Multiple sequence alignment - TraesCS5D01G289800

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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 TraesCS5D01G289800 chr5D 100.000 3299 0 0 1 3299 388330402 388333700 0.000000e+00 6093.0
1 TraesCS5D01G289800 chr5D 91.528 2408 160 21 324 2715 388588432 388590811 0.000000e+00 3277.0
2 TraesCS5D01G289800 chr5D 91.563 1363 87 17 904 2265 388423605 388422270 0.000000e+00 1855.0
3 TraesCS5D01G289800 chr5D 91.667 48 2 1 6 51 388539310 388539357 7.640000e-07 65.8
4 TraesCS5D01G289800 chr5A 93.451 2993 149 19 324 3299 491368304 491371266 0.000000e+00 4397.0
5 TraesCS5D01G289800 chr5A 90.429 2424 189 21 324 2715 491521502 491523914 0.000000e+00 3151.0
6 TraesCS5D01G289800 chr5A 90.072 1662 131 22 904 2564 491319265 491317637 0.000000e+00 2124.0
7 TraesCS5D01G289800 chr5A 85.333 75 9 2 3227 3299 491524357 491524431 3.530000e-10 76.8
8 TraesCS5D01G289800 chr6D 92.146 2381 157 18 348 2715 106891344 106893707 0.000000e+00 3334.0
9 TraesCS5D01G289800 chr6A 90.928 2348 180 17 387 2715 130405139 130407472 0.000000e+00 3125.0
10 TraesCS5D01G289800 chr5B 93.713 1177 49 9 1481 2650 466974228 466975386 0.000000e+00 1740.0
11 TraesCS5D01G289800 chr5B 92.323 1016 66 7 578 1589 466973234 466974241 0.000000e+00 1434.0
12 TraesCS5D01G289800 chr5B 96.056 355 13 1 2649 3003 466975477 466975830 7.940000e-161 577.0
13 TraesCS5D01G289800 chr5B 95.177 311 11 3 324 632 466972930 466973238 3.830000e-134 488.0
14 TraesCS5D01G289800 chr5B 87.797 295 25 5 72 360 27166822 27167111 5.270000e-88 335.0
15 TraesCS5D01G289800 chr5B 87.248 298 24 5 72 360 159526923 159526631 8.830000e-86 327.0
16 TraesCS5D01G289800 chr5B 87.119 295 27 4 72 360 396661583 396661872 1.140000e-84 324.0
17 TraesCS5D01G289800 chr1D 89.933 298 21 8 72 360 198055590 198055887 3.110000e-100 375.0
18 TraesCS5D01G289800 chr2D 87.797 295 25 4 72 360 611504283 611504572 5.270000e-88 335.0
19 TraesCS5D01G289800 chr2D 84.615 65 8 2 702 764 3759497 3759433 2.750000e-06 63.9
20 TraesCS5D01G289800 chr3D 88.849 278 20 4 89 360 540545205 540545477 6.820000e-87 331.0
21 TraesCS5D01G289800 chr3D 87.629 97 7 4 326 418 605343448 605343543 1.250000e-19 108.0
22 TraesCS5D01G289800 chr3D 88.060 67 6 2 2416 2481 576314074 576314009 9.810000e-11 78.7
23 TraesCS5D01G289800 chr3D 97.143 35 1 0 3113 3147 69853479 69853513 3.560000e-05 60.2
24 TraesCS5D01G289800 chr6B 87.458 295 26 4 72 360 411545542 411545831 2.450000e-86 329.0
25 TraesCS5D01G289800 chr6B 100.000 28 0 0 3196 3223 365708216 365708243 6.000000e-03 52.8
26 TraesCS5D01G289800 chr3B 87.458 295 26 4 72 360 642967489 642967778 2.450000e-86 329.0
27 TraesCS5D01G289800 chr1B 86.780 295 28 4 72 360 146573603 146573314 5.310000e-83 318.0
28 TraesCS5D01G289800 chr1B 94.872 39 2 0 3189 3227 314565417 314565455 9.880000e-06 62.1
29 TraesCS5D01G289800 chr1B 97.059 34 1 0 3189 3222 139366462 139366495 1.280000e-04 58.4
30 TraesCS5D01G289800 chr4B 85.441 261 24 8 142 395 586458096 586458349 3.270000e-65 259.0
31 TraesCS5D01G289800 chr4B 88.660 97 7 3 325 418 88906804 88906709 7.480000e-22 115.0
32 TraesCS5D01G289800 chr1A 82.906 117 15 4 326 439 582704953 582704839 2.090000e-17 100.0
33 TraesCS5D01G289800 chr4D 91.379 58 3 2 693 750 378272715 378272660 9.810000e-11 78.7
34 TraesCS5D01G289800 chr4D 78.218 101 15 6 3122 3216 506702425 506702524 1.280000e-04 58.4
35 TraesCS5D01G289800 chr4A 87.692 65 7 1 701 764 60654290 60654226 1.270000e-09 75.0
36 TraesCS5D01G289800 chr7D 97.143 35 1 0 3188 3222 364125823 364125857 3.560000e-05 60.2


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 TraesCS5D01G289800 chr5D 388330402 388333700 3298 False 6093.00 6093 100.00000 1 3299 1 chr5D.!!$F1 3298
1 TraesCS5D01G289800 chr5D 388588432 388590811 2379 False 3277.00 3277 91.52800 324 2715 1 chr5D.!!$F3 2391
2 TraesCS5D01G289800 chr5D 388422270 388423605 1335 True 1855.00 1855 91.56300 904 2265 1 chr5D.!!$R1 1361
