 5.54
134 135 3.410628 ATGCCATGACCCTCGCCA 61.411 61.111 0.00 0.00 0.00 5.69
135 136 2.982643 ATGCCATGACCCTCGCCAA 61.983 57.895 0.00 0.00 0.00 4.52
136 137 2.124151 GCCATGACCCTCGCCAAT 60.124 61.111 0.00 0.00 0.00 3.16
137 138 2.484062 GCCATGACCCTCGCCAATG 61.484 63.158 0.00 0.00 0.00 2.82
138 139 1.224315 CCATGACCCTCGCCAATGA 59.776 57.895 0.00 0.00 0.00 2.57
139 140 1.097547 CCATGACCCTCGCCAATGAC 61.098 60.000 0.00 0.00 0.00 3.06
140 141 0.392863 CATGACCCTCGCCAATGACA 60.393 55.000 0.00 0.00 0.00 3.58
141 142 0.327924 ATGACCCTCGCCAATGACAA 59.672 50.000 0.00 0.00 0.00 3.18
142 143 0.109532 TGACCCTCGCCAATGACAAA 59.890 50.000 0.00 0.00 0.00 2.83
143 144 0.804989 GACCCTCGCCAATGACAAAG 59.195 55.000 0.00 0.00 0.00 2.77
144 145 0.609131 ACCCTCGCCAATGACAAAGG 60.609 55.000 0.00 0.00 0.00 3.11
145 146 1.315257 CCCTCGCCAATGACAAAGGG 61.315 60.000 0.00 0.00 37.70 3.95
146 147 1.508088 CTCGCCAATGACAAAGGGC 59.492 57.895 5.55 5.55 42.98 5.19
147 148 1.228398 TCGCCAATGACAAAGGGCA 60.228 52.632 13.66 0.00 46.75 5.36
148 149 0.825425 TCGCCAATGACAAAGGGCAA 60.825 50.000 13.66 0.00 46.75 4.52
149 150 0.388907 CGCCAATGACAAAGGGCAAG 60.389 55.000 13.66 0.00 46.75 4.01
150 151 0.681175 GCCAATGACAAAGGGCAAGT 59.319 50.000 9.71 0.00 45.70 3.16
151 152 1.892474 GCCAATGACAAAGGGCAAGTA 59.108 47.619 9.71 0.00 45.70 2.24
152 153 2.497273 GCCAATGACAAAGGGCAAGTAT 59.503 45.455 9.71 0.00 45.70 2.12
153 154 3.676873 GCCAATGACAAAGGGCAAGTATG 60.677 47.826 9.71 0.00 45.70 2.39
154 155 3.763360 CCAATGACAAAGGGCAAGTATGA 59.237 43.478 0.00 0.00 0.00 2.15
155 156 4.142315 CCAATGACAAAGGGCAAGTATGAG 60.142 45.833 0.00 0.00 0.00 2.90
156 157 3.788227 TGACAAAGGGCAAGTATGAGT 57.212 42.857 0.00 0.00 0.00 3.41
157 158 3.674997 TGACAAAGGGCAAGTATGAGTC 58.325 45.455 0.00 0.00 0.00 3.36
158 159 2.673368 GACAAAGGGCAAGTATGAGTCG 59.327 50.000 0.00 0.00 0.00 4.18
159 160 2.301870 ACAAAGGGCAAGTATGAGTCGA 59.698 45.455 0.00 0.00 0.00 4.20
160 161 2.673368 CAAAGGGCAAGTATGAGTCGAC 59.327 50.000 7.70 7.70 0.00 4.20
161 162 0.456221 AGGGCAAGTATGAGTCGACG 59.544 55.000 10.46 0.00 0.00 5.12
162 163 0.454600 GGGCAAGTATGAGTCGACGA 59.545 55.000 10.46 0.77 0.00 4.20
163 164 1.546834 GGCAAGTATGAGTCGACGAC 58.453 55.000 20.25 20.25 0.00 4.34
164 165 1.181001 GCAAGTATGAGTCGACGACG 58.819 55.000 21.44 0.00 37.67 5.12
165 166 1.201998 GCAAGTATGAGTCGACGACGA 60.202 52.381 21.44 13.10 46.56 4.20
190 191 4.778143 GTGCCGCCGGTGGAAGAT 62.778 66.667 38.08 0.00 0.00 2.40
191 192 4.776322 TGCCGCCGGTGGAAGATG 62.776 66.667 38.08 10.46 0.00 2.90
192 193 4.467084 GCCGCCGGTGGAAGATGA 62.467 66.667 38.08 0.00 0.00 2.92
193 194 2.511600 CCGCCGGTGGAAGATGAC 60.512 66.667 30.98 0.00 0.00 3.06
