Multiple sequence alignment - TraesCS7B01G361900
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 | TraesCS7B01G361900 | chr7B | 100.000 | 2722 | 0 | 0 | 1 | 2722 | 623947059 | 623949780 | 0.000000e+00 | 5027.0 |
1 | TraesCS7B01G361900 | chr7B | 80.000 | 170 | 12 | 8 | 1128 | 1297 | 668461758 | 668461611 | 3.710000e-19 | 106.0 |
2 | TraesCS7B01G361900 | chr7D | 89.819 | 1994 | 99 | 34 | 773 | 2722 | 568367957 | 568369890 | 0.000000e+00 | 2462.0 |
3 | TraesCS7B01G361900 | chr7D | 91.824 | 159 | 10 | 3 | 1 | 159 | 568367088 | 568367243 | 4.560000e-53 | 219.0 |
4 | TraesCS7B01G361900 | chr7D | 94.872 | 78 | 4 | 0 | 1226 | 1303 | 86731257 | 86731180 | 3.680000e-24 | 122.0 |
5 | TraesCS7B01G361900 | chr7D | 87.850 | 107 | 10 | 2 | 311 | 414 | 568367351 | 568367457 | 3.680000e-24 | 122.0 |
6 | TraesCS7B01G361900 | chr7D | 80.435 | 184 | 12 | 12 | 1125 | 1306 | 628446201 | 628446362 | 4.760000e-23 | 119.0 |
7 | TraesCS7B01G361900 | chr7A | 90.563 | 1420 | 70 | 16 | 888 | 2280 | 657021676 | 657023058 | 0.000000e+00 | 1821.0 |
8 | TraesCS7B01G361900 | chr7A | 92.724 | 536 | 33 | 3 | 1977 | 2512 | 123426167 | 123426696 | 0.000000e+00 | 769.0 |
9 | TraesCS7B01G361900 | chr7A | 79.815 | 540 | 51 | 26 | 1 | 531 | 657020713 | 657021203 | 9.330000e-90 | 340.0 |
10 | TraesCS7B01G361900 | chr7A | 95.522 | 134 | 6 | 0 | 2589 | 2722 | 657023093 | 657023226 | 5.900000e-52 | 215.0 |
11 | TraesCS7B01G361900 | chr7A | 89.623 | 106 | 8 | 3 | 1876 | 1981 | 123425583 | 123425685 | 6.120000e-27 | 132.0 |
12 | TraesCS7B01G361900 | chr6D | 84.407 | 481 | 54 | 13 | 2183 | 2663 | 7963774 | 7963315 | 1.150000e-123 | 453.0 |
13 | TraesCS7B01G361900 | chr6D | 100.000 | 28 | 0 | 0 | 2668 | 2695 | 7963297 | 7963270 | 5.000000e-03 | 52.8 |
14 | TraesCS7B01G361900 | chr6A | 91.318 | 311 | 24 | 3 | 1876 | 2186 | 572388884 | 572389191 | 3.240000e-114 | 422.0 |
15 | TraesCS7B01G361900 | chr6A | 92.929 | 198 | 10 | 1 | 2315 | 2512 | 572389186 | 572389379 | 4.440000e-73 | 285.0 |
16 | TraesCS7B01G361900 | chr6A | 76.429 | 420 | 56 | 23 | 2308 | 2695 | 8176761 | 8176353 | 1.290000e-43 | 187.0 |
17 | TraesCS7B01G361900 | chr6B | 85.795 | 352 | 38 | 7 | 2183 | 2534 | 14360264 | 14360603 | 1.990000e-96 | 363.0 |
18 | TraesCS7B01G361900 | chr5A | 91.321 | 265 | 20 | 3 | 1876 | 2140 | 677744645 | 677744384 | 2.580000e-95 | 359.0 |
19 | TraesCS7B01G361900 | chr5A | 88.623 | 167 | 16 | 3 | 1876 | 2042 | 543630513 | 543630676 | 1.650000e-47 | 200.0 |
20 | TraesCS7B01G361900 | chr5A | 92.857 | 42 | 1 | 2 | 1159 | 1198 | 482191540 | 482191581 | 2.930000e-05 | 60.2 |
21 | TraesCS7B01G361900 | chr1A | 80.435 | 138 | 9 | 8 | 1166 | 1303 | 199209809 | 199209690 | 3.730000e-14 | 89.8 |
22 | TraesCS7B01G361900 | chr3A | 85.915 | 71 | 4 | 3 | 1128 | 1198 | 736109616 | 736109552 | 1.350000e-08 | 71.3 |
23 | TraesCS7B01G361900 | chrUn | 92.683 | 41 | 3 | 0 | 2346 | 2386 | 24973608 | 24973568 | 2.930000e-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 | TraesCS7B01G361900 | chr7B | 623947059 | 623949780 | 2721 | False | 5027.000000 | 5027 | 100.000000 | 1 | 2722 | 1 | chr7B.!!$F1 | 2721 |
1 | TraesCS7B01G361900 | chr7D | 568367088 | 568369890 | 2802 | False | 934.333333 | 2462 | 89.831000 | 1 | 2722 | 3 | chr7D.!!$F2 | 2721 |
2 | TraesCS7B01G361900 | chr7A | 657020713 | 657023226 | 2513 | False | 792.000000 | 1821 | 88.633333 | 1 | 2722 | 3 | chr7A.!!$F2 | 2721 |
3 | TraesCS7B01G361900 | chr7A | 123425583 | 123426696 | 1113 | False | 450.500000 | 769 | 91.173500 | 1876 | 2512 | 2 | chr7A.!!$F1 | 636 |
4 | TraesCS7B01G361900 | chr6D | 7963270 | 7963774 | 504 | True | 252.900000 | 453 | 92.203500 | 2183 | 2695 | 2 | chr6D.!!$R1 | 512 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
578 | 627 | 0.033228 | TTGCGCTTTGAAACCCCATG | 59.967 | 50.0 | 9.73 | 0.0 | 0.0 | 3.66 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1822 | 2187 | 0.173481 | TTAGCGTAGGCACAGCTCTG | 59.827 | 55.0 | 10.48 | 0.0 | 43.41 | 3.35 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
51 | 52 | 3.999663 | CAGATTCTGTGGAAGGTCAGTTC | 59.000 | 47.826 | 5.46 | 0.00 | 34.70 | 3.01 |
61 | 62 | 3.406764 | GAAGGTCAGTTCAGTGCTGATT | 58.593 | 45.455 | 2.47 | 0.00 | 43.73 | 2.57 |
65 | 66 | 3.406764 | GTCAGTTCAGTGCTGATTTCCT | 58.593 | 45.455 | 2.47 | 0.00 | 43.73 | 3.36 |
66 | 67 | 3.434984 | GTCAGTTCAGTGCTGATTTCCTC | 59.565 | 47.826 | 2.47 | 0.00 | 43.73 | 3.71 |
67 | 68 | 3.326006 | TCAGTTCAGTGCTGATTTCCTCT | 59.674 | 43.478 | 2.47 | 0.00 | 39.64 | 3.69 |
68 | 69 | 3.436015 | CAGTTCAGTGCTGATTTCCTCTG | 59.564 | 47.826 | 2.47 | 2.91 | 39.64 | 3.35 |
71 | 72 | 4.090761 | TCAGTGCTGATTTCCTCTGTTT | 57.909 | 40.909 | 0.00 | 0.00 | 34.14 | 2.83 |
72 | 73 | 4.067896 | TCAGTGCTGATTTCCTCTGTTTC | 58.932 | 43.478 | 0.00 | 0.00 | 34.14 | 2.78 |
73 | 74 | 4.070716 | CAGTGCTGATTTCCTCTGTTTCT | 58.929 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
74 | 75 | 4.153835 | CAGTGCTGATTTCCTCTGTTTCTC | 59.846 | 45.833 | 0.00 | 0.00 | 0.00 | 2.87 |
121 | 122 | 9.569167 | GGTTTATTTTTCTCCAGCAGTATAAAC | 57.431 | 33.333 | 0.00 | 0.00 | 32.90 | 2.01 |