3 TraesCS5D01G289800 chr5A 491368304 491371266 2962 False 4397.00 4397 93.45100 324 3299 1 chr5A.!!$F1 2975
4 TraesCS5D01G289800 chr5A 491317637 491319265 1628 True 2124.00 2124 90.07200 904 2564 1 chr5A.!!$R1 1660
5 TraesCS5D01G289800 chr5A 491521502 491524431 2929 False 1613.90 3151 87.88100 324 3299 2 chr5A.!!$F2 2975
6 TraesCS5D01G289800 chr6D 106891344 106893707 2363 False 3334.00 3334 92.14600 348 2715 1 chr6D.!!$F1 2367
7 TraesCS5D01G289800 chr6A 130405139 130407472 2333 False 3125.00 3125 90.92800 387 2715 1 chr6A.!!$F1 2328
8 TraesCS5D01G289800 chr5B 466972930 466975830 2900 False 1059.75 1740 94.31725 324 3003 4 chr5B.!!$F3 2679

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
819 897 0.108377 CGTTGGATCGACATGGGTGA 60.108 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2606 2798 0.899019 TGGGATTGCTACACACGCTA 59.101 50.0 0.0 0.0 0.0 4.26 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 2.584791 CTTAAACGCATGTGACAAGGC 58.415 47.619 14.43 2.92 0.00 4.35
21 22 1.890876 TAAACGCATGTGACAAGGCT 58.109 45.000 14.43 0.00 0.00 4.58
22 23 0.311790 AAACGCATGTGACAAGGCTG 59.688 50.000 14.43 6.87 0.00 4.85
23 24 2.133742 AACGCATGTGACAAGGCTGC 62.134 55.000 14.43 5.12 0.00 5.25
24 25 2.330372 CGCATGTGACAAGGCTGCT 61.330 57.895 0.00 0.00 0.00 4.24
25 26 1.505353 GCATGTGACAAGGCTGCTC 59.495 57.895 0.00 0.00 0.00 4.26
26 27 1.792301 CATGTGACAAGGCTGCTCG 59.208 57.895 0.00 0.00 0.00 5.03
27 28 0.952497 CATGTGACAAGGCTGCTCGT 60.952 55.000 0.00 0.00 0.00 4.18
28 29 0.608130 ATGTGACAAGGCTGCTCGTA 59.392 50.000 0.00 0.00 0.00 3.43
29 30 0.391228 TGTGACAAGGCTGCTCGTAA 59.609 50.000 0.00 0.00 0.00 3.18
30 31 1.001974 TGTGACAAGGCTGCTCGTAAT 59.998 47.619 0.00 0.00 0.00 1.89
31 32 1.394917 GTGACAAGGCTGCTCGTAATG 59.605 52.381 0.00 0.00 0.00 1.90
32 33 1.275010 TGACAAGGCTGCTCGTAATGA 59.725 47.619 0.00 0.00 0.00 2.57
47 48 6.856135 TCGTAATGAGAGTATCACGTATGT 57.144 37.500 0.00 0.00 41.91 2.29
48 49 6.885247 TCGTAATGAGAGTATCACGTATGTC 58.115 40.000 0.00 0.00 41.91 3.06
49 50 6.480981 TCGTAATGAGAGTATCACGTATGTCA 59.519 38.462 0.00 0.00 41.91 3.58
50 51 7.011669 TCGTAATGAGAGTATCACGTATGTCAA 59.988 37.037 0.00 0.00 41.91 3.18
51 52 7.642586 CGTAATGAGAGTATCACGTATGTCAAA 59.357 37.037 0.00 0.00 41.91 2.69
52 53 7.993821 AATGAGAGTATCACGTATGTCAAAG 57.006 36.000 0.00 0.00 41.91 2.77
53 54 6.753107 TGAGAGTATCACGTATGTCAAAGA 57.247 37.500 0.00 0.00 37.82 2.52
54 55 6.786207 TGAGAGTATCACGTATGTCAAAGAG 58.214 40.000 0.00 0.00 37.82 2.85
55 56 6.598064 TGAGAGTATCACGTATGTCAAAGAGA 59.402 38.462 0.00 0.00 37.82 3.10
56 57 7.283354 TGAGAGTATCACGTATGTCAAAGAGAT 59.717 37.037 0.00 0.00 37.82 2.75
57 58 8.678593 AGAGTATCACGTATGTCAAAGAGATA 57.321 34.615 0.00 0.00 37.82 1.98
58 59 9.121658 AGAGTATCACGTATGTCAAAGAGATAA 57.878 33.333 0.00 0.00 37.82 1.75
59 60 9.900710 GAGTATCACGTATGTCAAAGAGATAAT 57.099 33.333 0.00 0.00 33.17 1.28
71 72 9.733556 TGTCAAAGAGATAATTTTAGTAAGGCA 57.266 29.630 0.00 0.00 0.00 4.75
76 77 9.444600 AAGAGATAATTTTAGTAAGGCAAACGA 57.555 29.630 0.00 0.00 0.00 3.85
77 78 9.444600 AGAGATAATTTTAGTAAGGCAAACGAA 57.555 29.630 0.00 0.00 0.00 3.85
78 79 9.704098 GAGATAATTTTAGTAAGGCAAACGAAG 57.296 33.333 0.00 0.00 0.00 3.79
79 80 9.444600 AGATAATTTTAGTAAGGCAAACGAAGA 57.555 29.630 0.00 0.00 0.00 2.87
83 84 9.589111 AATTTTAGTAAGGCAAACGAAGAAAAA 57.411 25.926 0.00 0.00 0.00 1.94
84 85 8.623310 TTTTAGTAAGGCAAACGAAGAAAAAG 57.377 30.769 0.00 0.00 0.00 2.27
85 86 7.556733 TTAGTAAGGCAAACGAAGAAAAAGA 57.443 32.000 0.00 0.00 0.00 2.52
86 87 6.061231 AGTAAGGCAAACGAAGAAAAAGAG 57.939 37.500 0.00 0.00 0.00 2.85
87 88 3.990318 AGGCAAACGAAGAAAAAGAGG 57.010 42.857 0.00 0.00 0.00 3.69
88 89 2.623416 AGGCAAACGAAGAAAAAGAGGG 59.377 45.455 0.00 0.00 0.00 4.30
89 90 2.361119 GGCAAACGAAGAAAAAGAGGGT 59.639 45.455 0.00 0.00 0.00 4.34
90 91 3.181479 GGCAAACGAAGAAAAAGAGGGTT 60.181 43.478 0.00 0.00 0.00 4.11
