Multiple sequence alignment - TraesCS1D01G425800

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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 TraesCS1D01G425800 chr1D 100.000 1389 0 0 984 2372 479343128 479341740 0.000000e+00 2566.0
1 TraesCS1D01G425800 chr1D 100.000 673 0 0 1 673 479344111 479343439 0.000000e+00 1243.0
2 TraesCS1D01G425800 chr1D 90.847 295 16 8 366 650 13229704 13229411 3.700000e-103 385.0
3 TraesCS1D01G425800 chr1D 82.500 80 13 1 2280 2358 275619869 275619948 4.230000e-08 69.4
4 TraesCS1D01G425800 chr3D 96.063 889 34 1 984 1871 526482032 526481144 0.000000e+00 1447.0
5 TraesCS1D01G425800 chr3D 90.909 286 20 5 365 646 124069446 124069729 1.720000e-101 379.0
6 TraesCS1D01G425800 chr3D 82.716 81 11 2 2279 2358 32259797 32259875 4.230000e-08 69.4
7 TraesCS1D01G425800 chr5D 95.623 891 35 2 984 1871 287811350 287810461 0.000000e+00 1426.0
8 TraesCS1D01G425800 chr5D 95.516 892 35 3 984 1871 357076872 357075982 0.000000e+00 1421.0
9 TraesCS1D01G425800 chr5D 95.485 886 37 1 984 1869 326744042 326744924 0.000000e+00 1411.0
10 TraesCS1D01G425800 chr5D 95.576 859 29 2 1017 1869 14740395 14741250 0.000000e+00 1367.0
11 TraesCS1D01G425800 chr5D 90.444 293 19 7 365 649 287812151 287811860 6.190000e-101 377.0
12 TraesCS1D01G425800 chrUn 94.488 889 43 5 984 1871 79926020 79925137 0.000000e+00 1365.0
13 TraesCS1D01G425800 chrUn 93.939 891 51 3 984 1871 108949062 108948172 0.000000e+00 1343.0
14 TraesCS1D01G425800 chr7D 94.476 887 42 3 986 1871 147577048 147576168 0.000000e+00 1360.0
15 TraesCS1D01G425800 chr7D 90.461 304 22 6 365 666 464032875 464033173 6.140000e-106 394.0
16 TraesCS1D01G425800 chr4D 94.539 879 43 2 994 1872 145625250 145624377 0.000000e+00 1352.0
17 TraesCS1D01G425800 chr4D 91.986 287 15 6 366 646 92671988 92671704 1.710000e-106 396.0
18 TraesCS1D01G425800 chr4D 91.003 289 21 4 366 650 490104287 490104000 3.700000e-103 385.0
19 TraesCS1D01G425800 chr1B 90.179 336 32 1 32 366 667605169 667604834 1.010000e-118 436.0
20 TraesCS1D01G425800 chr1B 83.367 499 53 15 1879 2372 667604830 667604357 3.620000e-118 435.0
21 TraesCS1D01G425800 chr1B 89.677 310 21 8 366 673 581346962 581347262 3.700000e-103 385.0
22 TraesCS1D01G425800 chr1B 85.119 168 25 0 201 368 390427063 390427230 3.130000e-39 172.0
23 TraesCS1D01G425800 chr7B 88.088 319 22 13 362 671 518467903 518467592 4.820000e-97 364.0
24 TraesCS1D01G425800 chr5B 88.141 312 27 8 365 673 275005960 275006264 1.730000e-96 363.0
25 TraesCS1D01G425800 chr1A 89.573 211 14 3 1 203 575653359 575653149 6.500000e-66 261.0
26 TraesCS1D01G425800 chr1A 91.975 162 13 0 202 363 575652988 575652827 6.600000e-56 228.0
27 TraesCS1D01G425800 chr7A 78.287 327 54 14 2054 2369 25858323 25858643 6.690000e-46 195.0
28 TraesCS1D01G425800 chr7A 92.683 41 1 2 2279 2319 90453293 90453331 9.160000e-05 58.4
29 TraesCS1D01G425800 chr3A 76.136 176 34 5 2150 2318 716193666 716193492 4.200000e-13 86.1
30 TraesCS1D01G425800 chr3A 85.075 67 10 0 2278 2344 30351112 30351178 4.230000e-08 69.4
31 TraesCS1D01G425800 chr2D 100.000 37 0 0 998 1034 286672995 286673031 4.230000e-08 69.4
32 TraesCS1D01G425800 chr2D 84.286 70 9 2 2290 2358 60072635 60072567 1.520000e-07 67.6
33 TraesCS1D01G425800 chr6B 84.058 69 11 0 2290 2358 692820766 692820698 1.520000e-07 67.6
34 TraesCS1D01G425800 chr2B 85.075 67 8 2 2281 2347 788033580 788033644 1.520000e-07 67.6


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 TraesCS1D01G425800 chr1D 479341740 479344111 2371 True 1904.5 2566 100.0000 1 2372 2 chr1D.!!$R2 2371
1 TraesCS1D01G425800 chr3D 526481144 526482032 888 True 1447.0 1447 96.0630 984 1871 1 chr3D.!!$R1 887
2 TraesCS1D01G425800 chr5D 357075982 357076872 890 True 1421.0 1421 95.5160 984 1871 1 chr5D.!!$R1 887
3 TraesCS1D01G425800 chr5D 326744042 326744924 882 False 1411.0 1411 95.4850 984 1869 1 chr5D.!!$F2 885
4 TraesCS1D01G425800 chr5D 14740395 14741250 855 False 1367.0 1367 95.5760 1017 1869 1 chr5D.!!$F1 852
5 TraesCS1D01G425800 chr5D 287810461 287812151 1690 True 901.5 1426 93.0335 365 1871 2 chr5D.!!$R2 1506
