Multiple sequence alignment - TraesCS5A01G085500

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5A01G085500 chr5A 100.000 2788 0 0 1 2788 112143599 112140812 0.000000e+00 5149.0
1 TraesCS5A01G085500 chr5A 84.666 613 53 18 1021 1621 624112632 624113215 8.660000e-160 573.0
2 TraesCS5A01G085500 chr5A 92.222 90 2 2 1686 1770 624113349 624113438 3.770000e-24 122.0
3 TraesCS5A01G085500 chr1B 96.995 2396 49 6 408 2788 507366618 507364231 0.000000e+00 4004.0
4 TraesCS5A01G085500 chr1B 95.937 2092 50 3 409 2486 306680933 306678863 0.000000e+00 3360.0
5 TraesCS5A01G085500 chr1B 97.778 1935 35 1 862 2788 14779198 14777264 0.000000e+00 3328.0
6 TraesCS5A01G085500 chr1B 91.701 482 22 4 407 870 14780264 14779783 0.000000e+00 652.0
7 TraesCS5A01G085500 chr6B 96.879 2211 59 4 579 2788 31075580 31073379 0.000000e+00 3692.0
8 TraesCS5A01G085500 chr6B 92.885 773 26 11 408 1157 144853974 144854740 0.000000e+00 1096.0
9 TraesCS5A01G085500 chr2B 97.620 1765 39 1 1027 2788 191737590 191735826 0.000000e+00 3024.0
10 TraesCS5A01G085500 chr2B 92.500 680 33 6 407 1075 191738244 191737572 0.000000e+00 957.0
11 TraesCS5A01G085500 chr2B 93.274 446 16 3 406 837 797909135 797909580 0.000000e+00 645.0
12 TraesCS5A01G085500 chr5B 97.288 1770 30 3 1021 2788 549714679 549716432 0.000000e+00 2987.0
13 TraesCS5A01G085500 chr5B 93.014 773 25 11 408 1157 513728946 513728180 0.000000e+00 1101.0
14 TraesCS5A01G085500 chr5B 92.609 690 27 9 404 1075 549714020 549714703 0.000000e+00 970.0
15 TraesCS5A01G085500 chr5B 83.906 932 83 33 862 1769 620947889 620948777 0.000000e+00 828.0
16 TraesCS5A01G085500 chr3B 98.556 1039 15 0 1750 2788 807233579 807234617 0.000000e+00 1836.0
17 TraesCS5A01G085500 chr3B 97.709 742 16 1 981 1721 807232844 807233585 0.000000e+00 1275.0
18 TraesCS5A01G085500 chr3B 93.456 596 18 5 408 992 807231797 807232382 0.000000e+00 865.0
19 TraesCS5A01G085500 chrUn 93.117 523 23 6 407 924 283591535 283592049 0.000000e+00 754.0
20 TraesCS5A01G085500 chrUn 96.347 438 16 0 2351 2788 283592860 283593297 0.000000e+00 721.0
21 TraesCS5A01G085500 chr3D 94.582 443 19 2 2351 2788 424489179 424489621 0.000000e+00 680.0
22 TraesCS5A01G085500 chr7B 92.551 443 28 2 2351 2788 584641884 584641442 5.070000e-177 630.0
23 TraesCS5A01G085500 chr4D 95.855 386 16 0 1968 2353 2861272 2861657 2.360000e-175 625.0
24 TraesCS5A01G085500 chr4D 86.567 201 8 4 1789 1970 2860380 2860580 1.310000e-48 204.0
25 TraesCS5A01G085500 chr4B 95.607 387 17 0 1968 2354 28238561 28238175 3.050000e-174 621.0
26 TraesCS5A01G085500 chr4B 87.374 198 10 5 1772 1954 28239753 28239556 2.180000e-51 213.0
27 TraesCS5A01G085500 chr2A 84.293 191 18 9 1766 1952 21167985 21167803 2.850000e-40 176.0
28 TraesCS5A01G085500 chr2A 88.785 107 10 2 305 410 415724523 415724418 2.250000e-26 130.0
29 TraesCS5A01G085500 chr2D 83.246 191 20 9 1766 1952 20333184 20333366 6.180000e-37 165.0
30 TraesCS5A01G085500 chr7A 94.565 92 5 0 312 403 1428261 1428170 2.890000e-30 143.0
31 TraesCS5A01G085500 chr6D 90.000 100 8 2 305 404 202943028 202943125 8.110000e-26 128.0
32 TraesCS5A01G085500 chr5D 92.982 57 0 1 1714 1770 499684135 499684187 2.300000e-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 TraesCS5A01G085500 chr5A 112140812 112143599 2787 True 5149.000000 5149 100.000000 1 2788 1 chr5A.!!$R1 2787
1 TraesCS5A01G085500 chr5A 624112632 624113438 806 False 347.500000 573 88.444000 1021 1770 2 chr5A.!!$F1 749
2 TraesCS5A01G085500 chr1B 507364231 507366618 2387 True 4004.000000 4004 96.995000 408 2788 1 chr1B.!!$R2 2380
3 TraesCS5A01G085500 chr1B 306678863 306680933 2070 True 3360.000000 3360 95.937000 409 2486 1 chr1B.!!$R1 2077
4 TraesCS5A01G085500 chr1B 14777264 14780264 3000 True 1990.000000 3328 94.739500 407 2788 2 chr1B.!!$R3 2381
5 TraesCS5A01G085500 chr6B 31073379 31075580 2201 True 3692.000000 3692 96.879000 579 2788 1 chr6B.!!$R1 2209
6 TraesCS5A01G085500 chr6B 144853974 144854740 766 False 1096.000000 1096 92.885000 408 1157 1 chr6B.!!$F1 749
7 TraesCS5A01G085500 chr2B 191735826 191738244 2418 True 1990.500000 3024 95.060000 407 2788 2 chr2B.!!$R1 2381
8 TraesCS5A01G085500 chr5B 549714020 549716432 2412 False 1978.500000 2987 94.948500 404 2788 2 chr5B.!!$F2 2384