194 195 2.511600 CGCCGGTGGAAGATGACC 60.512 66.667 7.26 0.00 0.00 4.02
195 196 2.990479 GCCGGTGGAAGATGACCT 59.010 61.111 1.90 0.00 0.00 3.85
196 197 1.450312 GCCGGTGGAAGATGACCTG 60.450 63.158 1.90 0.00 0.00 4.00
197 198 1.221840 CCGGTGGAAGATGACCTGG 59.778 63.158 0.00 0.00 0.00 4.45
198 199 1.553690 CCGGTGGAAGATGACCTGGT 61.554 60.000 0.00 0.00 0.00 4.00
199 200 1.191535 CGGTGGAAGATGACCTGGTA 58.808 55.000 0.00 0.00 0.00 3.25
200 201 1.137086 CGGTGGAAGATGACCTGGTAG 59.863 57.143 0.00 0.00 0.00 3.18
201 202 2.467880 GGTGGAAGATGACCTGGTAGA 58.532 52.381 0.00 0.00 0.00 2.59
202 203 2.838202 GGTGGAAGATGACCTGGTAGAA 59.162 50.000 0.00 0.00 0.00 2.10
203 204 3.118592 GGTGGAAGATGACCTGGTAGAAG 60.119 52.174 0.00 0.00 0.00 2.85
204 205 2.501723 TGGAAGATGACCTGGTAGAAGC 59.498 50.000 0.00 0.00 0.00 3.86
205 206 2.482142 GGAAGATGACCTGGTAGAAGCG 60.482 54.545 0.00 0.00 0.00 4.68
206 207 0.461961 AGATGACCTGGTAGAAGCGC 59.538 55.000 0.00 0.00 0.00 5.92
207 208 0.530870 GATGACCTGGTAGAAGCGCC 60.531 60.000 2.29 0.00 0.00 6.53
208 209 0.978146 ATGACCTGGTAGAAGCGCCT 60.978 55.000 2.29 0.00 0.00 5.52
209 210 1.142097 GACCTGGTAGAAGCGCCTC 59.858 63.158 2.29 0.00 0.00 4.70
210 211 1.305381 ACCTGGTAGAAGCGCCTCT 60.305 57.895 14.00 14.00 0.00 3.69
211 212 1.324005 ACCTGGTAGAAGCGCCTCTC 61.324 60.000 12.78 2.37 0.00 3.20
306 311 4.856509 AGATTTGACCCTTTTAGCTACCC 58.143 43.478 0.00 0.00 0.00 3.69
330 335 2.444256 GGCCCTGGCGGTAGAGATT 61.444 63.158 1.37 0.00 43.06 2.40
413 420 2.112297 GACGTGGCAAAGGGGACA 59.888 61.111 0.00 0.00 0.00 4.02
527 540 2.460853 CCACCCACCCACTCCACTT 61.461 63.158 0.00 0.00 0.00 3.16
694 717 6.573664 TGGTTGGTTCAAATCATCTACTTG 57.426 37.500 0.00 0.00 0.00 3.16
744 769 5.599242 CCCCTAGTTCTTCCTCTAGTTTAGG 59.401 48.000 0.00 0.00 33.81 2.69
860 977 5.104360 GGGTTTAGTTAGGTTAGGGTTAGGG 60.104 48.000 0.00 0.00 0.00 3.53
861 978 5.104360 GGTTTAGTTAGGTTAGGGTTAGGGG 60.104 48.000 0.00 0.00 0.00 4.79
862 979 3.880295 AGTTAGGTTAGGGTTAGGGGT 57.120 47.619 0.00 0.00 0.00 4.95
863 980 4.166309 AGTTAGGTTAGGGTTAGGGGTT 57.834 45.455 0.00 0.00 0.00 4.11
864 981 4.516283 AGTTAGGTTAGGGTTAGGGGTTT 58.484 43.478 0.00 0.00 0.00 3.27
865 982 5.675077 AGTTAGGTTAGGGTTAGGGGTTTA 58.325 41.667 0.00 0.00 0.00 2.01
866 983 5.728253 AGTTAGGTTAGGGTTAGGGGTTTAG 59.272 44.000 0.00 0.00 0.00 1.85
867 984 4.166309 AGGTTAGGGTTAGGGGTTTAGT 57.834 45.455 0.00 0.00 0.00 2.24
868 985 4.516283 AGGTTAGGGTTAGGGGTTTAGTT 58.484 43.478 0.00 0.00 0.00 2.24
869 986 5.675077 AGGTTAGGGTTAGGGGTTTAGTTA 58.325 41.667 0.00 0.00 0.00 2.24
870 987 5.728253 AGGTTAGGGTTAGGGGTTTAGTTAG 59.272 44.000 0.00 0.00 0.00 2.34
