Multiple sequence alignment - TraesCS5D01G225600
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 | TraesCS5D01G225600 | chr5D | 100.000 | 2459 | 0 | 0 | 1 | 2459 | 333977935 | 333980393 | 0.000000e+00 | 4542 |
1 | TraesCS5D01G225600 | chr5D | 97.884 | 189 | 3 | 1 | 2266 | 2453 | 149772391 | 149772579 | 2.360000e-85 | 326 |
2 | TraesCS5D01G225600 | chr5D | 78.599 | 257 | 33 | 11 | 1318 | 1571 | 287402078 | 287402315 | 1.520000e-32 | 150 |
3 | TraesCS5D01G225600 | chr5A | 91.730 | 1572 | 69 | 15 | 712 | 2245 | 435475522 | 435477070 | 0.000000e+00 | 2126 |
4 | TraesCS5D01G225600 | chr5A | 90.735 | 680 | 42 | 7 | 54 | 712 | 435471277 | 435471956 | 0.000000e+00 | 887 |
5 | TraesCS5D01G225600 | chr5A | 95.337 | 193 | 9 | 0 | 2261 | 2453 | 670102753 | 670102561 | 8.540000e-80 | 307 |
6 | TraesCS5D01G225600 | chr5A | 85.145 | 276 | 29 | 8 | 1000 | 1272 | 662064160 | 662063894 | 3.120000e-69 | 272 |
7 | TraesCS5D01G225600 | chr5B | 92.308 | 1313 | 52 | 17 | 516 | 1811 | 390523449 | 390524729 | 0.000000e+00 | 1820 |
8 | TraesCS5D01G225600 | chr5B | 92.079 | 1313 | 55 | 23 | 516 | 1811 | 390402584 | 390403864 | 0.000000e+00 | 1803 |
9 | TraesCS5D01G225600 | chr5B | 86.990 | 515 | 57 | 7 | 2 | 510 | 390281359 | 390281869 | 2.740000e-159 | 571 |
10 | TraesCS5D01G225600 | chr5B | 86.990 | 515 | 57 | 7 | 2 | 510 | 390415407 | 390415917 | 2.740000e-159 | 571 |
11 | TraesCS5D01G225600 | chr5B | 85.897 | 156 | 14 | 4 | 1931 | 2078 | 390404016 | 390404171 | 2.530000e-35 | 159 |
12 | TraesCS5D01G225600 | chr5B | 85.897 | 156 | 14 | 4 | 1931 | 2078 | 390524881 | 390525036 | 2.530000e-35 | 159 |
13 | TraesCS5D01G225600 | chrUn | 97.539 | 447 | 6 | 3 | 762 | 1208 | 475903559 | 475903118 | 0.000000e+00 | 760 |
14 | TraesCS5D01G225600 | chrUn | 97.297 | 185 | 4 | 1 | 2269 | 2452 | 51492678 | 51492862 | 1.840000e-81 | 313 |
15 | TraesCS5D01G225600 | chrUn | 97.297 | 185 | 4 | 1 | 2269 | 2452 | 348959344 | 348959160 | 1.840000e-81 | 313 |
16 | TraesCS5D01G225600 | chr7D | 96.907 | 194 | 5 | 1 | 2267 | 2459 | 605142916 | 605142723 | 8.480000e-85 | 324 |
17 | TraesCS5D01G225600 | chr6B | 98.352 | 182 | 3 | 0 | 2270 | 2451 | 113707068 | 113707249 | 1.100000e-83 | 320 |
18 | TraesCS5D01G225600 | chr2B | 97.826 | 184 | 4 | 0 | 2270 | 2453 | 458962292 | 458962475 | 3.950000e-83 | 318 |
19 | TraesCS5D01G225600 | chr2B | 97.802 | 182 | 4 | 0 | 2270 | 2451 | 70184440 | 70184259 | 5.100000e-82 | 315 |
20 | TraesCS5D01G225600 | chr2B | 80.934 | 257 | 43 | 5 | 1318 | 1571 | 772711400 | 772711147 | 5.360000e-47 | 198 |
21 | TraesCS5D01G225600 | chr1D | 94.898 | 196 | 10 | 0 | 2260 | 2455 | 379922585 | 379922780 | 8.540000e-80 | 307 |
22 | TraesCS5D01G225600 | chr4B | 85.870 | 276 | 30 | 5 | 1000 | 1272 | 609575075 | 609575344 | 4.000000e-73 | 285 |
23 | TraesCS5D01G225600 | chr4B | 81.277 | 235 | 31 | 9 | 1097 | 1323 | 610244401 | 610244172 | 6.990000e-41 | 178 |
24 | TraesCS5D01G225600 | chr4D | 84.058 | 276 | 32 | 7 | 1000 | 1272 | 481338663 | 481338929 | 3.140000e-64 | 255 |
25 | TraesCS5D01G225600 | chr7B | 81.301 | 246 | 40 | 5 | 1318 | 1560 | 63582651 | 63582893 | 6.940000e-46 | 195 |
26 | TraesCS5D01G225600 | chr7B | 84.058 | 138 | 19 | 3 | 1096 | 1230 | 720925588 | 720925451 | 1.980000e-26 | 130 |
27 | TraesCS5D01G225600 | chr4A | 92.366 | 131 | 10 | 0 | 1095 | 1225 | 684061118 | 684060988 | 1.160000e-43 | 187 |
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 | TraesCS5D01G225600 | chr5D | 333977935 | 333980393 | 2458 | False | 4542.0 | 4542 | 100.0000 | 1 | 2459 | 1 | chr5D.!!$F3 | 2458 |
1 | TraesCS5D01G225600 | chr5A | 435471277 | 435477070 | 5793 | False | 1506.5 | 2126 | 91.2325 | 54 | 2245 | 2 | chr5A.!!$F1 | 2191 |
2 | TraesCS5D01G225600 | chr5B | 390523449 | 390525036 | 1587 | False | 989.5 | 1820 | 89.1025 | 516 | 2078 | 2 | chr5B.!!$F4 | 1562 |
3 | TraesCS5D01G225600 | chr5B | 390402584 | 390404171 | 1587 | False | 981.0 | 1803 | 88.9880 | 516 | 2078 | 2 | chr5B.!!$F3 | 1562 |
4 | TraesCS5D01G225600 | chr5B | 390281359 | 390281869 | 510 | False | 571.0 | 571 | 86.9900 | 2 | 510 | 1 | chr5B.!!$F1 | 508 |
5 | TraesCS5D01G225600 | chr5B | 390415407 | 390415917 | 510 | False | 571.0 | 571 | 86.9900 | 2 | 510 | 1 | chr5B.!!$F2 | 508 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
223 | 230 | 0.606604 | GAAGTCCCACGGTGAAGCTA | 59.393 | 55.0 | 10.28 | 0.0 | 0.0 | 3.32 | F |
605 | 630 | 0.960364 | TTCCAAGCCACATCGCCTTC | 60.960 | 55.0 | 0.00 | 0.0 | 0.0 | 3.46 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1391 | 4989 | 2.406401 | CGTCGCCGTACTCCGATT | 59.594 | 61.111 | 7.77 | 0.0 | 39.56 | 3.34 | R |