91 92 4.037089 GGCAAACGAAGAAAAAGAGGGTTA 59.963 41.667 0.00 0.00 0.00 2.85
92 93 5.450826 GGCAAACGAAGAAAAAGAGGGTTAA 60.451 40.000 0.00 0.00 0.00 2.01
93 94 5.685954 GCAAACGAAGAAAAAGAGGGTTAAG 59.314 40.000 0.00 0.00 0.00 1.85
94 95 6.679638 GCAAACGAAGAAAAAGAGGGTTAAGT 60.680 38.462 0.00 0.00 0.00 2.24
95 96 7.467675 GCAAACGAAGAAAAAGAGGGTTAAGTA 60.468 37.037 0.00 0.00 0.00 2.24
96 97 8.565416 CAAACGAAGAAAAAGAGGGTTAAGTAT 58.435 33.333 0.00 0.00 0.00 2.12
97 98 7.902387 ACGAAGAAAAAGAGGGTTAAGTATC 57.098 36.000 0.00 0.00 0.00 2.24
98 99 7.447594 ACGAAGAAAAAGAGGGTTAAGTATCA 58.552 34.615 0.00 0.00 0.00 2.15
99 100 8.101419 ACGAAGAAAAAGAGGGTTAAGTATCAT 58.899 33.333 0.00 0.00 0.00 2.45
100 101 9.595823 CGAAGAAAAAGAGGGTTAAGTATCATA 57.404 33.333 0.00 0.00 0.00 2.15
146 147 8.904099 AAATAATGTACTAGTATGGGTCTTGC 57.096 34.615 5.75 0.00 0.00 4.01
147 148 5.950544 AATGTACTAGTATGGGTCTTGCA 57.049 39.130 5.75 0.00 0.00 4.08
148 149 6.500589 AATGTACTAGTATGGGTCTTGCAT 57.499 37.500 5.75 0.00 0.00 3.96
149 150 5.276461 TGTACTAGTATGGGTCTTGCATG 57.724 43.478 5.75 0.00 0.00 4.06
150 151 3.845781 ACTAGTATGGGTCTTGCATGG 57.154 47.619 0.00 0.00 0.00 3.66
151 152 2.158755 ACTAGTATGGGTCTTGCATGGC 60.159 50.000 0.00 0.00 0.00 4.40
152 153 0.625316 AGTATGGGTCTTGCATGGCA 59.375 50.000 6.53 0.00 36.47 4.92
153 154 1.005805 AGTATGGGTCTTGCATGGCAA 59.994 47.619 6.53 3.40 46.80 4.52
167 168 6.588719 TGCATGGCAATAAATAATACTCCC 57.411 37.500 0.00 0.00 34.76 4.30
168 169 6.314120 TGCATGGCAATAAATAATACTCCCT 58.686 36.000 0.00 0.00 34.76 4.20
169 170 6.434028 TGCATGGCAATAAATAATACTCCCTC 59.566 38.462 0.00 0.00 34.76 4.30
170 171 6.127619 GCATGGCAATAAATAATACTCCCTCC 60.128 42.308 0.00 0.00 0.00 4.30
171 172 5.556915 TGGCAATAAATAATACTCCCTCCG 58.443 41.667 0.00 0.00 0.00 4.63
172 173 5.072600 TGGCAATAAATAATACTCCCTCCGT 59.927 40.000 0.00 0.00 0.00 4.69
173 174 6.002082 GGCAATAAATAATACTCCCTCCGTT 58.998 40.000 0.00 0.00 0.00 4.44
174 175 6.148976 GGCAATAAATAATACTCCCTCCGTTC 59.851 42.308 0.00 0.00 0.00 3.95
175 176 6.148976 GCAATAAATAATACTCCCTCCGTTCC 59.851 42.308 0.00 0.00 0.00 3.62
176 177 7.450903 CAATAAATAATACTCCCTCCGTTCCT 58.549 38.462 0.00 0.00 0.00 3.36
177 178 8.591072 CAATAAATAATACTCCCTCCGTTCCTA 58.409 37.037 0.00 0.00 0.00 2.94
178 179 8.731591 ATAAATAATACTCCCTCCGTTCCTAA 57.268 34.615 0.00 0.00 0.00 2.69
179 180 7.441903 AAATAATACTCCCTCCGTTCCTAAA 57.558 36.000 0.00 0.00 0.00 1.85
180 181 7.628501 AATAATACTCCCTCCGTTCCTAAAT 57.371 36.000 0.00 0.00 0.00 1.40
181 182 8.731591 AATAATACTCCCTCCGTTCCTAAATA 57.268 34.615 0.00 0.00 0.00 1.40
182 183 8.912614 ATAATACTCCCTCCGTTCCTAAATAT 57.087 34.615 0.00 0.00 0.00 1.28
183 184 7.628501 AATACTCCCTCCGTTCCTAAATATT 57.371 36.000 0.00 0.00 0.00 1.28
184 185 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
185 186 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
186 187 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
187 188 6.069705 TCCCTCCGTTCCTAAATATTTGTT 57.930 37.500 11.05 0.00 0.00 2.83
188 189 6.486941 TCCCTCCGTTCCTAAATATTTGTTT 58.513 36.000 11.05 0.00 0.00 2.83
189 190 6.949463 TCCCTCCGTTCCTAAATATTTGTTTT 59.051 34.615 11.05 0.00 0.00 2.43
190 191 7.121611 TCCCTCCGTTCCTAAATATTTGTTTTC 59.878 37.037 11.05 0.00 0.00 2.29
191 192 7.122204 CCCTCCGTTCCTAAATATTTGTTTTCT 59.878 37.037 11.05 0.00 0.00 2.52
192 193 9.169592 CCTCCGTTCCTAAATATTTGTTTTCTA 57.830 33.333 11.05 0.00 0.00 2.10
194 195 9.947433 TCCGTTCCTAAATATTTGTTTTCTAGA 57.053 29.630 11.05 0.00 0.00 2.43
208 209 9.787532 TTTGTTTTCTAGAGATTTCAACAAGTG 57.212 29.630 0.00 0.00 0.00 3.16
209 210 8.731275 TGTTTTCTAGAGATTTCAACAAGTGA 57.269 30.769 0.00 0.00 0.00 3.41
210 211 8.612619 TGTTTTCTAGAGATTTCAACAAGTGAC 58.387 33.333 0.00 0.00 35.39 3.67
211 212 8.831550 GTTTTCTAGAGATTTCAACAAGTGACT 58.168 33.333 0.00 0.00 35.39 3.41
213 214 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
214 215 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