871 988 5.104360 GGTTAGGGTTAGGGGTTTAGTTAGG 60.104 48.000 0.00 0.00 0.00 2.69
872 989 4.166309 AGGGTTAGGGGTTTAGTTAGGT 57.834 45.455 0.00 0.00 0.00 3.08
873 990 4.516283 AGGGTTAGGGGTTTAGTTAGGTT 58.484 43.478 0.00 0.00 0.00 3.50
874 991 5.675077 AGGGTTAGGGGTTTAGTTAGGTTA 58.325 41.667 0.00 0.00 0.00 2.85
875 992 5.728253 AGGGTTAGGGGTTTAGTTAGGTTAG 59.272 44.000 0.00 0.00 0.00 2.34
876 993 5.104360 GGGTTAGGGGTTTAGTTAGGTTAGG 60.104 48.000 0.00 0.00 0.00 2.69
877 994 5.104360 GGTTAGGGGTTTAGTTAGGTTAGGG 60.104 48.000 0.00 0.00 0.00 3.53
878 995 4.166309 AGGGGTTTAGTTAGGTTAGGGT 57.834 45.455 0.00 0.00 0.00 4.34
879 996 4.516283 AGGGGTTTAGTTAGGTTAGGGTT 58.484 43.478 0.00 0.00 0.00 4.11
880 997 5.675077 AGGGGTTTAGTTAGGTTAGGGTTA 58.325 41.667 0.00 0.00 0.00 2.85
881 998 5.728253 AGGGGTTTAGTTAGGTTAGGGTTAG 59.272 44.000 0.00 0.00 0.00 2.34
882 999 5.104360 GGGGTTTAGTTAGGTTAGGGTTAGG 60.104 48.000 0.00 0.00 0.00 2.69
964 1112 4.356405 TCATCCATATGAAATGGCTCGT 57.644 40.909 3.65 0.00 39.20 4.18
1059 1209 2.433239 GGCTTTCATGGATGGAAATGCT 59.567 45.455 0.00 0.00 34.08 3.79
1334 1495 1.303888 TTCCTCGGCCACTACTCGT 60.304 57.895 2.24 0.00 0.00 4.18
1585 1774 5.349061 TGCTCAAGATGATGTGTATGAGT 57.651 39.130 0.00 0.00 37.27 3.41
1625 1814 1.205417 CAATCCCATTGGTGACTTGGC 59.795 52.381 1.20 0.00 36.63 4.52
1664 1853 1.192428 GACATGGACCGTAACCTCCT 58.808 55.000 0.00 0.00 0.00 3.69
1931 2120 6.889301 TGAGAATGCTCATTTGAAGAAAGT 57.111 33.333 0.00 0.00 45.88 2.66
1967 2159 7.446931 TGGTTGTTTGCAAGAGTTCAAGATATA 59.553 33.333 0.00 0.00 34.94 0.86
1998 2190 0.828022 ACGCCATTCGGAACCATAGA 59.172 50.000 0.00 0.00 43.86 1.98
2035 2227 1.203928 TTCCAACAAAACATTGCGCG 58.796 45.000 0.00 0.00 0.00 6.86
2055 2247 3.813800 CGACACCATCAAATGTGACAAG 58.186 45.455 0.00 0.00 36.31 3.16
2094 2286 3.072476 AGGTCCGTGGAAGAAAGATCAAA 59.928 43.478 0.00 0.00 0.00 2.69
2178 2370 1.299976 GGACCGAAGCAAGGGACAT 59.700 57.895 0.00 0.00 0.00 3.06
2193 2385 0.388649 GACATCGCCAACTCACGTCT 60.389 55.000 0.00 0.00 0.00 4.18
2197 2389 1.170290 TCGCCAACTCACGTCTGAGA 61.170 55.000 9.80 0.00 46.32 3.27
2528 2720 2.424601 CCGTCTTGTCAATTGATGGCAT 59.575 45.455 12.12 0.00 44.65 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.966787 GCACCCCGCCACCTTTGA 62.967 66.667 0.00 0.00 32.94 2.69
2 3 4.660938 GAGCACCCCGCCACCTTT 62.661 66.667 0.00 0.00 44.04 3.11
5 6 4.966787 TTTGAGCACCCCGCCACC 62.967 66.667 0.00 0.00 44.04 4.61
7 8 4.659172 CCTTTGAGCACCCCGCCA 62.659 66.667 0.00 0.00 44.04 5.69
10 11 3.646715 TCCCCTTTGAGCACCCCG 61.647 66.667 0.00 0.00 0.00 5.73
11 12 2.035783 GTCCCCTTTGAGCACCCC 59.964 66.667 0.00 0.00 0.00 4.95
12 13 0.895559 CAAGTCCCCTTTGAGCACCC 60.896 60.000 0.00 0.00 0.00 4.61