9 TraesCS5A01G085500 chr5B 513728180 513728946 766 True 1101.000000 1101 93.014000 408 1157 1 chr5B.!!$R1 749
10 TraesCS5A01G085500 chr5B 620947889 620948777 888 False 828.000000 828 83.906000 862 1769 1 chr5B.!!$F1 907
11 TraesCS5A01G085500 chr3B 807231797 807234617 2820 False 1325.333333 1836 96.573667 408 2788 3 chr3B.!!$F1 2380
12 TraesCS5A01G085500 chrUn 283591535 283593297 1762 False 737.500000 754 94.732000 407 2788 2 chrUn.!!$F1 2381
13 TraesCS5A01G085500 chr4D 2860380 2861657 1277 False 414.500000 625 91.211000 1789 2353 2 chr4D.!!$F1 564
14 TraesCS5A01G085500 chr4B 28238175 28239753 1578 True 417.000000 621 91.490500 1772 2354 2 chr4B.!!$R1 582

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
279 280 0.026933 TACAAGCACGCACGTTGTTG 59.973 50.0 4.54 8.14 35.95 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1895 3691 6.283694 CCATTCTTCTCGTCTCAATATTCCA 58.716 40.0 0.0 0.0 0.0 3.53 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
20 21 3.692257 GGGCATGTATCTAGATGTGCT 57.308 47.619 25.48 4.33 33.38 4.40
21 22 4.013267 GGGCATGTATCTAGATGTGCTT 57.987 45.455 25.48 10.71 33.38 3.91
22 23 4.392940 GGGCATGTATCTAGATGTGCTTT 58.607 43.478 25.48 3.12 33.38 3.51
23 24 5.551233 GGGCATGTATCTAGATGTGCTTTA 58.449 41.667 25.48 3.14 33.38 1.85
24 25 5.641209 GGGCATGTATCTAGATGTGCTTTAG 59.359 44.000 25.48 8.84 33.38 1.85
25 26 6.226787 GGCATGTATCTAGATGTGCTTTAGT 58.773 40.000 25.48 1.31 33.38 2.24
26 27 7.378966 GGCATGTATCTAGATGTGCTTTAGTA 58.621 38.462 25.48 1.34 33.38 1.82
27 28 7.872993 GGCATGTATCTAGATGTGCTTTAGTAA 59.127 37.037 25.48 0.92 33.38 2.24
28 29 9.261180 GCATGTATCTAGATGTGCTTTAGTAAA 57.739 33.333 22.17 0.00 30.38 2.01
96 97 4.654091 AATCCATTCTTATTGGCAACCG 57.346 40.909 0.00 0.00 34.06 4.44
97 98 1.748493 TCCATTCTTATTGGCAACCGC 59.252 47.619 0.00 0.00 34.06 5.68
107 108 2.882876 GCAACCGCCTCGAGTCTA 59.117 61.111 12.31 0.00 0.00 2.59
108 109 1.214589 GCAACCGCCTCGAGTCTAA 59.785 57.895 12.31 0.00 0.00 2.10
109 110 1.077089 GCAACCGCCTCGAGTCTAAC 61.077 60.000 12.31 0.00 0.00 2.34
110 111 0.242825 CAACCGCCTCGAGTCTAACA 59.757 55.000 12.31 0.00 0.00 2.41
111 112 0.963962 AACCGCCTCGAGTCTAACAA 59.036 50.000 12.31 0.00 0.00 2.83
112 113 1.183549 ACCGCCTCGAGTCTAACAAT 58.816 50.000 12.31 0.00 0.00 2.71
113 114 1.134560 ACCGCCTCGAGTCTAACAATC 59.865 52.381 12.31 0.00 0.00 2.67
114 115 1.134367 CCGCCTCGAGTCTAACAATCA 59.866 52.381 12.31 0.00 0.00 2.57
115 116 2.223829 CCGCCTCGAGTCTAACAATCAT 60.224 50.000 12.31 0.00 0.00 2.45
116 117 3.046390 CGCCTCGAGTCTAACAATCATC 58.954 50.000 12.31 0.00 0.00 2.92
117 118 3.489229 CGCCTCGAGTCTAACAATCATCA 60.489 47.826 12.31 0.00 0.00 3.07
118 119 4.626042 GCCTCGAGTCTAACAATCATCAT 58.374 43.478 12.31 0.00 0.00 2.45
119 120 5.053145 GCCTCGAGTCTAACAATCATCATT 58.947 41.667 12.31 0.00 0.00 2.57
120 121 5.050499 GCCTCGAGTCTAACAATCATCATTG 60.050 44.000 12.31 0.00 44.57 2.82
121 122 6.276091 CCTCGAGTCTAACAATCATCATTGA 58.724 40.000 12.31 0.00 41.97 2.57
122 123 6.927936 CCTCGAGTCTAACAATCATCATTGAT 59.072 38.462 12.31 0.00 44.62 2.57
132 133 3.931907 TCATCATTGATTCCCGTCCTT 57.068 42.857 0.00 0.00 0.00 3.36
133 134 4.235079 TCATCATTGATTCCCGTCCTTT 57.765 40.909 0.00 0.00 0.00 3.11
134 135 3.947196 TCATCATTGATTCCCGTCCTTTG 59.053 43.478 0.00 0.00 0.00 2.77
135 136 3.433306 TCATTGATTCCCGTCCTTTGT 57.567 42.857 0.00 0.00 0.00 2.83
136 137 4.561500 TCATTGATTCCCGTCCTTTGTA 57.438 40.909 0.00 0.00 0.00 2.41
137 138 4.258543 TCATTGATTCCCGTCCTTTGTAC 58.741 43.478 0.00 0.00 0.00 2.90
138 139 4.019681 TCATTGATTCCCGTCCTTTGTACT 60.020 41.667 0.00 0.00 0.00 2.73
139 140 5.188163 TCATTGATTCCCGTCCTTTGTACTA 59.812 40.000 0.00 0.00 0.00 1.82
140 141 4.460948 TGATTCCCGTCCTTTGTACTAC 57.539 45.455 0.00 0.00 0.00 2.73
141 142 3.833650 TGATTCCCGTCCTTTGTACTACA 59.166 43.478 0.00 0.00 0.00 2.74
142 143 4.283978 TGATTCCCGTCCTTTGTACTACAA 59.716 41.667 0.00 0.00 36.11 2.41
143 144 4.895668 TTCCCGTCCTTTGTACTACAAT 57.104 40.909 2.41 0.00 38.00 2.71
144 145 4.196626 TCCCGTCCTTTGTACTACAATG 57.803 45.455 2.41 5.35 38.00 2.82
145 146 2.676342 CCCGTCCTTTGTACTACAATGC 59.324 50.000 2.41 0.00 38.00 3.56