215 216 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
217 218 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
218 219 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
219 220 6.590292 AGATTTCAACAAGTGACTACATACGG 59.410 38.462 0.00 0.00 35.39 4.02
220 221 5.456548 TTCAACAAGTGACTACATACGGA 57.543 39.130 0.00 0.00 35.39 4.69
221 222 5.055642 TCAACAAGTGACTACATACGGAG 57.944 43.478 0.00 0.00 0.00 4.63
222 223 5.010314 TTCAACAAGTGACTACATACGGAGT 59.990 40.000 0.00 0.00 39.84 3.85
223 224 6.207221 TTCAACAAGTGACTACATACGGAGTA 59.793 38.462 0.00 0.00 41.66 2.59
224 225 7.255555 TTCAACAAGTGACTACATACGGAGTAA 60.256 37.037 0.00 0.00 41.03 2.24
240 241 6.931838 ACGGAGTAAAATGAGTGAATCTACA 58.068 36.000 0.00 0.00 41.94 2.74
241 242 6.812160 ACGGAGTAAAATGAGTGAATCTACAC 59.188 38.462 0.00 0.00 41.94 2.90
274 275 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
276 277 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
277 278 8.105197 TGTCTATATACATCCGTATGTGGTAGT 58.895 37.037 3.56 0.00 45.99 2.73
278 279 8.610896 GTCTATATACATCCGTATGTGGTAGTC 58.389 40.741 3.56 0.00 45.99 2.59
279 280 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
280 281 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
281 282 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
282 283 3.709653 ACATCCGTATGTGGTAGTCCATT 59.290 43.478 0.00 0.00 44.79 3.16
283 284 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
284 285 4.395959 TCCGTATGTGGTAGTCCATTTC 57.604 45.455 0.00 0.00 46.20 2.17
285 286 3.770388 TCCGTATGTGGTAGTCCATTTCA 59.230 43.478 0.00 0.00 46.20 2.69
286 287 4.223255 TCCGTATGTGGTAGTCCATTTCAA 59.777 41.667 0.00 0.00 46.20 2.69
287 288 4.938832 CCGTATGTGGTAGTCCATTTCAAA 59.061 41.667 0.00 0.00 46.20 2.69
288 289 5.588648 CCGTATGTGGTAGTCCATTTCAAAT 59.411 40.000 0.00 0.00 46.20 2.32
289 290 6.238374 CCGTATGTGGTAGTCCATTTCAAATC 60.238 42.308 0.00 0.00 46.20 2.17
290 291 6.538742 CGTATGTGGTAGTCCATTTCAAATCT 59.461 38.462 0.00 0.00 46.20 2.40
291 292 7.254455 CGTATGTGGTAGTCCATTTCAAATCTC 60.254 40.741 0.00 0.00 46.20 2.75
292 293 6.126863 TGTGGTAGTCCATTTCAAATCTCT 57.873 37.500 0.00 0.00 46.20 3.10
293 294 7.252612 TGTGGTAGTCCATTTCAAATCTCTA 57.747 36.000 0.00 0.00 46.20 2.43
294 295 7.685481 TGTGGTAGTCCATTTCAAATCTCTAA 58.315 34.615 0.00 0.00 46.20 2.10
295 296 8.160765 TGTGGTAGTCCATTTCAAATCTCTAAA 58.839 33.333 0.00 0.00 46.20 1.85
296 297 9.010029 GTGGTAGTCCATTTCAAATCTCTAAAA 57.990 33.333 0.00 0.00 46.20 1.52
297 298 9.581289 TGGTAGTCCATTTCAAATCTCTAAAAA 57.419 29.630 0.00 0.00 39.03 1.94
301 302 9.354673 AGTCCATTTCAAATCTCTAAAAAGACA 57.645 29.630 0.00 0.00 0.00 3.41
302 303 9.965824 GTCCATTTCAAATCTCTAAAAAGACAA 57.034 29.630 0.00 0.00 0.00 3.18
319 320 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
320 321 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
321 322 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
322 323 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
378 379 7.830739 TGCATTACAGAGATGATATCGTACAT 58.169 34.615 0.00 0.00 0.00 2.29
659 735 2.092861 TCAAAAGGACACGAGGTTTCCA 60.093 45.455 4.00 0.00 35.09 3.53
819 897 0.108377 CGTTGGATCGACATGGGTGA 60.108 55.000 0.00 0.00 0.00 4.02
927 1009 1.130561 GTTGAAATAGGCGCACACCTC 59.869 52.381 10.83 0.00 41.50 3.85
943 1025 7.661968 CGCACACCTCAAGCCTATATATATAT 58.338 38.462 10.10 10.10 0.00 0.86
1018 1100 2.682594 AGATGGTTCATCGGGATCAGA 58.317 47.619 0.00 0.00 44.67 3.27
1066 1148 4.555709 TTGGACTTGTGGCGCCGT 62.556 61.111 23.90 13.86 0.00 5.68
1305 1387 1.192146 AGTTCTTCCACCTGCCGCTA 61.192 55.000 0.00 0.00 0.00 4.26
1505 1587 7.005062 ACTCGATCTACACATTAATTGTTGC 57.995 36.000 8.06 0.00 36.00 4.17
1749 1935 3.677648 CGGACCTCGTGAACGGGT 61.678 66.667 13.52 13.52 42.60 5.28
1778 1964 0.391597 ACACCGACAACTCCGTCATT 59.608 50.000 0.00 0.00 35.54 2.57
1884 2070 1.287815 CTGTTGGTCGTCGTAGGCA 59.712 57.895 0.00 0.00 0.00 4.75
2120 2311 3.311110 GATCATAGGGCCGCCGGA 61.311 66.667 7.68 0.00 0.00 5.14