2271 | 6004 | 0.185175 | AGTCCCTGGAACCAAACACC | 59.815 | 55.000 | 0.00 | 0.0 | 0.00 | 4.16 | 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 |
---|---|---|---|---|---|---|---|---|---|
90 | 95 | 2.791927 | CCAGATCTCGTGCGTCGA | 59.208 | 61.111 | 0.00 | 3.96 | 46.83 | 4.20 |
98 | 103 | 4.409588 | CGTGCGTCGAGTTTGGCG | 62.410 | 66.667 | 0.00 | 0.00 | 42.86 | 5.69 |
140 | 145 | 4.025401 | CGGCGAGTTTGGGTGCAC | 62.025 | 66.667 | 8.80 | 8.80 | 0.00 | 4.57 |
141 | 146 | 2.904866 | GGCGAGTTTGGGTGCACA | 60.905 | 61.111 | 20.43 | 0.00 | 0.00 | 4.57 |
142 | 147 | 2.639286 | GCGAGTTTGGGTGCACAG | 59.361 | 61.111 | 20.43 | 0.18 | 0.00 | 3.66 |
223 | 230 | 0.606604 | GAAGTCCCACGGTGAAGCTA | 59.393 | 55.000 | 10.28 | 0.00 | 0.00 | 3.32 |
238 | 245 | 2.571757 | CTACTCAGCGGTGCGGAA | 59.428 | 61.111 | 10.38 | 0.00 | 31.77 | 4.30 |
355 | 362 | 3.660501 | ACGAATGTGTTAGCAGAGACA | 57.339 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
394 | 401 | 2.572290 | GCAACAGGGTACATGGGATAC | 58.428 | 52.381 | 0.00 | 0.00 | 0.00 | 2.24 |
421 | 428 | 7.148540 | GGTTTGTTACGCTGTACAGATTAATCA | 60.149 | 37.037 | 27.08 | 16.65 | 0.00 | 2.57 |
435 | 442 | 6.156256 | ACAGATTAATCACTACCCTAGCAACA | 59.844 | 38.462 | 17.56 | 0.00 | 0.00 | 3.33 |
448 | 455 | 4.818546 | CCCTAGCAACAATACTGAGATTGG | 59.181 | 45.833 | 10.31 | 0.00 | 40.50 | 3.16 |
455 | 462 | 6.203723 | GCAACAATACTGAGATTGGGATCTAC | 59.796 | 42.308 | 10.31 | 0.00 | 42.66 | 2.59 |
519 | 526 | 5.621781 | CGACCCTAGAACCTTTTAGACTGTC | 60.622 | 48.000 | 0.00 | 0.00 | 0.00 | 3.51 |
595 | 602 | 2.123683 | TTGCCCGTTTCCAAGCCA | 60.124 | 55.556 | 0.00 | 0.00 | 0.00 | 4.75 |
605 | 630 | 0.960364 | TTCCAAGCCACATCGCCTTC | 60.960 | 55.000 | 0.00 | 0.00 | 0.00 | 3.46 |
891 | 4483 | 4.103469 | TGGCACGTGGGGTATATAATTTCT | 59.897 | 41.667 | 18.88 | 0.00 | 0.00 | 2.52 |
971 | 4563 | 2.663602 | CACAGAAGCATCACACGTAGTC | 59.336 | 50.000 | 0.00 | 0.00 | 41.61 | 2.59 |
972 | 4564 | 2.296190 | ACAGAAGCATCACACGTAGTCA | 59.704 | 45.455 | 0.00 | 0.00 | 41.61 | 3.41 |
1046 | 4638 | 2.350514 | GCAGGAGCTCAGCCTTGT | 59.649 | 61.111 | 17.19 | 0.00 | 37.91 | 3.16 |
1324 | 4922 | 4.241555 | CGGATGGGAAGGCGAGGG | 62.242 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
1325 | 4923 | 3.878667 | GGATGGGAAGGCGAGGGG | 61.879 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
1405 | 5003 | 2.279252 | CCCAATCGGAGTACGGCG | 60.279 | 66.667 | 4.80 | 4.80 | 44.45 | 6.46 |
1502 | 5100 | 5.527582 | ACTCGACAACTTTACTTGATTGCTT | 59.472 | 36.000 | 0.00 | 0.00 | 0.00 | 3.91 |
1591 | 5192 | 7.397221 | TCTTGTGTGTTGGATAAGATTGATCT | 58.603 | 34.615 | 0.00 | 0.00 | 39.22 | 2.75 |
1592 | 5193 | 7.550551 | TCTTGTGTGTTGGATAAGATTGATCTC | 59.449 | 37.037 | 0.00 | 0.00 | 35.76 | 2.75 |
1593 | 5194 | 6.950842 | TGTGTGTTGGATAAGATTGATCTCT | 58.049 | 36.000 | 0.00 | 0.00 | 35.76 | 3.10 |
1640 | 5259 | 5.411669 | GCCGATGGTATTATTCCTTAACCAG | 59.588 | 44.000 | 0.00 | 0.00 | 43.11 | 4.00 |
1680 | 5300 | 2.396590 | TTACCGGAGATTTGGTCTGC | 57.603 | 50.000 | 9.46 | 0.00 | 41.50 | 4.26 |
1697 | 5317 | 4.767409 | GGTCTGCCCTCTCTTGTTTAAATT | 59.233 | 41.667 | 0.00 | 0.00 | 0.00 | 1.82 |
1901 | 5628 | 0.035056 | CCAAGGGGTCAGCTTGGTAG | 60.035 | 60.000 | 0.00 | 0.00 | 41.79 | 3.18 |
1902 | 5629 | 0.984230 | CAAGGGGTCAGCTTGGTAGA | 59.016 | 55.000 | 0.00 | 0.00 | 0.00 | 2.59 |
1963 | 5694 | 5.522824 | ACTGTCTCTAAGTTCCAAAAACGTC | 59.477 | 40.000 | 0.00 | 0.00 | 0.00 | 4.34 |
2090 | 5823 | 9.025041 | AGGCAGTTTATAAGATTTTTGCTTAGT | 57.975 | 29.630 | 0.00 | 0.00 | 31.94 | 2.24 |
2102 | 5835 | 4.974645 | TTTGCTTAGTTCCAGGAGAGAA | 57.025 | 40.909 | 0.00 | 0.00 | 0.00 | 2.87 |
2128 | 5861 | 7.519347 | AAAGATAGGGGGTGTAGAATTACAA | 57.481 | 36.000 | 0.00 | 0.00 | 41.25 | 2.41 |
2133 | 5866 | 3.010920 | GGGGGTGTAGAATTACAAAGGGT | 59.989 | 47.826 | 0.00 | 0.00 | 41.25 | 4.34 |
2155 | 5888 | 4.672251 | GCATGGGCTCCAACATCT | 57.328 | 55.556 | 0.00 | 0.00 | 36.95 | 2.90 |
2175 | 5908 | 5.718649 | TCTTTTTGTGAGAGAGAAACGTG | 57.281 | 39.130 | 0.00 | 0.00 | 0.00 | 4.49 |
2245 | 5978 | 5.690865 | TCAGTGGGCTATTAATTAGGTTGG | 58.309 | 41.667 | 0.00 | 0.00 | 0.00 | 3.77 |
2246 | 5979 | 4.278419 | CAGTGGGCTATTAATTAGGTTGGC | 59.722 | 45.833 | 0.00 | 0.00 | 0.00 | 4.52 |
2247 | 5980 | 4.168088 | AGTGGGCTATTAATTAGGTTGGCT | 59.832 | 41.667 | 0.00 | 0.00 | 0.00 | 4.75 |
2248 | 5981 | 4.278419 | GTGGGCTATTAATTAGGTTGGCTG | 59.722 | 45.833 | 0.00 | 0.00 | 0.00 | 4.85 |
2249 | 5982 | 4.079443 | TGGGCTATTAATTAGGTTGGCTGT | 60.079 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