130 | 131 | 6.061022 | TCCAGCAGTATAAACAAATCCAGA | 57.939 | 37.500 | 0.00 | 0.00 | 0.00 | 3.86 |
143 | 144 | 4.758674 | ACAAATCCAGACATGAACTGTGAG | 59.241 | 41.667 | 17.80 | 7.84 | 38.54 | 3.51 |
161 | 162 | 2.840038 | TGAGCTGGACCATGAGTAATGT | 59.160 | 45.455 | 0.00 | 0.00 | 34.11 | 2.71 |
162 | 163 | 3.201290 | GAGCTGGACCATGAGTAATGTG | 58.799 | 50.000 | 0.00 | 0.00 | 34.11 | 3.21 |
166 | 172 | 2.017049 | GGACCATGAGTAATGTGTGCC | 58.983 | 52.381 | 0.00 | 0.00 | 34.11 | 5.01 |
176 | 182 | 0.899717 | AATGTGTGCCAAGGCCGATT | 60.900 | 50.000 | 8.89 | 0.00 | 41.09 | 3.34 |
177 | 183 | 1.315257 | ATGTGTGCCAAGGCCGATTC | 61.315 | 55.000 | 8.89 | 0.00 | 41.09 | 2.52 |
179 | 185 | 2.435938 | GTGCCAAGGCCGATTCGA | 60.436 | 61.111 | 7.83 | 0.00 | 41.09 | 3.71 |
181 | 187 | 1.819208 | TGCCAAGGCCGATTCGATG | 60.819 | 57.895 | 7.83 | 1.34 | 41.09 | 3.84 |
182 | 188 | 2.546494 | GCCAAGGCCGATTCGATGG | 61.546 | 63.158 | 7.83 | 10.94 | 34.56 | 3.51 |
183 | 189 | 1.893808 | CCAAGGCCGATTCGATGGG | 60.894 | 63.158 | 7.83 | 0.00 | 0.00 | 4.00 |
184 | 190 | 1.893808 | CAAGGCCGATTCGATGGGG | 60.894 | 63.158 | 7.83 | 0.00 | 0.00 | 4.96 |
185 | 191 | 2.375345 | AAGGCCGATTCGATGGGGT | 61.375 | 57.895 | 7.83 | 0.00 | 0.00 | 4.95 |
186 | 192 | 2.280865 | GGCCGATTCGATGGGGTC | 60.281 | 66.667 | 7.83 | 0.00 | 0.00 | 4.46 |
187 | 193 | 2.504032 | GCCGATTCGATGGGGTCA | 59.496 | 61.111 | 7.83 | 0.00 | 0.00 | 4.02 |
188 | 194 | 1.887707 | GCCGATTCGATGGGGTCAC | 60.888 | 63.158 | 7.83 | 0.00 | 0.00 | 3.67 |
189 | 195 | 1.520192 | CCGATTCGATGGGGTCACA | 59.480 | 57.895 | 7.83 | 0.00 | 0.00 | 3.58 |
190 | 196 | 0.530650 | CCGATTCGATGGGGTCACAG | 60.531 | 60.000 | 7.83 | 0.00 | 0.00 | 3.66 |
191 | 197 | 0.175760 | CGATTCGATGGGGTCACAGT | 59.824 | 55.000 | 0.00 | 0.00 | 0.00 | 3.55 |
192 | 198 | 1.802880 | CGATTCGATGGGGTCACAGTC | 60.803 | 57.143 | 0.00 | 0.00 | 0.00 | 3.51 |
193 | 199 | 1.482593 | GATTCGATGGGGTCACAGTCT | 59.517 | 52.381 | 0.00 | 0.00 | 0.00 | 3.24 |
194 | 200 | 0.895530 | TTCGATGGGGTCACAGTCTC | 59.104 | 55.000 | 0.00 | 0.00 | 0.00 | 3.36 |
195 | 201 | 0.251608 | TCGATGGGGTCACAGTCTCA | 60.252 | 55.000 | 0.00 | 0.00 | 0.00 | 3.27 |
196 | 202 | 0.108615 | CGATGGGGTCACAGTCTCAC | 60.109 | 60.000 | 0.00 | 0.00 | 0.00 | 3.51 |
197 | 203 | 0.976641 | GATGGGGTCACAGTCTCACA | 59.023 | 55.000 | 0.00 | 0.00 | 0.00 | 3.58 |
201 | 207 | 1.205893 | GGGGTCACAGTCTCACAGATC | 59.794 | 57.143 | 0.00 | 0.00 | 0.00 | 2.75 |
203 | 209 | 2.499289 | GGGTCACAGTCTCACAGATCAT | 59.501 | 50.000 | 0.00 | 0.00 | 0.00 | 2.45 |
207 | 213 | 5.126222 | GGTCACAGTCTCACAGATCATAGAA | 59.874 | 44.000 | 0.00 | 0.00 | 0.00 | 2.10 |
242 | 252 | 2.049248 | GCGTTGCAACCATGGTGG | 60.049 | 61.111 | 20.60 | 18.01 | 45.02 | 4.61 |
254 | 264 | 0.738762 | CATGGTGGTGACGAGAGCTG | 60.739 | 60.000 | 0.00 | 0.00 | 0.00 | 4.24 |
262 | 272 | 3.119459 | TGGTGACGAGAGCTGTAATCTTC | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 2.87 |
263 | 273 | 3.119459 | GGTGACGAGAGCTGTAATCTTCA | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
280 | 290 | 2.631160 | TCAATCACCGTTTGACCACT | 57.369 | 45.000 | 0.00 | 0.00 | 36.92 | 4.00 |
286 | 296 | 0.464916 | ACCGTTTGACCACTGGAACC | 60.465 | 55.000 | 0.71 | 0.00 | 0.00 | 3.62 |
287 | 297 | 1.503818 | CCGTTTGACCACTGGAACCG | 61.504 | 60.000 | 0.71 | 0.00 | 0.00 | 4.44 |
288 | 298 | 1.503818 | CGTTTGACCACTGGAACCGG | 61.504 | 60.000 | 0.00 | 0.00 | 0.00 | 5.28 |
289 | 299 | 1.527380 | TTTGACCACTGGAACCGGC | 60.527 | 57.895 | 0.00 | 0.00 | 0.00 | 6.13 |
290 | 300 | 3.818121 | TTGACCACTGGAACCGGCG | 62.818 | 63.158 | 0.00 | 0.00 | 0.00 | 6.46 |
293 | 303 | 4.323477 | CCACTGGAACCGGCGGAA | 62.323 | 66.667 | 35.78 | 13.86 | 0.00 | 4.30 |
348 | 359 | 2.906897 | CTTTGCTGGTGCCACCGT | 60.907 | 61.111 | 9.78 | 0.00 | 42.58 | 4.83 |
349 | 360 | 2.904866 | TTTGCTGGTGCCACCGTC | 60.905 | 61.111 | 9.78 | 3.75 | 42.58 | 4.79 |
360 | 373 | 1.816537 | CCACCGTCGGATGTCTCAT | 59.183 | 57.895 | 20.51 | 0.00 | 0.00 | 2.90 |
373 | 386 | 4.201920 | GGATGTCTCATAAACTTTTCGCCC | 60.202 | 45.833 | 0.00 | 0.00 | 0.00 | 6.13 |
378 | 391 | 0.674269 | ATAAACTTTTCGCCCGCGGA | 60.674 | 50.000 | 30.73 | 2.89 | 40.25 | 5.54 |
389 | 402 | 1.154112 | CCCGCGGATTTGTTTTCGG | 60.154 | 57.895 | 30.73 | 0.00 | 36.90 | 4.30 |
403 | 417 | 4.688021 | TGTTTTCGGGAAATGTTTGAAGG | 58.312 | 39.130 | 0.00 | 0.00 | 0.00 | 3.46 |
408 | 422 | 2.288763 | CGGGAAATGTTTGAAGGTTGGG | 60.289 | 50.000 | 0.00 | 0.00 | 0.00 | 4.12 |
414 | 428 | 2.530701 | TGTTTGAAGGTTGGGTGTTGT | 58.469 | 42.857 | 0.00 | 0.00 | 0.00 | 3.32 |
415 | 429 | 2.232452 | TGTTTGAAGGTTGGGTGTTGTG | 59.768 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
416 | 430 | 1.479709 | TTGAAGGTTGGGTGTTGTGG | 58.520 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
417 | 431 | 1.040339 | TGAAGGTTGGGTGTTGTGGC | 61.040 | 55.000 | 0.00 | 0.00 | 0.00 | 5.01 |
418 | 432 | 0.755327 | GAAGGTTGGGTGTTGTGGCT | 60.755 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 |
419 | 433 | 1.042559 | AAGGTTGGGTGTTGTGGCTG | 61.043 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
420 | 434 | 2.498056 | GGTTGGGTGTTGTGGCTGG | 61.498 | 63.158 | 0.00 | 0.00 | 0.00 | 4.85 |