2379 2570 5.592054 TGTGAATAGGAGTTGATCGATGTC 58.408 41.667 0.54 0.00 0.00 3.06
2511 2703 2.833338 ACTAGTGGGCGTGGTAATACAA 59.167 45.455 0.00 0.00 0.00 2.41
2531 2723 4.245660 CAATGCTAATCACGGTCGGATAT 58.754 43.478 0.00 0.00 0.00 1.63
2552 2744 4.842531 TGAAATCAAGGATGACTAGGCA 57.157 40.909 0.00 0.00 38.69 4.75
2579 2771 0.398381 AGGCTTGGGGCTGTTTTTCA 60.398 50.000 0.00 0.00 46.90 2.69
2606 2798 5.815581 TGTGTGACCCTCTATATTTTTGCT 58.184 37.500 0.00 0.00 0.00 3.91
2726 3062 3.134442 TCAAAATGAAAGCCTGCCACTTT 59.866 39.130 0.00 0.00 39.99 2.66
2942 3304 2.288152 CCGACCCATTTTCCACAAGTTG 60.288 50.000 0.00 0.00 0.00 3.16
2943 3305 2.621055 CGACCCATTTTCCACAAGTTGA 59.379 45.455 10.54 0.00 0.00 3.18
3218 3581 4.232091 ACAAGTAATATGGATCGGAGGGT 58.768 43.478 0.00 0.00 0.00 4.34
3256 3619 2.787473 TCATTTGAGGATCGGCACTT 57.213 45.000 0.00 0.00 38.61 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.226437 AGCCTTGTCACATGCGTTTAAG 59.774 45.455 0.00 0.00 0.00 1.85
1 2 2.031245 CAGCCTTGTCACATGCGTTTAA 60.031 45.455 0.00 0.00 0.00 1.52
2 3 1.535028 CAGCCTTGTCACATGCGTTTA 59.465 47.619 0.00 0.00 0.00 2.01
3 4 0.311790 CAGCCTTGTCACATGCGTTT 59.688 50.000 0.00 0.00 0.00 3.60
4 5 1.951510 CAGCCTTGTCACATGCGTT 59.048 52.632 0.00 0.00 0.00 4.84
5 6 2.620112 GCAGCCTTGTCACATGCGT 61.620 57.895 0.00 0.00 0.00 5.24
6 7 2.177531 GCAGCCTTGTCACATGCG 59.822 61.111 0.00 0.00 0.00 4.73
7 8 1.505353 GAGCAGCCTTGTCACATGC 59.495 57.895 0.00 0.00 37.15 4.06
8 9 0.952497 ACGAGCAGCCTTGTCACATG 60.952 55.000 0.00 0.00 29.36 3.21
9 10 0.608130 TACGAGCAGCCTTGTCACAT 59.392 50.000 0.00 0.00 36.98 3.21
10 11 0.391228 TTACGAGCAGCCTTGTCACA 59.609 50.000 0.00 0.00 36.98 3.58
11 12 1.394917 CATTACGAGCAGCCTTGTCAC 59.605 52.381 0.00 0.00 36.98 3.67
12 13 1.275010 TCATTACGAGCAGCCTTGTCA 59.725 47.619 0.00 0.00 36.98 3.58
13 14 1.929836 CTCATTACGAGCAGCCTTGTC 59.070 52.381 0.00 0.00 36.98 3.18
14 15 1.550524 TCTCATTACGAGCAGCCTTGT 59.449 47.619 0.00 0.00 41.98 3.16
15 16 2.200067 CTCTCATTACGAGCAGCCTTG 58.800 52.381 0.00 0.00 41.98 3.61
16 17 1.827969 ACTCTCATTACGAGCAGCCTT 59.172 47.619 0.00 0.00 41.98 4.35
17 18 1.479709 ACTCTCATTACGAGCAGCCT 58.520 50.000 0.00 0.00 41.98 4.58
18 19 3.004839 TGATACTCTCATTACGAGCAGCC 59.995 47.826 0.00 0.00 41.98 4.85
19 20 3.978217 GTGATACTCTCATTACGAGCAGC 59.022 47.826 0.00 0.00 41.98 5.25
20 21 4.215201 CGTGATACTCTCATTACGAGCAG 58.785 47.826 0.00 0.00 39.49 4.24
21 22 3.626217 ACGTGATACTCTCATTACGAGCA 59.374 43.478 7.31 0.00 39.49 4.26
22 23 4.212213 ACGTGATACTCTCATTACGAGC 57.788 45.455 7.31 0.00 39.49 5.03
23 24 6.889494 ACATACGTGATACTCTCATTACGAG 58.111 40.000 0.00 0.00 39.49 4.18
24 25 6.480981 TGACATACGTGATACTCTCATTACGA 59.519 38.462 0.00 0.00 39.49 3.43
25 26 6.656003 TGACATACGTGATACTCTCATTACG 58.344 40.000 0.00 0.00 41.94 3.18
26 27 8.851960 TTTGACATACGTGATACTCTCATTAC 57.148 34.615 0.00 0.00 35.97 1.89
27 28 8.899771 TCTTTGACATACGTGATACTCTCATTA 58.100 33.333 0.00 0.00 35.97 1.90
28 29 7.772166 TCTTTGACATACGTGATACTCTCATT 58.228 34.615 0.00 0.00 35.97 2.57
29 30 7.283354 TCTCTTTGACATACGTGATACTCTCAT 59.717 37.037 0.00 0.00 35.97 2.90
30 31 6.598064 TCTCTTTGACATACGTGATACTCTCA 59.402 38.462 0.00 0.00 0.00 3.27
31 32 7.017498 TCTCTTTGACATACGTGATACTCTC 57.983 40.000 0.00 0.00 0.00 3.20
32 33 7.575414 ATCTCTTTGACATACGTGATACTCT 57.425 36.000 0.00 0.00 0.00 3.24
33 34 9.900710 ATTATCTCTTTGACATACGTGATACTC 57.099 33.333 0.00 0.00 0.00 2.59
45 46 9.733556 TGCCTTACTAAAATTATCTCTTTGACA 57.266 29.630 0.00 0.00 0.00 3.58
50 51 9.444600 TCGTTTGCCTTACTAAAATTATCTCTT 57.555 29.630 0.00 0.00 0.00 2.85
51 52 9.444600 TTCGTTTGCCTTACTAAAATTATCTCT 57.555 29.630 0.00 0.00 0.00 3.10
52 53 9.704098 CTTCGTTTGCCTTACTAAAATTATCTC 57.296 33.333 0.00 0.00 0.00 2.75
53 54 9.444600 TCTTCGTTTGCCTTACTAAAATTATCT 57.555 29.630 0.00 0.00 0.00 1.98
57 58 9.589111 TTTTTCTTCGTTTGCCTTACTAAAATT 57.411 25.926 0.00 0.00 0.00 1.82