146 147 3.331150 CCGTCCTTTGTACTACAATGCA 58.669 45.455 2.41 0.00 38.00 3.96
147 148 3.749088 CCGTCCTTTGTACTACAATGCAA 59.251 43.478 2.41 0.00 38.00 4.08
148 149 4.378046 CCGTCCTTTGTACTACAATGCAAC 60.378 45.833 2.41 5.79 38.00 4.17
149 150 4.378046 CGTCCTTTGTACTACAATGCAACC 60.378 45.833 2.41 0.00 38.00 3.77
150 151 4.076394 TCCTTTGTACTACAATGCAACCC 58.924 43.478 2.41 0.00 38.00 4.11
151 152 3.192633 CCTTTGTACTACAATGCAACCCC 59.807 47.826 2.41 0.00 38.00 4.95
152 153 3.799432 TTGTACTACAATGCAACCCCT 57.201 42.857 0.00 0.00 32.34 4.79
153 154 3.343941 TGTACTACAATGCAACCCCTC 57.656 47.619 0.00 0.00 0.00 4.30
154 155 2.640332 TGTACTACAATGCAACCCCTCA 59.360 45.455 0.00 0.00 0.00 3.86
155 156 2.496899 ACTACAATGCAACCCCTCAG 57.503 50.000 0.00 0.00 0.00 3.35
156 157 1.985159 ACTACAATGCAACCCCTCAGA 59.015 47.619 0.00 0.00 0.00 3.27
157 158 2.375174 ACTACAATGCAACCCCTCAGAA 59.625 45.455 0.00 0.00 0.00 3.02
158 159 2.610438 ACAATGCAACCCCTCAGAAT 57.390 45.000 0.00 0.00 0.00 2.40
159 160 3.737559 ACAATGCAACCCCTCAGAATA 57.262 42.857 0.00 0.00 0.00 1.75
160 161 4.255510 ACAATGCAACCCCTCAGAATAT 57.744 40.909 0.00 0.00 0.00 1.28
161 162 5.387113 ACAATGCAACCCCTCAGAATATA 57.613 39.130 0.00 0.00 0.00 0.86
162 163 5.380043 ACAATGCAACCCCTCAGAATATAG 58.620 41.667 0.00 0.00 0.00 1.31
163 164 5.103940 ACAATGCAACCCCTCAGAATATAGT 60.104 40.000 0.00 0.00 0.00 2.12
164 165 4.422073 TGCAACCCCTCAGAATATAGTG 57.578 45.455 0.00 0.00 0.00 2.74
165 166 3.780294 TGCAACCCCTCAGAATATAGTGT 59.220 43.478 0.00 0.00 0.00 3.55
166 167 4.227300 TGCAACCCCTCAGAATATAGTGTT 59.773 41.667 0.00 0.00 0.00 3.32
167 168 4.816925 GCAACCCCTCAGAATATAGTGTTC 59.183 45.833 0.00 0.00 0.00 3.18
168 169 5.368989 CAACCCCTCAGAATATAGTGTTCC 58.631 45.833 0.00 0.00 0.00 3.62
169 170 4.631234 ACCCCTCAGAATATAGTGTTCCA 58.369 43.478 0.00 0.00 0.00 3.53
170 171 5.227593 ACCCCTCAGAATATAGTGTTCCAT 58.772 41.667 0.00 0.00 0.00 3.41
171 172 5.308237 ACCCCTCAGAATATAGTGTTCCATC 59.692 44.000 0.00 0.00 0.00 3.51
172 173 5.307976 CCCCTCAGAATATAGTGTTCCATCA 59.692 44.000 0.00 0.00 0.00 3.07
173 174 6.013032 CCCCTCAGAATATAGTGTTCCATCAT 60.013 42.308 0.00 0.00 0.00 2.45
174 175 7.102346 CCCTCAGAATATAGTGTTCCATCATC 58.898 42.308 0.00 0.00 0.00 2.92
175 176 7.256439 CCCTCAGAATATAGTGTTCCATCATCA 60.256 40.741 0.00 0.00 0.00 3.07
176 177 8.152898 CCTCAGAATATAGTGTTCCATCATCAA 58.847 37.037 0.00 0.00 0.00 2.57
177 178 9.722184 CTCAGAATATAGTGTTCCATCATCAAT 57.278 33.333 0.00 0.00 0.00 2.57
196 197 9.545105 TCATCAATAATGAATAAATGTTTGCCC 57.455 29.630 0.00 0.00 41.49 5.36
197 198 9.327628 CATCAATAATGAATAAATGTTTGCCCA 57.672 29.630 0.00 0.00 39.49 5.36
239 240 8.997621 ATAAAGAATAGCTGTTCACTTTACGA 57.002 30.769 23.17 4.26 34.34 3.43
240 241 7.907214 AAAGAATAGCTGTTCACTTTACGAT 57.093 32.000 23.17 0.00 0.00 3.73
241 242 7.907214 AAGAATAGCTGTTCACTTTACGATT 57.093 32.000 23.17 4.65 0.00 3.34
242 243 7.527084 AGAATAGCTGTTCACTTTACGATTC 57.473 36.000 23.17 7.33 0.00 2.52
243 244 7.097192 AGAATAGCTGTTCACTTTACGATTCA 58.903 34.615 23.17 0.00 0.00 2.57
244 245 4.992381 AGCTGTTCACTTTACGATTCAC 57.008 40.909 0.00 0.00 0.00 3.18
245 246 4.632153 AGCTGTTCACTTTACGATTCACT 58.368 39.130 0.00 0.00 0.00 3.41
246 247 4.449068 AGCTGTTCACTTTACGATTCACTG 59.551 41.667 0.00 0.00 0.00 3.66
247 248 4.702392 CTGTTCACTTTACGATTCACTGC 58.298 43.478 0.00 0.00 0.00 4.40
248 249 4.123506 TGTTCACTTTACGATTCACTGCA 58.876 39.130 0.00 0.00 0.00 4.41
249 250 4.572795 TGTTCACTTTACGATTCACTGCAA 59.427 37.500 0.00 0.00 0.00 4.08
250 251 4.725556 TCACTTTACGATTCACTGCAAC 57.274 40.909 0.00 0.00 0.00 4.17
251 252 4.123506 TCACTTTACGATTCACTGCAACA 58.876 39.130 0.00 0.00 0.00 3.33
252 253 4.572795 TCACTTTACGATTCACTGCAACAA 59.427 37.500 0.00 0.00 0.00 2.83
253 254 5.065346 TCACTTTACGATTCACTGCAACAAA 59.935 36.000 0.00 0.00 0.00 2.83
254 255 5.741510 CACTTTACGATTCACTGCAACAAAA 59.258 36.000 0.00 0.00 0.00 2.44
255 256 5.741982 ACTTTACGATTCACTGCAACAAAAC 59.258 36.000 0.00 0.00 0.00 2.43
256 257 3.773860 ACGATTCACTGCAACAAAACA 57.226 38.095 0.00 0.00 0.00 2.83
257 258 4.103365 ACGATTCACTGCAACAAAACAA 57.897 36.364 0.00 0.00 0.00 2.83
258 259 4.489810 ACGATTCACTGCAACAAAACAAA 58.510 34.783 0.00 0.00 0.00 2.83