13 14 0.895559 CCAAGTCCCCTTTGAGCACC 60.896 60.000 0.00 0.00 0.00 5.01
14 15 0.178990 ACCAAGTCCCCTTTGAGCAC 60.179 55.000 0.00 0.00 0.00 4.40
15 16 0.555769 AACCAAGTCCCCTTTGAGCA 59.444 50.000 0.00 0.00 0.00 4.26
16 17 1.202940 AGAACCAAGTCCCCTTTGAGC 60.203 52.381 0.00 0.00 0.00 4.26
17 18 2.959465 AGAACCAAGTCCCCTTTGAG 57.041 50.000 0.00 0.00 0.00 3.02
18 19 3.326880 GTCTAGAACCAAGTCCCCTTTGA 59.673 47.826 0.00 0.00 0.00 2.69
19 20 3.676093 GTCTAGAACCAAGTCCCCTTTG 58.324 50.000 0.00 0.00 0.00 2.77
20 21 2.302157 CGTCTAGAACCAAGTCCCCTTT 59.698 50.000 0.00 0.00 0.00 3.11
21 22 1.900486 CGTCTAGAACCAAGTCCCCTT 59.100 52.381 0.00 0.00 0.00 3.95
22 23 1.558233 CGTCTAGAACCAAGTCCCCT 58.442 55.000 0.00 0.00 0.00 4.79
23 24 0.108281 GCGTCTAGAACCAAGTCCCC 60.108 60.000 0.00 0.00 0.00 4.81
24 25 0.896226 AGCGTCTAGAACCAAGTCCC 59.104 55.000 0.00 0.00 0.00 4.46
25 26 2.745515 AAGCGTCTAGAACCAAGTCC 57.254 50.000 0.00 0.00 0.00 3.85
26 27 3.364068 GCAAAAGCGTCTAGAACCAAGTC 60.364 47.826 0.00 0.00 0.00 3.01
27 28 2.548480 GCAAAAGCGTCTAGAACCAAGT 59.452 45.455 0.00 0.00 0.00 3.16
28 29 2.095718 GGCAAAAGCGTCTAGAACCAAG 60.096 50.000 0.00 0.00 0.00 3.61
29 30 1.877443 GGCAAAAGCGTCTAGAACCAA 59.123 47.619 0.00 0.00 0.00 3.67
30 31 1.519408 GGCAAAAGCGTCTAGAACCA 58.481 50.000 0.00 0.00 0.00 3.67
31 32 0.803117 GGGCAAAAGCGTCTAGAACC 59.197 55.000 0.00 0.00 0.00 3.62
32 33 1.464997 CTGGGCAAAAGCGTCTAGAAC 59.535 52.381 0.00 0.00 0.00 3.01
33 34 1.610624 CCTGGGCAAAAGCGTCTAGAA 60.611 52.381 0.00 0.00 0.00 2.10
34 35 0.036388 CCTGGGCAAAAGCGTCTAGA 60.036 55.000 0.00 0.00 0.00 2.43
35 36 0.321653 ACCTGGGCAAAAGCGTCTAG 60.322 55.000 0.00 0.00 0.00 2.43
36 37 0.978151 TACCTGGGCAAAAGCGTCTA 59.022 50.000 0.00 0.00 0.00 2.59
37 38 0.321653 CTACCTGGGCAAAAGCGTCT 60.322 55.000 0.00 0.00 0.00 4.18
38 39 1.305930 CCTACCTGGGCAAAAGCGTC 61.306 60.000 0.00 0.00 0.00 5.19
39 40 1.303317 CCTACCTGGGCAAAAGCGT 60.303 57.895 0.00 0.00 0.00 5.07
40 41 3.590824 CCTACCTGGGCAAAAGCG 58.409 61.111 0.00 0.00 0.00 4.68
49 50 3.483869 GCTGGAGCCCCTACCTGG 61.484 72.222 0.00 0.00 34.31 4.45
50 51 2.366167 AGCTGGAGCCCCTACCTG 60.366 66.667 0.00 0.00 43.38 4.00
51 52 2.366167 CAGCTGGAGCCCCTACCT 60.366 66.667 5.57 0.00 43.38 3.08
52 53 4.182433 GCAGCTGGAGCCCCTACC 62.182 72.222 17.12 0.00 43.38 3.18
53 54 3.086600 AGCAGCTGGAGCCCCTAC 61.087 66.667 17.12 0.00 43.38 3.18
54 55 3.085947 CAGCAGCTGGAGCCCCTA 61.086 66.667 17.12 0.00 43.38 3.53
68 69 1.373748 CACCAACAATGCCAGCAGC 60.374 57.895 0.00 0.00 44.14 5.25
69 70 0.675083 TTCACCAACAATGCCAGCAG 59.325 50.000 0.00 0.00 0.00 4.24
70 71 0.675083 CTTCACCAACAATGCCAGCA 59.325 50.000 0.00 0.00 0.00 4.41
