Multiple sequence alignment - TraesCS1A01G144700
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 | TraesCS1A01G144700 | chr1A | 100.000 | 5155 | 0 | 0 | 1 | 5155 | 250549882 | 250555036 | 0.000000e+00 | 9520.0 |
1 | TraesCS1A01G144700 | chr1A | 95.367 | 259 | 11 | 1 | 1 | 259 | 30569839 | 30569582 | 1.340000e-110 | 411.0 |
2 | TraesCS1A01G144700 | chr1A | 96.970 | 66 | 2 | 0 | 3634 | 3699 | 250553451 | 250553516 | 1.520000e-20 | 111.0 |
3 | TraesCS1A01G144700 | chr1A | 96.970 | 66 | 2 | 0 | 3570 | 3635 | 250553515 | 250553580 | 1.520000e-20 | 111.0 |
4 | TraesCS1A01G144700 | chr1B | 94.556 | 3233 | 99 | 20 | 460 | 3635 | 279772969 | 279776181 | 0.000000e+00 | 4924.0 |
5 | TraesCS1A01G144700 | chr1B | 99.154 | 591 | 5 | 0 | 3634 | 4224 | 279776116 | 279776706 | 0.000000e+00 | 1064.0 |
6 | TraesCS1A01G144700 | chr1B | 93.448 | 580 | 25 | 9 | 4219 | 4793 | 279776762 | 279777333 | 0.000000e+00 | 848.0 |
7 | TraesCS1A01G144700 | chr1B | 91.419 | 303 | 24 | 2 | 4799 | 5100 | 279777375 | 279777676 | 1.030000e-111 | 414.0 |
8 | TraesCS1A01G144700 | chr1D | 96.281 | 1452 | 41 | 6 | 2085 | 3534 | 199363113 | 199364553 | 0.000000e+00 | 2370.0 |
9 | TraesCS1A01G144700 | chr1D | 94.972 | 1233 | 29 | 9 | 281 | 1509 | 199360894 | 199362097 | 0.000000e+00 | 1903.0 |
10 | TraesCS1A01G144700 | chr1D | 98.433 | 638 | 9 | 1 | 3538 | 4175 | 199364599 | 199365235 | 0.000000e+00 | 1122.0 |
11 | TraesCS1A01G144700 | chr1D | 92.823 | 627 | 33 | 9 | 4171 | 4793 | 199365409 | 199366027 | 0.000000e+00 | 898.0 |
12 | TraesCS1A01G144700 | chr1D | 91.317 | 357 | 27 | 2 | 4799 | 5155 | 199366069 | 199366421 | 7.760000e-133 | 484.0 |
13 | TraesCS1A01G144700 | chr1D | 87.470 | 423 | 13 | 13 | 1510 | 1894 | 199362124 | 199362544 | 7.870000e-123 | 451.0 |
14 | TraesCS1A01G144700 | chr1D | 91.071 | 168 | 4 | 3 | 1891 | 2049 | 199362595 | 199362760 | 3.130000e-52 | 217.0 |
15 | TraesCS1A01G144700 | chr1D | 98.485 | 66 | 1 | 0 | 3634 | 3699 | 199364631 | 199364696 | 3.260000e-22 | 117.0 |
16 | TraesCS1A01G144700 | chr1D | 95.455 | 66 | 3 | 0 | 3570 | 3635 | 199364695 | 199364760 | 7.060000e-19 | 106.0 |
17 | TraesCS1A01G144700 | chr3A | 95.200 | 250 | 12 | 0 | 1 | 250 | 691401152 | 691400903 | 3.740000e-106 | 396.0 |
18 | TraesCS1A01G144700 | chr3A | 94.400 | 250 | 14 | 0 | 1 | 250 | 637478399 | 637478648 | 8.100000e-103 | 385.0 |
19 | TraesCS1A01G144700 | chr3A | 93.651 | 252 | 16 | 0 | 1 | 252 | 690219938 | 690219687 | 1.350000e-100 | 377.0 |
20 | TraesCS1A01G144700 | chr3A | 93.701 | 254 | 13 | 3 | 1 | 252 | 726836952 | 726837204 | 1.350000e-100 | 377.0 |
21 | TraesCS1A01G144700 | chr3A | 97.143 | 35 | 0 | 1 | 246 | 280 | 106621917 | 106621884 | 2.000000e-04 | 58.4 |
22 | TraesCS1A01G144700 | chr6A | 94.400 | 250 | 14 | 0 | 1 | 250 | 588365416 | 588365665 | 8.100000e-103 | 385.0 |
23 | TraesCS1A01G144700 | chr6A | 91.304 | 46 | 3 | 1 | 4478 | 4523 | 93932305 | 93932261 | 1.550000e-05 | 62.1 |