6 TraesCS1D01G425800 chrUn 79925137 79926020 883 True 1365.0 1365 94.4880 984 1871 1 chrUn.!!$R1 887
7 TraesCS1D01G425800 chrUn 108948172 108949062 890 True 1343.0 1343 93.9390 984 1871 1 chrUn.!!$R2 887
8 TraesCS1D01G425800 chr7D 147576168 147577048 880 True 1360.0 1360 94.4760 986 1871 1 chr7D.!!$R1 885
9 TraesCS1D01G425800 chr4D 145624377 145625250 873 True 1352.0 1352 94.5390 994 1872 1 chr4D.!!$R2 878
10 TraesCS1D01G425800 chr1B 667604357 667605169 812 True 435.5 436 86.7730 32 2372 2 chr1B.!!$R1 2340
11 TraesCS1D01G425800 chr1A 575652827 575653359 532 True 244.5 261 90.7740 1 363 2 chr1A.!!$R1 362

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
267 269 0.03759 TTAGCCCGTGATTTGCCTGT 59.962 50.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2146 2846 0.106521 AGCAACTTGCCCGCAAATTT 59.893 45.0 10.25 0.0 46.52 1.82 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
74 76 1.067776 GGTGGGTCTCACGTGTAAGAG 60.068 57.143 16.51 5.48 46.96 2.85
75 77 1.612463 GTGGGTCTCACGTGTAAGAGT 59.388 52.381 16.51 0.00 36.56 3.24
76 78 2.035576 GTGGGTCTCACGTGTAAGAGTT 59.964 50.000 16.51 0.00 36.56 3.01
77 79 2.696707 TGGGTCTCACGTGTAAGAGTTT 59.303 45.455 16.51 0.00 33.63 2.66
78 80 3.057734 GGGTCTCACGTGTAAGAGTTTG 58.942 50.000 16.51 0.00 33.63 2.93
79 81 3.243636 GGGTCTCACGTGTAAGAGTTTGA 60.244 47.826 16.51 0.00 33.63 2.69
80 82 3.982058 GGTCTCACGTGTAAGAGTTTGAG 59.018 47.826 16.51 1.12 33.63 3.02
81 83 3.982058 GTCTCACGTGTAAGAGTTTGAGG 59.018 47.826 16.51 0.00 32.90 3.86
82 84 3.887110 TCTCACGTGTAAGAGTTTGAGGA 59.113 43.478 16.51 0.00 32.90 3.71
83 85 4.023107 TCTCACGTGTAAGAGTTTGAGGAG 60.023 45.833 16.51 0.00 32.90 3.69
84 86 3.887110 TCACGTGTAAGAGTTTGAGGAGA 59.113 43.478 16.51 0.00 0.00 3.71
85 87 4.523173 TCACGTGTAAGAGTTTGAGGAGAT 59.477 41.667 16.51 0.00 0.00 2.75
86 88 4.623167 CACGTGTAAGAGTTTGAGGAGATG 59.377 45.833 7.58 0.00 0.00 2.90
87 89 4.523173 ACGTGTAAGAGTTTGAGGAGATGA 59.477 41.667 0.00 0.00 0.00 2.92
88 90 5.098893 CGTGTAAGAGTTTGAGGAGATGAG 58.901 45.833 0.00 0.00 0.00 2.90
89 91 5.336055 CGTGTAAGAGTTTGAGGAGATGAGT 60.336 44.000 0.00 0.00 0.00 3.41
90 92 5.866633 GTGTAAGAGTTTGAGGAGATGAGTG 59.133 44.000 0.00 0.00 0.00 3.51
91 93 5.775195 TGTAAGAGTTTGAGGAGATGAGTGA 59.225 40.000 0.00 0.00 0.00 3.41
92 94 5.815233 AAGAGTTTGAGGAGATGAGTGAA 57.185 39.130 0.00 0.00 0.00 3.18
93 95 5.146010 AGAGTTTGAGGAGATGAGTGAAC 57.854 43.478 0.00 0.00 0.00 3.18
94 96 4.837860 AGAGTTTGAGGAGATGAGTGAACT 59.162 41.667 0.00 0.00 0.00 3.01
95 97 5.047377 AGAGTTTGAGGAGATGAGTGAACTC 60.047 44.000 3.41 3.41 41.04 3.01
142 144 9.701098 AAACTACGAAAGATATGTGAGTTACAA 57.299 29.630 0.00 0.00 43.77 2.41
143 145 8.684973 ACTACGAAAGATATGTGAGTTACAAC 57.315 34.615 0.00 0.00 43.77 3.32
144 146 8.521176 ACTACGAAAGATATGTGAGTTACAACT 58.479 33.333 0.00 0.00 43.77 3.16
145 147 9.355215 CTACGAAAGATATGTGAGTTACAACTT 57.645 33.333 0.00 0.00 43.77 2.66
146 148 8.240883 ACGAAAGATATGTGAGTTACAACTTC 57.759 34.615 0.00 0.00 43.77 3.01
147 149 8.088981 ACGAAAGATATGTGAGTTACAACTTCT 58.911 33.333 0.00 0.00 43.77 2.85
148 150 8.587950 CGAAAGATATGTGAGTTACAACTTCTC 58.412 37.037 0.00 0.00 43.77 2.87
149 151 8.779354 AAAGATATGTGAGTTACAACTTCTCC 57.221 34.615 0.00 0.00 43.77 3.71
150 152 7.482169 AGATATGTGAGTTACAACTTCTCCA 57.518 36.000 0.00 0.00 43.77 3.86
151 153 7.907389 AGATATGTGAGTTACAACTTCTCCAA 58.093 34.615 0.00 0.00 43.77 3.53
152 154 8.037758 AGATATGTGAGTTACAACTTCTCCAAG 58.962 37.037 0.00 0.00 43.77 3.61
153 155 5.353394 TGTGAGTTACAACTTCTCCAAGT 57.647 39.130 0.00 0.00 45.43 3.16
154 156 6.474140 TGTGAGTTACAACTTCTCCAAGTA 57.526 37.500 0.00 0.00 42.45 2.24
155 157 6.880484 TGTGAGTTACAACTTCTCCAAGTAA 58.120 36.000 0.00 0.00 42.45 2.24
156 158 6.984474 TGTGAGTTACAACTTCTCCAAGTAAG 59.016 38.462 0.00 0.00 42.45 2.34
157 159 5.989777 TGAGTTACAACTTCTCCAAGTAAGC 59.010 40.000 0.00 0.00 42.45 3.09
158 160 5.925509 AGTTACAACTTCTCCAAGTAAGCA 58.074 37.500 0.00 0.00 42.45 3.91
159 161 6.534634 AGTTACAACTTCTCCAAGTAAGCAT 58.465 36.000 0.00 0.00 42.45 3.79
160 162 6.651225 AGTTACAACTTCTCCAAGTAAGCATC 59.349 38.462 0.00 0.00 42.45 3.91
161 163 5.234466 ACAACTTCTCCAAGTAAGCATCT 57.766 39.130 0.00 0.00 42.45 2.90