71 72 0.961019 TCTTCACCAACAATGCCAGC 59.039 50.000 0.00 0.00 0.00 4.85
72 73 1.542915 CCTCTTCACCAACAATGCCAG 59.457 52.381 0.00 0.00 0.00 4.85
73 74 1.144708 TCCTCTTCACCAACAATGCCA 59.855 47.619 0.00 0.00 0.00 4.92
74 75 1.815003 CTCCTCTTCACCAACAATGCC 59.185 52.381 0.00 0.00 0.00 4.40
75 76 1.815003 CCTCCTCTTCACCAACAATGC 59.185 52.381 0.00 0.00 0.00 3.56
76 77 2.440409 CCCTCCTCTTCACCAACAATG 58.560 52.381 0.00 0.00 0.00 2.82
77 78 1.355720 CCCCTCCTCTTCACCAACAAT 59.644 52.381 0.00 0.00 0.00 2.71
78 79 0.771127 CCCCTCCTCTTCACCAACAA 59.229 55.000 0.00 0.00 0.00 2.83
79 80 0.401395 ACCCCTCCTCTTCACCAACA 60.401 55.000 0.00 0.00 0.00 3.33
80 81 0.771755 AACCCCTCCTCTTCACCAAC 59.228 55.000 0.00 0.00 0.00 3.77
81 82 0.771127 CAACCCCTCCTCTTCACCAA 59.229 55.000 0.00 0.00 0.00 3.67
82 83 1.133809 CCAACCCCTCCTCTTCACCA 61.134 60.000 0.00 0.00 0.00 4.17
83 84 1.685820 CCAACCCCTCCTCTTCACC 59.314 63.158 0.00 0.00 0.00 4.02
84 85 1.002011 GCCAACCCCTCCTCTTCAC 60.002 63.158 0.00 0.00 0.00 3.18
85 86 2.592993 CGCCAACCCCTCCTCTTCA 61.593 63.158 0.00 0.00 0.00 3.02
86 87 2.269241 CGCCAACCCCTCCTCTTC 59.731 66.667 0.00 0.00 0.00 2.87
87 88 3.330720 CCGCCAACCCCTCCTCTT 61.331 66.667 0.00 0.00 0.00 2.85
88 89 4.658786 ACCGCCAACCCCTCCTCT 62.659 66.667 0.00 0.00 0.00 3.69
89 90 2.708593 AAAACCGCCAACCCCTCCTC 62.709 60.000 0.00 0.00 0.00 3.71
90 91 2.708593 GAAAACCGCCAACCCCTCCT 62.709 60.000 0.00 0.00 0.00 3.69
91 92 2.203582 AAAACCGCCAACCCCTCC 60.204 61.111 0.00 0.00 0.00 4.30
92 93 2.622962 CGAAAACCGCCAACCCCTC 61.623 63.158 0.00 0.00 0.00 4.30
93 94 2.596338 CGAAAACCGCCAACCCCT 60.596 61.111 0.00 0.00 0.00 4.79
102 103 0.801836 GGCATGATTGGCGAAAACCG 60.802 55.000 0.00 0.00 38.79 4.44
103 104 3.049227 GGCATGATTGGCGAAAACC 57.951 52.632 0.00 0.00 38.79 3.27
111 112 1.325355 GAGGGTCATGGCATGATTGG 58.675 55.000 30.94 4.35 42.04 3.16
112 113 0.949397 CGAGGGTCATGGCATGATTG 59.051 55.000 30.94 16.42 42.04 2.67
113 114 0.820891 GCGAGGGTCATGGCATGATT 60.821 55.000 30.94 19.88 42.04 2.57
114 115 1.228063 GCGAGGGTCATGGCATGAT 60.228 57.895 30.94 17.02 42.04 2.45
115 116 2.190313 GCGAGGGTCATGGCATGA 59.810 61.111 25.63 25.63 36.84 3.07
116 117 2.903855 GGCGAGGGTCATGGCATG 60.904 66.667 21.42 21.42 0.00 4.06
117 118 2.288642 ATTGGCGAGGGTCATGGCAT 62.289 55.000 0.00 0.00 38.03 4.40
118 119 2.982643 ATTGGCGAGGGTCATGGCA 61.983 57.895 0.00 0.00 36.29 4.92
119 120 2.124151 ATTGGCGAGGGTCATGGC 60.124 61.111 0.00 0.00 0.00 4.40
120 121 1.097547 GTCATTGGCGAGGGTCATGG 61.098 60.000 0.00 0.00 0.00 3.66
121 122 0.392863 TGTCATTGGCGAGGGTCATG 60.393 55.000 0.00 0.00 0.00 3.07
122 123 0.327924 TTGTCATTGGCGAGGGTCAT 59.672 50.000 0.00 0.00 0.00 3.06