421 | 435 | 1.454847 | GTTGGGTGTTGTGGCTGGA | 60.455 | 57.895 | 0.00 | 0.00 | 0.00 | 3.86 |
422 | 436 | 1.454847 | TTGGGTGTTGTGGCTGGAC | 60.455 | 57.895 | 0.00 | 0.00 | 0.00 | 4.02 |
423 | 437 | 2.194597 | GGGTGTTGTGGCTGGACA | 59.805 | 61.111 | 0.00 | 0.00 | 0.00 | 4.02 |
434 | 448 | 4.093743 | TGTGGCTGGACAACTATCTTCTA | 58.906 | 43.478 | 0.00 | 0.00 | 0.00 | 2.10 |
435 | 449 | 4.160439 | TGTGGCTGGACAACTATCTTCTAG | 59.840 | 45.833 | 0.00 | 0.00 | 0.00 | 2.43 |
449 | 495 | 9.531158 | AACTATCTTCTAGTACTAAGTTGTGGT | 57.469 | 33.333 | 12.47 | 2.44 | 0.00 | 4.16 |
470 | 518 | 7.504238 | TGTGGTTGGTGTAAATAGTTTGAAGAT | 59.496 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
488 | 536 | 5.049336 | TGAAGATTTGTCAACGCGGAATAAA | 60.049 | 36.000 | 12.47 | 6.54 | 0.00 | 1.40 |
499 | 547 | 6.916387 | TCAACGCGGAATAAATTTTTGTAACA | 59.084 | 30.769 | 12.47 | 0.00 | 0.00 | 2.41 |
505 | 553 | 9.575702 | GCGGAATAAATTTTTGTAACAAGTTTC | 57.424 | 29.630 | 0.00 | 0.00 | 0.00 | 2.78 |
538 | 587 | 9.847224 | AAAATGGTTATCTCAATAATACCGAGT | 57.153 | 29.630 | 0.00 | 0.00 | 30.28 | 4.18 |
539 | 588 | 9.847224 | AAATGGTTATCTCAATAATACCGAGTT | 57.153 | 29.630 | 0.00 | 0.00 | 30.28 | 3.01 |
541 | 590 | 8.657074 | TGGTTATCTCAATAATACCGAGTTTG | 57.343 | 34.615 | 0.00 | 0.00 | 30.28 | 2.93 |
543 | 592 | 9.321562 | GGTTATCTCAATAATACCGAGTTTGAA | 57.678 | 33.333 | 0.00 | 0.00 | 30.28 | 2.69 |
546 | 595 | 7.177832 | TCTCAATAATACCGAGTTTGAAGGA | 57.822 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
551 | 600 | 9.503427 | CAATAATACCGAGTTTGAAGGATTTTC | 57.497 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
552 | 601 | 6.510879 | AATACCGAGTTTGAAGGATTTTCC | 57.489 | 37.500 | 0.00 | 0.00 | 36.58 | 3.13 |
554 | 603 | 2.492088 | CCGAGTTTGAAGGATTTTCCCC | 59.508 | 50.000 | 0.00 | 0.00 | 37.19 | 4.81 |
575 | 624 | 1.657822 | TTTTTGCGCTTTGAAACCCC | 58.342 | 45.000 | 9.73 | 0.00 | 0.00 | 4.95 |
577 | 626 | 0.755686 | TTTGCGCTTTGAAACCCCAT | 59.244 | 45.000 | 9.73 | 0.00 | 0.00 | 4.00 |
578 | 627 | 0.033228 | TTGCGCTTTGAAACCCCATG | 59.967 | 50.000 | 9.73 | 0.00 | 0.00 | 3.66 |
579 | 628 | 1.737735 | GCGCTTTGAAACCCCATGC | 60.738 | 57.895 | 0.00 | 0.00 | 0.00 | 4.06 |
580 | 629 | 1.664873 | CGCTTTGAAACCCCATGCA | 59.335 | 52.632 | 0.00 | 0.00 | 0.00 | 3.96 |
582 | 631 | 1.338011 | CGCTTTGAAACCCCATGCATT | 60.338 | 47.619 | 0.00 | 0.00 | 0.00 | 3.56 |
583 | 632 | 2.078392 | GCTTTGAAACCCCATGCATTG | 58.922 | 47.619 | 0.00 | 0.00 | 0.00 | 2.82 |
584 | 633 | 2.289569 | GCTTTGAAACCCCATGCATTGA | 60.290 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
586 | 635 | 4.581868 | CTTTGAAACCCCATGCATTGATT | 58.418 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
588 | 637 | 4.637387 | TGAAACCCCATGCATTGATTTT | 57.363 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
590 | 639 | 4.760715 | TGAAACCCCATGCATTGATTTTTG | 59.239 | 37.500 | 0.00 | 0.00 | 0.00 | 2.44 |
591 | 640 | 4.637387 | AACCCCATGCATTGATTTTTGA | 57.363 | 36.364 | 0.00 | 0.00 | 0.00 | 2.69 |
592 | 641 | 4.210724 | ACCCCATGCATTGATTTTTGAG | 57.789 | 40.909 | 0.00 | 0.00 | 0.00 | 3.02 |
593 | 642 | 3.054948 | ACCCCATGCATTGATTTTTGAGG | 60.055 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
594 | 643 | 3.054948 | CCCCATGCATTGATTTTTGAGGT | 60.055 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
595 | 644 | 4.186159 | CCCATGCATTGATTTTTGAGGTC | 58.814 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
597 | 646 | 4.628333 | CCATGCATTGATTTTTGAGGTCAC | 59.372 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
598 | 647 | 4.933505 | TGCATTGATTTTTGAGGTCACA | 57.066 | 36.364 | 0.00 | 0.00 | 0.00 | 3.58 |
599 | 648 | 5.471556 | TGCATTGATTTTTGAGGTCACAT | 57.528 | 34.783 | 0.00 | 0.00 | 0.00 | 3.21 |
601 | 650 | 5.221481 | TGCATTGATTTTTGAGGTCACATGT | 60.221 | 36.000 | 0.00 | 0.00 | 0.00 | 3.21 |
602 | 651 | 5.697633 | GCATTGATTTTTGAGGTCACATGTT | 59.302 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
604 | 653 | 7.254863 | GCATTGATTTTTGAGGTCACATGTTTT | 60.255 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
605 | 654 | 8.614346 | CATTGATTTTTGAGGTCACATGTTTTT | 58.386 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
606 | 655 | 7.769272 | TGATTTTTGAGGTCACATGTTTTTC | 57.231 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
608 | 657 | 7.492020 | TGATTTTTGAGGTCACATGTTTTTCAG | 59.508 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
609 | 658 | 4.916983 | TTGAGGTCACATGTTTTTCAGG | 57.083 | 40.909 | 0.00 | 0.00 | 0.00 | 3.86 |
610 | 659 | 3.221771 | TGAGGTCACATGTTTTTCAGGG | 58.778 | 45.455 | 0.00 | 0.00 | 31.56 | 4.45 |
611 | 660 | 2.558359 | GAGGTCACATGTTTTTCAGGGG | 59.442 | 50.000 | 0.00 | 0.00 | 31.94 | 4.79 |
613 | 662 | 2.962421 | GGTCACATGTTTTTCAGGGGAA | 59.038 | 45.455 | 0.00 | 0.00 | 41.98 | 3.97 |
614 | 663 | 3.578282 | GGTCACATGTTTTTCAGGGGAAT | 59.422 | 43.478 | 0.00 | 0.00 | 41.98 | 3.01 |
616 | 665 | 3.006752 | TCACATGTTTTTCAGGGGAATGC | 59.993 | 43.478 | 0.00 | 0.00 | 37.32 | 3.56 |
617 | 666 | 2.029110 | ACATGTTTTTCAGGGGAATGCG | 60.029 | 45.455 | 0.00 | 0.00 | 31.93 | 4.73 |
618 | 667 | 1.698506 | TGTTTTTCAGGGGAATGCGT | 58.301 | 45.000 | 0.00 | 0.00 | 31.93 | 5.24 |