259 260 4.326009 ACGATTCACTGCAACAAAACAAAC 59.674 37.500 0.00 0.00 0.00 2.93
260 261 4.562394 CGATTCACTGCAACAAAACAAACT 59.438 37.500 0.00 0.00 0.00 2.66
261 262 5.741510 CGATTCACTGCAACAAAACAAACTA 59.258 36.000 0.00 0.00 0.00 2.24
262 263 6.291060 CGATTCACTGCAACAAAACAAACTAC 60.291 38.462 0.00 0.00 0.00 2.73
263 264 5.378292 TCACTGCAACAAAACAAACTACA 57.622 34.783 0.00 0.00 0.00 2.74
264 265 5.773575 TCACTGCAACAAAACAAACTACAA 58.226 33.333 0.00 0.00 0.00 2.41
265 266 5.861251 TCACTGCAACAAAACAAACTACAAG 59.139 36.000 0.00 0.00 0.00 3.16
266 267 4.625311 ACTGCAACAAAACAAACTACAAGC 59.375 37.500 0.00 0.00 0.00 4.01
267 268 4.560128 TGCAACAAAACAAACTACAAGCA 58.440 34.783 0.00 0.00 0.00 3.91
268 269 4.387256 TGCAACAAAACAAACTACAAGCAC 59.613 37.500 0.00 0.00 0.00 4.40
269 270 4.490160 GCAACAAAACAAACTACAAGCACG 60.490 41.667 0.00 0.00 0.00 5.34
270 271 3.175929 ACAAAACAAACTACAAGCACGC 58.824 40.909 0.00 0.00 0.00 5.34
271 272 3.175152 CAAAACAAACTACAAGCACGCA 58.825 40.909 0.00 0.00 0.00 5.24
272 273 2.468532 AACAAACTACAAGCACGCAC 57.531 45.000 0.00 0.00 0.00 5.34
273 274 0.303493 ACAAACTACAAGCACGCACG 59.697 50.000 0.00 0.00 0.00 5.34
274 275 0.303493 CAAACTACAAGCACGCACGT 59.697 50.000 0.00 0.00 0.00 4.49
275 276 1.011333 AAACTACAAGCACGCACGTT 58.989 45.000 0.00 0.00 0.00 3.99
276 277 0.303493 AACTACAAGCACGCACGTTG 59.697 50.000 0.00 0.00 0.00 4.10
277 278 0.808453 ACTACAAGCACGCACGTTGT 60.808 50.000 4.62 4.62 38.04 3.32
278 279 0.303493 CTACAAGCACGCACGTTGTT 59.697 50.000 4.54 0.00 35.95 2.83
279 280 0.026933 TACAAGCACGCACGTTGTTG 59.973 50.000 4.54 8.14 35.95 3.33
280 281 2.277884 AAGCACGCACGTTGTTGC 60.278 55.556 4.24 4.24 39.28 4.17
286 287 2.052237 GCACGTTGTTGCGGTGAG 60.052 61.111 0.00 0.00 35.98 3.51
287 288 2.631428 CACGTTGTTGCGGTGAGG 59.369 61.111 0.00 0.00 35.98 3.86
288 289 3.276846 ACGTTGTTGCGGTGAGGC 61.277 61.111 0.00 0.00 35.98 4.70
289 290 4.025401 CGTTGTTGCGGTGAGGCC 62.025 66.667 0.00 0.00 0.00 5.19
290 291 2.904866 GTTGTTGCGGTGAGGCCA 60.905 61.111 5.01 0.00 36.97 5.36
291 292 2.124109 TTGTTGCGGTGAGGCCAA 60.124 55.556 5.01 0.00 36.97 4.52
292 293 2.485795 TTGTTGCGGTGAGGCCAAC 61.486 57.895 5.01 2.02 36.97 3.77
299 300 2.358737 GTGAGGCCAACGTCTGGG 60.359 66.667 5.01 7.51 46.54 4.45
300 301 3.636231 TGAGGCCAACGTCTGGGG 61.636 66.667 5.01 5.31 46.54 4.96
301 302 3.319198 GAGGCCAACGTCTGGGGA 61.319 66.667 5.01 0.00 46.54 4.81
302 303 3.316573 GAGGCCAACGTCTGGGGAG 62.317 68.421 5.01 0.00 46.54 4.30
363 364 3.869481 GGCCAGCCCAAGAACAAA 58.131 55.556 0.00 0.00 0.00 2.83
364 365 1.667722 GGCCAGCCCAAGAACAAAG 59.332 57.895 0.00 0.00 0.00 2.77
365 366 1.115326 GGCCAGCCCAAGAACAAAGT 61.115 55.000 0.00 0.00 0.00 2.66
366 367 0.032540 GCCAGCCCAAGAACAAAGTG 59.967 55.000 0.00 0.00 0.00 3.16
367 368 0.032540 CCAGCCCAAGAACAAAGTGC 59.967 55.000 0.00 0.00 0.00 4.40
368 369 0.318107 CAGCCCAAGAACAAAGTGCG 60.318 55.000 0.00 0.00 0.00 5.34
369 370 1.007387 GCCCAAGAACAAAGTGCGG 60.007 57.895 0.00 0.00 0.00 5.69
370 371 1.007387 CCCAAGAACAAAGTGCGGC 60.007 57.895 0.00 0.00 0.00 6.53
371 372 1.370414 CCAAGAACAAAGTGCGGCG 60.370 57.895 0.51 0.51 0.00 6.46
372 373 1.355210 CAAGAACAAAGTGCGGCGT 59.645 52.632 9.37 0.00 0.00 5.68
373 374 0.929824 CAAGAACAAAGTGCGGCGTG 60.930 55.000 9.37 0.00 0.00 5.34
374 375 1.373590 AAGAACAAAGTGCGGCGTGT 61.374 50.000 9.37 0.62 0.00 4.49
375 376 0.531090 AGAACAAAGTGCGGCGTGTA 60.531 50.000 9.37 0.00 0.00 2.90
376 377 0.305313 GAACAAAGTGCGGCGTGTAA 59.695 50.000 9.37 0.00 0.00 2.41
377 378 0.733729 AACAAAGTGCGGCGTGTAAA 59.266 45.000 9.37 0.00 0.00 2.01
378 379 0.733729 ACAAAGTGCGGCGTGTAAAA 59.266 45.000 9.37 0.00 0.00 1.52
379 380 1.132643 ACAAAGTGCGGCGTGTAAAAA 59.867 42.857 9.37 0.00 0.00 1.94
380 381 2.223618 ACAAAGTGCGGCGTGTAAAAAT 60.224 40.909 9.37 0.00 0.00 1.82
381 382 2.325509 AAGTGCGGCGTGTAAAAATC 57.674 45.000 9.37 0.00 0.00 2.17
382 383 0.519961 AGTGCGGCGTGTAAAAATCC 59.480 50.000 9.37 0.00 0.00 3.01
383 384 0.791610 GTGCGGCGTGTAAAAATCCG 60.792 55.000 9.37 0.00 42.68 4.18
384 385 1.226184 GCGGCGTGTAAAAATCCGG 60.226 57.895 9.37 0.00 40.37 5.14
385 386 1.226184 CGGCGTGTAAAAATCCGGC 60.226 57.895 0.00 0.00 41.76 6.13
386 387 1.877367 GGCGTGTAAAAATCCGGCA 59.123 52.632 0.00 0.00 44.19 5.69