2250 | 5983 | 5.132985 | TGGGCTATTAATTAGGTTGGCTGTA | 59.867 | 40.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2251 | 5984 | 6.183361 | TGGGCTATTAATTAGGTTGGCTGTAT | 60.183 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
2252 | 5985 | 7.017750 | TGGGCTATTAATTAGGTTGGCTGTATA | 59.982 | 37.037 | 0.00 | 0.00 | 0.00 | 1.47 |
2253 | 5986 | 8.053355 | GGGCTATTAATTAGGTTGGCTGTATAT | 58.947 | 37.037 | 0.00 | 0.00 | 0.00 | 0.86 |
2254 | 5987 | 8.893727 | GGCTATTAATTAGGTTGGCTGTATATG | 58.106 | 37.037 | 0.00 | 0.00 | 0.00 | 1.78 |
2255 | 5988 | 9.667107 | GCTATTAATTAGGTTGGCTGTATATGA | 57.333 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
2259 | 5992 | 7.750229 | AATTAGGTTGGCTGTATATGATGTG | 57.250 | 36.000 | 0.00 | 0.00 | 0.00 | 3.21 |
2260 | 5993 | 4.090761 | AGGTTGGCTGTATATGATGTGG | 57.909 | 45.455 | 0.00 | 0.00 | 0.00 | 4.17 |
2261 | 5994 | 3.459598 | AGGTTGGCTGTATATGATGTGGT | 59.540 | 43.478 | 0.00 | 0.00 | 0.00 | 4.16 |
2262 | 5995 | 4.658435 | AGGTTGGCTGTATATGATGTGGTA | 59.342 | 41.667 | 0.00 | 0.00 | 0.00 | 3.25 |
2263 | 5996 | 5.131977 | AGGTTGGCTGTATATGATGTGGTAA | 59.868 | 40.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2264 | 5997 | 5.238650 | GGTTGGCTGTATATGATGTGGTAAC | 59.761 | 44.000 | 0.00 | 0.00 | 0.00 | 2.50 |
2265 | 5998 | 5.887214 | TGGCTGTATATGATGTGGTAACT | 57.113 | 39.130 | 0.00 | 0.00 | 37.61 | 2.24 |
2266 | 5999 | 6.247229 | TGGCTGTATATGATGTGGTAACTT | 57.753 | 37.500 | 0.00 | 0.00 | 37.61 | 2.66 |
2267 | 6000 | 6.658849 | TGGCTGTATATGATGTGGTAACTTT | 58.341 | 36.000 | 0.00 | 0.00 | 37.61 | 2.66 |
2268 | 6001 | 7.797062 | TGGCTGTATATGATGTGGTAACTTTA | 58.203 | 34.615 | 0.00 | 0.00 | 37.61 | 1.85 |
2269 | 6002 | 7.931407 | TGGCTGTATATGATGTGGTAACTTTAG | 59.069 | 37.037 | 0.00 | 0.00 | 37.61 | 1.85 |
2270 | 6003 | 7.387948 | GGCTGTATATGATGTGGTAACTTTAGG | 59.612 | 40.741 | 0.00 | 0.00 | 37.61 | 2.69 |
2271 | 6004 | 7.387948 | GCTGTATATGATGTGGTAACTTTAGGG | 59.612 | 40.741 | 0.00 | 0.00 | 37.61 | 3.53 |
2272 | 6005 | 7.741785 | TGTATATGATGTGGTAACTTTAGGGG | 58.258 | 38.462 | 0.00 | 0.00 | 37.61 | 4.79 |
2273 | 6006 | 6.841781 | ATATGATGTGGTAACTTTAGGGGT | 57.158 | 37.500 | 0.00 | 0.00 | 37.61 | 4.95 |
2274 | 6007 | 4.295141 | TGATGTGGTAACTTTAGGGGTG | 57.705 | 45.455 | 0.00 | 0.00 | 37.61 | 4.61 |
2275 | 6008 | 3.653836 | TGATGTGGTAACTTTAGGGGTGT | 59.346 | 43.478 | 0.00 | 0.00 | 37.61 | 4.16 |
2276 | 6009 | 4.105057 | TGATGTGGTAACTTTAGGGGTGTT | 59.895 | 41.667 | 0.00 | 0.00 | 37.61 | 3.32 |
2277 | 6010 | 4.523168 | TGTGGTAACTTTAGGGGTGTTT | 57.477 | 40.909 | 0.00 | 0.00 | 37.61 | 2.83 |
2278 | 6011 | 4.208746 | TGTGGTAACTTTAGGGGTGTTTG | 58.791 | 43.478 | 0.00 | 0.00 | 37.61 | 2.93 |
2279 | 6012 | 3.570975 | GTGGTAACTTTAGGGGTGTTTGG | 59.429 | 47.826 | 0.00 | 0.00 | 37.61 | 3.28 |
2280 | 6013 | 3.204831 | TGGTAACTTTAGGGGTGTTTGGT | 59.795 | 43.478 | 0.00 | 0.00 | 37.61 | 3.67 |
2281 | 6014 | 4.217510 | GGTAACTTTAGGGGTGTTTGGTT | 58.782 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
2282 | 6015 | 4.279169 | GGTAACTTTAGGGGTGTTTGGTTC | 59.721 | 45.833 | 0.00 | 0.00 | 0.00 | 3.62 |
2283 | 6016 | 2.953453 | ACTTTAGGGGTGTTTGGTTCC | 58.047 | 47.619 | 0.00 | 0.00 | 0.00 | 3.62 |
2284 | 6017 | 2.245287 | ACTTTAGGGGTGTTTGGTTCCA | 59.755 | 45.455 | 0.00 | 0.00 | 0.00 | 3.53 |
2285 | 6018 | 2.668144 | TTAGGGGTGTTTGGTTCCAG | 57.332 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2286 | 6019 | 0.774908 | TAGGGGTGTTTGGTTCCAGG | 59.225 | 55.000 | 0.00 | 0.00 | 0.00 | 4.45 |
2287 | 6020 | 1.533033 | GGGGTGTTTGGTTCCAGGG | 60.533 | 63.158 | 0.00 | 0.00 | 0.00 | 4.45 |
2288 | 6021 | 1.539665 | GGGTGTTTGGTTCCAGGGA | 59.460 | 57.895 | 0.00 | 0.00 | 0.00 | 4.20 |
2289 | 6022 | 0.826256 | GGGTGTTTGGTTCCAGGGAC | 60.826 | 60.000 | 0.00 | 0.00 | 0.00 | 4.46 |
2290 | 6023 | 0.185175 | GGTGTTTGGTTCCAGGGACT | 59.815 | 55.000 | 0.00 | 0.00 | 43.88 | 3.85 |
2291 | 6024 | 1.411074 | GGTGTTTGGTTCCAGGGACTT | 60.411 | 52.381 | 0.00 | 0.00 | 34.60 | 3.01 |
2292 | 6025 | 2.384828 | GTGTTTGGTTCCAGGGACTTT | 58.615 | 47.619 | 0.00 | 0.00 | 34.60 | 2.66 |
2293 | 6026 | 2.764010 | GTGTTTGGTTCCAGGGACTTTT | 59.236 | 45.455 | 0.00 | 0.00 | 34.60 | 2.27 |
2294 | 6027 | 3.196901 | GTGTTTGGTTCCAGGGACTTTTT | 59.803 | 43.478 | 0.00 | 0.00 | 34.60 | 1.94 |
2315 | 6048 | 6.844097 | TTTTGTGTTGGGACTAGAAAAAGT | 57.156 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
2316 | 6049 | 6.445357 | TTTGTGTTGGGACTAGAAAAAGTC | 57.555 | 37.500 | 0.00 | 0.00 | 44.31 | 3.01 |
2317 | 6050 | 5.367945 | TGTGTTGGGACTAGAAAAAGTCT | 57.632 | 39.130 | 0.00 | 0.00 | 44.42 | 3.24 |
2318 | 6051 | 5.365619 | TGTGTTGGGACTAGAAAAAGTCTC | 58.634 | 41.667 | 0.00 | 0.67 | 45.63 | 3.36 |