123 124 0.109532 TTTGTCATTGGCGAGGGTCA 59.890 50.000 0.00 0.00 0.00 4.02
124 125 0.804989 CTTTGTCATTGGCGAGGGTC 59.195 55.000 0.00 0.00 0.00 4.46
125 126 0.609131 CCTTTGTCATTGGCGAGGGT 60.609 55.000 0.00 0.00 0.00 4.34
126 127 1.315257 CCCTTTGTCATTGGCGAGGG 61.315 60.000 13.25 13.25 38.03 4.30
127 128 1.937546 GCCCTTTGTCATTGGCGAGG 61.938 60.000 4.07 4.07 33.59 4.63
128 129 1.508088 GCCCTTTGTCATTGGCGAG 59.492 57.895 0.00 0.00 33.59 5.03
129 130 3.680156 GCCCTTTGTCATTGGCGA 58.320 55.556 0.00 0.00 33.59 5.54
131 132 0.681175 ACTTGCCCTTTGTCATTGGC 59.319 50.000 0.00 0.00 44.27 4.52
132 133 3.763360 TCATACTTGCCCTTTGTCATTGG 59.237 43.478 0.00 0.00 0.00 3.16
133 134 4.460382 ACTCATACTTGCCCTTTGTCATTG 59.540 41.667 0.00 0.00 0.00 2.82
134 135 4.666512 ACTCATACTTGCCCTTTGTCATT 58.333 39.130 0.00 0.00 0.00 2.57
135 136 4.265073 GACTCATACTTGCCCTTTGTCAT 58.735 43.478 0.00 0.00 0.00 3.06
136 137 3.674997 GACTCATACTTGCCCTTTGTCA 58.325 45.455 0.00 0.00 0.00 3.58
137 138 2.673368 CGACTCATACTTGCCCTTTGTC 59.327 50.000 0.00 0.00 0.00 3.18
138 139 2.301870 TCGACTCATACTTGCCCTTTGT 59.698 45.455 0.00 0.00 0.00 2.83
139 140 2.673368 GTCGACTCATACTTGCCCTTTG 59.327 50.000 8.70 0.00 0.00 2.77
140 141 2.674177 CGTCGACTCATACTTGCCCTTT 60.674 50.000 14.70 0.00 0.00 3.11
141 142 1.135083 CGTCGACTCATACTTGCCCTT 60.135 52.381 14.70 0.00 0.00 3.95
142 143 0.456221 CGTCGACTCATACTTGCCCT 59.544 55.000 14.70 0.00 0.00 5.19
143 144 0.454600 TCGTCGACTCATACTTGCCC 59.545 55.000 14.70 0.00 0.00 5.36
144 145 1.546834 GTCGTCGACTCATACTTGCC 58.453 55.000 18.09 0.00 0.00 4.52
145 146 1.181001 CGTCGTCGACTCATACTTGC 58.819 55.000 22.18 0.00 39.71 4.01
146 147 2.537128 CCTCGTCGTCGACTCATACTTG 60.537 54.545 22.18 5.19 41.35 3.16
147 148 1.664659 CCTCGTCGTCGACTCATACTT 59.335 52.381 22.18 0.00 41.35 2.24
148 149 1.288350 CCTCGTCGTCGACTCATACT 58.712 55.000 22.18 0.00 41.35 2.12
149 150 1.005137 GACCTCGTCGTCGACTCATAC 60.005 57.143 22.18 8.10 41.35 2.39
150 151 1.284657 GACCTCGTCGTCGACTCATA 58.715 55.000 22.18 5.32 41.35 2.15
151 152 2.088180 GACCTCGTCGTCGACTCAT 58.912 57.895 22.18 5.97 41.35 2.90
152 153 3.559024 GACCTCGTCGTCGACTCA 58.441 61.111 22.18 8.54 41.35 3.41
173 174 4.778143 ATCTTCCACCGGCGGCAC 62.778 66.667 28.71 0.00 0.00 5.01
174 175 4.776322 CATCTTCCACCGGCGGCA 62.776 66.667 28.71 7.39 0.00 5.69
175 176 4.467084 TCATCTTCCACCGGCGGC 62.467 66.667 28.71 0.00 0.00 6.53
176 177 2.511600 GTCATCTTCCACCGGCGG 60.512 66.667 27.06 27.06 0.00 6.13
177 178 2.511600 GGTCATCTTCCACCGGCG 60.512 66.667 0.00 0.00 0.00 6.46
178 179 1.450312 CAGGTCATCTTCCACCGGC 60.450 63.158 0.00 0.00 37.79 6.13
179 180 1.221840 CCAGGTCATCTTCCACCGG 59.778 63.158 0.00 0.00 37.79 5.28