387 388 0.179174 GGCGTGTAAAAATCCGGCAG 60.179 55.000 0.00 0.00 44.19 4.85
388 389 0.800012 GCGTGTAAAAATCCGGCAGA 59.200 50.000 0.00 0.00 0.00 4.26
389 390 1.198178 GCGTGTAAAAATCCGGCAGAA 59.802 47.619 0.00 0.00 0.00 3.02
390 391 2.350964 GCGTGTAAAAATCCGGCAGAAA 60.351 45.455 0.00 0.00 0.00 2.52
391 392 3.854045 GCGTGTAAAAATCCGGCAGAAAA 60.854 43.478 0.00 0.00 0.00 2.29
392 393 4.481463 CGTGTAAAAATCCGGCAGAAAAT 58.519 39.130 0.00 0.00 0.00 1.82
393 394 4.920927 CGTGTAAAAATCCGGCAGAAAATT 59.079 37.500 0.00 0.00 0.00 1.82
394 395 5.164100 CGTGTAAAAATCCGGCAGAAAATTG 60.164 40.000 0.00 0.00 0.00 2.32
395 396 4.688413 TGTAAAAATCCGGCAGAAAATTGC 59.312 37.500 0.00 0.00 43.34 3.56
396 397 3.683365 AAAATCCGGCAGAAAATTGCT 57.317 38.095 0.00 0.00 43.57 3.91
397 398 4.799564 AAAATCCGGCAGAAAATTGCTA 57.200 36.364 0.00 0.00 43.57 3.49
398 399 4.376340 AAATCCGGCAGAAAATTGCTAG 57.624 40.909 0.00 0.00 43.57 3.42
399 400 2.779755 TCCGGCAGAAAATTGCTAGA 57.220 45.000 0.00 0.00 43.57 2.43
400 401 2.632377 TCCGGCAGAAAATTGCTAGAG 58.368 47.619 0.00 0.00 43.57 2.43
401 402 2.236146 TCCGGCAGAAAATTGCTAGAGA 59.764 45.455 0.00 0.00 43.57 3.10
402 403 2.611292 CCGGCAGAAAATTGCTAGAGAG 59.389 50.000 0.00 0.00 43.57 3.20
403 404 3.525537 CGGCAGAAAATTGCTAGAGAGA 58.474 45.455 0.00 0.00 43.57 3.10
404 405 3.935203 CGGCAGAAAATTGCTAGAGAGAA 59.065 43.478 0.00 0.00 43.57 2.87
405 406 4.033817 CGGCAGAAAATTGCTAGAGAGAAG 59.966 45.833 0.00 0.00 43.57 2.85
673 722 1.300465 CTGTGACTGCAGACGCACT 60.300 57.895 24.94 0.00 45.36 4.40
708 757 2.110967 CCTCGTAGGGAAGACGCGA 61.111 63.158 15.93 0.00 40.14 5.87
859 1521 2.353607 GGATACGTCGCTGCGAGG 60.354 66.667 34.39 34.39 45.39 4.63
860 1522 3.025176 GATACGTCGCTGCGAGGC 61.025 66.667 35.48 20.78 44.05 4.70
1040 2615 3.695825 GTGGGAGGGGGAGAGGGA 61.696 72.222 0.00 0.00 0.00 4.20
1165 2800 1.380403 CGGCGAGATGGTCTCTGACT 61.380 60.000 0.00 0.00 41.26 3.41
1468 3127 2.092055 CGTTCGCAGAAATCGTCATTGA 59.908 45.455 0.00 0.00 45.90 2.57
1597 3256 7.437748 ACATTCATTACCTAGACATACTCAGC 58.562 38.462 0.00 0.00 0.00 4.26
1895 3691 3.304257 CGACTCATTTGTTTTGCTGCTCT 60.304 43.478 0.00 0.00 0.00 4.09
2030 4820 5.747342 TGTTAACAGACTACTTGGGTGTTT 58.253 37.500 3.59 0.00 33.50 2.83
2096 4886 4.573607 TGCACTGCTGCTTCTAATTAGATG 59.426 41.667 15.82 17.80 44.57 2.90
2354 5147 7.549488 AGGCAGTTTCACTCATAAATACTACAC 59.451 37.037 0.00 0.00 0.00 2.90
2398 5191 7.283127 ACACAGTATTTGGTTCATATCACCATC 59.717 37.037 4.42 0.00 44.05 3.51
2407 5200 5.207768 GTTCATATCACCATCGTTTCATGC 58.792 41.667 0.00 0.00 0.00 4.06
2445 5238 5.407387 GCGGTTCTCTTACATAGTTTGAACA 59.593 40.000 0.00 0.00 34.58 3.18
2617 5410 2.024414 GGGCATTGTCAGTATGGGAAC 58.976 52.381 0.00 0.00 36.16 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.692257 AGCACATCTAGATACATGCCC 57.308 47.619 22.72 6.37 33.50 5.36
1 2 6.226787 ACTAAAGCACATCTAGATACATGCC 58.773 40.000 22.72 11.61 33.50 4.40
72 73 5.874261 CGGTTGCCAATAAGAATGGATTTTT 59.126 36.000 0.00 0.00 40.56 1.94
73 74 5.418676 CGGTTGCCAATAAGAATGGATTTT 58.581 37.500 0.00 0.00 40.56 1.82
74 75 4.680440 GCGGTTGCCAATAAGAATGGATTT 60.680 41.667 0.00 0.00 40.56 2.17
75 76 3.181476 GCGGTTGCCAATAAGAATGGATT 60.181 43.478 0.00 0.00 40.56 3.01
76 77 2.362077 GCGGTTGCCAATAAGAATGGAT 59.638 45.455 0.00 0.00 40.56 3.41
77 78 1.748493 GCGGTTGCCAATAAGAATGGA 59.252 47.619 0.00 0.00 40.56 3.41
78 79 2.208326 GCGGTTGCCAATAAGAATGG 57.792 50.000 0.00 0.00 41.08 3.16
90 91 1.077089 GTTAGACTCGAGGCGGTTGC 61.077 60.000 18.41 1.48 41.71 4.17
91 92 0.242825 TGTTAGACTCGAGGCGGTTG 59.757 55.000 18.41 0.00 0.00 3.77
92 93 0.963962 TTGTTAGACTCGAGGCGGTT 59.036 50.000 18.41 0.00 0.00 4.44
93 94 1.134560 GATTGTTAGACTCGAGGCGGT 59.865 52.381 18.41 0.43 0.00 5.68
94 95 1.134367 TGATTGTTAGACTCGAGGCGG 59.866 52.381 18.41 0.00 0.00 6.13
95 96 2.561733 TGATTGTTAGACTCGAGGCG 57.438 50.000 18.41 0.00 0.00 5.52
96 97 4.046938 TGATGATTGTTAGACTCGAGGC 57.953 45.455 18.41 15.26 0.00 4.70
97 98 6.276091 TCAATGATGATTGTTAGACTCGAGG 58.724 40.000 18.41 0.00 40.09 4.63
98 99 7.943413 ATCAATGATGATTGTTAGACTCGAG 57.057 36.000 11.84 11.84 43.89 4.04
112 113 3.931907 AAGGACGGGAATCAATGATGA 57.068 42.857 0.00 0.00 40.57 2.92