58 59 9.244799 CTTTTTCTTCGTTTGCCTTACTAAAAT 57.755 29.630 0.00 0.00 0.00 1.82
59 60 8.460428 TCTTTTTCTTCGTTTGCCTTACTAAAA 58.540 29.630 0.00 0.00 0.00 1.52
60 61 7.987649 TCTTTTTCTTCGTTTGCCTTACTAAA 58.012 30.769 0.00 0.00 0.00 1.85
61 62 7.255001 CCTCTTTTTCTTCGTTTGCCTTACTAA 60.255 37.037 0.00 0.00 0.00 2.24
62 63 6.204108 CCTCTTTTTCTTCGTTTGCCTTACTA 59.796 38.462 0.00 0.00 0.00 1.82
63 64 5.008712 CCTCTTTTTCTTCGTTTGCCTTACT 59.991 40.000 0.00 0.00 0.00 2.24
64 65 5.212934 CCTCTTTTTCTTCGTTTGCCTTAC 58.787 41.667 0.00 0.00 0.00 2.34
65 66 4.277423 CCCTCTTTTTCTTCGTTTGCCTTA 59.723 41.667 0.00 0.00 0.00 2.69
66 67 3.068165 CCCTCTTTTTCTTCGTTTGCCTT 59.932 43.478 0.00 0.00 0.00 4.35
67 68 2.623416 CCCTCTTTTTCTTCGTTTGCCT 59.377 45.455 0.00 0.00 0.00 4.75
68 69 2.361119 ACCCTCTTTTTCTTCGTTTGCC 59.639 45.455 0.00 0.00 0.00 4.52
69 70 3.710326 ACCCTCTTTTTCTTCGTTTGC 57.290 42.857 0.00 0.00 0.00 3.68
70 71 6.792326 ACTTAACCCTCTTTTTCTTCGTTTG 58.208 36.000 0.00 0.00 0.00 2.93
71 72 8.687292 ATACTTAACCCTCTTTTTCTTCGTTT 57.313 30.769 0.00 0.00 0.00 3.60
72 73 7.935210 TGATACTTAACCCTCTTTTTCTTCGTT 59.065 33.333 0.00 0.00 0.00 3.85
73 74 7.447594 TGATACTTAACCCTCTTTTTCTTCGT 58.552 34.615 0.00 0.00 0.00 3.85
74 75 7.900782 TGATACTTAACCCTCTTTTTCTTCG 57.099 36.000 0.00 0.00 0.00 3.79
120 121 9.991906 GCAAGACCCATACTAGTACATTATTTA 57.008 33.333 4.31 0.00 0.00 1.40
121 122 8.491134 TGCAAGACCCATACTAGTACATTATTT 58.509 33.333 4.31 0.00 0.00 1.40
122 123 8.029782 TGCAAGACCCATACTAGTACATTATT 57.970 34.615 4.31 0.00 0.00 1.40
123 124 7.612065 TGCAAGACCCATACTAGTACATTAT 57.388 36.000 4.31 0.00 0.00 1.28
124 125 7.441836 CATGCAAGACCCATACTAGTACATTA 58.558 38.462 4.31 0.00 0.00 1.90
125 126 5.950544 TGCAAGACCCATACTAGTACATT 57.049 39.130 4.31 0.00 0.00 2.71
126 127 5.221722 CCATGCAAGACCCATACTAGTACAT 60.222 44.000 4.31 0.00 0.00 2.29
127 128 4.100963 CCATGCAAGACCCATACTAGTACA 59.899 45.833 4.31 0.00 0.00 2.90
128 129 4.632153 CCATGCAAGACCCATACTAGTAC 58.368 47.826 4.31 0.00 0.00 2.73
129 130 3.071023 GCCATGCAAGACCCATACTAGTA 59.929 47.826 4.77 4.77 0.00 1.82
130 131 2.158755 GCCATGCAAGACCCATACTAGT 60.159 50.000 0.00 0.00 0.00 2.57
131 132 2.158769 TGCCATGCAAGACCCATACTAG 60.159 50.000 0.00 0.00 34.76 2.57
132 133 1.843206 TGCCATGCAAGACCCATACTA 59.157 47.619 0.00 0.00 34.76 1.82
133 134 0.625316 TGCCATGCAAGACCCATACT 59.375 50.000 0.00 0.00 34.76 2.12
134 135 1.473258 TTGCCATGCAAGACCCATAC 58.527 50.000 0.00 0.00 43.99 2.39
135 136 3.996361 TTGCCATGCAAGACCCATA 57.004 47.368 0.00 0.00 43.99 2.74
136 137 4.870069 TTGCCATGCAAGACCCAT 57.130 50.000 0.00 0.00 43.99 4.00
144 145 6.314120 AGGGAGTATTATTTATTGCCATGCA 58.686 36.000 0.00 0.00 36.47 3.96
145 146 6.127619 GGAGGGAGTATTATTTATTGCCATGC 60.128 42.308 0.00 0.00 0.00 4.06
146 147 6.094048 CGGAGGGAGTATTATTTATTGCCATG 59.906 42.308 0.00 0.00 0.00 3.66
147 148 6.180472 CGGAGGGAGTATTATTTATTGCCAT 58.820 40.000 0.00 0.00 0.00 4.40
148 149 5.072600 ACGGAGGGAGTATTATTTATTGCCA 59.927 40.000 0.00 0.00 0.00 4.92
149 150 5.557866 ACGGAGGGAGTATTATTTATTGCC 58.442 41.667 0.00 0.00 0.00 4.52
150 151 6.148976 GGAACGGAGGGAGTATTATTTATTGC 59.851 42.308 0.00 0.00 0.00 3.56
151 152 7.450903 AGGAACGGAGGGAGTATTATTTATTG 58.549 38.462 0.00 0.00 0.00 1.90
152 153 7.628501 AGGAACGGAGGGAGTATTATTTATT 57.371 36.000 0.00 0.00 0.00 1.40
153 154 8.731591 TTAGGAACGGAGGGAGTATTATTTAT 57.268 34.615 0.00 0.00 0.00 1.40
154 155 8.551682 TTTAGGAACGGAGGGAGTATTATTTA 57.448 34.615 0.00 0.00 0.00 1.40
155 156 7.441903 TTTAGGAACGGAGGGAGTATTATTT 57.558 36.000 0.00 0.00 0.00 1.40
156 157 7.628501 ATTTAGGAACGGAGGGAGTATTATT 57.371 36.000 0.00 0.00 0.00 1.40
157 158 8.912614 ATATTTAGGAACGGAGGGAGTATTAT 57.087 34.615 0.00 0.00 0.00 1.28
158 159 8.731591 AATATTTAGGAACGGAGGGAGTATTA 57.268 34.615 0.00 0.00 0.00 0.98
159 160 7.628501 AATATTTAGGAACGGAGGGAGTATT 57.371 36.000 0.00 0.00 0.00 1.89
160 161 7.072076 ACAAATATTTAGGAACGGAGGGAGTAT 59.928 37.037 0.00 0.00 0.00 2.12