2319 | 6052 | 5.130477 | TGTGTTGGGACTAGAAAAAGTCTCT | 59.870 | 40.000 | 0.00 | 0.00 | 45.63 | 3.10 |
2320 | 6053 | 6.325545 | TGTGTTGGGACTAGAAAAAGTCTCTA | 59.674 | 38.462 | 0.00 | 0.00 | 45.63 | 2.43 |
2321 | 6054 | 6.869388 | GTGTTGGGACTAGAAAAAGTCTCTAG | 59.131 | 42.308 | 0.00 | 5.52 | 45.63 | 2.43 |
2333 | 6066 | 9.110502 | AGAAAAAGTCTCTAGTAAACCAAACAG | 57.889 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
2334 | 6067 | 7.803279 | AAAAGTCTCTAGTAAACCAAACAGG | 57.197 | 36.000 | 0.00 | 0.00 | 45.67 | 4.00 |
2335 | 6068 | 5.485209 | AGTCTCTAGTAAACCAAACAGGG | 57.515 | 43.478 | 0.00 | 0.00 | 43.89 | 4.45 |
2336 | 6069 | 4.906060 | AGTCTCTAGTAAACCAAACAGGGT | 59.094 | 41.667 | 0.00 | 0.00 | 45.04 | 4.34 |
2337 | 6070 | 4.995487 | GTCTCTAGTAAACCAAACAGGGTG | 59.005 | 45.833 | 0.00 | 0.00 | 41.32 | 4.61 |
2338 | 6071 | 4.041198 | TCTCTAGTAAACCAAACAGGGTGG | 59.959 | 45.833 | 0.00 | 0.00 | 41.32 | 4.61 |
2339 | 6072 | 2.375014 | AGTAAACCAAACAGGGTGGG | 57.625 | 50.000 | 0.00 | 0.00 | 41.32 | 4.61 |
2340 | 6073 | 1.854280 | AGTAAACCAAACAGGGTGGGA | 59.146 | 47.619 | 0.00 | 0.00 | 41.32 | 4.37 |
2341 | 6074 | 1.958579 | GTAAACCAAACAGGGTGGGAC | 59.041 | 52.381 | 0.00 | 0.00 | 41.32 | 4.46 |
2342 | 6075 | 0.634465 | AAACCAAACAGGGTGGGACT | 59.366 | 50.000 | 0.00 | 0.00 | 41.32 | 3.85 |
2343 | 6076 | 0.634465 | AACCAAACAGGGTGGGACTT | 59.366 | 50.000 | 0.00 | 0.00 | 41.32 | 3.01 |
2344 | 6077 | 0.634465 | ACCAAACAGGGTGGGACTTT | 59.366 | 50.000 | 0.00 | 0.00 | 43.89 | 2.66 |
2345 | 6078 | 1.007842 | ACCAAACAGGGTGGGACTTTT | 59.992 | 47.619 | 0.00 | 0.00 | 43.89 | 2.27 |
2346 | 6079 | 2.115427 | CCAAACAGGGTGGGACTTTTT | 58.885 | 47.619 | 0.00 | 0.00 | 32.03 | 1.94 |
2378 | 6111 | 9.170584 | CTTTTTGCTAAAAGTACTTAGAAGCAC | 57.829 | 33.333 | 26.54 | 9.63 | 43.34 | 4.40 |
2379 | 6112 | 6.796705 | TTGCTAAAAGTACTTAGAAGCACC | 57.203 | 37.500 | 26.54 | 8.77 | 31.59 | 5.01 |
2380 | 6113 | 6.110411 | TGCTAAAAGTACTTAGAAGCACCT | 57.890 | 37.500 | 24.48 | 1.17 | 31.59 | 4.00 |
2381 | 6114 | 6.164176 | TGCTAAAAGTACTTAGAAGCACCTC | 58.836 | 40.000 | 24.48 | 7.11 | 31.59 | 3.85 |
2382 | 6115 | 5.581479 | GCTAAAAGTACTTAGAAGCACCTCC | 59.419 | 44.000 | 22.32 | 2.48 | 31.59 | 4.30 |
2383 | 6116 | 5.827326 | AAAAGTACTTAGAAGCACCTCCT | 57.173 | 39.130 | 8.92 | 0.00 | 0.00 | 3.69 |
2384 | 6117 | 5.827326 | AAAGTACTTAGAAGCACCTCCTT | 57.173 | 39.130 | 8.92 | 0.00 | 0.00 | 3.36 |
2385 | 6118 | 4.810191 | AGTACTTAGAAGCACCTCCTTG | 57.190 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
2386 | 6119 | 4.417437 | AGTACTTAGAAGCACCTCCTTGA | 58.583 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
2387 | 6120 | 3.971245 | ACTTAGAAGCACCTCCTTGAG | 57.029 | 47.619 | 0.00 | 0.00 | 0.00 | 3.02 |
2388 | 6121 | 3.511477 | ACTTAGAAGCACCTCCTTGAGA | 58.489 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
2389 | 6122 | 3.513515 | ACTTAGAAGCACCTCCTTGAGAG | 59.486 | 47.826 | 0.00 | 0.00 | 42.83 | 3.20 |
2390 | 6123 | 2.022718 | AGAAGCACCTCCTTGAGAGT | 57.977 | 50.000 | 0.00 | 0.00 | 41.47 | 3.24 |
2391 | 6124 | 1.899142 | AGAAGCACCTCCTTGAGAGTC | 59.101 | 52.381 | 0.00 | 0.00 | 41.47 | 3.36 |
2392 | 6125 | 1.899142 | GAAGCACCTCCTTGAGAGTCT | 59.101 | 52.381 | 0.00 | 0.00 | 41.47 | 3.24 |
2393 | 6126 | 2.022718 | AGCACCTCCTTGAGAGTCTT | 57.977 | 50.000 | 0.00 | 0.00 | 41.47 | 3.01 |
2394 | 6127 | 2.334023 | AGCACCTCCTTGAGAGTCTTT | 58.666 | 47.619 | 0.00 | 0.00 | 41.47 | 2.52 |
2395 | 6128 | 2.708325 | AGCACCTCCTTGAGAGTCTTTT | 59.292 | 45.455 | 0.00 | 0.00 | 41.47 | 2.27 |
2396 | 6129 | 3.137360 | AGCACCTCCTTGAGAGTCTTTTT | 59.863 | 43.478 | 0.00 | 0.00 | 41.47 | 1.94 |
2397 | 6130 | 3.500299 | GCACCTCCTTGAGAGTCTTTTTC | 59.500 | 47.826 | 0.00 | 0.00 | 41.47 | 2.29 |
2398 | 6131 | 4.708177 | CACCTCCTTGAGAGTCTTTTTCA | 58.292 | 43.478 | 0.00 | 0.00 | 41.47 | 2.69 |
2399 | 6132 | 5.126067 | CACCTCCTTGAGAGTCTTTTTCAA | 58.874 | 41.667 | 0.00 | 0.00 | 41.47 | 2.69 |
2400 | 6133 | 5.590259 | CACCTCCTTGAGAGTCTTTTTCAAA | 59.410 | 40.000 | 0.00 | 0.00 | 41.47 | 2.69 |
2401 | 6134 | 6.095440 | CACCTCCTTGAGAGTCTTTTTCAAAA | 59.905 | 38.462 | 0.00 | 0.00 | 41.47 | 2.44 |
2402 | 6135 | 6.663523 | ACCTCCTTGAGAGTCTTTTTCAAAAA | 59.336 | 34.615 | 0.00 | 0.00 | 41.47 | 1.94 |
2403 | 6136 | 7.148000 | ACCTCCTTGAGAGTCTTTTTCAAAAAG | 60.148 | 37.037 | 15.46 | 15.46 | 41.47 | 2.27 |
2404 | 6137 | 7.148000 | CCTCCTTGAGAGTCTTTTTCAAAAAGT | 60.148 | 37.037 | 19.82 | 4.20 | 41.47 | 2.66 |
2405 | 6138 | 7.762382 | TCCTTGAGAGTCTTTTTCAAAAAGTC | 58.238 | 34.615 | 19.82 | 15.25 | 31.11 | 3.01 |
2406 | 6139 | 6.975197 | CCTTGAGAGTCTTTTTCAAAAAGTCC | 59.025 | 38.462 | 19.82 | 12.77 | 31.11 | 3.85 |