162 164 5.241662 ACAACTTCTCCAAGTAAGCATCTC 58.758 41.667 0.00 0.00 42.45 2.75
163 165 5.012561 ACAACTTCTCCAAGTAAGCATCTCT 59.987 40.000 0.00 0.00 42.45 3.10
164 166 5.753721 ACTTCTCCAAGTAAGCATCTCTT 57.246 39.130 0.00 0.00 41.39 2.85
165 167 5.729510 ACTTCTCCAAGTAAGCATCTCTTC 58.270 41.667 0.00 0.00 41.39 2.87
166 168 5.483583 ACTTCTCCAAGTAAGCATCTCTTCT 59.516 40.000 0.00 0.00 41.39 2.85
167 169 5.336150 TCTCCAAGTAAGCATCTCTTCTG 57.664 43.478 0.00 0.00 36.25 3.02
168 170 5.019470 TCTCCAAGTAAGCATCTCTTCTGA 58.981 41.667 0.00 0.00 36.25 3.27
169 171 5.126869 TCTCCAAGTAAGCATCTCTTCTGAG 59.873 44.000 0.00 0.00 41.51 3.35
170 172 4.774726 TCCAAGTAAGCATCTCTTCTGAGT 59.225 41.667 0.00 0.00 40.98 3.41
171 173 5.952347 TCCAAGTAAGCATCTCTTCTGAGTA 59.048 40.000 0.00 0.00 40.98 2.59
172 174 6.437477 TCCAAGTAAGCATCTCTTCTGAGTAA 59.563 38.462 0.00 0.00 40.98 2.24
173 175 7.124901 TCCAAGTAAGCATCTCTTCTGAGTAAT 59.875 37.037 0.00 0.00 40.98 1.89
174 176 8.417106 CCAAGTAAGCATCTCTTCTGAGTAATA 58.583 37.037 0.00 0.00 40.98 0.98
175 177 9.979578 CAAGTAAGCATCTCTTCTGAGTAATAT 57.020 33.333 0.00 0.00 40.98 1.28
221 223 8.707938 TCATCTAGATAATTGTCAGTGTGTTG 57.292 34.615 4.54 0.00 0.00 3.33
222 224 6.968131 TCTAGATAATTGTCAGTGTGTTGC 57.032 37.500 4.92 0.00 0.00 4.17
223 225 6.463360 TCTAGATAATTGTCAGTGTGTTGCA 58.537 36.000 4.92 0.00 0.00 4.08
224 226 6.934083 TCTAGATAATTGTCAGTGTGTTGCAA 59.066 34.615 4.92 0.00 0.00 4.08
225 227 6.579666 AGATAATTGTCAGTGTGTTGCAAT 57.420 33.333 0.59 0.00 0.00 3.56
226 228 6.384224 AGATAATTGTCAGTGTGTTGCAATG 58.616 36.000 0.59 0.00 43.81 2.82
227 229 2.867287 TTGTCAGTGTGTTGCAATGG 57.133 45.000 0.59 0.00 42.79 3.16
228 230 2.049888 TGTCAGTGTGTTGCAATGGA 57.950 45.000 0.59 0.00 42.79 3.41
229 231 2.373224 TGTCAGTGTGTTGCAATGGAA 58.627 42.857 0.59 0.00 42.79 3.53
230 232 2.957680 TGTCAGTGTGTTGCAATGGAAT 59.042 40.909 0.59 0.00 42.79 3.01
231 233 4.140536 TGTCAGTGTGTTGCAATGGAATA 58.859 39.130 0.59 0.00 42.79 1.75
232 234 4.766373 TGTCAGTGTGTTGCAATGGAATAT 59.234 37.500 0.59 0.00 42.79 1.28
233 235 5.942826 TGTCAGTGTGTTGCAATGGAATATA 59.057 36.000 0.59 0.00 42.79 0.86
234 236 6.602803 TGTCAGTGTGTTGCAATGGAATATAT 59.397 34.615 0.59 0.00 42.79 0.86
235 237 7.772757 TGTCAGTGTGTTGCAATGGAATATATA 59.227 33.333 0.59 0.00 42.79 0.86
236 238 8.786898 GTCAGTGTGTTGCAATGGAATATATAT 58.213 33.333 0.59 0.00 42.79 0.86
256 258 4.660789 ATATTCTAACACGTTAGCCCGT 57.339 40.909 11.35 0.00 41.63 5.28
263 265 2.168054 ACGTTAGCCCGTGATTTGC 58.832 52.632 0.00 0.00 40.08 3.68
264 266 1.303091 ACGTTAGCCCGTGATTTGCC 61.303 55.000 0.00 0.00 40.08 4.52
265 267 1.024579 CGTTAGCCCGTGATTTGCCT 61.025 55.000 0.00 0.00 0.00 4.75
266 268 0.451783 GTTAGCCCGTGATTTGCCTG 59.548 55.000 0.00 0.00 0.00 4.85
267 269 0.037590 TTAGCCCGTGATTTGCCTGT 59.962 50.000 0.00 0.00 0.00 4.00
268 270 0.906066 TAGCCCGTGATTTGCCTGTA 59.094 50.000 0.00 0.00 0.00 2.74
269 271 0.255890 AGCCCGTGATTTGCCTGTAT 59.744 50.000 0.00 0.00 0.00 2.29
270 272 1.488812 AGCCCGTGATTTGCCTGTATA 59.511 47.619 0.00 0.00 0.00 1.47
271 273 2.106511 AGCCCGTGATTTGCCTGTATAT 59.893 45.455 0.00 0.00 0.00 0.86
272 274 3.326588 AGCCCGTGATTTGCCTGTATATA 59.673 43.478 0.00 0.00 0.00 0.86
273 275 3.435671 GCCCGTGATTTGCCTGTATATAC 59.564 47.826 5.89 5.89 0.00 1.47
274 276 4.802918 GCCCGTGATTTGCCTGTATATACT 60.803 45.833 13.89 0.00 0.00 2.12
275 277 5.568023 GCCCGTGATTTGCCTGTATATACTA 60.568 44.000 13.89 0.45 0.00 1.82
276 278 6.460781 CCCGTGATTTGCCTGTATATACTAA 58.539 40.000 13.89 2.28 0.00 2.24
277 279 7.103641 CCCGTGATTTGCCTGTATATACTAAT 58.896 38.462 13.89 6.10 0.00 1.73
278 280 7.064609 CCCGTGATTTGCCTGTATATACTAATG 59.935 40.741 13.89 1.71 0.00 1.90
279 281 7.602644 CCGTGATTTGCCTGTATATACTAATGT 59.397 37.037 13.89 0.00 0.00 2.71
280 282 8.988934 CGTGATTTGCCTGTATATACTAATGTT 58.011 33.333 13.89 0.00 0.00 2.71
316 318 9.950680 ATAAATGTTTATAAAATCCTGCTCGTG 57.049 29.630 0.00 0.00 31.90 4.35
317 319 7.624360 AATGTTTATAAAATCCTGCTCGTGA 57.376 32.000 0.00 0.00 0.00 4.35
318 320 7.807977 ATGTTTATAAAATCCTGCTCGTGAT 57.192 32.000 0.00 0.00 0.00 3.06