24 | TraesCS1A01G144700 | chr4A | 94.422 | 251 | 12 | 1 | 1 | 251 | 556629182 | 556629430 | 8.100000e-103 | 385.0 |
25 | TraesCS1A01G144700 | chr4A | 93.651 | 252 | 16 | 0 | 1 | 252 | 548568926 | 548568675 | 1.350000e-100 | 377.0 |
26 | TraesCS1A01G144700 | chr2D | 93.651 | 252 | 16 | 0 | 1 | 252 | 343158292 | 343158041 | 1.350000e-100 | 377.0 |
27 | TraesCS1A01G144700 | chr5B | 94.872 | 39 | 1 | 1 | 242 | 280 | 316157159 | 316157122 | 5.570000e-05 | 60.2 |
28 | TraesCS1A01G144700 | chr4B | 91.111 | 45 | 3 | 1 | 243 | 287 | 122557425 | 122557468 | 5.570000e-05 | 60.2 |
29 | TraesCS1A01G144700 | chr2B | 94.737 | 38 | 1 | 1 | 243 | 280 | 790587749 | 790587785 | 2.000000e-04 | 58.4 |
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 | TraesCS1A01G144700 | chr1A | 250549882 | 250555036 | 5154 | False | 3247.333333 | 9520 | 97.980000 | 1 | 5155 | 3 | chr1A.!!$F1 | 5154 |
1 | TraesCS1A01G144700 | chr1B | 279772969 | 279777676 | 4707 | False | 1812.500000 | 4924 | 94.644250 | 460 | 5100 | 4 | chr1B.!!$F1 | 4640 |
2 | TraesCS1A01G144700 | chr1D | 199360894 | 199366421 | 5527 | False | 852.000000 | 2370 | 94.034111 | 281 | 5155 | 9 | chr1D.!!$F1 | 4874 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
251 | 252 | 0.037590 | TGCGGGGCATTGTCTAGTTT | 59.962 | 50.000 | 0.0 | 0.0 | 31.71 | 2.66 | F |
252 | 253 | 0.451783 | GCGGGGCATTGTCTAGTTTG | 59.548 | 55.000 | 0.0 | 0.0 | 0.00 | 2.93 | F |
964 | 967 | 0.454452 | TCGTTCATCGCTCACTCACG | 60.454 | 55.000 | 0.0 | 0.0 | 39.67 | 4.35 | F |
1448 | 1459 | 0.380378 | TGACAAACTTCTTGTGGCGC | 59.620 | 50.000 | 0.0 | 0.0 | 31.96 | 6.53 | F |
1918 | 2077 | 2.698274 | GTTTGGTTCCTTGTGGTGGAAT | 59.302 | 45.455 | 0.0 | 0.0 | 44.27 | 3.01 | F |
2473 | 2959 | 1.611519 | TTAACCGAGGCCCAACAAAG | 58.388 | 50.000 | 0.0 | 0.0 | 0.00 | 2.77 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1296 | 1303 | 0.378257 | ACGAATCACGCATGCCATTC | 59.622 | 50.000 | 13.15 | 15.3 | 46.94 | 2.67 | R |
1309 | 1320 | 0.857311 | CATCGCGCAAACCACGAATC | 60.857 | 55.000 | 8.75 | 0.0 | 39.56 | 2.52 | R |
2359 | 2844 | 1.066143 | ACCTAGCGTTGACCTGATTGG | 60.066 | 52.381 | 0.00 | 0.0 | 42.93 | 3.16 | R |
2382 | 2867 | 1.442769 | GTGACGTGAACATGAGGCAT | 58.557 | 50.000 | 0.00 | 0.0 | 0.00 | 4.40 | R |
3466 | 3972 | 1.450531 | GCAAATCCTCGGGCATCCAG | 61.451 | 60.000 | 0.00 | 0.0 | 0.00 | 3.86 | R |
4417 | 5205 | 1.605710 | GCATTGAGCTACCAATCGCAT | 59.394 | 47.619 | 13.04 | 0.0 | 41.15 | 4.73 | 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 |
---|---|---|---|---|---|---|---|---|---|
25 | 26 | 8.937634 | ATGCATTAGAAAAGATCCATTTCAAC | 57.062 | 30.769 | 18.57 | 7.72 | 38.86 | 3.18 |
26 | 27 | 7.894708 | TGCATTAGAAAAGATCCATTTCAACA | 58.105 | 30.769 | 18.57 | 9.45 | 38.86 | 3.33 |
27 | 28 | 8.533657 | TGCATTAGAAAAGATCCATTTCAACAT | 58.466 | 29.630 | 18.57 | 8.39 | 38.86 | 2.71 |
28 | 29 | 9.028185 | GCATTAGAAAAGATCCATTTCAACATC | 57.972 | 33.333 | 18.57 | 6.14 | 38.86 | 3.06 |
29 | 30 | 9.525409 | CATTAGAAAAGATCCATTTCAACATCC | 57.475 | 33.333 | 18.57 | 0.00 | 38.86 | 3.51 |