2407 | 6140 | 7.148000 | CCTTGAGAGTCTTTTTCAAAAAGTCCT | 60.148 | 37.037 | 19.82 | 16.49 | 31.11 | 3.85 |
2408 | 6141 | 8.801882 | TTGAGAGTCTTTTTCAAAAAGTCCTA | 57.198 | 30.769 | 19.82 | 0.61 | 0.00 | 2.94 |
2409 | 6142 | 8.438676 | TGAGAGTCTTTTTCAAAAAGTCCTAG | 57.561 | 34.615 | 19.82 | 0.00 | 0.00 | 3.02 |
2410 | 6143 | 7.499232 | TGAGAGTCTTTTTCAAAAAGTCCTAGG | 59.501 | 37.037 | 19.82 | 0.82 | 0.00 | 3.02 |
2411 | 6144 | 6.773200 | AGAGTCTTTTTCAAAAAGTCCTAGGG | 59.227 | 38.462 | 19.82 | 0.00 | 0.00 | 3.53 |
2412 | 6145 | 6.669631 | AGTCTTTTTCAAAAAGTCCTAGGGA | 58.330 | 36.000 | 19.82 | 0.00 | 0.00 | 4.20 |
2444 | 6177 | 5.327616 | GTCCTAGGACTAGAGAACCAAAC | 57.672 | 47.826 | 31.12 | 3.26 | 41.57 | 2.93 |
2445 | 6178 | 4.771054 | GTCCTAGGACTAGAGAACCAAACA | 59.229 | 45.833 | 31.12 | 0.00 | 41.57 | 2.83 |
2446 | 6179 | 4.771054 | TCCTAGGACTAGAGAACCAAACAC | 59.229 | 45.833 | 7.62 | 0.00 | 35.21 | 3.32 |
2447 | 6180 | 4.081586 | CCTAGGACTAGAGAACCAAACACC | 60.082 | 50.000 | 1.05 | 0.00 | 35.21 | 4.16 |
2448 | 6181 | 3.314693 | AGGACTAGAGAACCAAACACCA | 58.685 | 45.455 | 0.00 | 0.00 | 0.00 | 4.17 |
2449 | 6182 | 3.071167 | AGGACTAGAGAACCAAACACCAC | 59.929 | 47.826 | 0.00 | 0.00 | 0.00 | 4.16 |
2450 | 6183 | 3.400255 | GACTAGAGAACCAAACACCACC | 58.600 | 50.000 | 0.00 | 0.00 | 0.00 | 4.61 |
2451 | 6184 | 3.046374 | ACTAGAGAACCAAACACCACCT | 58.954 | 45.455 | 0.00 | 0.00 | 0.00 | 4.00 |
2452 | 6185 | 3.458487 | ACTAGAGAACCAAACACCACCTT | 59.542 | 43.478 | 0.00 | 0.00 | 0.00 | 3.50 |
2453 | 6186 | 3.382083 | AGAGAACCAAACACCACCTTT | 57.618 | 42.857 | 0.00 | 0.00 | 0.00 | 3.11 |
2454 | 6187 | 4.513406 | AGAGAACCAAACACCACCTTTA | 57.487 | 40.909 | 0.00 | 0.00 | 0.00 | 1.85 |
2455 | 6188 | 5.061721 | AGAGAACCAAACACCACCTTTAT | 57.938 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
2456 | 6189 | 6.195600 | AGAGAACCAAACACCACCTTTATA | 57.804 | 37.500 | 0.00 | 0.00 | 0.00 | 0.98 |
2457 | 6190 | 6.790319 | AGAGAACCAAACACCACCTTTATAT | 58.210 | 36.000 | 0.00 | 0.00 | 0.00 | 0.86 |
2458 | 6191 | 7.924541 | AGAGAACCAAACACCACCTTTATATA | 58.075 | 34.615 | 0.00 | 0.00 | 0.00 | 0.86 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
49 | 53 | 2.362736 | GCTCATGACTCAAGCAATGGA | 58.637 | 47.619 | 0.00 | 0.00 | 36.06 | 3.41 |
50 | 54 | 1.404391 | GGCTCATGACTCAAGCAATGG | 59.596 | 52.381 | 6.27 | 0.00 | 37.78 | 3.16 |
52 | 56 | 2.366533 | CAGGCTCATGACTCAAGCAAT | 58.633 | 47.619 | 6.27 | 0.00 | 37.78 | 3.56 |
55 | 59 | 1.375098 | GGCAGGCTCATGACTCAAGC | 61.375 | 60.000 | 0.00 | 0.00 | 35.27 | 4.01 |
90 | 95 | 3.055719 | CCACCGATGCGCCAAACT | 61.056 | 61.111 | 4.18 | 0.00 | 0.00 | 2.66 |
142 | 147 | 1.364626 | CTTGACCCTGAGCGACATGC | 61.365 | 60.000 | 0.00 | 0.00 | 46.98 | 4.06 |
193 | 199 | 3.050275 | GGACTTCCTGGTGCGCAC | 61.050 | 66.667 | 32.15 | 32.15 | 0.00 | 5.34 |
223 | 230 | 3.288308 | CTCTTCCGCACCGCTGAGT | 62.288 | 63.158 | 0.00 | 0.00 | 0.00 | 3.41 |
238 | 245 | 3.923864 | TCGCGGCACCAACACTCT | 61.924 | 61.111 | 6.13 | 0.00 | 0.00 | 3.24 |
278 | 285 | 2.290514 | CCTCTCTCACATCCTTTTGGCA | 60.291 | 50.000 | 0.00 | 0.00 | 40.12 | 4.92 |
331 | 338 | 3.673338 | TCTCTGCTAACACATTCGTTTCG | 59.327 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
342 | 349 | 1.202475 | TGCAACGTGTCTCTGCTAACA | 60.202 | 47.619 | 10.27 | 0.00 | 37.00 | 2.41 |
355 | 362 | 3.757745 | GCCTGTATAAACATGCAACGT | 57.242 | 42.857 | 0.00 | 0.00 | 44.10 | 3.99 |
394 | 401 | 2.396601 | TCTGTACAGCGTAACAAACCG | 58.603 | 47.619 | 18.45 | 0.00 | 0.00 | 4.44 |
421 | 428 | 5.269991 | TCTCAGTATTGTTGCTAGGGTAGT | 58.730 | 41.667 | 0.00 | 0.00 | 0.00 | 2.73 |
435 | 442 | 8.652290 | GTTTAGGTAGATCCCAATCTCAGTATT | 58.348 | 37.037 | 0.00 | 0.00 | 41.46 | 1.89 |
448 | 455 | 5.416271 | TGACAGGTTGTTTAGGTAGATCC | 57.584 | 43.478 | 0.00 | 0.00 | 0.00 | 3.36 |
455 | 462 | 3.190535 | CCCGATTTGACAGGTTGTTTAGG | 59.809 | 47.826 | 0.00 | 0.00 | 0.00 | 2.69 |
537 | 544 | 7.088905 | GGGAATTGTAGTGTATCTGTATACGG | 58.911 | 42.308 | 5.24 | 5.24 | 40.84 | 4.02 |
595 | 602 | 3.462021 | GCAGAAGAATAGAAGGCGATGT | 58.538 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
605 | 630 | 2.673368 | GGTGGACAACGCAGAAGAATAG | 59.327 | 50.000 | 0.00 | 0.00 | 0.00 | 1.73 |
680 | 705 | 3.383185 | CGGCAGAGAGATTAGGAGACTTT | 59.617 | 47.826 | 0.00 | 0.00 | 43.67 | 2.66 |
891 | 4483 | 3.445450 | TGAAACTGTGGTGCTAAGCAAAA | 59.555 | 39.130 | 0.00 | 0.00 | 41.47 | 2.44 |
971 | 4563 | 4.211374 | GCACAGAAACCTACAGTAAGTGTG | 59.789 | 45.833 | 0.00 | 0.00 | 40.69 | 3.82 |
972 | 4564 | 4.377897 | GCACAGAAACCTACAGTAAGTGT | 58.622 | 43.478 | 0.00 | 0.00 | 43.86 | 3.55 |
1046 | 4638 | 3.002583 | TCATGCGGAGGGTGAGCA | 61.003 | 61.111 | 0.00 | 0.00 | 45.46 | 4.26 |