161 162 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
162 163 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
163 164 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
164 165 5.703730 ACAAATATTTAGGAACGGAGGGA 57.296 39.130 0.00 0.00 0.00 4.20
165 166 6.769134 AAACAAATATTTAGGAACGGAGGG 57.231 37.500 0.00 0.00 0.00 4.30
166 167 8.051901 AGAAAACAAATATTTAGGAACGGAGG 57.948 34.615 0.00 0.00 0.00 4.30
168 169 9.947433 TCTAGAAAACAAATATTTAGGAACGGA 57.053 29.630 0.00 0.00 0.00 4.69
182 183 9.787532 CACTTGTTGAAATCTCTAGAAAACAAA 57.212 29.630 0.00 0.00 36.09 2.83
183 184 9.173021 TCACTTGTTGAAATCTCTAGAAAACAA 57.827 29.630 0.00 4.16 35.45 2.83
184 185 8.612619 GTCACTTGTTGAAATCTCTAGAAAACA 58.387 33.333 0.00 0.00 35.39 2.83
185 186 8.831550 AGTCACTTGTTGAAATCTCTAGAAAAC 58.168 33.333 0.00 0.00 35.39 2.43
186 187 8.964476 AGTCACTTGTTGAAATCTCTAGAAAA 57.036 30.769 0.00 0.00 35.39 2.29
187 188 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
188 189 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
189 190 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
190 191 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
191 192 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
192 193 7.542477 CGTATGTAGTCACTTGTTGAAATCTCT 59.458 37.037 0.00 0.00 35.39 3.10
193 194 7.201444 CCGTATGTAGTCACTTGTTGAAATCTC 60.201 40.741 0.00 0.00 35.39 2.75
194 195 6.590292 CCGTATGTAGTCACTTGTTGAAATCT 59.410 38.462 0.00 0.00 35.39 2.40
195 196 6.588756 TCCGTATGTAGTCACTTGTTGAAATC 59.411 38.462 0.00 0.00 35.39 2.17
196 197 6.460781 TCCGTATGTAGTCACTTGTTGAAAT 58.539 36.000 0.00 0.00 35.39 2.17
197 198 5.845103 TCCGTATGTAGTCACTTGTTGAAA 58.155 37.500 0.00 0.00 35.39 2.69
198 199 5.010314 ACTCCGTATGTAGTCACTTGTTGAA 59.990 40.000 0.00 0.00 35.39 2.69
199 200 4.521639 ACTCCGTATGTAGTCACTTGTTGA 59.478 41.667 0.00 0.00 0.00 3.18
200 201 4.806330 ACTCCGTATGTAGTCACTTGTTG 58.194 43.478 0.00 0.00 0.00 3.33
201 202 6.579666 TTACTCCGTATGTAGTCACTTGTT 57.420 37.500 0.00 0.00 0.00 2.83
202 203 6.579666 TTTACTCCGTATGTAGTCACTTGT 57.420 37.500 0.00 0.00 0.00 3.16
203 204 7.758076 TCATTTTACTCCGTATGTAGTCACTTG 59.242 37.037 0.00 0.00 0.00 3.16
204 205 7.833786 TCATTTTACTCCGTATGTAGTCACTT 58.166 34.615 0.00 0.00 0.00 3.16
205 206 7.122353 ACTCATTTTACTCCGTATGTAGTCACT 59.878 37.037 0.00 0.00 0.00 3.41
206 207 7.220300 CACTCATTTTACTCCGTATGTAGTCAC 59.780 40.741 0.00 0.00 0.00 3.67
207 208 7.121611 TCACTCATTTTACTCCGTATGTAGTCA 59.878 37.037 0.00 0.00 0.00 3.41
208 209 7.478322 TCACTCATTTTACTCCGTATGTAGTC 58.522 38.462 0.00 0.00 0.00 2.59
209 210 7.400599 TCACTCATTTTACTCCGTATGTAGT 57.599 36.000 0.00 0.00 0.00 2.73
210 211 8.873215 ATTCACTCATTTTACTCCGTATGTAG 57.127 34.615 0.00 0.00 0.00 2.74
211 212 8.692710 AGATTCACTCATTTTACTCCGTATGTA 58.307 33.333 0.00 0.00 0.00 2.29
212 213 7.556844 AGATTCACTCATTTTACTCCGTATGT 58.443 34.615 0.00 0.00 0.00 2.29
213 214 8.969267 GTAGATTCACTCATTTTACTCCGTATG 58.031 37.037 0.00 0.00 0.00 2.39
214 215 8.692710 TGTAGATTCACTCATTTTACTCCGTAT 58.307 33.333 0.00 0.00 0.00 3.06
215 216 7.972277 GTGTAGATTCACTCATTTTACTCCGTA 59.028 37.037 0.00 0.00 35.68 4.02
216 217 6.812160 GTGTAGATTCACTCATTTTACTCCGT 59.188 38.462 0.00 0.00 35.68 4.69
217 218 7.036220 AGTGTAGATTCACTCATTTTACTCCG 58.964 38.462 0.00 0.00 44.07 4.63
248 249 9.642343 ACCACATACGGATGTATATAGACATAT 57.358 33.333 14.23 5.08 44.82 1.78
250 251 7.956328 ACCACATACGGATGTATATAGACAT 57.044 36.000 14.23 12.70 44.82 3.06
251 252 8.105197 ACTACCACATACGGATGTATATAGACA 58.895 37.037 22.62 2.07 44.82 3.41
252 253 8.503458 ACTACCACATACGGATGTATATAGAC 57.497 38.462 22.62 0.00 44.82 2.59
253 254 7.772292 GGACTACCACATACGGATGTATATAGA 59.228 40.741 22.62 5.04 44.82 1.98
254 255 7.555195 TGGACTACCACATACGGATGTATATAG 59.445 40.741 14.23 16.35 44.82 1.31
255 256 7.404481 TGGACTACCACATACGGATGTATATA 58.596 38.462 14.23 5.36 44.82 0.86
256 257 6.250711 TGGACTACCACATACGGATGTATAT 58.749 40.000 14.23 4.37 44.82 0.86