620 | 669 | 2.223923 | TGTTTTTCAGGGGAATGCGTTG | 60.224 | 45.455 | 0.00 | 0.00 | 31.93 | 4.10 |
621 | 670 | 1.988293 | TTTTCAGGGGAATGCGTTGA | 58.012 | 45.000 | 0.00 | 0.00 | 31.93 | 3.18 |
622 | 671 | 1.988293 | TTTCAGGGGAATGCGTTGAA | 58.012 | 45.000 | 0.00 | 0.00 | 31.93 | 2.69 |
623 | 672 | 1.988293 | TTCAGGGGAATGCGTTGAAA | 58.012 | 45.000 | 0.00 | 0.00 | 0.00 | 2.69 |
651 | 752 | 1.196104 | ATTGTTGCAAGGCCATGGCT | 61.196 | 50.000 | 34.70 | 18.82 | 41.24 | 4.75 |
665 | 766 | 2.496871 | CCATGGCTATGCACTCCAAAAA | 59.503 | 45.455 | 4.19 | 0.00 | 33.04 | 1.94 |
667 | 768 | 2.591923 | TGGCTATGCACTCCAAAAACA | 58.408 | 42.857 | 0.00 | 0.00 | 0.00 | 2.83 |
670 | 771 | 4.176271 | GGCTATGCACTCCAAAAACAATC | 58.824 | 43.478 | 0.00 | 0.00 | 0.00 | 2.67 |
683 | 784 | 3.708563 | AAACAATCTCACGTTGGTTGG | 57.291 | 42.857 | 13.68 | 0.00 | 35.32 | 3.77 |
690 | 791 | 2.028476 | TCTCACGTTGGTTGGTATCCTG | 60.028 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
691 | 792 | 0.802494 | CACGTTGGTTGGTATCCTGC | 59.198 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
694 | 795 | 1.883275 | CGTTGGTTGGTATCCTGCAAA | 59.117 | 47.619 | 0.00 | 0.00 | 0.00 | 3.68 |
695 | 796 | 2.294791 | CGTTGGTTGGTATCCTGCAAAA | 59.705 | 45.455 | 0.00 | 0.00 | 0.00 | 2.44 |
696 | 797 | 3.243569 | CGTTGGTTGGTATCCTGCAAAAA | 60.244 | 43.478 | 0.00 | 0.00 | 0.00 | 1.94 |
749 | 850 | 1.386533 | GTCATGTGGATTCCAGGCTG | 58.613 | 55.000 | 5.39 | 7.75 | 32.34 | 4.85 |
750 | 851 | 1.065199 | GTCATGTGGATTCCAGGCTGA | 60.065 | 52.381 | 17.94 | 6.66 | 32.34 | 4.26 |
751 | 852 | 1.848388 | TCATGTGGATTCCAGGCTGAT | 59.152 | 47.619 | 17.94 | 1.44 | 32.34 | 2.90 |
753 | 882 | 3.654321 | TCATGTGGATTCCAGGCTGATAT | 59.346 | 43.478 | 17.94 | 8.59 | 32.34 | 1.63 |
755 | 884 | 5.489997 | TCATGTGGATTCCAGGCTGATATAT | 59.510 | 40.000 | 17.94 | 3.20 | 32.34 | 0.86 |
804 | 1126 | 7.472334 | AAGCAAAATCACTATCAACCAGATT | 57.528 | 32.000 | 0.00 | 0.00 | 38.19 | 2.40 |
805 | 1127 | 7.472334 | AGCAAAATCACTATCAACCAGATTT | 57.528 | 32.000 | 0.00 | 0.00 | 39.74 | 2.17 |
816 | 1143 | 2.679342 | CCAGATTTGGCCGGGGAGA | 61.679 | 63.158 | 2.18 | 0.00 | 37.73 | 3.71 |
923 | 1254 | 2.287117 | TCCCACCCATCCAGGCAT | 60.287 | 61.111 | 0.00 | 0.00 | 35.39 | 4.40 |
929 | 1260 | 0.974010 | ACCCATCCAGGCATTGCTTG | 60.974 | 55.000 | 13.42 | 13.42 | 35.37 | 4.01 |
991 | 1327 | 1.593209 | GGCGGTGAGACGTGAACAA | 60.593 | 57.895 | 0.00 | 0.00 | 35.98 | 2.83 |
1013 | 1349 | 2.842256 | GCATCATGGGAGCGGCAAG | 61.842 | 63.158 | 1.45 | 0.00 | 0.00 | 4.01 |
1440 | 1798 | 1.050988 | TATGGCAGAGGAGGGTGCTC | 61.051 | 60.000 | 0.00 | 0.00 | 39.76 | 4.26 |
1731 | 2096 | 1.070786 | TCCAGTTGAACACCGCTCC | 59.929 | 57.895 | 0.00 | 0.00 | 0.00 | 4.70 |
1756 | 2121 | 2.990740 | TTCCAGTTTGTTAGGCCCAT | 57.009 | 45.000 | 0.00 | 0.00 | 0.00 | 4.00 |
1773 | 2138 | 6.138967 | AGGCCCATTATTAAGCAGAAGAAAT | 58.861 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
1805 | 2170 | 1.337447 | CCTGTTTGCAAGCCTCATTGG | 60.337 | 52.381 | 11.02 | 0.40 | 39.35 | 3.16 |
1813 | 2178 | 1.928868 | AAGCCTCATTGGTTTGGGAG | 58.071 | 50.000 | 0.00 | 0.00 | 37.87 | 4.30 |
1822 | 2187 | 1.378646 | GGTTTGGGAGTAGCCAGCC | 60.379 | 63.158 | 0.00 | 0.00 | 38.95 | 4.85 |
1850 | 2215 | 1.065782 | TGCCTACGCTAAATTCTGCCA | 60.066 | 47.619 | 0.00 | 0.00 | 35.36 | 4.92 |
1882 | 2250 | 6.449698 | GTTCTCAATGTGACATCAACCAATT | 58.550 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
1982 | 2836 | 6.505272 | ACTTTATTCGTAGAGATGCCAGTAC | 58.495 | 40.000 | 0.00 | 0.00 | 38.43 | 2.73 |
2015 | 2870 | 5.117584 | AGCTTCTATGCTTGTCTTGATCAG | 58.882 | 41.667 | 0.00 | 0.00 | 40.93 | 2.90 |
2032 | 2887 | 7.840716 | TCTTGATCAGTCCCCAATCAAATTAAT | 59.159 | 33.333 | 0.00 | 0.00 | 38.54 | 1.40 |
2033 | 2888 | 9.135189 | CTTGATCAGTCCCCAATCAAATTAATA | 57.865 | 33.333 | 0.00 | 0.00 | 38.54 | 0.98 |
2068 | 2923 | 7.098477 | CCATCTTACATTTGAAGCCATTTTGA | 58.902 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
2197 | 3052 | 6.879458 | AGCTCACCGAAATTAGAACAAGTAAT | 59.121 | 34.615 | 0.00 | 0.00 | 0.00 | 1.89 |
2238 | 3093 | 1.207791 | ACTGCCTCCTCGGATTGATT | 58.792 | 50.000 | 0.00 | 0.00 | 33.16 | 2.57 |
2338 | 3193 | 9.645128 | AGGAAATTTTATGATGACATGGACATA | 57.355 | 29.630 | 0.00 | 0.00 | 37.87 | 2.29 |
2406 | 3261 | 2.756760 | CAATGACCAAACTAGCATGCCT | 59.243 | 45.455 | 15.66 | 4.37 | 0.00 | 4.75 |
2451 | 3306 | 4.767578 | TCATCTTCTTAGGCAAGAGCAT | 57.232 | 40.909 | 0.00 | 0.00 | 41.75 | 3.79 |
2452 | 3307 | 5.108187 | TCATCTTCTTAGGCAAGAGCATT | 57.892 | 39.130 | 0.00 | 0.00 | 41.75 | 3.56 |
2453 | 3308 | 4.880120 | TCATCTTCTTAGGCAAGAGCATTG | 59.120 | 41.667 | 0.00 | 0.00 | 41.75 | 2.82 |
2454 | 3309 | 4.558226 | TCTTCTTAGGCAAGAGCATTGA | 57.442 | 40.909 | 5.91 | 0.00 | 41.75 | 2.57 |
2455 | 3310 | 4.910195 | TCTTCTTAGGCAAGAGCATTGAA | 58.090 | 39.130 | 5.91 | 0.00 | 41.75 | 2.69 |
2456 | 3311 | 4.940046 | TCTTCTTAGGCAAGAGCATTGAAG | 59.060 | 41.667 | 5.91 | 9.54 | 41.75 | 3.02 |
2457 | 3312 | 3.012518 | TCTTAGGCAAGAGCATTGAAGC | 58.987 | 45.455 | 5.91 | 0.00 | 44.61 | 3.86 |
2458 | 3313 | 2.495155 | TAGGCAAGAGCATTGAAGCA | 57.505 | 45.000 | 5.91 | 0.00 | 44.61 | 3.91 |