1158 | 4756 | 2.587473 | TGCTTGTGCGCGTTCTGA | 60.587 | 55.556 | 8.43 | 0.00 | 43.34 | 3.27 |
1324 | 4922 | 2.815647 | CTTGAGCGCCTCCGTTCC | 60.816 | 66.667 | 2.29 | 0.00 | 43.00 | 3.62 |
1325 | 4923 | 2.815647 | CCTTGAGCGCCTCCGTTC | 60.816 | 66.667 | 2.29 | 0.00 | 43.79 | 3.95 |
1391 | 4989 | 2.406401 | CGTCGCCGTACTCCGATT | 59.594 | 61.111 | 7.77 | 0.00 | 39.56 | 3.34 |
1392 | 4990 | 3.580193 | CCGTCGCCGTACTCCGAT | 61.580 | 66.667 | 7.77 | 0.00 | 39.56 | 4.18 |
1502 | 5100 | 3.319405 | ACATTGGCATACCGAAACAAACA | 59.681 | 39.130 | 0.00 | 0.00 | 39.70 | 2.83 |
1591 | 5192 | 6.294787 | CCACACTCAACTAGCTAAGAAGAAGA | 60.295 | 42.308 | 0.00 | 0.00 | 0.00 | 2.87 |
1592 | 5193 | 5.866633 | CCACACTCAACTAGCTAAGAAGAAG | 59.133 | 44.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1593 | 5194 | 5.784177 | CCACACTCAACTAGCTAAGAAGAA | 58.216 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
1640 | 5259 | 7.465513 | CGGTAAATGTAAACTAGCATGTCTTCC | 60.466 | 40.741 | 0.00 | 0.00 | 0.00 | 3.46 |
1652 | 5272 | 6.243148 | ACCAAATCTCCGGTAAATGTAAACT | 58.757 | 36.000 | 0.00 | 0.00 | 32.31 | 2.66 |
1697 | 5317 | 7.615582 | AATCAATCAGCGAACTAGATCAAAA | 57.384 | 32.000 | 0.00 | 0.00 | 0.00 | 2.44 |
1749 | 5369 | 4.098416 | GCACGATTTGAATAACTTGAGGC | 58.902 | 43.478 | 0.00 | 0.00 | 0.00 | 4.70 |
1816 | 5436 | 3.855379 | CGTCCACTTAAATCGATCGTGAA | 59.145 | 43.478 | 15.94 | 4.50 | 0.00 | 3.18 |
1819 | 5521 | 3.498927 | ACGTCCACTTAAATCGATCGT | 57.501 | 42.857 | 15.94 | 0.00 | 0.00 | 3.73 |
1931 | 5659 | 9.847224 | TTTGGAACTTAGAGACAGTAGATTTTT | 57.153 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
1943 | 5674 | 4.383173 | GGGACGTTTTTGGAACTTAGAGA | 58.617 | 43.478 | 0.00 | 0.00 | 0.00 | 3.10 |
1963 | 5694 | 4.021916 | CCCTACCTCAGTATATTACCGGG | 58.978 | 52.174 | 6.32 | 0.00 | 0.00 | 5.73 |
2102 | 5835 | 7.935405 | TGTAATTCTACACCCCCTATCTTTTT | 58.065 | 34.615 | 0.00 | 0.00 | 32.93 | 1.94 |
2107 | 5840 | 6.296803 | CCTTTGTAATTCTACACCCCCTATC | 58.703 | 44.000 | 0.00 | 0.00 | 37.77 | 2.08 |
2109 | 5842 | 4.475747 | CCCTTTGTAATTCTACACCCCCTA | 59.524 | 45.833 | 0.00 | 0.00 | 37.77 | 3.53 |
2110 | 5843 | 3.268595 | CCCTTTGTAATTCTACACCCCCT | 59.731 | 47.826 | 0.00 | 0.00 | 37.77 | 4.79 |
2111 | 5844 | 3.010920 | ACCCTTTGTAATTCTACACCCCC | 59.989 | 47.826 | 0.00 | 0.00 | 37.77 | 5.40 |
2128 | 5861 | 4.764143 | GCCCATGCTACAACCCTT | 57.236 | 55.556 | 0.00 | 0.00 | 33.53 | 3.95 |
2139 | 5872 | 3.007182 | ACAAAAAGATGTTGGAGCCCATG | 59.993 | 43.478 | 0.00 | 0.00 | 31.53 | 3.66 |
2155 | 5888 | 4.509616 | TCCACGTTTCTCTCTCACAAAAA | 58.490 | 39.130 | 0.00 | 0.00 | 0.00 | 1.94 |
2175 | 5908 | 4.083217 | TGTTGTGCCATTAATACGTGTTCC | 60.083 | 41.667 | 0.00 | 0.00 | 0.00 | 3.62 |
2218 | 5951 | 9.520515 | CAACCTAATTAATAGCCCACTGATAAT | 57.479 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
2219 | 5952 | 7.942341 | CCAACCTAATTAATAGCCCACTGATAA | 59.058 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
2223 | 5956 | 4.278419 | GCCAACCTAATTAATAGCCCACTG | 59.722 | 45.833 | 0.00 | 0.00 | 0.00 | 3.66 |
2228 | 5961 | 8.893727 | CATATACAGCCAACCTAATTAATAGCC | 58.106 | 37.037 | 0.00 | 0.00 | 0.00 | 3.93 |
2245 | 5978 | 7.387948 | CCCTAAAGTTACCACATCATATACAGC | 59.612 | 40.741 | 0.00 | 0.00 | 0.00 | 4.40 |
2246 | 5979 | 7.878127 | CCCCTAAAGTTACCACATCATATACAG | 59.122 | 40.741 | 0.00 | 0.00 | 0.00 | 2.74 |
2247 | 5980 | 7.348801 | ACCCCTAAAGTTACCACATCATATACA | 59.651 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
2248 | 5981 | 7.660208 | CACCCCTAAAGTTACCACATCATATAC | 59.340 | 40.741 | 0.00 | 0.00 | 0.00 | 1.47 |
2249 | 5982 | 7.348801 | ACACCCCTAAAGTTACCACATCATATA | 59.651 | 37.037 | 0.00 | 0.00 | 0.00 | 0.86 |
2250 | 5983 | 6.159751 | ACACCCCTAAAGTTACCACATCATAT | 59.840 | 38.462 | 0.00 | 0.00 | 0.00 | 1.78 |
2251 | 5984 | 5.489637 | ACACCCCTAAAGTTACCACATCATA | 59.510 | 40.000 | 0.00 | 0.00 | 0.00 | 2.15 |
2252 | 5985 | 4.291249 | ACACCCCTAAAGTTACCACATCAT | 59.709 | 41.667 | 0.00 | 0.00 | 0.00 | 2.45 |
2253 | 5986 | 3.653836 | ACACCCCTAAAGTTACCACATCA | 59.346 | 43.478 | 0.00 | 0.00 | 0.00 | 3.07 |
2254 | 5987 | 4.296621 | ACACCCCTAAAGTTACCACATC | 57.703 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
2255 | 5988 | 4.734843 | AACACCCCTAAAGTTACCACAT | 57.265 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
2256 | 5989 | 4.208746 | CAAACACCCCTAAAGTTACCACA | 58.791 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
2257 | 5990 | 3.570975 | CCAAACACCCCTAAAGTTACCAC | 59.429 | 47.826 | 0.00 | 0.00 | 0.00 | 4.16 |
2258 | 5991 | 3.204831 | ACCAAACACCCCTAAAGTTACCA | 59.795 | 43.478 | 0.00 | 0.00 | 0.00 | 3.25 |