257 258 5.633117 TGGACTACCACATACGGATGTATA 58.367 41.667 14.23 8.27 44.82 1.47
258 259 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
259 260 3.900971 TGGACTACCACATACGGATGTA 58.099 45.455 14.23 0.00 44.82 2.29
275 276 9.354673 TGTCTTTTTAGAGATTTGAAATGGACT 57.645 29.630 0.00 0.00 0.00 3.85
276 277 9.965824 TTGTCTTTTTAGAGATTTGAAATGGAC 57.034 29.630 0.00 0.00 0.00 4.02
293 294 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
294 295 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
295 296 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
296 297 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
297 298 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
298 299 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
299 300 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
300 301 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
301 302 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
302 303 6.785963 TGATACTCCCTCCGTTCCTAAATATT 59.214 38.462 0.00 0.00 0.00 1.28
303 304 6.320518 TGATACTCCCTCCGTTCCTAAATAT 58.679 40.000 0.00 0.00 0.00 1.28
304 305 5.708544 TGATACTCCCTCCGTTCCTAAATA 58.291 41.667 0.00 0.00 0.00 1.40
305 306 4.553678 TGATACTCCCTCCGTTCCTAAAT 58.446 43.478 0.00 0.00 0.00 1.40
306 307 3.985127 TGATACTCCCTCCGTTCCTAAA 58.015 45.455 0.00 0.00 0.00 1.85
307 308 3.675348 TGATACTCCCTCCGTTCCTAA 57.325 47.619 0.00 0.00 0.00 2.69
308 309 3.398292 AGATGATACTCCCTCCGTTCCTA 59.602 47.826 0.00 0.00 0.00 2.94
309 310 2.178106 AGATGATACTCCCTCCGTTCCT 59.822 50.000 0.00 0.00 0.00 3.36
310 311 2.599677 AGATGATACTCCCTCCGTTCC 58.400 52.381 0.00 0.00 0.00 3.62
311 312 5.071370 TCTTAGATGATACTCCCTCCGTTC 58.929 45.833 0.00 0.00 0.00 3.95
312 313 5.063017 TCTTAGATGATACTCCCTCCGTT 57.937 43.478 0.00 0.00 0.00 4.44
313 314 4.726035 TCTTAGATGATACTCCCTCCGT 57.274 45.455 0.00 0.00 0.00 4.69
314 315 6.687081 GTATCTTAGATGATACTCCCTCCG 57.313 45.833 4.78 0.00 43.11 4.63
659 735 4.225267 AGGTATGGACGAAGAAAGTGGAAT 59.775 41.667 0.00 0.00 0.00 3.01
819 897 1.348064 TCCAACAGATCTCACCCGTT 58.652 50.000 0.00 0.00 0.00 4.44
943 1025 6.423302 TGAACGTACTATTTTCTTTTGCGGTA 59.577 34.615 0.00 0.00 0.00 4.02
958 1040 7.141363 GTCTTCTAAACCAAGTGAACGTACTA 58.859 38.462 0.00 0.00 0.00 1.82
1018 1100 1.228367 CCACCTGCACCAGCTTTCT 60.228 57.895 0.00 0.00 42.74 2.52
1044 1126 1.594293 CGCCACAAGTCCAACGTCT 60.594 57.895 0.00 0.00 0.00 4.18
1066 1148 1.940883 CTTAGCACGTACCTGCCCGA 61.941 60.000 12.48 0.00 37.96 5.14
1069 1151 2.165301 CGCTTAGCACGTACCTGCC 61.165 63.158 12.48 0.00 37.96 4.85
1209 1291 0.032813 CCACAAAGAGGCCCCATGAT 60.033 55.000 0.00 0.00 0.00 2.45
1305 1387 0.246086 CGCACTTCTGCTTCTCCTCT 59.754 55.000 0.00 0.00 41.77 3.69
1749 1935 2.970324 GTCGGTGTGCGGCTTCAA 60.970 61.111 0.00 0.00 0.00 2.69
1778 1964 1.937191 TGTCCATGAGGAGCAGTGTA 58.063 50.000 0.00 0.00 46.92 2.90
1973 2159 3.325293 TGCACAGAAATGAGAGTCTCC 57.675 47.619 17.57 1.91 0.00 3.71
2120 2311 1.272769 GCTTCTCGTGAACCAGTACCT 59.727 52.381 0.00 0.00 0.00 3.08
2306 2497 3.916035 TCATGCACTCACTCCCTACTAT 58.084 45.455 0.00 0.00 0.00 2.12
2379 2570 4.408270 CAGGGAGGTGATCATATATGAGGG 59.592 50.000 19.73 0.00 40.64 4.30
2433 2624 5.957842 TCATTTCGGTCAAGTTTAAGCAT 57.042 34.783 0.00 0.00 0.00 3.79
2511 2703 3.509967 TCATATCCGACCGTGATTAGCAT 59.490 43.478 0.00 0.00 0.00 3.79
2531 2723 4.517285 GTGCCTAGTCATCCTTGATTTCA 58.483 43.478 0.00 0.00 33.56 2.69
2579 2771 8.034804 GCAAAAATATAGAGGGTCACACAAAAT 58.965 33.333 0.00 0.00 0.00 1.82
2606 2798 0.899019 TGGGATTGCTACACACGCTA 59.101 50.000 0.00 0.00 0.00 4.26
2726 3062 1.274167 AGGCATGAAACGTTCTCGGTA 59.726 47.619 0.00 0.00 41.85 4.02
3126 3489 4.738541 GCAACAAGCAATATGGATTGGAGG 60.739 45.833 12.58 2.91 42.44 4.30
3256 3619 2.969821 ATTAGCCTGTGTCCCACAAA 57.030 45.000 0.00 0.00 44.08 2.83


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

AutoCloner maintained by Alex Coulton.