113 114 3.696051 ACAAAGGACGGGAATCAATGATG 59.304 43.478 0.00 0.00 0.00 3.07
114 115 3.968265 ACAAAGGACGGGAATCAATGAT 58.032 40.909 0.00 0.00 0.00 2.45
115 116 3.433306 ACAAAGGACGGGAATCAATGA 57.567 42.857 0.00 0.00 0.00 2.57
116 117 4.261801 AGTACAAAGGACGGGAATCAATG 58.738 43.478 0.00 0.00 0.00 2.82
117 118 4.569719 AGTACAAAGGACGGGAATCAAT 57.430 40.909 0.00 0.00 0.00 2.57
118 119 4.283978 TGTAGTACAAAGGACGGGAATCAA 59.716 41.667 0.00 0.00 0.00 2.57
119 120 3.833650 TGTAGTACAAAGGACGGGAATCA 59.166 43.478 0.00 0.00 0.00 2.57
120 121 4.460948 TGTAGTACAAAGGACGGGAATC 57.539 45.455 0.00 0.00 0.00 2.52
121 122 4.895668 TTGTAGTACAAAGGACGGGAAT 57.104 40.909 13.36 0.00 34.76 3.01
122 123 4.571919 CATTGTAGTACAAAGGACGGGAA 58.428 43.478 19.19 0.00 41.96 3.97
123 124 3.618019 GCATTGTAGTACAAAGGACGGGA 60.618 47.826 19.19 0.00 41.96 5.14
124 125 2.676342 GCATTGTAGTACAAAGGACGGG 59.324 50.000 19.19 5.27 41.96 5.28
125 126 3.331150 TGCATTGTAGTACAAAGGACGG 58.669 45.455 19.19 6.77 41.96 4.79
126 127 4.378046 GGTTGCATTGTAGTACAAAGGACG 60.378 45.833 19.19 7.41 41.96 4.79
127 128 4.082949 GGGTTGCATTGTAGTACAAAGGAC 60.083 45.833 19.19 14.22 41.96 3.85
128 129 4.076394 GGGTTGCATTGTAGTACAAAGGA 58.924 43.478 19.19 13.53 41.96 3.36
129 130 3.192633 GGGGTTGCATTGTAGTACAAAGG 59.807 47.826 19.19 14.89 41.96 3.11
130 131 4.079253 AGGGGTTGCATTGTAGTACAAAG 58.921 43.478 19.19 15.80 41.96 2.77
131 132 4.076394 GAGGGGTTGCATTGTAGTACAAA 58.924 43.478 19.19 0.80 41.96 2.83
132 133 3.073209 TGAGGGGTTGCATTGTAGTACAA 59.927 43.478 17.74 17.74 42.95 2.41
133 134 2.640332 TGAGGGGTTGCATTGTAGTACA 59.360 45.455 0.00 0.00 0.00 2.90
134 135 3.055385 TCTGAGGGGTTGCATTGTAGTAC 60.055 47.826 0.00 0.00 0.00 2.73
135 136 3.178046 TCTGAGGGGTTGCATTGTAGTA 58.822 45.455 0.00 0.00 0.00 1.82
136 137 1.985159 TCTGAGGGGTTGCATTGTAGT 59.015 47.619 0.00 0.00 0.00 2.73
137 138 2.787473 TCTGAGGGGTTGCATTGTAG 57.213 50.000 0.00 0.00 0.00 2.74
138 139 3.737559 ATTCTGAGGGGTTGCATTGTA 57.262 42.857 0.00 0.00 0.00 2.41
139 140 2.610438 ATTCTGAGGGGTTGCATTGT 57.390 45.000 0.00 0.00 0.00 2.71
140 141 5.240183 CACTATATTCTGAGGGGTTGCATTG 59.760 44.000 0.00 0.00 0.00 2.82
141 142 5.103940 ACACTATATTCTGAGGGGTTGCATT 60.104 40.000 0.00 0.00 0.00 3.56
142 143 4.413520 ACACTATATTCTGAGGGGTTGCAT 59.586 41.667 0.00 0.00 0.00 3.96
143 144 3.780294 ACACTATATTCTGAGGGGTTGCA 59.220 43.478 0.00 0.00 0.00 4.08
144 145 4.423625 ACACTATATTCTGAGGGGTTGC 57.576 45.455 0.00 0.00 0.00 4.17
145 146 5.104527 TGGAACACTATATTCTGAGGGGTTG 60.105 44.000 0.00 0.00 0.00 3.77
146 147 5.036916 TGGAACACTATATTCTGAGGGGTT 58.963 41.667 0.00 0.00 0.00 4.11
147 148 4.631234 TGGAACACTATATTCTGAGGGGT 58.369 43.478 0.00 0.00 0.00 4.95
170 171 9.545105 GGGCAAACATTTATTCATTATTGATGA 57.455 29.630 0.00 0.00 42.95 2.92
171 172 9.327628 TGGGCAAACATTTATTCATTATTGATG 57.672 29.630 0.00 0.00 37.08 3.07
213 214 9.431887 TCGTAAAGTGAACAGCTATTCTTTATT 57.568 29.630 6.26 0.00 32.62 1.40
214 215 8.997621 TCGTAAAGTGAACAGCTATTCTTTAT 57.002 30.769 6.26 0.00 32.62 1.40
215 216 8.997621 ATCGTAAAGTGAACAGCTATTCTTTA 57.002 30.769 6.26 1.03 0.00 1.85
216 217 7.907214 ATCGTAAAGTGAACAGCTATTCTTT 57.093 32.000 6.26 1.99 0.00 2.52
217 218 7.602644 TGAATCGTAAAGTGAACAGCTATTCTT 59.397 33.333 6.26 0.00 0.00 2.52
218 219 7.063544 GTGAATCGTAAAGTGAACAGCTATTCT 59.936 37.037 6.26 0.00 0.00 2.40
219 220 7.063544 AGTGAATCGTAAAGTGAACAGCTATTC 59.936 37.037 0.00 0.00 0.00 1.75
220 221 6.874134 AGTGAATCGTAAAGTGAACAGCTATT 59.126 34.615 0.00 0.00 0.00 1.73
221 222 6.311445 CAGTGAATCGTAAAGTGAACAGCTAT 59.689 38.462 0.00 0.00 0.00 2.97
222 223 5.633601 CAGTGAATCGTAAAGTGAACAGCTA 59.366 40.000 0.00 0.00 0.00 3.32
223 224 4.449068 CAGTGAATCGTAAAGTGAACAGCT 59.551 41.667 0.00 0.00 0.00 4.24
224 225 4.702392 CAGTGAATCGTAAAGTGAACAGC 58.298 43.478 0.00 0.00 0.00 4.40
225 226 4.211164 TGCAGTGAATCGTAAAGTGAACAG 59.789 41.667 0.00 0.00 0.00 3.16
226 227 4.123506 TGCAGTGAATCGTAAAGTGAACA 58.876 39.130 0.00 0.00 0.00 3.18
227 228 4.725556 TGCAGTGAATCGTAAAGTGAAC 57.274 40.909 0.00 0.00 0.00 3.18
228 229 4.572795 TGTTGCAGTGAATCGTAAAGTGAA 59.427 37.500 0.00 0.00 0.00 3.18
229 230 4.123506 TGTTGCAGTGAATCGTAAAGTGA 58.876 39.130 0.00 0.00 0.00 3.41