2259 | 5992 | 3.836146 | ACCAAACACCCCTAAAGTTACC | 58.164 | 45.455 | 0.00 | 0.00 | 0.00 | 2.85 |
2260 | 5993 | 4.279169 | GGAACCAAACACCCCTAAAGTTAC | 59.721 | 45.833 | 0.00 | 0.00 | 0.00 | 2.50 |
2261 | 5994 | 4.079327 | TGGAACCAAACACCCCTAAAGTTA | 60.079 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
2262 | 5995 | 3.302161 | GGAACCAAACACCCCTAAAGTT | 58.698 | 45.455 | 0.00 | 0.00 | 0.00 | 2.66 |
2263 | 5996 | 2.245287 | TGGAACCAAACACCCCTAAAGT | 59.755 | 45.455 | 0.00 | 0.00 | 0.00 | 2.66 |
2264 | 5997 | 2.890945 | CTGGAACCAAACACCCCTAAAG | 59.109 | 50.000 | 0.00 | 0.00 | 0.00 | 1.85 |
2265 | 5998 | 2.425102 | CCTGGAACCAAACACCCCTAAA | 60.425 | 50.000 | 0.00 | 0.00 | 0.00 | 1.85 |
2266 | 5999 | 1.146152 | CCTGGAACCAAACACCCCTAA | 59.854 | 52.381 | 0.00 | 0.00 | 0.00 | 2.69 |
2267 | 6000 | 0.774908 | CCTGGAACCAAACACCCCTA | 59.225 | 55.000 | 0.00 | 0.00 | 0.00 | 3.53 |
2268 | 6001 | 1.541672 | CCTGGAACCAAACACCCCT | 59.458 | 57.895 | 0.00 | 0.00 | 0.00 | 4.79 |
2269 | 6002 | 1.533033 | CCCTGGAACCAAACACCCC | 60.533 | 63.158 | 0.00 | 0.00 | 0.00 | 4.95 |
2270 | 6003 | 0.826256 | GTCCCTGGAACCAAACACCC | 60.826 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
2271 | 6004 | 0.185175 | AGTCCCTGGAACCAAACACC | 59.815 | 55.000 | 0.00 | 0.00 | 0.00 | 4.16 |
2272 | 6005 | 2.067365 | AAGTCCCTGGAACCAAACAC | 57.933 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
2273 | 6006 | 2.838637 | AAAGTCCCTGGAACCAAACA | 57.161 | 45.000 | 0.00 | 0.00 | 0.00 | 2.83 |
2291 | 6024 | 7.177744 | AGACTTTTTCTAGTCCCAACACAAAAA | 59.822 | 33.333 | 0.00 | 0.00 | 44.50 | 1.94 |
2292 | 6025 | 6.661805 | AGACTTTTTCTAGTCCCAACACAAAA | 59.338 | 34.615 | 0.00 | 0.00 | 44.50 | 2.44 |
2293 | 6026 | 6.184789 | AGACTTTTTCTAGTCCCAACACAAA | 58.815 | 36.000 | 0.00 | 0.00 | 44.50 | 2.83 |
2294 | 6027 | 5.751586 | AGACTTTTTCTAGTCCCAACACAA | 58.248 | 37.500 | 0.00 | 0.00 | 44.50 | 3.33 |
2295 | 6028 | 5.130477 | AGAGACTTTTTCTAGTCCCAACACA | 59.870 | 40.000 | 0.00 | 0.00 | 44.50 | 3.72 |
2296 | 6029 | 5.612351 | AGAGACTTTTTCTAGTCCCAACAC | 58.388 | 41.667 | 0.00 | 0.00 | 44.50 | 3.32 |
2297 | 6030 | 5.888982 | AGAGACTTTTTCTAGTCCCAACA | 57.111 | 39.130 | 0.00 | 0.00 | 44.50 | 3.33 |
2307 | 6040 | 9.110502 | CTGTTTGGTTTACTAGAGACTTTTTCT | 57.889 | 33.333 | 0.00 | 0.00 | 37.23 | 2.52 |
2308 | 6041 | 8.343366 | CCTGTTTGGTTTACTAGAGACTTTTTC | 58.657 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
2309 | 6042 | 7.284716 | CCCTGTTTGGTTTACTAGAGACTTTTT | 59.715 | 37.037 | 0.00 | 0.00 | 0.00 | 1.94 |
2310 | 6043 | 6.771267 | CCCTGTTTGGTTTACTAGAGACTTTT | 59.229 | 38.462 | 0.00 | 0.00 | 0.00 | 2.27 |
2311 | 6044 | 6.126565 | ACCCTGTTTGGTTTACTAGAGACTTT | 60.127 | 38.462 | 0.00 | 0.00 | 33.91 | 2.66 |
2312 | 6045 | 5.368816 | ACCCTGTTTGGTTTACTAGAGACTT | 59.631 | 40.000 | 0.00 | 0.00 | 33.91 | 3.01 |
2313 | 6046 | 4.906060 | ACCCTGTTTGGTTTACTAGAGACT | 59.094 | 41.667 | 0.00 | 0.00 | 33.91 | 3.24 |
2314 | 6047 | 4.995487 | CACCCTGTTTGGTTTACTAGAGAC | 59.005 | 45.833 | 0.00 | 0.00 | 36.12 | 3.36 |
2315 | 6048 | 4.041198 | CCACCCTGTTTGGTTTACTAGAGA | 59.959 | 45.833 | 0.00 | 0.00 | 36.12 | 3.10 |
2316 | 6049 | 4.324267 | CCACCCTGTTTGGTTTACTAGAG | 58.676 | 47.826 | 0.00 | 0.00 | 36.12 | 2.43 |
2317 | 6050 | 3.073356 | CCCACCCTGTTTGGTTTACTAGA | 59.927 | 47.826 | 0.00 | 0.00 | 36.12 | 2.43 |
2318 | 6051 | 3.073356 | TCCCACCCTGTTTGGTTTACTAG | 59.927 | 47.826 | 0.00 | 0.00 | 36.12 | 2.57 |
2319 | 6052 | 3.054576 | TCCCACCCTGTTTGGTTTACTA | 58.945 | 45.455 | 0.00 | 0.00 | 36.12 | 1.82 |
2320 | 6053 | 1.854280 | TCCCACCCTGTTTGGTTTACT | 59.146 | 47.619 | 0.00 | 0.00 | 36.12 | 2.24 |
2321 | 6054 | 1.958579 | GTCCCACCCTGTTTGGTTTAC | 59.041 | 52.381 | 0.00 | 0.00 | 36.12 | 2.01 |
2322 | 6055 | 1.854280 | AGTCCCACCCTGTTTGGTTTA | 59.146 | 47.619 | 0.00 | 0.00 | 36.12 | 2.01 |
2323 | 6056 | 0.634465 | AGTCCCACCCTGTTTGGTTT | 59.366 | 50.000 | 0.00 | 0.00 | 36.12 | 3.27 |
2324 | 6057 | 0.634465 | AAGTCCCACCCTGTTTGGTT | 59.366 | 50.000 | 0.00 | 0.00 | 36.12 | 3.67 |
2325 | 6058 | 0.634465 | AAAGTCCCACCCTGTTTGGT | 59.366 | 50.000 | 0.00 | 0.00 | 39.96 | 3.67 |
2326 | 6059 | 1.788229 | AAAAGTCCCACCCTGTTTGG | 58.212 | 50.000 | 0.00 | 0.00 | 0.00 | 3.28 |
2353 | 6086 | 8.132995 | GGTGCTTCTAAGTACTTTTAGCAAAAA | 58.867 | 33.333 | 26.70 | 12.05 | 40.82 | 1.94 |
2354 | 6087 | 7.501225 | AGGTGCTTCTAAGTACTTTTAGCAAAA | 59.499 | 33.333 | 26.70 | 12.30 | 40.82 | 2.44 |
2355 | 6088 | 6.996282 | AGGTGCTTCTAAGTACTTTTAGCAAA | 59.004 | 34.615 | 26.70 | 12.78 | 40.82 | 3.68 |
2356 | 6089 | 6.531021 | AGGTGCTTCTAAGTACTTTTAGCAA | 58.469 | 36.000 | 26.70 | 15.79 | 40.82 | 3.91 |