180 181 1.137086 CTACCAGGTCATCTTCCACCG 59.863 57.143 0.00 0.00 37.79 4.94
181 182 2.467880 TCTACCAGGTCATCTTCCACC 58.532 52.381 0.00 0.00 0.00 4.61
182 183 3.680196 GCTTCTACCAGGTCATCTTCCAC 60.680 52.174 0.00 0.00 0.00 4.02
183 184 2.501723 GCTTCTACCAGGTCATCTTCCA 59.498 50.000 0.00 0.00 0.00 3.53
184 185 2.482142 CGCTTCTACCAGGTCATCTTCC 60.482 54.545 0.00 0.00 0.00 3.46
185 186 2.815478 CGCTTCTACCAGGTCATCTTC 58.185 52.381 0.00 0.00 0.00 2.87
186 187 1.134670 GCGCTTCTACCAGGTCATCTT 60.135 52.381 0.00 0.00 0.00 2.40
187 188 0.461961 GCGCTTCTACCAGGTCATCT 59.538 55.000 0.00 0.00 0.00 2.90
188 189 0.530870 GGCGCTTCTACCAGGTCATC 60.531 60.000 7.64 0.00 0.00 2.92
189 190 0.978146 AGGCGCTTCTACCAGGTCAT 60.978 55.000 7.64 0.00 0.00 3.06
190 191 1.605058 GAGGCGCTTCTACCAGGTCA 61.605 60.000 12.94 0.00 0.00 4.02
191 192 1.142097 GAGGCGCTTCTACCAGGTC 59.858 63.158 12.94 0.00 0.00 3.85
192 193 1.305381 AGAGGCGCTTCTACCAGGT 60.305 57.895 21.78 0.00 0.00 4.00
193 194 1.439644 GAGAGGCGCTTCTACCAGG 59.560 63.158 23.14 0.00 0.00 4.45
194 195 1.064946 CGAGAGGCGCTTCTACCAG 59.935 63.158 23.14 10.35 0.00 4.00
195 196 1.677966 ACGAGAGGCGCTTCTACCA 60.678 57.895 23.14 0.00 46.04 3.25
196 197 1.226717 CACGAGAGGCGCTTCTACC 60.227 63.158 23.14 10.07 46.04 3.18
197 198 1.226717 CCACGAGAGGCGCTTCTAC 60.227 63.158 23.14 14.35 46.04 2.59
198 199 3.064987 GCCACGAGAGGCGCTTCTA 62.065 63.158 23.14 0.00 46.12 2.10
199 200 4.443266 GCCACGAGAGGCGCTTCT 62.443 66.667 23.32 23.32 46.12 2.85
206 207 1.535462 ACGAAATTTTGCCACGAGAGG 59.465 47.619 5.27 0.00 0.00 3.69
207 208 2.032030 ACACGAAATTTTGCCACGAGAG 60.032 45.455 5.27 0.00 0.00 3.20
208 209 1.944024 ACACGAAATTTTGCCACGAGA 59.056 42.857 5.27 0.00 0.00 4.04
209 210 2.399396 ACACGAAATTTTGCCACGAG 57.601 45.000 5.27 0.00 0.00 4.18
210 211 2.853731 AACACGAAATTTTGCCACGA 57.146 40.000 5.27 0.00 0.00 4.35
211 212 3.304559 TCAAAACACGAAATTTTGCCACG 59.695 39.130 5.27 0.08 43.62 4.94
330 335 1.617233 GGGGTGGGGTAGCCTGTAA 60.617 63.158 11.48 0.00 46.40 2.41
413 420 4.856801 CAAGGCTGGCGGCGGTAT 62.857 66.667 20.06 5.33 42.94 2.73
527 540 2.091830 TGAGAGCTCGGGGAAGAAGATA 60.092 50.000 8.37 0.00 0.00 1.98
744 769 8.891671 AATGACCCATAAATGCACAATAAATC 57.108 30.769 0.00 0.00 0.00 2.17
795 865 2.930950 AGCTTGCCACAACAAAGAGTA 58.069 42.857 0.00 0.00 0.00 2.59
860 977 5.488919 ACCCTAACCCTAACCTAACTAAACC 59.511 44.000 0.00 0.00 0.00 3.27
861 978 6.627087 ACCCTAACCCTAACCTAACTAAAC 57.373 41.667 0.00 0.00 0.00 2.01
862 979 7.961431 ACTAACCCTAACCCTAACCTAACTAAA 59.039 37.037 0.00 0.00 0.00 1.85
863 980 7.400052 CACTAACCCTAACCCTAACCTAACTAA 59.600 40.741 0.00 0.00 0.00 2.24