319 321 7.624360 TGTTTATAAAATCCTGCTCGTGATT 57.376 32.000 0.00 0.00 32.72 2.57
320 322 8.050778 TGTTTATAAAATCCTGCTCGTGATTT 57.949 30.769 0.00 0.00 41.63 2.17
321 323 9.168451 TGTTTATAAAATCCTGCTCGTGATTTA 57.832 29.630 0.00 0.00 39.59 1.40
322 324 9.434559 GTTTATAAAATCCTGCTCGTGATTTAC 57.565 33.333 0.00 0.00 39.59 2.01
323 325 4.965119 AAAATCCTGCTCGTGATTTACC 57.035 40.909 0.00 0.00 39.59 2.85
324 326 3.914426 AATCCTGCTCGTGATTTACCT 57.086 42.857 0.00 0.00 0.00 3.08
325 327 5.353394 AAATCCTGCTCGTGATTTACCTA 57.647 39.130 0.00 0.00 38.93 3.08
326 328 5.552870 AATCCTGCTCGTGATTTACCTAT 57.447 39.130 0.00 0.00 0.00 2.57
327 329 4.585955 TCCTGCTCGTGATTTACCTATC 57.414 45.455 0.00 0.00 0.00 2.08
328 330 4.215908 TCCTGCTCGTGATTTACCTATCT 58.784 43.478 0.00 0.00 0.00 1.98
329 331 5.382616 TCCTGCTCGTGATTTACCTATCTA 58.617 41.667 0.00 0.00 0.00 1.98
330 332 5.831525 TCCTGCTCGTGATTTACCTATCTAA 59.168 40.000 0.00 0.00 0.00 2.10
331 333 6.322969 TCCTGCTCGTGATTTACCTATCTAAA 59.677 38.462 0.00 0.00 0.00 1.85
332 334 7.015292 TCCTGCTCGTGATTTACCTATCTAAAT 59.985 37.037 0.00 0.00 0.00 1.40
333 335 8.304596 CCTGCTCGTGATTTACCTATCTAAATA 58.695 37.037 0.00 0.00 0.00 1.40
334 336 9.692749 CTGCTCGTGATTTACCTATCTAAATAA 57.307 33.333 0.00 0.00 0.00 1.40
376 378 7.651027 ACAATTTATTGGCTTAGAGCATCTT 57.349 32.000 7.33 0.00 44.75 2.40
420 422 4.737353 AATAACGAACTTTTGGACCGTC 57.263 40.909 0.00 0.00 32.64 4.79
427 429 0.955919 CTTTTGGACCGTCTGAGGCC 60.956 60.000 0.00 0.00 33.69 5.19
440 442 1.363807 GAGGCCAAAAACGCAGCTT 59.636 52.632 5.01 0.00 0.00 3.74
507 511 5.539582 TGATGTAAAATACAACACCTCGC 57.460 39.130 0.00 0.00 42.76 5.03
666 1166 4.889856 CCGATGTCGCCCGCATCA 62.890 66.667 18.04 3.44 41.91 3.07
667 1167 3.333189 CGATGTCGCCCGCATCAG 61.333 66.667 18.04 10.99 41.91 2.90
668 1168 2.106938 GATGTCGCCCGCATCAGA 59.893 61.111 15.18 0.00 41.56 3.27
669 1169 1.301244 GATGTCGCCCGCATCAGAT 60.301 57.895 15.18 0.00 41.56 2.90
670 1170 1.287730 GATGTCGCCCGCATCAGATC 61.288 60.000 15.18 0.00 41.56 2.75
671 1171 2.663188 GTCGCCCGCATCAGATCC 60.663 66.667 0.00 0.00 0.00 3.36
672 1172 4.284860 TCGCCCGCATCAGATCCG 62.285 66.667 0.00 0.00 0.00 4.18
1320 1823 2.340078 GTCAGTGCTGGCGAGACA 59.660 61.111 0.00 0.00 0.00 3.41
1369 1872 2.406205 GAGCATCCGGAGTACGTCT 58.594 57.895 11.34 0.00 42.24 4.18
1497 2003 1.515020 CGAGGAAGACTGGGCAGAG 59.485 63.158 0.00 0.00 0.00 3.35
1506 2021 1.216710 CTGGGCAGAGTTCTCGGAC 59.783 63.158 4.32 0.93 0.00 4.79
1694 2394 9.182214 TGGACTAGTAGTATGTCGTTTTAAGAT 57.818 33.333 1.88 0.00 0.00 2.40
1874 2574 6.753913 ATCTATTGGAGATGCTCTTACCAA 57.246 37.500 0.00 0.00 43.71 3.67
1875 2575 6.560003 TCTATTGGAGATGCTCTTACCAAA 57.440 37.500 0.00 0.00 42.53 3.28
1876 2576 6.957631 TCTATTGGAGATGCTCTTACCAAAA 58.042 36.000 0.00 0.00 42.53 2.44
1877 2577 7.050377 TCTATTGGAGATGCTCTTACCAAAAG 58.950 38.462 0.00 0.00 42.53 2.27
1878 2578 4.908601 TGGAGATGCTCTTACCAAAAGA 57.091 40.909 0.00 0.00 0.00 2.52
1879 2579 5.241403 TGGAGATGCTCTTACCAAAAGAA 57.759 39.130 0.00 0.00 0.00 2.52
1880 2580 5.630121 TGGAGATGCTCTTACCAAAAGAAA 58.370 37.500 0.00 0.00 0.00 2.52
1881 2581 6.068010 TGGAGATGCTCTTACCAAAAGAAAA 58.932 36.000 0.00 0.00 0.00 2.29
1882 2582 6.016276 TGGAGATGCTCTTACCAAAAGAAAAC 60.016 38.462 0.00 0.00 0.00 2.43
1883 2583 6.016276 GGAGATGCTCTTACCAAAAGAAAACA 60.016 38.462 0.00 0.00 0.00 2.83
1884 2584 7.309438 GGAGATGCTCTTACCAAAAGAAAACAT 60.309 37.037 0.00 0.00 0.00 2.71
1885 2585 8.635765 AGATGCTCTTACCAAAAGAAAACATA 57.364 30.769 0.00 0.00 0.00 2.29
1886 2586 9.077885 AGATGCTCTTACCAAAAGAAAACATAA 57.922 29.630 0.00 0.00 0.00 1.90
1887 2587 9.346725 GATGCTCTTACCAAAAGAAAACATAAG 57.653 33.333 0.00 0.00 0.00 1.73
1888 2588 8.232913 TGCTCTTACCAAAAGAAAACATAAGT 57.767 30.769 0.00 0.00 0.00 2.24
1889 2589 8.691797 TGCTCTTACCAAAAGAAAACATAAGTT 58.308 29.630 0.00 0.00 40.40 2.66
1968 2668 4.566426 ATTCAAAACAGAGAGAGGGAGG 57.434 45.455 0.00 0.00 0.00 4.30
1972 2672 1.388174 AACAGAGAGAGGGAGGGAGA 58.612 55.000 0.00 0.00 0.00 3.71
1975 2675 2.107366 CAGAGAGAGGGAGGGAGAAAC 58.893 57.143 0.00 0.00 0.00 2.78
1976 2676 1.107945 GAGAGAGGGAGGGAGAAACG 58.892 60.000 0.00 0.00 0.00 3.60