30 | 31 | 8.648698 | TTAGAAAAGATCCATTTCAACATCCA | 57.351 | 30.769 | 18.57 | 0.00 | 38.86 | 3.41 |
31 | 32 | 7.543359 | AGAAAAGATCCATTTCAACATCCAA | 57.457 | 32.000 | 18.57 | 0.00 | 38.86 | 3.53 |
32 | 33 | 8.142485 | AGAAAAGATCCATTTCAACATCCAAT | 57.858 | 30.769 | 18.57 | 0.00 | 38.86 | 3.16 |
33 | 34 | 8.038944 | AGAAAAGATCCATTTCAACATCCAATG | 58.961 | 33.333 | 18.57 | 0.00 | 38.86 | 2.82 |
34 | 35 | 7.484993 | AAAGATCCATTTCAACATCCAATGA | 57.515 | 32.000 | 0.00 | 0.00 | 30.66 | 2.57 |
35 | 36 | 6.710597 | AGATCCATTTCAACATCCAATGAG | 57.289 | 37.500 | 0.00 | 0.00 | 30.66 | 2.90 |
36 | 37 | 6.192773 | AGATCCATTTCAACATCCAATGAGT | 58.807 | 36.000 | 0.00 | 0.00 | 30.66 | 3.41 |
37 | 38 | 5.902613 | TCCATTTCAACATCCAATGAGTC | 57.097 | 39.130 | 0.00 | 0.00 | 30.66 | 3.36 |
38 | 39 | 5.323581 | TCCATTTCAACATCCAATGAGTCA | 58.676 | 37.500 | 0.00 | 0.00 | 30.66 | 3.41 |
39 | 40 | 5.953548 | TCCATTTCAACATCCAATGAGTCAT | 59.046 | 36.000 | 0.00 | 0.00 | 30.66 | 3.06 |
40 | 41 | 7.118060 | TCCATTTCAACATCCAATGAGTCATA | 58.882 | 34.615 | 5.94 | 0.00 | 30.66 | 2.15 |
41 | 42 | 7.614974 | TCCATTTCAACATCCAATGAGTCATAA | 59.385 | 33.333 | 5.94 | 0.00 | 30.66 | 1.90 |
42 | 43 | 7.919091 | CCATTTCAACATCCAATGAGTCATAAG | 59.081 | 37.037 | 5.94 | 2.30 | 30.66 | 1.73 |
43 | 44 | 8.680001 | CATTTCAACATCCAATGAGTCATAAGA | 58.320 | 33.333 | 5.94 | 6.76 | 30.66 | 2.10 |
44 | 45 | 8.634335 | TTTCAACATCCAATGAGTCATAAGAA | 57.366 | 30.769 | 5.94 | 0.23 | 0.00 | 2.52 |
45 | 46 | 8.634335 | TTCAACATCCAATGAGTCATAAGAAA | 57.366 | 30.769 | 5.94 | 0.00 | 0.00 | 2.52 |
46 | 47 | 8.634335 | TCAACATCCAATGAGTCATAAGAAAA | 57.366 | 30.769 | 5.94 | 0.00 | 0.00 | 2.29 |
47 | 48 | 8.733458 | TCAACATCCAATGAGTCATAAGAAAAG | 58.267 | 33.333 | 5.94 | 4.22 | 0.00 | 2.27 |
48 | 49 | 8.733458 | CAACATCCAATGAGTCATAAGAAAAGA | 58.267 | 33.333 | 5.94 | 0.00 | 0.00 | 2.52 |
49 | 50 | 9.471702 | AACATCCAATGAGTCATAAGAAAAGAT | 57.528 | 29.630 | 5.94 | 0.00 | 0.00 | 2.40 |
50 | 51 | 9.471702 | ACATCCAATGAGTCATAAGAAAAGATT | 57.528 | 29.630 | 5.94 | 0.00 | 0.00 | 2.40 |
51 | 52 | 9.947669 | CATCCAATGAGTCATAAGAAAAGATTC | 57.052 | 33.333 | 5.94 | 0.00 | 35.70 | 2.52 |
52 | 53 | 9.690913 | ATCCAATGAGTCATAAGAAAAGATTCA | 57.309 | 29.630 | 5.94 | 0.00 | 38.06 | 2.57 |
53 | 54 | 8.950210 | TCCAATGAGTCATAAGAAAAGATTCAC | 58.050 | 33.333 | 5.94 | 0.00 | 38.06 | 3.18 |
54 | 55 | 8.954350 | CCAATGAGTCATAAGAAAAGATTCACT | 58.046 | 33.333 | 5.94 | 0.00 | 38.06 | 3.41 |
57 | 58 | 9.730705 | ATGAGTCATAAGAAAAGATTCACTTCA | 57.269 | 29.630 | 3.05 | 0.00 | 37.93 | 3.02 |
58 | 59 | 9.559732 | TGAGTCATAAGAAAAGATTCACTTCAA | 57.440 | 29.630 | 0.00 | 0.00 | 37.93 | 2.69 |
59 | 60 | 9.818796 | GAGTCATAAGAAAAGATTCACTTCAAC | 57.181 | 33.333 | 0.00 | 0.00 | 37.93 | 3.18 |
60 | 61 | 9.342308 | AGTCATAAGAAAAGATTCACTTCAACA | 57.658 | 29.630 | 0.00 | 0.00 | 37.93 | 3.33 |
63 | 64 | 8.857216 | CATAAGAAAAGATTCACTTCAACATGC | 58.143 | 33.333 | 0.00 | 0.00 | 37.93 | 4.06 |