2357 | 6090 | 6.110411 | AGGTGCTTCTAAGTACTTTTAGCA | 57.890 | 37.500 | 23.73 | 23.73 | 40.82 | 3.49 |
2358 | 6091 | 5.581479 | GGAGGTGCTTCTAAGTACTTTTAGC | 59.419 | 44.000 | 14.49 | 18.46 | 40.82 | 3.09 |
2359 | 6092 | 6.937392 | AGGAGGTGCTTCTAAGTACTTTTAG | 58.063 | 40.000 | 14.49 | 6.24 | 40.82 | 1.85 |
2360 | 6093 | 6.930068 | AGGAGGTGCTTCTAAGTACTTTTA | 57.070 | 37.500 | 14.49 | 0.00 | 40.82 | 1.52 |
2361 | 6094 | 5.827326 | AGGAGGTGCTTCTAAGTACTTTT | 57.173 | 39.130 | 14.49 | 0.00 | 40.82 | 2.27 |
2362 | 6095 | 5.307196 | TCAAGGAGGTGCTTCTAAGTACTTT | 59.693 | 40.000 | 14.49 | 0.00 | 40.82 | 2.66 |
2363 | 6096 | 4.838986 | TCAAGGAGGTGCTTCTAAGTACTT | 59.161 | 41.667 | 13.68 | 13.68 | 40.82 | 2.24 |
2364 | 6097 | 4.417437 | TCAAGGAGGTGCTTCTAAGTACT | 58.583 | 43.478 | 10.19 | 0.00 | 40.82 | 2.73 |
2365 | 6098 | 4.463186 | TCTCAAGGAGGTGCTTCTAAGTAC | 59.537 | 45.833 | 2.68 | 2.68 | 40.37 | 2.73 |
2366 | 6099 | 4.673968 | TCTCAAGGAGGTGCTTCTAAGTA | 58.326 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
2367 | 6100 | 3.511477 | TCTCAAGGAGGTGCTTCTAAGT | 58.489 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
2368 | 6101 | 3.513515 | ACTCTCAAGGAGGTGCTTCTAAG | 59.486 | 47.826 | 0.00 | 0.00 | 45.83 | 2.18 |
2369 | 6102 | 3.511477 | ACTCTCAAGGAGGTGCTTCTAA | 58.489 | 45.455 | 0.00 | 0.00 | 45.83 | 2.10 |
2370 | 6103 | 3.093057 | GACTCTCAAGGAGGTGCTTCTA | 58.907 | 50.000 | 0.00 | 0.00 | 45.83 | 2.10 |
2371 | 6104 | 1.899142 | GACTCTCAAGGAGGTGCTTCT | 59.101 | 52.381 | 0.00 | 0.00 | 45.83 | 2.85 |
2372 | 6105 | 1.899142 | AGACTCTCAAGGAGGTGCTTC | 59.101 | 52.381 | 0.00 | 0.00 | 45.83 | 3.86 |
2373 | 6106 | 2.022718 | AGACTCTCAAGGAGGTGCTT | 57.977 | 50.000 | 0.00 | 0.00 | 45.83 | 3.91 |
2374 | 6107 | 2.022718 | AAGACTCTCAAGGAGGTGCT | 57.977 | 50.000 | 0.00 | 0.00 | 45.83 | 4.40 |
2375 | 6108 | 2.849294 | AAAGACTCTCAAGGAGGTGC | 57.151 | 50.000 | 0.00 | 0.00 | 45.83 | 5.01 |
2376 | 6109 | 4.708177 | TGAAAAAGACTCTCAAGGAGGTG | 58.292 | 43.478 | 0.00 | 0.00 | 45.83 | 4.00 |
2377 | 6110 | 5.373812 | TTGAAAAAGACTCTCAAGGAGGT | 57.626 | 39.130 | 0.00 | 0.00 | 45.83 | 3.85 |
2378 | 6111 | 6.699575 | TTTTGAAAAAGACTCTCAAGGAGG | 57.300 | 37.500 | 0.00 | 0.00 | 45.83 | 4.30 |
2379 | 6112 | 7.766283 | ACTTTTTGAAAAAGACTCTCAAGGAG | 58.234 | 34.615 | 30.55 | 6.52 | 46.87 | 3.69 |
2380 | 6113 | 7.148069 | GGACTTTTTGAAAAAGACTCTCAAGGA | 60.148 | 37.037 | 30.55 | 0.00 | 31.11 | 3.36 |
2381 | 6114 | 6.975197 | GGACTTTTTGAAAAAGACTCTCAAGG | 59.025 | 38.462 | 30.55 | 7.27 | 31.11 | 3.61 |
2382 | 6115 | 7.766283 | AGGACTTTTTGAAAAAGACTCTCAAG | 58.234 | 34.615 | 30.55 | 7.82 | 31.11 | 3.02 |
2383 | 6116 | 7.703058 | AGGACTTTTTGAAAAAGACTCTCAA | 57.297 | 32.000 | 30.55 | 0.00 | 0.00 | 3.02 |
2384 | 6117 | 7.499232 | CCTAGGACTTTTTGAAAAAGACTCTCA | 59.501 | 37.037 | 30.55 | 14.91 | 0.00 | 3.27 |
2385 | 6118 | 7.041030 | CCCTAGGACTTTTTGAAAAAGACTCTC | 60.041 | 40.741 | 30.55 | 19.27 | 0.00 | 3.20 |
2386 | 6119 | 6.773200 | CCCTAGGACTTTTTGAAAAAGACTCT | 59.227 | 38.462 | 30.55 | 23.56 | 0.00 | 3.24 |
2387 | 6120 | 6.771267 | TCCCTAGGACTTTTTGAAAAAGACTC | 59.229 | 38.462 | 30.55 | 20.15 | 0.00 | 3.36 |
2388 | 6121 | 6.669631 | TCCCTAGGACTTTTTGAAAAAGACT | 58.330 | 36.000 | 30.55 | 26.69 | 0.00 | 3.24 |
2389 | 6122 | 6.954487 | TCCCTAGGACTTTTTGAAAAAGAC | 57.046 | 37.500 | 30.55 | 24.86 | 0.00 | 3.01 |
2422 | 6155 | 4.771054 | TGTTTGGTTCTCTAGTCCTAGGAC | 59.229 | 45.833 | 31.29 | 31.29 | 44.86 | 3.85 |
2423 | 6156 | 4.771054 | GTGTTTGGTTCTCTAGTCCTAGGA | 59.229 | 45.833 | 7.62 | 7.62 | 34.06 | 2.94 |
2424 | 6157 | 4.081586 | GGTGTTTGGTTCTCTAGTCCTAGG | 60.082 | 50.000 | 0.82 | 0.82 | 34.06 | 3.02 |
2425 | 6158 | 4.527038 | TGGTGTTTGGTTCTCTAGTCCTAG | 59.473 | 45.833 | 0.00 | 0.00 | 34.56 | 3.02 |
2426 | 6159 | 4.282703 | GTGGTGTTTGGTTCTCTAGTCCTA | 59.717 | 45.833 | 0.00 | 0.00 | 0.00 | 2.94 |
2427 | 6160 | 3.071167 | GTGGTGTTTGGTTCTCTAGTCCT | 59.929 | 47.826 | 0.00 | 0.00 | 0.00 | 3.85 |
2428 | 6161 | 3.400255 | GTGGTGTTTGGTTCTCTAGTCC | 58.600 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2429 | 6162 | 3.071167 | AGGTGGTGTTTGGTTCTCTAGTC | 59.929 | 47.826 | 0.00 | 0.00 | 0.00 | 2.59 |
2430 | 6163 | 3.046374 | AGGTGGTGTTTGGTTCTCTAGT | 58.954 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
2431 | 6164 | 3.771577 | AGGTGGTGTTTGGTTCTCTAG | 57.228 | 47.619 | 0.00 | 0.00 | 0.00 | 2.43 |
2432 | 6165 | 4.513406 | AAAGGTGGTGTTTGGTTCTCTA | 57.487 | 40.909 | 0.00 | 0.00 | 0.00 | 2.43 |
2433 | 6166 | 3.382083 | AAAGGTGGTGTTTGGTTCTCT | 57.618 | 42.857 | 0.00 | 0.00 | 0.00 | 3.10 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.