2058 2758 0.399091 TAGTGGGGCATGGAGGAGAG 60.399 60.000 0.00 0.00 0.00 3.20
2060 2760 4.247380 GGGGCATGGAGGAGAGCG 62.247 72.222 0.00 0.00 0.00 5.03
2063 2763 3.859414 GCATGGAGGAGAGCGGCT 61.859 66.667 0.00 0.00 0.00 5.52
2066 2766 0.813210 CATGGAGGAGAGCGGCTTTC 60.813 60.000 11.80 11.80 0.00 2.62
2067 2767 1.267574 ATGGAGGAGAGCGGCTTTCA 61.268 55.000 20.44 2.90 0.00 2.69
2079 2779 2.045045 CTTTCATGCTCCCGGGCA 60.045 61.111 18.49 12.53 46.63 5.36
2087 2787 2.503061 CTCCCGGGCACAGATGAG 59.497 66.667 18.49 0.25 0.00 2.90
2105 2805 0.253327 AGCCCGGGCAAAAACAAAAA 59.747 45.000 45.13 0.00 44.88 1.94
2181 2881 1.157257 TGCTCGTGTGCGTGATGTTT 61.157 50.000 0.00 0.00 39.49 2.83
2193 2893 6.119502 GTGCGTGATGTTTGTGTAAAATTTG 58.880 36.000 0.00 0.00 0.00 2.32
2206 2906 5.751509 GTGTAAAATTTGGTGGAGTTTGGAC 59.248 40.000 0.00 0.00 0.00 4.02
2208 2908 4.400529 AAATTTGGTGGAGTTTGGACAC 57.599 40.909 0.00 0.00 0.00 3.67
2211 2911 1.208706 TGGTGGAGTTTGGACACTCA 58.791 50.000 3.39 0.00 44.53 3.41
2218 2918 0.868406 GTTTGGACACTCAAGGAGCG 59.132 55.000 0.00 0.00 32.04 5.03
2222 2922 2.356313 ACACTCAAGGAGCGCACG 60.356 61.111 11.47 0.00 32.04 5.34
2256 2960 7.661536 AATCAGCTCTATGAGTAAGGTTACA 57.338 36.000 2.83 0.00 36.12 2.41
2257 2961 7.661536 ATCAGCTCTATGAGTAAGGTTACAA 57.338 36.000 2.83 0.00 36.12 2.41
2258 2962 6.864342 TCAGCTCTATGAGTAAGGTTACAAC 58.136 40.000 2.83 0.00 36.12 3.32
2272 2976 3.123621 GGTTACAACTCATGCACTCTTCG 59.876 47.826 0.00 0.00 0.00 3.79
2273 2977 1.800805 ACAACTCATGCACTCTTCGG 58.199 50.000 0.00 0.00 0.00 4.30
2283 2987 2.552315 TGCACTCTTCGGACCAATTTTC 59.448 45.455 0.00 0.00 0.00 2.29
2285 2989 3.120165 GCACTCTTCGGACCAATTTTCTC 60.120 47.826 0.00 0.00 0.00 2.87
2288 2992 4.998033 ACTCTTCGGACCAATTTTCTCTTC 59.002 41.667 0.00 0.00 0.00 2.87
2293 2997 4.023193 TCGGACCAATTTTCTCTTCTTTGC 60.023 41.667 0.00 0.00 0.00 3.68
2310 3014 0.674581 TGCCACGAGCTCCTCAAATG 60.675 55.000 8.47 0.00 44.23 2.32
2319 3023 3.152341 AGCTCCTCAAATGTCCAAACAG 58.848 45.455 0.00 0.00 39.20 3.16
2343 3047 6.027749 GGATGAAATTTTACGTGGACATCAC 58.972 40.000 0.00 0.00 42.74 3.06
2344 3048 6.348950 GGATGAAATTTTACGTGGACATCACA 60.349 38.462 0.00 0.00 46.36 3.58
2348 3052 2.157834 TTACGTGGACATCACACACC 57.842 50.000 0.00 0.00 46.36 4.16
2358 3062 4.322725 GGACATCACACACCTGAACATCTA 60.323 45.833 0.00 0.00 0.00 1.98
2360 3064 3.678056 TCACACACCTGAACATCTACC 57.322 47.619 0.00 0.00 0.00 3.18
2364 3068 2.679837 CACACCTGAACATCTACCATGC 59.320 50.000 0.00 0.00 0.00 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
116 118 9.701098 TTGTAACTCACATATCTTTCGTAGTTT 57.299 29.630 0.00 0.00 36.90 2.66
117 119 9.136952 GTTGTAACTCACATATCTTTCGTAGTT 57.863 33.333 0.00 0.00 36.90 2.24
118 120 8.521176 AGTTGTAACTCACATATCTTTCGTAGT 58.479 33.333 0.00 0.00 36.90 2.73
119 121 8.912787 AGTTGTAACTCACATATCTTTCGTAG 57.087 34.615 0.00 0.00 36.90 3.51
120 122 9.350357 GAAGTTGTAACTCACATATCTTTCGTA 57.650 33.333 0.00 0.00 38.57 3.43
121 123 8.088981 AGAAGTTGTAACTCACATATCTTTCGT 58.911 33.333 0.00 0.00 38.57 3.85
122 124 8.467402 AGAAGTTGTAACTCACATATCTTTCG 57.533 34.615 0.00 0.00 38.57 3.46
123 125 8.874816 GGAGAAGTTGTAACTCACATATCTTTC 58.125 37.037 0.00 0.00 38.57 2.62
124 126 8.375506 TGGAGAAGTTGTAACTCACATATCTTT 58.624 33.333 0.00 0.00 38.57 2.52
125 127 7.907389 TGGAGAAGTTGTAACTCACATATCTT 58.093 34.615 0.00 0.00 38.57 2.40
126 128 7.482169 TGGAGAAGTTGTAACTCACATATCT 57.518 36.000 0.00 0.00 38.57 1.98
127 129 7.819900 ACTTGGAGAAGTTGTAACTCACATATC 59.180 37.037 0.00 0.00 39.56 1.63
128 130 7.680730 ACTTGGAGAAGTTGTAACTCACATAT 58.319 34.615 0.00 0.00 39.56 1.78
129 131 7.062749 ACTTGGAGAAGTTGTAACTCACATA 57.937 36.000 0.00 0.00 39.56 2.29
130 132 5.930135 ACTTGGAGAAGTTGTAACTCACAT 58.070 37.500 0.00 0.00 39.56 3.21
131 133 5.353394 ACTTGGAGAAGTTGTAACTCACA 57.647 39.130 0.00 0.00 39.56 3.58
132 134 6.073711 GCTTACTTGGAGAAGTTGTAACTCAC 60.074 42.308 0.00 0.00 39.56 3.51
133 135 5.989777 GCTTACTTGGAGAAGTTGTAACTCA 59.010 40.000 0.00 0.00 39.56 3.41
134 136 5.989777 TGCTTACTTGGAGAAGTTGTAACTC 59.010 40.000 0.00 0.00 39.56 3.01
135 137 5.925509 TGCTTACTTGGAGAAGTTGTAACT 58.074 37.500 0.00 0.00 39.56 2.24