64 | 65 | 6.395426 | AGAAAAGATTCACTTCAACATGCA | 57.605 | 33.333 | 0.00 | 0.00 | 37.93 | 3.96 |
65 | 66 | 6.808829 | AGAAAAGATTCACTTCAACATGCAA | 58.191 | 32.000 | 0.00 | 0.00 | 37.93 | 4.08 |
66 | 67 | 7.267128 | AGAAAAGATTCACTTCAACATGCAAA | 58.733 | 30.769 | 0.00 | 0.00 | 37.93 | 3.68 |
67 | 68 | 6.833342 | AAAGATTCACTTCAACATGCAAAC | 57.167 | 33.333 | 0.00 | 0.00 | 37.93 | 2.93 |
68 | 69 | 5.518848 | AGATTCACTTCAACATGCAAACA | 57.481 | 34.783 | 0.00 | 0.00 | 0.00 | 2.83 |
69 | 70 | 6.092955 | AGATTCACTTCAACATGCAAACAT | 57.907 | 33.333 | 0.00 | 0.00 | 36.79 | 2.71 |
70 | 71 | 6.422701 | AAGATTCACTTCAACATGCAAACATG | 59.577 | 34.615 | 4.55 | 4.55 | 46.05 | 3.21 |
71 | 72 | 8.894473 | AAGATTCACTTCAACATGCAAACATGC | 61.894 | 37.037 | 5.97 | 0.00 | 45.24 | 4.06 |
225 | 226 | 8.908903 | AGAAATGTATTACAAAATATTCCCGCA | 58.091 | 29.630 | 0.00 | 0.00 | 30.42 | 5.69 |
226 | 227 | 9.522804 | GAAATGTATTACAAAATATTCCCGCAA | 57.477 | 29.630 | 0.00 | 0.00 | 30.42 | 4.85 |
227 | 228 | 8.865590 | AATGTATTACAAAATATTCCCGCAAC | 57.134 | 30.769 | 0.00 | 0.00 | 30.42 | 4.17 |
228 | 229 | 7.392494 | TGTATTACAAAATATTCCCGCAACA | 57.608 | 32.000 | 0.00 | 0.00 | 30.42 | 3.33 |
229 | 230 | 7.827701 | TGTATTACAAAATATTCCCGCAACAA | 58.172 | 30.769 | 0.00 | 0.00 | 30.42 | 2.83 |
230 | 231 | 7.755822 | TGTATTACAAAATATTCCCGCAACAAC | 59.244 | 33.333 | 0.00 | 0.00 | 30.42 | 3.32 |
231 | 232 | 3.570559 | ACAAAATATTCCCGCAACAACG | 58.429 | 40.909 | 0.00 | 0.00 | 0.00 | 4.10 |
232 | 233 | 3.004944 | ACAAAATATTCCCGCAACAACGT | 59.995 | 39.130 | 0.00 | 0.00 | 0.00 | 3.99 |
233 | 234 | 2.911819 | AATATTCCCGCAACAACGTG | 57.088 | 45.000 | 0.00 | 0.00 | 0.00 | 4.49 |
234 | 235 | 0.450184 | ATATTCCCGCAACAACGTGC | 59.550 | 50.000 | 0.00 | 0.00 | 41.32 | 5.34 |
241 | 242 | 3.669344 | CAACAACGTGCGGGGCAT | 61.669 | 61.111 | 0.00 | 0.00 | 41.91 | 4.40 |
242 | 243 | 2.909965 | AACAACGTGCGGGGCATT | 60.910 | 55.556 | 0.00 | 0.00 | 41.91 | 3.56 |
243 | 244 | 3.206211 | AACAACGTGCGGGGCATTG | 62.206 | 57.895 | 0.00 | 0.00 | 41.91 | 2.82 |
244 | 245 | 3.669344 | CAACGTGCGGGGCATTGT | 61.669 | 61.111 | 0.00 | 0.00 | 41.91 | 2.71 |
245 | 246 | 3.361977 | AACGTGCGGGGCATTGTC | 61.362 | 61.111 | 0.00 | 0.00 | 41.91 | 3.18 |
246 | 247 | 3.842925 | AACGTGCGGGGCATTGTCT | 62.843 | 57.895 | 0.00 | 0.00 | 41.91 | 3.41 |
247 | 248 | 2.125310 | CGTGCGGGGCATTGTCTA | 60.125 | 61.111 | 0.00 | 0.00 | 41.91 | 2.59 |
248 | 249 | 2.173669 | CGTGCGGGGCATTGTCTAG | 61.174 | 63.158 | 0.00 | 0.00 | 41.91 | 2.43 |
249 | 250 | 1.078426 | GTGCGGGGCATTGTCTAGT | 60.078 | 57.895 | 0.00 | 0.00 | 41.91 | 2.57 |
250 | 251 | 0.676782 | GTGCGGGGCATTGTCTAGTT | 60.677 | 55.000 | 0.00 | 0.00 | 41.91 | 2.24 |
251 | 252 | 0.037590 | TGCGGGGCATTGTCTAGTTT | 59.962 | 50.000 | 0.00 | 0.00 | 31.71 | 2.66 |
252 | 253 | 0.451783 | GCGGGGCATTGTCTAGTTTG | 59.548 | 55.000 | 0.00 | 0.00 | 0.00 | 2.93 |
253 | 254 | 1.094785 | CGGGGCATTGTCTAGTTTGG | 58.905 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