230 231 4.466567 TGTTGCAGTGAATCGTAAAGTG 57.533 40.909 0.00 0.00 0.00 3.16
231 232 5.493133 TTTGTTGCAGTGAATCGTAAAGT 57.507 34.783 0.00 0.00 0.00 2.66
232 233 5.741510 TGTTTTGTTGCAGTGAATCGTAAAG 59.258 36.000 0.00 0.00 0.00 1.85
233 234 5.641709 TGTTTTGTTGCAGTGAATCGTAAA 58.358 33.333 0.00 0.00 0.00 2.01
234 235 5.236655 TGTTTTGTTGCAGTGAATCGTAA 57.763 34.783 0.00 0.00 0.00 3.18
235 236 4.884458 TGTTTTGTTGCAGTGAATCGTA 57.116 36.364 0.00 0.00 0.00 3.43
236 237 3.773860 TGTTTTGTTGCAGTGAATCGT 57.226 38.095 0.00 0.00 0.00 3.73
237 238 4.562394 AGTTTGTTTTGTTGCAGTGAATCG 59.438 37.500 0.00 0.00 0.00 3.34
238 239 6.529829 TGTAGTTTGTTTTGTTGCAGTGAATC 59.470 34.615 0.00 0.00 0.00 2.52
239 240 6.393990 TGTAGTTTGTTTTGTTGCAGTGAAT 58.606 32.000 0.00 0.00 0.00 2.57
240 241 5.773575 TGTAGTTTGTTTTGTTGCAGTGAA 58.226 33.333 0.00 0.00 0.00 3.18
241 242 5.378292 TGTAGTTTGTTTTGTTGCAGTGA 57.622 34.783 0.00 0.00 0.00 3.41
242 243 5.444481 GCTTGTAGTTTGTTTTGTTGCAGTG 60.444 40.000 0.00 0.00 0.00 3.66
243 244 4.625311 GCTTGTAGTTTGTTTTGTTGCAGT 59.375 37.500 0.00 0.00 0.00 4.40
244 245 4.624882 TGCTTGTAGTTTGTTTTGTTGCAG 59.375 37.500 0.00 0.00 0.00 4.41
245 246 4.387256 GTGCTTGTAGTTTGTTTTGTTGCA 59.613 37.500 0.00 0.00 0.00 4.08
246 247 4.490160 CGTGCTTGTAGTTTGTTTTGTTGC 60.490 41.667 0.00 0.00 0.00 4.17
247 248 4.490160 GCGTGCTTGTAGTTTGTTTTGTTG 60.490 41.667 0.00 0.00 0.00 3.33
248 249 3.610677 GCGTGCTTGTAGTTTGTTTTGTT 59.389 39.130 0.00 0.00 0.00 2.83
249 250 3.175929 GCGTGCTTGTAGTTTGTTTTGT 58.824 40.909 0.00 0.00 0.00 2.83
250 251 3.001168 GTGCGTGCTTGTAGTTTGTTTTG 60.001 43.478 0.00 0.00 0.00 2.44
251 252 3.175929 GTGCGTGCTTGTAGTTTGTTTT 58.824 40.909 0.00 0.00 0.00 2.43
252 253 2.789779 CGTGCGTGCTTGTAGTTTGTTT 60.790 45.455 0.00 0.00 0.00 2.83
253 254 1.267832 CGTGCGTGCTTGTAGTTTGTT 60.268 47.619 0.00 0.00 0.00 2.83
254 255 0.303493 CGTGCGTGCTTGTAGTTTGT 59.697 50.000 0.00 0.00 0.00 2.83
255 256 0.303493 ACGTGCGTGCTTGTAGTTTG 59.697 50.000 0.00 0.00 0.00 2.93
256 257 1.011333 AACGTGCGTGCTTGTAGTTT 58.989 45.000 0.00 0.00 0.00 2.66
257 258 0.303493 CAACGTGCGTGCTTGTAGTT 59.697 50.000 0.00 0.00 0.00 2.24
258 259 0.808453 ACAACGTGCGTGCTTGTAGT 60.808 50.000 0.00 0.00 0.00 2.73
259 260 0.303493 AACAACGTGCGTGCTTGTAG 59.697 50.000 0.00 0.00 0.00 2.74
260 261 0.026933 CAACAACGTGCGTGCTTGTA 59.973 50.000 0.00 0.00 0.00 2.41
261 262 1.226267 CAACAACGTGCGTGCTTGT 60.226 52.632 0.00 0.00 0.00 3.16
262 263 2.567151 GCAACAACGTGCGTGCTTG 61.567 57.895 9.62 4.41 34.21 4.01
263 264 2.277884 GCAACAACGTGCGTGCTT 60.278 55.556 9.62 0.00 34.21 3.91
269 270 2.052237 CTCACCGCAACAACGTGC 60.052 61.111 0.00 0.00 41.32 5.34
270 271 2.631428 CCTCACCGCAACAACGTG 59.369 61.111 0.00 0.00 0.00 4.49
271 272 3.276846 GCCTCACCGCAACAACGT 61.277 61.111 0.00 0.00 0.00 3.99
272 273 4.025401 GGCCTCACCGCAACAACG 62.025 66.667 0.00 0.00 0.00 4.10
273 274 2.485795 TTGGCCTCACCGCAACAAC 61.486 57.895 3.32 0.00 43.94 3.32
274 275 2.124109 TTGGCCTCACCGCAACAA 60.124 55.556 3.32 0.00 43.94 2.83
275 276 2.904866 GTTGGCCTCACCGCAACA 60.905 61.111 3.32 0.00 43.94 3.33
276 277 4.025401 CGTTGGCCTCACCGCAAC 62.025 66.667 3.32 0.00 43.94 4.17
277 278 4.555709 ACGTTGGCCTCACCGCAA 62.556 61.111 3.32 0.00 43.94 4.85
278 279 4.980805 GACGTTGGCCTCACCGCA 62.981 66.667 3.32 0.00 43.94 5.69
279 280 4.681978 AGACGTTGGCCTCACCGC 62.682 66.667 3.32 0.00 43.94 5.68
280 281 2.738521 CAGACGTTGGCCTCACCG 60.739 66.667 3.32 3.15 43.94 4.94
281 282 2.358737 CCAGACGTTGGCCTCACC 60.359 66.667 3.32 0.00 40.87 4.02
282 283 2.358737 CCCAGACGTTGGCCTCAC 60.359 66.667 3.32 0.00 46.32 3.51
283 284 3.636231 CCCCAGACGTTGGCCTCA 61.636 66.667 3.32 0.00 46.32 3.86
284 285 3.316573 CTCCCCAGACGTTGGCCTC 62.317 68.421 3.32 0.00 46.32 4.70
285 286 3.322466 CTCCCCAGACGTTGGCCT 61.322 66.667 3.32 0.00 46.32 5.19
346 347 1.115326 ACTTTGTTCTTGGGCTGGCC 61.115 55.000 14.23 14.23 0.00 5.36
347 348 0.032540 CACTTTGTTCTTGGGCTGGC 59.967 55.000 0.00 0.00 0.00 4.85
348 349 0.032540 GCACTTTGTTCTTGGGCTGG 59.967 55.000 0.00 0.00 0.00 4.85
349 350 0.318107 CGCACTTTGTTCTTGGGCTG 60.318 55.000 0.00 0.00 0.00 4.85
350 351 1.455383 CCGCACTTTGTTCTTGGGCT 61.455 55.000 0.00 0.00 0.00 5.19