136 138 6.651225 AGATGCTTACTTGGAGAAGTTGTAAC 59.349 38.462 0.00 0.00 39.56 2.50
137 139 6.769512 AGATGCTTACTTGGAGAAGTTGTAA 58.230 36.000 0.00 0.00 39.56 2.41
138 140 6.211584 AGAGATGCTTACTTGGAGAAGTTGTA 59.788 38.462 0.00 0.00 39.56 2.41
139 141 5.012561 AGAGATGCTTACTTGGAGAAGTTGT 59.987 40.000 0.00 0.00 39.56 3.32
140 142 5.486526 AGAGATGCTTACTTGGAGAAGTTG 58.513 41.667 0.00 0.00 39.56 3.16
141 143 5.753721 AGAGATGCTTACTTGGAGAAGTT 57.246 39.130 0.00 0.00 39.56 2.66
142 144 5.483583 AGAAGAGATGCTTACTTGGAGAAGT 59.516 40.000 0.00 0.00 44.90 3.01
143 145 5.811613 CAGAAGAGATGCTTACTTGGAGAAG 59.188 44.000 0.00 0.00 36.83 2.85
144 146 5.481824 TCAGAAGAGATGCTTACTTGGAGAA 59.518 40.000 0.00 0.00 36.83 2.87
145 147 5.019470 TCAGAAGAGATGCTTACTTGGAGA 58.981 41.667 0.00 0.00 36.83 3.71
146 148 5.105392 ACTCAGAAGAGATGCTTACTTGGAG 60.105 44.000 0.00 0.00 44.98 3.86
147 149 4.774726 ACTCAGAAGAGATGCTTACTTGGA 59.225 41.667 0.00 0.00 44.98 3.53
148 150 5.083533 ACTCAGAAGAGATGCTTACTTGG 57.916 43.478 0.00 0.00 44.98 3.61
149 151 9.979578 ATATTACTCAGAAGAGATGCTTACTTG 57.020 33.333 0.00 0.00 44.98 3.16
195 197 9.322773 CAACACACTGACAATTATCTAGATGAT 57.677 33.333 15.79 9.87 39.11 2.45
196 198 7.278646 GCAACACACTGACAATTATCTAGATGA 59.721 37.037 15.79 7.65 0.00 2.92
197 199 7.064966 TGCAACACACTGACAATTATCTAGATG 59.935 37.037 15.79 2.37 0.00 2.90
198 200 7.105588 TGCAACACACTGACAATTATCTAGAT 58.894 34.615 10.73 10.73 0.00 1.98
199 201 6.463360 TGCAACACACTGACAATTATCTAGA 58.537 36.000 0.00 0.00 0.00 2.43
200 202 6.726258 TGCAACACACTGACAATTATCTAG 57.274 37.500 0.00 0.00 0.00 2.43
201 203 7.361971 CCATTGCAACACACTGACAATTATCTA 60.362 37.037 0.00 0.00 30.70 1.98
202 204 6.384224 CATTGCAACACACTGACAATTATCT 58.616 36.000 0.00 0.00 30.70 1.98
203 205 5.574055 CCATTGCAACACACTGACAATTATC 59.426 40.000 0.00 0.00 30.70 1.75
204 206 5.243507 TCCATTGCAACACACTGACAATTAT 59.756 36.000 0.00 0.00 30.70 1.28
205 207 4.582240 TCCATTGCAACACACTGACAATTA 59.418 37.500 0.00 0.00 30.70 1.40
206 208 3.384146 TCCATTGCAACACACTGACAATT 59.616 39.130 0.00 0.00 30.70 2.32
207 209 2.957680 TCCATTGCAACACACTGACAAT 59.042 40.909 0.00 0.00 30.70 2.71
208 210 2.373224 TCCATTGCAACACACTGACAA 58.627 42.857 0.00 0.00 30.70 3.18
209 211 2.049888 TCCATTGCAACACACTGACA 57.950 45.000 0.00 0.00 30.70 3.58
210 212 3.648339 ATTCCATTGCAACACACTGAC 57.352 42.857 0.00 0.00 30.70 3.51
211 213 8.922931 ATATATATTCCATTGCAACACACTGA 57.077 30.769 0.00 0.00 30.70 3.41
230 232 9.177608 ACGGGCTAACGTGTTAGAATATATATA 57.822 33.333 20.87 0.00 46.64 0.86
231 233 8.059798 ACGGGCTAACGTGTTAGAATATATAT 57.940 34.615 20.87 0.00 46.64 0.86
232 234 7.452880 ACGGGCTAACGTGTTAGAATATATA 57.547 36.000 20.87 0.00 46.64 0.86
233 235 6.336842 ACGGGCTAACGTGTTAGAATATAT 57.663 37.500 20.87 1.26 46.64 0.86
234 236 5.772825 ACGGGCTAACGTGTTAGAATATA 57.227 39.130 20.87 0.00 46.64 0.86
235 237 4.660789 ACGGGCTAACGTGTTAGAATAT 57.339 40.909 20.87 3.37 46.64 1.28
246 248 1.024579 AGGCAAATCACGGGCTAACG 61.025 55.000 0.00 0.00 38.25 3.18
247 249 0.451783 CAGGCAAATCACGGGCTAAC 59.548 55.000 0.00 0.00 37.90 2.34
248 250 0.037590 ACAGGCAAATCACGGGCTAA 59.962 50.000 0.00 0.00 37.90 3.09
249 251 0.906066 TACAGGCAAATCACGGGCTA 59.094 50.000 0.00 0.00 37.90 3.93
250 252 0.255890 ATACAGGCAAATCACGGGCT 59.744 50.000 0.00 0.00 41.01 5.19
251 253 1.961793 TATACAGGCAAATCACGGGC 58.038 50.000 0.00 0.00 0.00 6.13
252 254 4.894784 AGTATATACAGGCAAATCACGGG 58.105 43.478 15.18 0.00 0.00 5.28
253 255 7.602644 ACATTAGTATATACAGGCAAATCACGG 59.397 37.037 15.18 0.00 0.00 4.94
254 256 8.534333 ACATTAGTATATACAGGCAAATCACG 57.466 34.615 15.18 0.00 0.00 4.35
290 292 9.950680 CACGAGCAGGATTTTATAAACATTTAT 57.049 29.630 0.00 2.60 37.19 1.40
291 293 9.168451 TCACGAGCAGGATTTTATAAACATTTA 57.832 29.630 0.00 0.00 0.00 1.40
292 294 8.050778 TCACGAGCAGGATTTTATAAACATTT 57.949 30.769 0.00 0.00 0.00 2.32
293 295 7.624360 TCACGAGCAGGATTTTATAAACATT 57.376 32.000 0.00 0.00 0.00 2.71
294 296 7.807977 ATCACGAGCAGGATTTTATAAACAT 57.192 32.000 0.00 0.00 0.00 2.71
295 297 7.624360 AATCACGAGCAGGATTTTATAAACA 57.376 32.000 0.00 0.00 29.77 2.83