254 | 255 | 1.339631 | CGGGGCATTGTCTAGTTTGGA | 60.340 | 52.381 | 0.00 | 0.00 | 0.00 | 3.53 |
255 | 256 | 2.369394 | GGGGCATTGTCTAGTTTGGAG | 58.631 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
256 | 257 | 2.026262 | GGGGCATTGTCTAGTTTGGAGA | 60.026 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
257 | 258 | 3.561313 | GGGGCATTGTCTAGTTTGGAGAA | 60.561 | 47.826 | 0.00 | 0.00 | 0.00 | 2.87 |
258 | 259 | 3.691609 | GGGCATTGTCTAGTTTGGAGAAG | 59.308 | 47.826 | 0.00 | 0.00 | 0.00 | 2.85 |
259 | 260 | 4.327680 | GGCATTGTCTAGTTTGGAGAAGT | 58.672 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
260 | 261 | 4.762251 | GGCATTGTCTAGTTTGGAGAAGTT | 59.238 | 41.667 | 0.00 | 0.00 | 0.00 | 2.66 |
261 | 262 | 5.335191 | GGCATTGTCTAGTTTGGAGAAGTTG | 60.335 | 44.000 | 0.00 | 0.00 | 0.00 | 3.16 |
262 | 263 | 5.335191 | GCATTGTCTAGTTTGGAGAAGTTGG | 60.335 | 44.000 | 0.00 | 0.00 | 0.00 | 3.77 |
263 | 264 | 5.623956 | TTGTCTAGTTTGGAGAAGTTGGA | 57.376 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
264 | 265 | 4.957296 | TGTCTAGTTTGGAGAAGTTGGAC | 58.043 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
265 | 266 | 4.407621 | TGTCTAGTTTGGAGAAGTTGGACA | 59.592 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
266 | 267 | 5.104693 | TGTCTAGTTTGGAGAAGTTGGACAA | 60.105 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
267 | 268 | 5.236695 | GTCTAGTTTGGAGAAGTTGGACAAC | 59.763 | 44.000 | 7.08 | 7.08 | 41.45 | 3.32 |
268 | 269 | 3.963129 | AGTTTGGAGAAGTTGGACAACA | 58.037 | 40.909 | 16.58 | 0.00 | 43.47 | 3.33 |
269 | 270 | 4.536765 | AGTTTGGAGAAGTTGGACAACAT | 58.463 | 39.130 | 16.58 | 5.31 | 43.47 | 2.71 |
270 | 271 | 4.580580 | AGTTTGGAGAAGTTGGACAACATC | 59.419 | 41.667 | 16.58 | 13.85 | 43.47 | 3.06 |
278 | 279 | 3.884900 | GGACAACATCCGAACGGG | 58.115 | 61.111 | 13.29 | 0.91 | 37.88 | 5.28 |
279 | 280 | 1.743995 | GGACAACATCCGAACGGGG | 60.744 | 63.158 | 13.29 | 8.55 | 37.88 | 5.73 |
291 | 292 | 5.350504 | TCCGAACGGGGTGTAAATATAAA | 57.649 | 39.130 | 13.29 | 0.00 | 36.01 | 1.40 |
297 | 298 | 8.829612 | CGAACGGGGTGTAAATATAAATAGTTT | 58.170 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
446 | 447 | 3.383825 | GGGGTACGATAAAAGAGCTCTGA | 59.616 | 47.826 | 19.06 | 6.34 | 0.00 | 3.27 |
471 | 472 | 2.270986 | GCCCGAATGGATCCATGGC | 61.271 | 63.158 | 29.14 | 29.14 | 36.39 | 4.40 |
559 | 560 | 5.590530 | TGCTCTAGAAGAATCTTGGAGTC | 57.409 | 43.478 | 0.00 | 3.40 | 37.01 | 3.36 |
621 | 623 | 5.382618 | AGTTAAGCTTTTGGCATGAAGAG | 57.617 | 39.130 | 3.20 | 0.00 | 44.79 | 2.85 |
655 | 658 | 3.131709 | ACAACCATCCTGACTTGTGAG | 57.868 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
656 | 659 | 2.439507 | ACAACCATCCTGACTTGTGAGT | 59.560 | 45.455 | 0.00 | 0.00 | 39.32 | 3.41 |
657 | 660 | 3.117888 | ACAACCATCCTGACTTGTGAGTT | 60.118 | 43.478 | 0.00 | 0.00 | 35.88 | 3.01 |
658 | 661 | 3.131709 | ACCATCCTGACTTGTGAGTTG | 57.868 | 47.619 | 0.00 | 0.00 | 35.88 | 3.16 |