864 981 6.897413 CACTAACCCTAACCCTAACCTAACTA 59.103 42.308 0.00 0.00 0.00 2.24
865 982 5.723405 CACTAACCCTAACCCTAACCTAACT 59.277 44.000 0.00 0.00 0.00 2.24
866 983 5.627735 GCACTAACCCTAACCCTAACCTAAC 60.628 48.000 0.00 0.00 0.00 2.34
867 984 4.471025 GCACTAACCCTAACCCTAACCTAA 59.529 45.833 0.00 0.00 0.00 2.69
868 985 4.033009 GCACTAACCCTAACCCTAACCTA 58.967 47.826 0.00 0.00 0.00 3.08
869 986 2.842496 GCACTAACCCTAACCCTAACCT 59.158 50.000 0.00 0.00 0.00 3.50
870 987 2.842496 AGCACTAACCCTAACCCTAACC 59.158 50.000 0.00 0.00 0.00 2.85
871 988 5.364735 TCATAGCACTAACCCTAACCCTAAC 59.635 44.000 0.00 0.00 0.00 2.34
872 989 5.531198 TCATAGCACTAACCCTAACCCTAA 58.469 41.667 0.00 0.00 0.00 2.69
873 990 5.146868 TCATAGCACTAACCCTAACCCTA 57.853 43.478 0.00 0.00 0.00 3.53
874 991 4.003584 TCATAGCACTAACCCTAACCCT 57.996 45.455 0.00 0.00 0.00 4.34
875 992 4.976540 ATCATAGCACTAACCCTAACCC 57.023 45.455 0.00 0.00 0.00 4.11
876 993 6.935208 CCTTAATCATAGCACTAACCCTAACC 59.065 42.308 0.00 0.00 0.00 2.85
877 994 7.506971 ACCTTAATCATAGCACTAACCCTAAC 58.493 38.462 0.00 0.00 0.00 2.34
878 995 7.685849 ACCTTAATCATAGCACTAACCCTAA 57.314 36.000 0.00 0.00 0.00 2.69
879 996 8.967779 ATACCTTAATCATAGCACTAACCCTA 57.032 34.615 0.00 0.00 0.00 3.53
880 997 7.873699 ATACCTTAATCATAGCACTAACCCT 57.126 36.000 0.00 0.00 0.00 4.34
881 998 8.813951 ACTATACCTTAATCATAGCACTAACCC 58.186 37.037 0.00 0.00 0.00 4.11
961 1109 6.573664 AAAAATTGAGTCATCCATGAACGA 57.426 33.333 0.00 0.00 38.75 3.85
1059 1209 2.683933 GCCTCCTCCCCTTCGTCA 60.684 66.667 0.00 0.00 0.00 4.35
1248 1400 6.023603 TCCCTCAACTTTCTCCTTATACACT 58.976 40.000 0.00 0.00 0.00 3.55
1334 1495 2.178912 GGACACATTCCGGTTCAAGA 57.821 50.000 0.00 0.00 33.46 3.02
1585 1774 9.838339 GGGATTGTAATGAATCTCTTCTTCTTA 57.162 33.333 0.00 0.00 31.08 2.10
1625 1814 4.224433 GTCTTGTTGATGCACAATGACAG 58.776 43.478 16.99 8.77 40.76 3.51
1664 1853 5.360429 TCATACCTACACATACGGCTGTAAA 59.640 40.000 9.98 0.00 33.44 2.01
1931 2120 4.462508 TGCAAACAACCAAACTTGATCA 57.537 36.364 0.00 0.00 0.00 2.92
1998 2190 1.523934 GAATGACGAACAACGAACGGT 59.476 47.619 0.00 0.00 45.77 4.83
2035 2227 3.820467 TCCTTGTCACATTTGATGGTGTC 59.180 43.478 0.00 0.00 36.43 3.67
2094 2286 1.000896 CTCCCATTGCCCGGTTTCT 60.001 57.895 0.00 0.00 0.00 2.52
2193 2385 7.394016 TCAACAATTTGTAGCCTAGATTCTCA 58.606 34.615 1.76 0.00 34.02 3.27
2197 2389 8.579850 TCATTCAACAATTTGTAGCCTAGATT 57.420 30.769 1.76 0.00 34.02 2.40
2409 2601 2.421314 CTATGACGCATGCCCGGA 59.579 61.111 13.15 0.00 0.00 5.14
2528 2720 3.823281 TGTACTTTCCGGTCAAGAACA 57.177 42.857 19.18 8.26 0.00 3.18


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

AutoCloner maintained by Alex Coulton.