296 298 9.434559 GTAAATCACGAGCAGGATTTTATAAAC 57.565 33.333 0.00 0.00 42.17 2.01
297 299 8.617809 GGTAAATCACGAGCAGGATTTTATAAA 58.382 33.333 5.11 0.00 42.17 1.40
298 300 7.990886 AGGTAAATCACGAGCAGGATTTTATAA 59.009 33.333 5.11 0.00 42.17 0.98
299 301 7.506114 AGGTAAATCACGAGCAGGATTTTATA 58.494 34.615 5.11 0.00 42.17 0.98
300 302 6.357367 AGGTAAATCACGAGCAGGATTTTAT 58.643 36.000 5.11 0.00 42.17 1.40
301 303 5.741011 AGGTAAATCACGAGCAGGATTTTA 58.259 37.500 5.11 0.00 42.17 1.52
302 304 4.589908 AGGTAAATCACGAGCAGGATTTT 58.410 39.130 5.11 0.00 42.17 1.82
303 305 4.222124 AGGTAAATCACGAGCAGGATTT 57.778 40.909 0.00 0.00 43.84 2.17
304 306 3.914426 AGGTAAATCACGAGCAGGATT 57.086 42.857 0.00 0.00 35.34 3.01
305 307 4.835615 AGATAGGTAAATCACGAGCAGGAT 59.164 41.667 0.00 0.00 0.00 3.24
306 308 4.215908 AGATAGGTAAATCACGAGCAGGA 58.784 43.478 0.00 0.00 0.00 3.86
307 309 4.592485 AGATAGGTAAATCACGAGCAGG 57.408 45.455 0.00 0.00 0.00 4.85
308 310 9.692749 TTATTTAGATAGGTAAATCACGAGCAG 57.307 33.333 0.00 0.00 34.93 4.24
345 347 9.801873 GCTCTAAGCCAATAAATTGTTATCAAA 57.198 29.630 2.25 0.00 34.51 2.69
346 348 8.965819 TGCTCTAAGCCAATAAATTGTTATCAA 58.034 29.630 2.25 0.00 41.51 2.57
347 349 8.518430 TGCTCTAAGCCAATAAATTGTTATCA 57.482 30.769 2.25 0.00 41.51 2.15
348 350 9.617975 GATGCTCTAAGCCAATAAATTGTTATC 57.382 33.333 2.25 0.00 41.51 1.75
349 351 9.359653 AGATGCTCTAAGCCAATAAATTGTTAT 57.640 29.630 2.25 0.00 41.51 1.89
350 352 8.752005 AGATGCTCTAAGCCAATAAATTGTTA 57.248 30.769 2.25 0.00 41.51 2.41
351 353 7.651027 AGATGCTCTAAGCCAATAAATTGTT 57.349 32.000 2.25 0.00 41.51 2.83
352 354 7.340232 TGAAGATGCTCTAAGCCAATAAATTGT 59.660 33.333 2.25 0.00 41.51 2.71
353 355 7.709947 TGAAGATGCTCTAAGCCAATAAATTG 58.290 34.615 0.00 0.00 41.51 2.32
354 356 7.886629 TGAAGATGCTCTAAGCCAATAAATT 57.113 32.000 0.00 0.00 41.51 1.82
355 357 7.886629 TTGAAGATGCTCTAAGCCAATAAAT 57.113 32.000 0.00 0.00 41.51 1.40
356 358 7.886629 ATTGAAGATGCTCTAAGCCAATAAA 57.113 32.000 0.00 0.00 41.51 1.40
357 359 8.432013 TCTATTGAAGATGCTCTAAGCCAATAA 58.568 33.333 0.00 0.00 41.51 1.40
358 360 7.966812 TCTATTGAAGATGCTCTAAGCCAATA 58.033 34.615 0.00 0.00 41.51 1.90
359 361 6.835174 TCTATTGAAGATGCTCTAAGCCAAT 58.165 36.000 0.00 0.00 41.51 3.16
360 362 6.239217 TCTATTGAAGATGCTCTAAGCCAA 57.761 37.500 0.00 0.00 41.51 4.52
361 363 5.876651 TCTATTGAAGATGCTCTAAGCCA 57.123 39.130 0.00 0.00 41.51 4.75
401 403 3.125316 CAGACGGTCCAAAAGTTCGTTA 58.875 45.455 4.14 0.00 34.06 3.18
405 407 2.143925 CCTCAGACGGTCCAAAAGTTC 58.856 52.381 4.14 0.00 0.00 3.01
420 422 1.372128 GCTGCGTTTTTGGCCTCAG 60.372 57.895 3.32 1.19 0.00 3.35
427 429 2.531508 GTCTGTTGAAGCTGCGTTTTTG 59.468 45.455 0.00 0.00 0.00 2.44
440 442 5.408880 TTTACATATGGACCGTCTGTTGA 57.591 39.130 9.78 0.00 0.00 3.18
469 471 4.899239 CATGAGGAGGCCGCGGTC 62.899 72.222 25.39 25.39 0.00 4.79
484 488 5.220586 CGCGAGGTGTTGTATTTTACATCAT 60.221 40.000 0.00 0.00 39.66 2.45
507 511 6.464311 CATCTCGTGATGTATATTTGCATCG 58.536 40.000 17.30 0.84 45.03 3.84
573 577 2.514803 CGGGAAAGGAAATGAAGTGGT 58.485 47.619 0.00 0.00 0.00 4.16
652 1152 1.301244 GATCTGATGCGGGCGACAT 60.301 57.895 0.00 0.00 0.00 3.06
653 1153 2.106938 GATCTGATGCGGGCGACA 59.893 61.111 0.00 0.00 0.00 4.35
654 1154 2.663188 GGATCTGATGCGGGCGAC 60.663 66.667 0.00 0.00 0.00 5.19
655 1155 4.284860 CGGATCTGATGCGGGCGA 62.285 66.667 21.75 0.00 40.62 5.54
1034 1534 2.261671 GCCTCACGCCGAAGAAGA 59.738 61.111 0.00 0.00 0.00 2.87
1180 1680 1.070786 GGAAGTTGAGGTGCGACCA 59.929 57.895 7.86 0.00 41.95 4.02
1320 1823 3.532155 GCCATCGCCTCCTCGTCT 61.532 66.667 0.00 0.00 0.00 4.18
1369 1872 0.841961 TAGTACTCCAGCTCGGCCTA 59.158 55.000 0.00 0.00 33.14 3.93
1485 1991 1.254284 CCGAGAACTCTGCCCAGTCT 61.254 60.000 0.41 0.00 0.00 3.24
1497 2003 1.378124 CCTCCTCCTCGTCCGAGAAC 61.378 65.000 17.73 0.00 44.53 3.01
1506 2021 2.197324 CCCTCCTCCTCCTCCTCG 59.803 72.222 0.00 0.00 0.00 4.63
1645 2345 8.298854 TCCATTCAACATAGTTCAAACATCAAG 58.701 33.333 0.00 0.00 0.00 3.02
1694 2394 6.602410 TGGTCCAAAATGAAGATGCAAATA 57.398 33.333 0.00 0.00 0.00 1.40
1699 2399 4.996788 AGATGGTCCAAAATGAAGATGC 57.003 40.909 0.00 0.00 0.00 3.91