659 | 662 | 2.439507 | ACCATCCTGACTTGTGAGTTGT | 59.560 | 45.455 | 0.00 | 0.00 | 35.88 | 3.32 |
660 | 663 | 2.810274 | CCATCCTGACTTGTGAGTTGTG | 59.190 | 50.000 | 0.00 | 0.00 | 35.88 | 3.33 |
661 | 664 | 3.494924 | CCATCCTGACTTGTGAGTTGTGA | 60.495 | 47.826 | 0.00 | 0.00 | 35.88 | 3.58 |
774 | 777 | 2.666526 | GCTAGCCGCCACATAGCC | 60.667 | 66.667 | 2.29 | 0.00 | 36.70 | 3.93 |
964 | 967 | 0.454452 | TCGTTCATCGCTCACTCACG | 60.454 | 55.000 | 0.00 | 0.00 | 39.67 | 4.35 |
965 | 968 | 1.704582 | GTTCATCGCTCACTCACGC | 59.295 | 57.895 | 0.00 | 0.00 | 0.00 | 5.34 |
966 | 969 | 1.008875 | GTTCATCGCTCACTCACGCA | 61.009 | 55.000 | 0.00 | 0.00 | 0.00 | 5.24 |
967 | 970 | 1.008875 | TTCATCGCTCACTCACGCAC | 61.009 | 55.000 | 0.00 | 0.00 | 0.00 | 5.34 |
1296 | 1303 | 3.518998 | GCCATCTGCTGCAGCCTG | 61.519 | 66.667 | 34.64 | 26.38 | 41.18 | 4.85 |
1394 | 1405 | 5.180680 | GGGTTTCAGACTTTGTGTGGTATAC | 59.819 | 44.000 | 0.00 | 0.00 | 0.00 | 1.47 |
1440 | 1451 | 6.091437 | GCGTAGTAGTATGTGACAAACTTCT | 58.909 | 40.000 | 0.00 | 0.00 | 31.21 | 2.85 |
1447 | 1458 | 1.400142 | TGTGACAAACTTCTTGTGGCG | 59.600 | 47.619 | 0.00 | 0.00 | 31.96 | 5.69 |
1448 | 1459 | 0.380378 | TGACAAACTTCTTGTGGCGC | 59.620 | 50.000 | 0.00 | 0.00 | 31.96 | 6.53 |
1501 | 1512 | 4.615949 | ACGTTCACATGCTGCAAAAATAA | 58.384 | 34.783 | 6.36 | 0.00 | 0.00 | 1.40 |
1508 | 1545 | 8.909708 | TCACATGCTGCAAAAATAAATAGTAC | 57.090 | 30.769 | 6.36 | 0.00 | 0.00 | 2.73 |
1569 | 1609 | 6.998074 | TCTCAGAAATAGTTGCTTGGAAGAAA | 59.002 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
1570 | 1610 | 7.502226 | TCTCAGAAATAGTTGCTTGGAAGAAAA | 59.498 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
1658 | 1725 | 9.173939 | GATTCTCAGTGTGATGTTTTAGTTTTG | 57.826 | 33.333 | 0.00 | 0.00 | 0.00 | 2.44 |
1839 | 1941 | 4.770351 | AACACAAAAGCATTGCGTTTAC | 57.230 | 36.364 | 19.65 | 0.00 | 38.06 | 2.01 |
1843 | 1945 | 5.401079 | ACACAAAAGCATTGCGTTTACATAC | 59.599 | 36.000 | 19.65 | 0.00 | 38.06 | 2.39 |
1918 | 2077 | 2.698274 | GTTTGGTTCCTTGTGGTGGAAT | 59.302 | 45.455 | 0.00 | 0.00 | 44.27 | 3.01 |
2359 | 2844 | 3.211045 | TGGCTACCGATGAAAATAAGGC | 58.789 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
2382 | 2867 | 4.250464 | CAATCAGGTCAACGCTAGGTAAA | 58.750 | 43.478 | 0.00 | 0.00 | 0.00 | 2.01 |
2460 | 2945 | 7.065803 | CCCTCCATTAGCATATGTAATTAACCG | 59.934 | 40.741 | 4.29 | 0.00 | 0.00 | 4.44 |
2473 | 2959 | 1.611519 | TTAACCGAGGCCCAACAAAG | 58.388 | 50.000 | 0.00 | 0.00 | 0.00 | 2.77 |
2957 | 3444 | 4.085357 | TCTTTTGCTCCATACAGTGTGT | 57.915 | 40.909 | 5.88 | 0.00 | 0.00 | 3.72 |
3210 | 3700 | 7.495901 | TCCTTTTGCATGTTTTGAAGTATGAA | 58.504 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
3279 | 3785 | 4.201724 | CCGCATAACTGACTTGCTAGTTTC | 60.202 | 45.833 | 1.43 | 0.00 | 38.11 | 2.78 |
3466 | 3972 | 7.651704 | GTGGCAAAAATATATCATGGTGGTAAC | 59.348 | 37.037 | 0.00 | 0.00 | 0.00 | 2.50 |
3482 | 3988 | 1.141053 | GTAACTGGATGCCCGAGGATT | 59.859 | 52.381 | 0.00 | 0.00 | 34.29 | 3.01 |