2459 | 3314 | 1.624336 | AGGCAAGAGCATTGAAGCAA | 58.376 | 45.000 | 5.91 | 0.00 | 44.61 | 3.91 |
2460 | 3315 | 1.965643 | AGGCAAGAGCATTGAAGCAAA | 59.034 | 42.857 | 5.91 | 0.00 | 44.61 | 3.68 |
2461 | 3316 | 2.029290 | AGGCAAGAGCATTGAAGCAAAG | 60.029 | 45.455 | 5.91 | 0.00 | 44.61 | 2.77 |
2462 | 3317 | 2.288640 | GGCAAGAGCATTGAAGCAAAGT | 60.289 | 45.455 | 5.91 | 0.00 | 44.61 | 2.66 |
2463 | 3318 | 3.387397 | GCAAGAGCATTGAAGCAAAGTT | 58.613 | 40.909 | 5.91 | 0.00 | 41.58 | 2.66 |
2464 | 3319 | 3.805971 | GCAAGAGCATTGAAGCAAAGTTT | 59.194 | 39.130 | 5.91 | 0.00 | 41.58 | 2.66 |
2465 | 3320 | 4.318546 | GCAAGAGCATTGAAGCAAAGTTTG | 60.319 | 41.667 | 11.41 | 11.41 | 41.58 | 2.93 |
2502 | 3380 | 4.094590 | CCAAGCAAAATCTTTGTGTTGCAA | 59.905 | 37.500 | 9.62 | 0.00 | 46.92 | 4.08 |
2558 | 3436 | 3.695830 | TTACACCACAGAACTGGGATC | 57.304 | 47.619 | 5.58 | 0.00 | 35.61 | 3.36 |
2611 | 3506 | 6.567050 | ACAATGTAAGCCAGCATAGAAATTG | 58.433 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
2633 | 3528 | 2.076207 | ATGCATTGCAGAATGGCCTA | 57.924 | 45.000 | 17.52 | 0.00 | 43.65 | 3.93 |
2646 | 3541 | 2.489938 | TGGCCTATTCTCGCACTTTT | 57.510 | 45.000 | 3.32 | 0.00 | 0.00 | 2.27 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
6 | 7 | 3.884895 | CCACCAGCCATTAACAGTATGA | 58.115 | 45.455 | 0.00 | 0.00 | 39.69 | 2.15 |
51 | 52 | 4.070716 | AGAAACAGAGGAAATCAGCACTG | 58.929 | 43.478 | 0.00 | 0.00 | 0.00 | 3.66 |
61 | 62 | 4.503296 | CGAAGAAAGGGAGAAACAGAGGAA | 60.503 | 45.833 | 0.00 | 0.00 | 0.00 | 3.36 |
65 | 66 | 3.244112 | GGACGAAGAAAGGGAGAAACAGA | 60.244 | 47.826 | 0.00 | 0.00 | 0.00 | 3.41 |
66 | 67 | 3.067833 | GGACGAAGAAAGGGAGAAACAG | 58.932 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
67 | 68 | 2.704065 | AGGACGAAGAAAGGGAGAAACA | 59.296 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
68 | 69 | 3.404224 | AGGACGAAGAAAGGGAGAAAC | 57.596 | 47.619 | 0.00 | 0.00 | 0.00 | 2.78 |
71 | 72 | 2.563179 | CAGAAGGACGAAGAAAGGGAGA | 59.437 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
72 | 73 | 2.300437 | ACAGAAGGACGAAGAAAGGGAG | 59.700 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
73 | 74 | 2.299297 | GACAGAAGGACGAAGAAAGGGA | 59.701 | 50.000 | 0.00 | 0.00 | 0.00 | 4.20 |
74 | 75 | 2.689646 | GACAGAAGGACGAAGAAAGGG | 58.310 | 52.381 | 0.00 | 0.00 | 0.00 | 3.95 |
121 | 122 | 4.379186 | GCTCACAGTTCATGTCTGGATTTG | 60.379 | 45.833 | 18.90 | 11.35 | 41.41 | 2.32 |
130 | 131 | 1.271054 | GGTCCAGCTCACAGTTCATGT | 60.271 | 52.381 | 0.00 | 0.00 | 45.43 | 3.21 |
143 | 144 | 2.679837 | CACACATTACTCATGGTCCAGC | 59.320 | 50.000 | 0.00 | 0.00 | 37.17 | 4.85 |
161 | 162 | 2.535485 | ATCGAATCGGCCTTGGCACA | 62.535 | 55.000 | 14.04 | 0.00 | 0.00 | 4.57 |
162 | 163 | 1.819632 | ATCGAATCGGCCTTGGCAC | 60.820 | 57.895 | 14.04 | 2.31 | 0.00 | 5.01 |
166 | 172 | 1.893808 | CCCCATCGAATCGGCCTTG | 60.894 | 63.158 | 1.76 | 0.00 | 0.00 | 3.61 |
176 | 182 | 0.251608 | TGAGACTGTGACCCCATCGA | 60.252 | 55.000 | 0.00 | 0.00 | 0.00 | 3.59 |
177 | 183 | 0.108615 | GTGAGACTGTGACCCCATCG | 60.109 | 60.000 | 0.00 | 0.00 | 0.00 | 3.84 |
179 | 185 | 0.979665 | CTGTGAGACTGTGACCCCAT | 59.020 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
181 | 187 | 1.205893 | GATCTGTGAGACTGTGACCCC | 59.794 | 57.143 | 0.00 | 0.00 | 0.00 | 4.95 |
182 | 188 | 1.895798 | TGATCTGTGAGACTGTGACCC | 59.104 | 52.381 | 0.00 | 0.00 | 0.00 | 4.46 |
183 | 189 | 3.883830 | ATGATCTGTGAGACTGTGACC | 57.116 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
184 | 190 | 5.826601 | TCTATGATCTGTGAGACTGTGAC | 57.173 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
185 | 191 | 6.682362 | GCATTCTATGATCTGTGAGACTGTGA | 60.682 | 42.308 | 0.00 | 0.00 | 0.00 | 3.58 |
186 | 192 | 5.462729 | GCATTCTATGATCTGTGAGACTGTG | 59.537 | 44.000 | 0.00 | 0.00 | 0.00 | 3.66 |
187 | 193 | 5.363292 | AGCATTCTATGATCTGTGAGACTGT | 59.637 | 40.000 | 0.00 | 0.00 | 0.00 | 3.55 |
188 | 194 | 5.845103 | AGCATTCTATGATCTGTGAGACTG | 58.155 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
189 | 195 | 6.294675 | GCTAGCATTCTATGATCTGTGAGACT | 60.295 | 42.308 | 10.63 | 0.00 | 0.00 | 3.24 |
190 | 196 | 5.863397 | GCTAGCATTCTATGATCTGTGAGAC | 59.137 | 44.000 | 10.63 | 0.00 | 0.00 | 3.36 |
191 | 197 | 5.774184 | AGCTAGCATTCTATGATCTGTGAGA | 59.226 | 40.000 | 18.83 | 0.00 | 0.00 | 3.27 |
192 | 198 | 5.865013 | CAGCTAGCATTCTATGATCTGTGAG | 59.135 | 44.000 | 18.83 | 0.00 | 0.00 | 3.51 |
193 | 199 | 5.537674 | TCAGCTAGCATTCTATGATCTGTGA | 59.462 | 40.000 | 18.83 | 3.41 | 0.00 | 3.58 |
194 | 200 | 5.780984 | TCAGCTAGCATTCTATGATCTGTG | 58.219 | 41.667 | 18.83 | 0.77 | 0.00 | 3.66 |
195 | 201 | 6.014413 | ACATCAGCTAGCATTCTATGATCTGT | 60.014 | 38.462 | 18.83 | 9.70 | 27.53 | 3.41 |
196 | 202 | 6.399743 | ACATCAGCTAGCATTCTATGATCTG | 58.600 | 40.000 | 18.83 | 9.10 | 27.53 | 2.90 |
197 | 203 | 6.608539 | ACATCAGCTAGCATTCTATGATCT | 57.391 | 37.500 | 18.83 | 0.96 | 27.53 | 2.75 |
201 | 207 | 7.348808 | CTGTAACATCAGCTAGCATTCTATG | 57.651 | 40.000 | 18.83 | 13.97 | 0.00 | 2.23 |
242 | 252 | 4.098055 | TGAAGATTACAGCTCTCGTCAC | 57.902 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