1928 2628 9.759473 TTTTGAATTTTTCCCTCTATCTCTGAT 57.241 29.630 0.00 0.00 0.00 2.90
1944 2644 5.772169 CCTCCCTCTCTCTGTTTTGAATTTT 59.228 40.000 0.00 0.00 0.00 1.82
1968 2668 4.628766 GTCCAACCTTACATACGTTTCTCC 59.371 45.833 0.00 0.00 0.00 3.71
1972 2672 5.278120 GCTTTGTCCAACCTTACATACGTTT 60.278 40.000 0.00 0.00 0.00 3.60
1975 2675 3.749088 TGCTTTGTCCAACCTTACATACG 59.251 43.478 0.00 0.00 0.00 3.06
1976 2676 4.760204 AGTGCTTTGTCCAACCTTACATAC 59.240 41.667 0.00 0.00 0.00 2.39
2036 2736 2.090210 TCTCCTCCATGCCCCACTAATA 60.090 50.000 0.00 0.00 0.00 0.98
2046 2746 2.883267 AAAGCCGCTCTCCTCCATGC 62.883 60.000 0.00 0.00 0.00 4.06
2058 2758 3.880846 CGGGAGCATGAAAGCCGC 61.881 66.667 0.00 0.00 34.23 6.53
2060 2760 2.830370 CCCGGGAGCATGAAAGCC 60.830 66.667 18.48 0.00 34.23 4.35
2063 2763 2.361104 GTGCCCGGGAGCATGAAA 60.361 61.111 29.31 0.00 46.24 2.69
2066 2766 3.411114 ATCTGTGCCCGGGAGCATG 62.411 63.158 29.31 14.80 46.24 4.06
2067 2767 3.092511 ATCTGTGCCCGGGAGCAT 61.093 61.111 29.31 4.67 46.24 3.79
2079 2779 2.424842 TTTTGCCCGGGCTCATCTGT 62.425 55.000 43.34 0.00 42.51 3.41
2087 2787 2.781911 TTTTTGTTTTTGCCCGGGC 58.218 47.368 39.40 39.40 42.35 6.13
2139 2839 6.205071 CAACTTGCCCGCAAATTTTATTTTT 58.795 32.000 3.37 0.00 35.33 1.94
2140 2840 5.756849 CAACTTGCCCGCAAATTTTATTTT 58.243 33.333 3.37 0.00 35.33 1.82
2141 2841 4.320129 GCAACTTGCCCGCAAATTTTATTT 60.320 37.500 1.95 0.00 37.42 1.40
2142 2842 3.188254 GCAACTTGCCCGCAAATTTTATT 59.812 39.130 1.95 0.00 37.42 1.40
2143 2843 2.741517 GCAACTTGCCCGCAAATTTTAT 59.258 40.909 1.95 0.00 37.42 1.40
2144 2844 2.139118 GCAACTTGCCCGCAAATTTTA 58.861 42.857 1.95 0.00 37.42 1.52
2145 2845 0.943673 GCAACTTGCCCGCAAATTTT 59.056 45.000 1.95 0.00 37.42 1.82
2146 2846 0.106521 AGCAACTTGCCCGCAAATTT 59.893 45.000 10.25 0.00 46.52 1.82
2147 2847 0.319813 GAGCAACTTGCCCGCAAATT 60.320 50.000 10.25 0.00 46.52 1.82
2148 2848 1.290009 GAGCAACTTGCCCGCAAAT 59.710 52.632 10.25 0.00 46.52 2.32
2149 2849 2.727544 GAGCAACTTGCCCGCAAA 59.272 55.556 10.25 0.00 46.52 3.68
2150 2850 3.659092 CGAGCAACTTGCCCGCAA 61.659 61.111 10.25 1.58 46.52 4.85
2154 2854 2.639286 CACACGAGCAACTTGCCC 59.361 61.111 10.25 0.00 46.52 5.36
2155 2855 2.050985 GCACACGAGCAACTTGCC 60.051 61.111 10.25 1.59 46.52 4.52
2161 2861 1.157257 AACATCACGCACACGAGCAA 61.157 50.000 0.00 0.00 43.93 3.91
2181 2881 5.422331 TCCAAACTCCACCAAATTTTACACA 59.578 36.000 0.00 0.00 0.00 3.72
2193 2893 2.222027 CTTGAGTGTCCAAACTCCACC 58.778 52.381 2.12 0.00 45.03 4.61
2206 2906 2.049156 TCGTGCGCTCCTTGAGTG 60.049 61.111 9.73 0.37 42.38 3.51
2208 2908 1.221466 TTTGTCGTGCGCTCCTTGAG 61.221 55.000 9.73 0.00 0.00 3.02
2211 2911 2.399856 TTTTTGTCGTGCGCTCCTT 58.600 47.368 9.73 0.00 0.00 3.36
2231 2931 8.079211 TGTAACCTTACTCATAGAGCTGATTT 57.921 34.615 0.00 0.00 34.77 2.17
2234 2934 6.663953 AGTTGTAACCTTACTCATAGAGCTGA 59.336 38.462 0.00 0.00 34.77 4.26
2235 2935 6.868622 AGTTGTAACCTTACTCATAGAGCTG 58.131 40.000 0.00 0.00 34.77 4.24
2237 2937 6.864342 TGAGTTGTAACCTTACTCATAGAGC 58.136 40.000 0.00 0.00 42.31 4.09
2256 2960 1.338200 GGTCCGAAGAGTGCATGAGTT 60.338 52.381 0.00 0.00 0.00 3.01
2257 2961 0.247736 GGTCCGAAGAGTGCATGAGT 59.752 55.000 0.00 0.00 0.00 3.41
2258 2962 0.247460 TGGTCCGAAGAGTGCATGAG 59.753 55.000 0.00 0.00 0.00 2.90
2272 2976 4.039124 TGGCAAAGAAGAGAAAATTGGTCC 59.961 41.667 0.00 0.00 0.00 4.46
2273 2977 4.984785 GTGGCAAAGAAGAGAAAATTGGTC 59.015 41.667 0.00 0.00 0.00 4.02
2283 2987 1.074752 GAGCTCGTGGCAAAGAAGAG 58.925 55.000 0.00 2.38 44.79 2.85
2285 2989 0.321122 AGGAGCTCGTGGCAAAGAAG 60.321 55.000 8.40 0.00 44.79 2.85
2288 2992 0.603707 TTGAGGAGCTCGTGGCAAAG 60.604 55.000 14.78 0.00 44.79 2.77
2293 2997 1.363744 GACATTTGAGGAGCTCGTGG 58.636 55.000 14.78 0.79 32.35 4.94
2319 3023 6.027749 GTGATGTCCACGTAAAATTTCATCC 58.972 40.000 8.78 0.49 35.86 3.51
2333 3037 1.873591 GTTCAGGTGTGTGATGTCCAC 59.126 52.381 0.00 0.00 45.88 4.02
2343 3047 2.679837 GCATGGTAGATGTTCAGGTGTG 59.320 50.000 0.00 0.00 0.00 3.82
2344 3048 2.305635 TGCATGGTAGATGTTCAGGTGT 59.694 45.455 0.00 0.00 0.00 4.16


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

AutoCloner maintained by Alex Coulton.