3527 | 4033 | 8.691797 | GCAGTTTAAAATCCATAATAACTCCCA | 58.308 | 33.333 | 0.00 | 0.00 | 0.00 | 4.37 |
3670 | 4218 | 9.451206 | AATGGGGGAAAGTCATGATATATTTTT | 57.549 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
4039 | 4587 | 4.837896 | TCACTTCTATGGTAGCAGATCG | 57.162 | 45.455 | 0.00 | 0.00 | 0.00 | 3.69 |
4236 | 5022 | 5.872617 | GTGTGTGAGCTAACATGTATGGTAA | 59.127 | 40.000 | 7.31 | 0.00 | 31.49 | 2.85 |
4413 | 5201 | 8.713737 | AATGCTATGTGTGCTATGATATACAG | 57.286 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
4414 | 5202 | 7.232118 | TGCTATGTGTGCTATGATATACAGT | 57.768 | 36.000 | 0.00 | 0.00 | 0.00 | 3.55 |
4415 | 5203 | 8.348285 | TGCTATGTGTGCTATGATATACAGTA | 57.652 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
4416 | 5204 | 8.244113 | TGCTATGTGTGCTATGATATACAGTAC | 58.756 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
4417 | 5205 | 8.244113 | GCTATGTGTGCTATGATATACAGTACA | 58.756 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
4422 | 5210 | 6.072175 | TGTGCTATGATATACAGTACATGCGA | 60.072 | 38.462 | 0.00 | 0.00 | 0.00 | 5.10 |
4433 | 5221 | 2.430694 | AGTACATGCGATTGGTAGCTCA | 59.569 | 45.455 | 0.00 | 0.00 | 0.00 | 4.26 |
4434 | 5222 | 2.401583 | ACATGCGATTGGTAGCTCAA | 57.598 | 45.000 | 0.00 | 0.00 | 0.00 | 3.02 |
4461 | 5249 | 3.816580 | GTCCGTCAAAGGGACTCTC | 57.183 | 57.895 | 10.72 | 0.00 | 46.58 | 3.20 |
4604 | 5395 | 2.044946 | GCGCTCCCCATCCTGTTT | 60.045 | 61.111 | 0.00 | 0.00 | 0.00 | 2.83 |
4615 | 5406 | 0.478072 | ATCCTGTTTGGTGGACAGCA | 59.522 | 50.000 | 0.00 | 0.00 | 42.42 | 4.41 |
4865 | 5708 | 4.446413 | GACGGATGGACGGCGGTT | 62.446 | 66.667 | 13.24 | 0.00 | 38.39 | 4.44 |
4971 | 5814 | 2.484287 | CTTCAATGCTGACCCGGGGT | 62.484 | 60.000 | 27.92 | 21.21 | 39.44 | 4.95 |
5018 | 5861 | 3.790437 | CTCTGCCTCCGGTGCCAT | 61.790 | 66.667 | 14.59 | 0.00 | 0.00 | 4.40 |
5034 | 5877 | 1.750930 | CATAGCCCTCATCACCGCT | 59.249 | 57.895 | 0.00 | 0.00 | 35.34 | 5.52 |
5042 | 5885 | 0.599466 | CTCATCACCGCTGCATCGAT | 60.599 | 55.000 | 12.26 | 0.00 | 0.00 | 3.59 |
5044 | 5887 | 1.066136 | CATCACCGCTGCATCGATAG | 58.934 | 55.000 | 12.26 | 0.78 | 0.00 | 2.08 |
5055 | 5898 | 4.269183 | CTGCATCGATAGTAGAGATCCCT | 58.731 | 47.826 | 0.00 | 0.00 | 37.40 | 4.20 |
5115 | 5958 | 3.532155 | GAGTGCGCCTCGATCCCT | 61.532 | 66.667 | 4.18 | 0.00 | 0.00 | 4.20 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 8.533657 | TGTTGAAATGGATCTTTTCTAATGCAT | 58.466 | 29.630 | 17.00 | 0.00 | 35.72 | 3.96 |
1 | 2 | 7.894708 | TGTTGAAATGGATCTTTTCTAATGCA | 58.105 | 30.769 | 17.00 | 0.00 | 34.80 | 3.96 |
2 | 3 | 8.937634 | ATGTTGAAATGGATCTTTTCTAATGC | 57.062 | 30.769 | 17.00 | 5.16 | 34.80 | 3.56 |
3 | 4 | 9.525409 | GGATGTTGAAATGGATCTTTTCTAATG | 57.475 | 33.333 | 17.00 | 0.00 | 34.80 | 1.90 |
4 | 5 | 9.258629 | TGGATGTTGAAATGGATCTTTTCTAAT | 57.741 | 29.630 | 17.00 | 10.73 | 34.80 | 1.73 |
5 | 6 | 8.648698 | TGGATGTTGAAATGGATCTTTTCTAA | 57.351 | 30.769 | 17.00 | 10.28 | 34.80 | 2.10 |