243 | 253 | 4.783764 | TTGAAGATTACAGCTCTCGTCA | 57.216 | 40.909 | 0.00 | 0.00 | 0.00 | 4.35 |
254 | 264 | 5.180492 | TGGTCAAACGGTGATTGAAGATTAC | 59.820 | 40.000 | 0.00 | 0.00 | 38.44 | 1.89 |
262 | 272 | 1.266718 | CCAGTGGTCAAACGGTGATTG | 59.733 | 52.381 | 0.00 | 0.00 | 38.90 | 2.67 |
263 | 273 | 1.142060 | TCCAGTGGTCAAACGGTGATT | 59.858 | 47.619 | 9.54 | 0.00 | 38.90 | 2.57 |
280 | 290 | 4.238654 | AACGTTCCGCCGGTTCCA | 62.239 | 61.111 | 1.63 | 0.00 | 0.00 | 3.53 |
289 | 299 | 0.808453 | ATATGGCGTCCAACGTTCCG | 60.808 | 55.000 | 0.00 | 2.22 | 44.73 | 4.30 |
290 | 300 | 0.655733 | CATATGGCGTCCAACGTTCC | 59.344 | 55.000 | 0.00 | 0.00 | 44.73 | 3.62 |
291 | 301 | 1.062002 | CACATATGGCGTCCAACGTTC | 59.938 | 52.381 | 7.80 | 0.00 | 44.73 | 3.95 |
292 | 302 | 1.083489 | CACATATGGCGTCCAACGTT | 58.917 | 50.000 | 7.80 | 0.00 | 44.73 | 3.99 |
293 | 303 | 0.248012 | TCACATATGGCGTCCAACGT | 59.752 | 50.000 | 7.80 | 0.00 | 44.73 | 3.99 |
305 | 315 | 1.479942 | CCATGGCCTGCCTTCACATAT | 60.480 | 52.381 | 9.97 | 0.00 | 36.94 | 1.78 |
348 | 359 | 4.328983 | GCGAAAAGTTTATGAGACATCCGA | 59.671 | 41.667 | 0.00 | 0.00 | 0.00 | 4.55 |
349 | 360 | 4.494199 | GGCGAAAAGTTTATGAGACATCCG | 60.494 | 45.833 | 0.00 | 0.00 | 0.00 | 4.18 |
360 | 373 | 0.674269 | ATCCGCGGGCGAAAAGTTTA | 60.674 | 50.000 | 27.83 | 0.12 | 42.83 | 2.01 |
373 | 386 | 0.238817 | TTCCCGAAAACAAATCCGCG | 59.761 | 50.000 | 0.00 | 0.00 | 0.00 | 6.46 |
378 | 391 | 6.259829 | CCTTCAAACATTTCCCGAAAACAAAT | 59.740 | 34.615 | 0.00 | 0.00 | 33.56 | 2.32 |
389 | 402 | 3.133901 | ACACCCAACCTTCAAACATTTCC | 59.866 | 43.478 | 0.00 | 0.00 | 0.00 | 3.13 |
403 | 417 | 1.454847 | TCCAGCCACAACACCCAAC | 60.455 | 57.895 | 0.00 | 0.00 | 0.00 | 3.77 |
414 | 428 | 4.353777 | ACTAGAAGATAGTTGTCCAGCCA | 58.646 | 43.478 | 0.00 | 0.00 | 0.00 | 4.75 |
415 | 429 | 5.595133 | AGTACTAGAAGATAGTTGTCCAGCC | 59.405 | 44.000 | 0.00 | 0.00 | 0.00 | 4.85 |
416 | 430 | 6.702716 | AGTACTAGAAGATAGTTGTCCAGC | 57.297 | 41.667 | 0.00 | 0.00 | 0.00 | 4.85 |
417 | 431 | 9.398538 | ACTTAGTACTAGAAGATAGTTGTCCAG | 57.601 | 37.037 | 11.55 | 0.13 | 0.00 | 3.86 |
418 | 432 | 9.750783 | AACTTAGTACTAGAAGATAGTTGTCCA | 57.249 | 33.333 | 11.55 | 0.00 | 0.00 | 4.02 |
422 | 436 | 9.790389 | CCACAACTTAGTACTAGAAGATAGTTG | 57.210 | 37.037 | 26.63 | 26.63 | 44.02 | 3.16 |
423 | 437 | 9.531158 | ACCACAACTTAGTACTAGAAGATAGTT | 57.469 | 33.333 | 11.55 | 10.11 | 0.00 | 2.24 |
426 | 440 | 8.746530 | CCAACCACAACTTAGTACTAGAAGATA | 58.253 | 37.037 | 11.55 | 0.00 | 0.00 | 1.98 |
428 | 442 | 6.552350 | ACCAACCACAACTTAGTACTAGAAGA | 59.448 | 38.462 | 11.55 | 0.00 | 0.00 | 2.87 |
430 | 444 | 6.098695 | ACACCAACCACAACTTAGTACTAGAA | 59.901 | 38.462 | 2.23 | 0.00 | 0.00 | 2.10 |
434 | 448 | 4.765813 | ACACCAACCACAACTTAGTACT | 57.234 | 40.909 | 0.00 | 0.00 | 0.00 | 2.73 |
435 | 449 | 6.923928 | TTTACACCAACCACAACTTAGTAC | 57.076 | 37.500 | 0.00 | 0.00 | 0.00 | 2.73 |
445 | 491 | 7.266922 | TCTTCAAACTATTTACACCAACCAC | 57.733 | 36.000 | 0.00 | 0.00 | 0.00 | 4.16 |
447 | 493 | 9.191995 | CAAATCTTCAAACTATTTACACCAACC | 57.808 | 33.333 | 0.00 | 0.00 | 0.00 | 3.77 |
449 | 495 | 9.959749 | GACAAATCTTCAAACTATTTACACCAA | 57.040 | 29.630 | 0.00 | 0.00 | 0.00 | 3.67 |
470 | 518 | 6.255887 | ACAAAAATTTATTCCGCGTTGACAAA | 59.744 | 30.769 | 4.92 | 0.00 | 0.00 | 2.83 |
533 | 582 | 2.492088 | GGGGAAAATCCTTCAAACTCGG | 59.508 | 50.000 | 0.00 | 0.00 | 36.57 | 4.63 |
534 | 583 | 3.421844 | AGGGGAAAATCCTTCAAACTCG | 58.578 | 45.455 | 0.00 | 0.00 | 36.57 | 4.18 |
536 | 585 | 6.575244 | AAAAAGGGGAAAATCCTTCAAACT | 57.425 | 33.333 | 0.00 | 0.00 | 43.24 | 2.66 |
561 | 610 | 1.737735 | GCATGGGGTTTCAAAGCGC | 60.738 | 57.895 | 9.34 | 9.34 | 41.57 | 5.92 |
562 | 611 | 0.247185 | ATGCATGGGGTTTCAAAGCG | 59.753 | 50.000 | 0.00 | 0.00 | 0.00 | 4.68 |
563 | 612 | 2.078392 | CAATGCATGGGGTTTCAAAGC | 58.922 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
564 | 613 | 3.681593 | TCAATGCATGGGGTTTCAAAG | 57.318 | 42.857 | 0.00 | 0.00 | 0.00 | 2.77 |
565 | 614 | 4.637387 | AATCAATGCATGGGGTTTCAAA | 57.363 | 36.364 | 0.00 | 0.00 | 0.00 | 2.69 |
566 | 615 | 4.637387 | AAATCAATGCATGGGGTTTCAA | 57.363 | 36.364 | 0.00 | 0.00 | 0.00 | 2.69 |
567 | 616 | 4.637387 | AAAATCAATGCATGGGGTTTCA | 57.363 | 36.364 | 0.00 | 0.00 | 0.00 | 2.69 |
568 | 617 | 5.002516 | TCAAAAATCAATGCATGGGGTTTC | 58.997 | 37.500 | 0.00 | 0.00 | 0.00 | 2.78 |
570 | 619 | 4.566070 | CCTCAAAAATCAATGCATGGGGTT | 60.566 | 41.667 | 0.00 | 0.00 | 0.00 | 4.11 |
571 | 620 | 3.054948 | CCTCAAAAATCAATGCATGGGGT | 60.055 | 43.478 | 0.00 | 0.00 | 0.00 | 4.95 |
573 | 622 | 4.186159 | GACCTCAAAAATCAATGCATGGG | 58.814 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
574 | 623 | 4.628333 | GTGACCTCAAAAATCAATGCATGG | 59.372 | 41.667 | 0.00 | 0.00 | 0.00 | 3.66 |
575 | 624 | 5.231702 | TGTGACCTCAAAAATCAATGCATG | 58.768 | 37.500 | 0.00 | 0.00 | 0.00 | 4.06 |
577 | 626 | 4.933505 | TGTGACCTCAAAAATCAATGCA | 57.066 | 36.364 | 0.00 | 0.00 | 0.00 | 3.96 |
578 | 627 | 5.232463 | ACATGTGACCTCAAAAATCAATGC | 58.768 | 37.500 | 0.00 | 0.00 | 0.00 | 3.56 |