351 352 1.007387 CCGCACTTTGTTCTTGGGC 60.007 57.895 0.00 0.00 0.00 5.36
352 353 1.007387 GCCGCACTTTGTTCTTGGG 60.007 57.895 0.00 0.00 0.00 4.12
353 354 1.370414 CGCCGCACTTTGTTCTTGG 60.370 57.895 0.00 0.00 0.00 3.61
354 355 0.929824 CACGCCGCACTTTGTTCTTG 60.930 55.000 0.00 0.00 0.00 3.02
355 356 1.355210 CACGCCGCACTTTGTTCTT 59.645 52.632 0.00 0.00 0.00 2.52
356 357 0.531090 TACACGCCGCACTTTGTTCT 60.531 50.000 0.00 0.00 0.00 3.01
357 358 0.305313 TTACACGCCGCACTTTGTTC 59.695 50.000 0.00 0.00 0.00 3.18
358 359 0.733729 TTTACACGCCGCACTTTGTT 59.266 45.000 0.00 0.00 0.00 2.83
359 360 0.733729 TTTTACACGCCGCACTTTGT 59.266 45.000 0.00 0.00 0.00 2.83
360 361 1.828832 TTTTTACACGCCGCACTTTG 58.171 45.000 0.00 0.00 0.00 2.77
361 362 2.606065 GGATTTTTACACGCCGCACTTT 60.606 45.455 0.00 0.00 0.00 2.66
362 363 1.068816 GGATTTTTACACGCCGCACTT 60.069 47.619 0.00 0.00 0.00 3.16
363 364 0.519961 GGATTTTTACACGCCGCACT 59.480 50.000 0.00 0.00 0.00 4.40
364 365 0.791610 CGGATTTTTACACGCCGCAC 60.792 55.000 0.00 0.00 35.17 5.34
365 366 1.498166 CGGATTTTTACACGCCGCA 59.502 52.632 0.00 0.00 35.17 5.69
366 367 1.226184 CCGGATTTTTACACGCCGC 60.226 57.895 0.00 0.00 40.59 6.53
367 368 1.226184 GCCGGATTTTTACACGCCG 60.226 57.895 5.05 0.00 41.53 6.46
368 369 0.179174 CTGCCGGATTTTTACACGCC 60.179 55.000 5.05 0.00 0.00 5.68
369 370 0.800012 TCTGCCGGATTTTTACACGC 59.200 50.000 5.05 0.00 0.00 5.34
370 371 3.546002 TTTCTGCCGGATTTTTACACG 57.454 42.857 5.05 0.00 0.00 4.49
371 372 5.389411 GCAATTTTCTGCCGGATTTTTACAC 60.389 40.000 5.05 0.00 36.25 2.90
372 373 4.688413 GCAATTTTCTGCCGGATTTTTACA 59.312 37.500 5.05 0.00 36.25 2.41
373 374 4.929211 AGCAATTTTCTGCCGGATTTTTAC 59.071 37.500 5.05 0.00 43.73 2.01
374 375 5.146010 AGCAATTTTCTGCCGGATTTTTA 57.854 34.783 5.05 0.00 43.73 1.52
375 376 4.006780 AGCAATTTTCTGCCGGATTTTT 57.993 36.364 5.05 0.00 43.73 1.94
376 377 3.683365 AGCAATTTTCTGCCGGATTTT 57.317 38.095 5.05 0.00 43.73 1.82
377 378 4.016444 TCTAGCAATTTTCTGCCGGATTT 58.984 39.130 5.05 0.00 43.73 2.17
378 379 3.620488 TCTAGCAATTTTCTGCCGGATT 58.380 40.909 5.05 0.00 43.73 3.01
379 380 3.118261 TCTCTAGCAATTTTCTGCCGGAT 60.118 43.478 5.05 0.00 43.73 4.18
380 381 2.236146 TCTCTAGCAATTTTCTGCCGGA 59.764 45.455 5.05 0.00 43.73 5.14
381 382 2.611292 CTCTCTAGCAATTTTCTGCCGG 59.389 50.000 0.00 0.00 43.73 6.13
382 383 3.525537 TCTCTCTAGCAATTTTCTGCCG 58.474 45.455 0.00 0.00 43.73 5.69
383 384 5.181748 TCTTCTCTCTAGCAATTTTCTGCC 58.818 41.667 0.00 0.00 43.73 4.85
384 385 6.734104 TTCTTCTCTCTAGCAATTTTCTGC 57.266 37.500 0.00 0.00 42.97 4.26
385 386 8.721019 AGATTCTTCTCTCTAGCAATTTTCTG 57.279 34.615 0.00 0.00 0.00 3.02
386 387 8.947055 GAGATTCTTCTCTCTAGCAATTTTCT 57.053 34.615 0.00 0.00 44.29 2.52
401 402 8.278639 TGAGACATTAGGAGTAGAGATTCTTCT 58.721 37.037 0.00 0.00 33.88 2.85
402 403 8.458573 TGAGACATTAGGAGTAGAGATTCTTC 57.541 38.462 0.00 0.00 0.00 2.87
403 404 8.058847 ACTGAGACATTAGGAGTAGAGATTCTT 58.941 37.037 0.00 0.00 0.00 2.52
404 405 7.582719 ACTGAGACATTAGGAGTAGAGATTCT 58.417 38.462 0.00 0.00 0.00 2.40
405 406 7.817418 ACTGAGACATTAGGAGTAGAGATTC 57.183 40.000 0.00 0.00 0.00 2.52
708 757 2.125106 GCGGCTTGGGATCTCGTT 60.125 61.111 0.00 0.00 0.00 3.85
944 1663 3.099170 CCCCCACCTCCTCCCATG 61.099 72.222 0.00 0.00 0.00 3.66
1597 3256 9.244799 GGTTTCTAACAAACCAAAGTGAATTAG 57.755 33.333 10.74 0.00 46.74 1.73
1895 3691 6.283694 CCATTCTTCTCGTCTCAATATTCCA 58.716 40.000 0.00 0.00 0.00 3.53
2069 4859 8.548627 ATCTAATTAGAAGCAGCAGTGCATGTT 61.549 37.037 18.79 6.73 42.37 2.71
2354 5147 6.329496 ACTGTGTGAACATTTTGTAAACCTG 58.671 36.000 0.00 0.00 0.00 4.00
2398 5191 2.222886 CCAGTCAATCGAGCATGAAACG 60.223 50.000 0.00 0.00 0.00 3.60
2407 5200 0.670546 AACCGCACCAGTCAATCGAG 60.671 55.000 0.00 0.00 0.00 4.04
2445 5238 3.426615 TCGTGGTCCCAAATGCTAAATT 58.573 40.909 0.00 0.00 0.00 1.82
2617 5410 1.737793 GTAAAGTGGGTTGGCTCGATG 59.262 52.381 0.00 0.00 0.00 3.84
2618 5411 1.349688 TGTAAAGTGGGTTGGCTCGAT 59.650 47.619 0.00 0.00 0.00 3.59
2620 5413 1.156736 CTGTAAAGTGGGTTGGCTCG 58.843 55.000 0.00 0.00 0.00 5.03
2622 5415 1.145571 TCCTGTAAAGTGGGTTGGCT 58.854 50.000 0.00 0.00 0.00 4.75


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

AutoCloner maintained by Alex Coulton.