579 | 628 | 7.718272 | AAACATGTGACCTCAAAAATCAATG | 57.282 | 32.000 | 0.00 | 0.00 | 0.00 | 2.82 |
580 | 629 | 8.735692 | AAAAACATGTGACCTCAAAAATCAAT | 57.264 | 26.923 | 0.00 | 0.00 | 0.00 | 2.57 |
582 | 631 | 7.326454 | TGAAAAACATGTGACCTCAAAAATCA | 58.674 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
583 | 632 | 7.042523 | CCTGAAAAACATGTGACCTCAAAAATC | 60.043 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
584 | 633 | 6.762661 | CCTGAAAAACATGTGACCTCAAAAAT | 59.237 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
586 | 635 | 5.395103 | CCCTGAAAAACATGTGACCTCAAAA | 60.395 | 40.000 | 0.00 | 0.00 | 0.00 | 2.44 |
588 | 637 | 3.636300 | CCCTGAAAAACATGTGACCTCAA | 59.364 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
590 | 639 | 2.558359 | CCCCTGAAAAACATGTGACCTC | 59.442 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
591 | 640 | 2.176798 | TCCCCTGAAAAACATGTGACCT | 59.823 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
592 | 641 | 2.593026 | TCCCCTGAAAAACATGTGACC | 58.407 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
593 | 642 | 4.559153 | CATTCCCCTGAAAAACATGTGAC | 58.441 | 43.478 | 0.00 | 0.00 | 33.32 | 3.67 |
594 | 643 | 3.006752 | GCATTCCCCTGAAAAACATGTGA | 59.993 | 43.478 | 0.00 | 0.00 | 33.32 | 3.58 |
595 | 644 | 3.328505 | GCATTCCCCTGAAAAACATGTG | 58.671 | 45.455 | 0.00 | 0.00 | 33.32 | 3.21 |
597 | 646 | 2.029110 | ACGCATTCCCCTGAAAAACATG | 60.029 | 45.455 | 0.00 | 0.00 | 33.32 | 3.21 |
598 | 647 | 2.247358 | ACGCATTCCCCTGAAAAACAT | 58.753 | 42.857 | 0.00 | 0.00 | 33.32 | 2.71 |
599 | 648 | 1.698506 | ACGCATTCCCCTGAAAAACA | 58.301 | 45.000 | 0.00 | 0.00 | 33.32 | 2.83 |
601 | 650 | 2.311463 | TCAACGCATTCCCCTGAAAAA | 58.689 | 42.857 | 0.00 | 0.00 | 33.32 | 1.94 |
602 | 651 | 1.988293 | TCAACGCATTCCCCTGAAAA | 58.012 | 45.000 | 0.00 | 0.00 | 33.32 | 2.29 |
604 | 653 | 1.611491 | GTTTCAACGCATTCCCCTGAA | 59.389 | 47.619 | 0.00 | 0.00 | 34.33 | 3.02 |
605 | 654 | 1.243902 | GTTTCAACGCATTCCCCTGA | 58.756 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
606 | 655 | 0.243636 | GGTTTCAACGCATTCCCCTG | 59.756 | 55.000 | 0.00 | 0.00 | 0.00 | 4.45 |
608 | 657 | 1.589630 | GGGTTTCAACGCATTCCCC | 59.410 | 57.895 | 2.04 | 0.00 | 41.07 | 4.81 |
609 | 658 | 1.182385 | TGGGGTTTCAACGCATTCCC | 61.182 | 55.000 | 8.79 | 2.24 | 42.95 | 3.97 |
610 | 659 | 0.243636 | CTGGGGTTTCAACGCATTCC | 59.756 | 55.000 | 8.79 | 0.00 | 42.95 | 3.01 |
611 | 660 | 0.243636 | CCTGGGGTTTCAACGCATTC | 59.756 | 55.000 | 8.79 | 0.00 | 42.95 | 2.67 |
613 | 662 | 2.275380 | GCCTGGGGTTTCAACGCAT | 61.275 | 57.895 | 8.79 | 0.00 | 42.95 | 4.73 |
614 | 663 | 2.909965 | GCCTGGGGTTTCAACGCA | 60.910 | 61.111 | 8.79 | 0.00 | 42.95 | 5.24 |
616 | 665 | 0.038343 | CAATGCCTGGGGTTTCAACG | 60.038 | 55.000 | 0.00 | 0.00 | 0.00 | 4.10 |
617 | 666 | 1.047801 | ACAATGCCTGGGGTTTCAAC | 58.952 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
618 | 667 | 1.415659 | CAACAATGCCTGGGGTTTCAA | 59.584 | 47.619 | 0.00 | 0.00 | 0.00 | 2.69 |
620 | 669 | 3.912899 | CAACAATGCCTGGGGTTTC | 57.087 | 52.632 | 0.00 | 0.00 | 0.00 | 2.78 |
639 | 738 | 0.754217 | AGTGCATAGCCATGGCCTTG | 60.754 | 55.000 | 33.14 | 28.50 | 43.17 | 3.61 |
651 | 752 | 5.334802 | CGTGAGATTGTTTTTGGAGTGCATA | 60.335 | 40.000 | 0.00 | 0.00 | 0.00 | 3.14 |
665 | 766 | 2.341846 | ACCAACCAACGTGAGATTGT | 57.658 | 45.000 | 0.00 | 0.00 | 0.00 | 2.71 |
667 | 768 | 3.263425 | AGGATACCAACCAACGTGAGATT | 59.737 | 43.478 | 0.00 | 0.00 | 37.17 | 2.40 |
670 | 771 | 2.346803 | CAGGATACCAACCAACGTGAG | 58.653 | 52.381 | 0.00 | 0.00 | 37.17 | 3.51 |
700 | 801 | 9.623000 | GCTCATCTTTAAGTTATACCCCTTAAA | 57.377 | 33.333 | 0.00 | 0.00 | 39.54 | 1.52 |
701 | 802 | 7.929785 | CGCTCATCTTTAAGTTATACCCCTTAA | 59.070 | 37.037 | 0.00 | 0.00 | 32.75 | 1.85 |
702 | 803 | 7.439381 | CGCTCATCTTTAAGTTATACCCCTTA | 58.561 | 38.462 | 0.00 | 0.00 | 0.00 | 2.69 |
703 | 804 | 6.289064 | CGCTCATCTTTAAGTTATACCCCTT | 58.711 | 40.000 | 0.00 | 0.00 | 0.00 | 3.95 |
704 | 805 | 5.742255 | GCGCTCATCTTTAAGTTATACCCCT | 60.742 | 44.000 | 0.00 | 0.00 | 0.00 | 4.79 |
706 | 807 | 4.451435 | GGCGCTCATCTTTAAGTTATACCC | 59.549 | 45.833 | 7.64 | 0.00 | 0.00 | 3.69 |
709 | 810 | 4.940463 | ACGGCGCTCATCTTTAAGTTATA | 58.060 | 39.130 | 6.90 | 0.00 | 0.00 | 0.98 |
710 | 811 | 3.793559 | ACGGCGCTCATCTTTAAGTTAT | 58.206 | 40.909 | 6.90 | 0.00 | 0.00 | 1.89 |
711 | 812 | 3.184541 | GACGGCGCTCATCTTTAAGTTA | 58.815 | 45.455 | 6.90 | 0.00 | 0.00 | 2.24 |
712 | 813 | 2.000447 | GACGGCGCTCATCTTTAAGTT | 59.000 | 47.619 | 6.90 | 0.00 | 0.00 | 2.66 |
713 | 814 | 1.067142 | TGACGGCGCTCATCTTTAAGT | 60.067 | 47.619 | 6.90 | 0.00 | 0.00 | 2.24 |
773 | 993 | 8.992073 | GGTTGATAGTGATTTTGCTTTCAAATT | 58.008 | 29.630 | 0.00 | 0.00 | 41.37 | 1.82 |
776 | 996 | 7.014134 | TCTGGTTGATAGTGATTTTGCTTTCAA | 59.986 | 33.333 | 0.00 | 0.00 | 32.90 | 2.69 |
779 | 999 | 6.899393 | TCTGGTTGATAGTGATTTTGCTTT | 57.101 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
781 | 1001 | 7.318141 | CAAATCTGGTTGATAGTGATTTTGCT | 58.682 | 34.615 | 0.00 | 0.00 | 35.84 | 3.91 |
783 | 1003 | 6.532657 | GCCAAATCTGGTTGATAGTGATTTTG | 59.467 | 38.462 | 0.00 | 0.00 | 45.53 | 2.44 |
784 | 1004 | 6.351286 | GGCCAAATCTGGTTGATAGTGATTTT | 60.351 | 38.462 | 0.00 | 0.00 | 45.53 | 1.82 |
804 | 1126 | 4.722535 | AGCTCTCTCCCCGGCCAA | 62.723 | 66.667 | 2.24 | 0.00 | 0.00 | 4.52 |
835 | 1166 | 2.281484 | GCGTTCCTGCTTGGGTCA | 60.281 | 61.111 | 0.00 | 0.00 | 36.20 | 4.02 |
861 | 1192 | 3.782244 | GGTTCACTCGCTGCGCTG | 61.782 | 66.667 | 18.65 | 14.59 | 0.00 | 5.18 |
901 | 1232 | 1.379044 | CTGGATGGGTGGGACAAGC | 60.379 | 63.158 | 0.00 | 0.00 | 44.16 | 4.01 |
902 | 1233 | 1.304282 | CCTGGATGGGTGGGACAAG | 59.696 | 63.158 | 0.00 | 0.00 | 44.16 | 3.16 |
913 | 1244 | 1.135199 | GTGTCAAGCAATGCCTGGATG | 60.135 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
923 | 1254 | 2.970324 | GGCGTCCGTGTCAAGCAA | 60.970 | 61.111 | 0.00 | 0.00 | 0.00 | 3.91 |
991 | 1327 | 4.923942 | CGCTCCCATGATGCCGCT | 62.924 | 66.667 | 0.00 | 0.00 | 0.00 | 5.52 |
1309 | 1667 | 2.106332 | CCCGTATCCAGTGACGCC | 59.894 | 66.667 | 0.00 | 0.00 | 37.75 | 5.68 |
1312 | 1670 | 0.824759 | AGAAGCCCGTATCCAGTGAC | 59.175 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1313 | 1671 | 0.824109 | CAGAAGCCCGTATCCAGTGA | 59.176 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1314 | 1672 | 0.179073 | CCAGAAGCCCGTATCCAGTG | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 3.66 |
1315 | 1673 | 1.972660 | GCCAGAAGCCCGTATCCAGT | 61.973 | 60.000 | 0.00 | 0.00 | 34.35 | 4.00 |
1316 | 1674 | 1.227674 | GCCAGAAGCCCGTATCCAG | 60.228 | 63.158 | 0.00 | 0.00 | 34.35 | 3.86 |
1317 | 1675 | 1.971505 | CTGCCAGAAGCCCGTATCCA | 61.972 | 60.000 | 0.00 | 0.00 | 42.71 | 3.41 |
1318 | 1676 | 1.227674 | CTGCCAGAAGCCCGTATCC | 60.228 | 63.158 | 0.00 | 0.00 | 42.71 | 2.59 |
1319 | 1677 | 1.227674 | CCTGCCAGAAGCCCGTATC | 60.228 | 63.158 | 0.00 | 0.00 | 42.71 | 2.24 |
1320 | 1678 | 2.746375 | CCCTGCCAGAAGCCCGTAT | 61.746 | 63.158 | 0.00 | 0.00 | 42.71 | 3.06 |
1640 | 2005 | 2.036475 | CAGGTCCCTCAGGATGTTATCG | 59.964 | 54.545 | 0.00 | 0.00 | 46.41 | 2.92 |
1731 | 2096 | 2.225727 | GCCTAACAAACTGGAAAGGACG | 59.774 | 50.000 | 0.00 | 0.00 | 0.00 | 4.79 |
1773 | 2138 | 5.294060 | GCTTGCAAACAGGAAATTTCTGAAA | 59.706 | 36.000 | 17.42 | 5.15 | 36.22 | 2.69 |
1805 | 2170 | 0.678048 | CTGGCTGGCTACTCCCAAAC | 60.678 | 60.000 | 2.00 | 0.00 | 33.73 | 2.93 |
1822 | 2187 | 0.173481 | TTAGCGTAGGCACAGCTCTG | 59.827 | 55.000 | 10.48 | 0.00 | 43.41 | 3.35 |
1850 | 2215 | 6.491062 | TGATGTCACATTGAGAACCAGAATTT | 59.509 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
1882 | 2250 | 4.487804 | CCCTCTGATCTCTCCTCCATTTA | 58.512 | 47.826 | 0.00 | 0.00 | 0.00 | 1.40 |
1933 | 2301 | 8.515414 | GTTGTCCCATTATCCAAATATAAGAGC | 58.485 | 37.037 | 0.00 | 0.00 | 0.00 | 4.09 |
2032 | 2887 | 8.359875 | TCAAATGTAAGATGGCCTTGAATTTA | 57.640 | 30.769 | 3.32 | 0.00 | 36.34 | 1.40 |
2033 | 2888 | 7.243604 | TCAAATGTAAGATGGCCTTGAATTT | 57.756 | 32.000 | 3.32 | 0.00 | 36.34 | 1.82 |
2036 | 2891 | 5.336690 | GCTTCAAATGTAAGATGGCCTTGAA | 60.337 | 40.000 | 3.32 | 7.55 | 36.34 | 2.69 |
2197 | 3052 | 7.038659 | CAGTTAATTTTGACCCAGTTTGTTGA | 58.961 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
2373 | 3228 | 4.829064 | TTGGTCATTGCTAACACTTGAC | 57.171 | 40.909 | 0.00 | 0.00 | 37.98 | 3.18 |
2406 | 3261 | 5.402630 | TGGCCTCTGGTATAGTATGAATGA | 58.597 | 41.667 | 3.32 | 0.00 | 0.00 | 2.57 |
2461 | 3316 | 0.240145 | GGCTCCGTAAGTTGGCAAAC | 59.760 | 55.000 | 0.00 | 0.00 | 36.47 | 2.93 |
2462 | 3317 | 0.179015 | TGGCTCCGTAAGTTGGCAAA | 60.179 | 50.000 | 0.00 | 0.00 | 39.41 | 3.68 |
2463 | 3318 | 0.179015 | TTGGCTCCGTAAGTTGGCAA | 60.179 | 50.000 | 0.00 | 0.00 | 45.39 | 4.52 |
2464 | 3319 | 0.605319 | CTTGGCTCCGTAAGTTGGCA | 60.605 | 55.000 | 0.00 | 0.00 | 40.26 | 4.92 |
2465 | 3320 | 1.923227 | GCTTGGCTCCGTAAGTTGGC | 61.923 | 60.000 | 0.00 | 0.00 | 0.00 | 4.52 |
2466 | 3321 | 0.605319 | TGCTTGGCTCCGTAAGTTGG | 60.605 | 55.000 | 0.00 | 0.00 | 0.00 | 3.77 |
2467 | 3322 | 1.234821 | TTGCTTGGCTCCGTAAGTTG | 58.765 | 50.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2468 | 3323 | 1.975660 | TTTGCTTGGCTCCGTAAGTT | 58.024 | 45.000 | 0.00 | 0.00 | 0.00 | 2.66 |
2469 | 3324 | 1.975660 | TTTTGCTTGGCTCCGTAAGT | 58.024 | 45.000 | 0.00 | 0.00 | 0.00 | 2.24 |
2470 | 3325 | 2.749621 | AGATTTTGCTTGGCTCCGTAAG | 59.250 | 45.455 | 0.00 | 0.00 | 0.00 | 2.34 |
2471 | 3326 | 2.790433 | AGATTTTGCTTGGCTCCGTAA | 58.210 | 42.857 | 0.00 | 0.00 | 0.00 | 3.18 |
2472 | 3327 | 2.489938 | AGATTTTGCTTGGCTCCGTA | 57.510 | 45.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2473 | 3328 | 1.620822 | AAGATTTTGCTTGGCTCCGT | 58.379 | 45.000 | 0.00 | 0.00 | 0.00 | 4.69 |
2558 | 3436 | 2.417516 | CCGGACGGCCTGACTATG | 59.582 | 66.667 | 5.33 | 0.00 | 0.00 | 2.23 |
2611 | 3506 | 2.101917 | AGGCCATTCTGCAATGCATTAC | 59.898 | 45.455 | 12.53 | 7.23 | 38.53 | 1.89 |
2646 | 3541 | 6.141560 | TGATGCGCACATATTGGAATTAAA | 57.858 | 33.333 | 14.90 | 0.00 | 36.35 | 1.52 |
2650 | 3545 | 2.555325 | CCTGATGCGCACATATTGGAAT | 59.445 | 45.455 | 14.90 | 0.00 | 36.35 | 3.01 |
2663 | 3558 | 2.743664 | TGAACTTGTTCATCCTGATGCG | 59.256 | 45.455 | 11.62 | 0.00 | 38.65 | 4.73 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.