6 | 7 | 8.648698 | TTGGATGTTGAAATGGATCTTTTCTA | 57.351 | 30.769 | 17.00 | 10.46 | 34.80 | 2.10 |
7 | 8 | 7.543359 | TTGGATGTTGAAATGGATCTTTTCT | 57.457 | 32.000 | 17.00 | 3.51 | 34.80 | 2.52 |
8 | 9 | 8.036575 | TCATTGGATGTTGAAATGGATCTTTTC | 58.963 | 33.333 | 12.12 | 12.12 | 33.14 | 2.29 |
9 | 10 | 7.909518 | TCATTGGATGTTGAAATGGATCTTTT | 58.090 | 30.769 | 0.00 | 0.00 | 33.14 | 2.27 |
10 | 11 | 7.179694 | ACTCATTGGATGTTGAAATGGATCTTT | 59.820 | 33.333 | 0.00 | 0.00 | 33.14 | 2.52 |
11 | 12 | 6.666546 | ACTCATTGGATGTTGAAATGGATCTT | 59.333 | 34.615 | 0.00 | 0.00 | 33.14 | 2.40 |
12 | 13 | 6.192773 | ACTCATTGGATGTTGAAATGGATCT | 58.807 | 36.000 | 0.00 | 0.00 | 33.14 | 2.75 |
13 | 14 | 6.095860 | TGACTCATTGGATGTTGAAATGGATC | 59.904 | 38.462 | 0.00 | 0.00 | 33.14 | 3.36 |
14 | 15 | 5.953548 | TGACTCATTGGATGTTGAAATGGAT | 59.046 | 36.000 | 0.00 | 0.00 | 33.14 | 3.41 |
15 | 16 | 5.323581 | TGACTCATTGGATGTTGAAATGGA | 58.676 | 37.500 | 0.00 | 0.00 | 33.14 | 3.41 |
16 | 17 | 5.648178 | TGACTCATTGGATGTTGAAATGG | 57.352 | 39.130 | 0.00 | 0.00 | 33.14 | 3.16 |
17 | 18 | 8.680001 | TCTTATGACTCATTGGATGTTGAAATG | 58.320 | 33.333 | 0.00 | 0.00 | 33.50 | 2.32 |
18 | 19 | 8.812513 | TCTTATGACTCATTGGATGTTGAAAT | 57.187 | 30.769 | 0.00 | 0.00 | 0.00 | 2.17 |
19 | 20 | 8.634335 | TTCTTATGACTCATTGGATGTTGAAA | 57.366 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
20 | 21 | 8.634335 | TTTCTTATGACTCATTGGATGTTGAA | 57.366 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
21 | 22 | 8.634335 | TTTTCTTATGACTCATTGGATGTTGA | 57.366 | 30.769 | 0.00 | 0.00 | 0.00 | 3.18 |
22 | 23 | 8.733458 | TCTTTTCTTATGACTCATTGGATGTTG | 58.267 | 33.333 | 0.00 | 0.00 | 0.00 | 3.33 |
23 | 24 | 8.868522 | TCTTTTCTTATGACTCATTGGATGTT | 57.131 | 30.769 | 0.00 | 0.00 | 0.00 | 2.71 |
24 | 25 | 9.471702 | AATCTTTTCTTATGACTCATTGGATGT | 57.528 | 29.630 | 0.00 | 0.00 | 0.00 | 3.06 |
25 | 26 | 9.947669 | GAATCTTTTCTTATGACTCATTGGATG | 57.052 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
26 | 27 | 9.690913 | TGAATCTTTTCTTATGACTCATTGGAT | 57.309 | 29.630 | 0.00 | 0.00 | 32.78 | 3.41 |
27 | 28 | 8.950210 | GTGAATCTTTTCTTATGACTCATTGGA | 58.050 | 33.333 | 0.00 | 0.00 | 32.78 | 3.53 |
28 | 29 | 8.954350 | AGTGAATCTTTTCTTATGACTCATTGG | 58.046 | 33.333 | 0.00 | 0.00 | 32.78 | 3.16 |
31 | 32 | 9.730705 | TGAAGTGAATCTTTTCTTATGACTCAT | 57.269 | 29.630 | 0.00 | 0.00 | 36.40 | 2.90 |
32 | 33 | 9.559732 | TTGAAGTGAATCTTTTCTTATGACTCA | 57.440 | 29.630 | 0.00 | 0.00 | 36.40 | 3.41 |
33 | 34 | 9.818796 | GTTGAAGTGAATCTTTTCTTATGACTC | 57.181 | 33.333 | 0.00 | 0.00 | 36.40 | 3.36 |
34 | 35 | 9.342308 | TGTTGAAGTGAATCTTTTCTTATGACT | 57.658 | 29.630 | 0.00 | 0.00 | 36.40 | 3.41 |
37 | 38 | 8.857216 | GCATGTTGAAGTGAATCTTTTCTTATG | 58.143 | 33.333 | 0.00 | 0.00 | 36.40 | 1.90 |
38 | 39 | 8.579006 | TGCATGTTGAAGTGAATCTTTTCTTAT | 58.421 | 29.630 | 0.00 | 0.00 | 36.40 | 1.73 |
39 | 40 | 7.939782 | TGCATGTTGAAGTGAATCTTTTCTTA | 58.060 | 30.769 | 0.00 | 0.00 | 36.40 | 2.10 |
40 | 41 | 6.808829 | TGCATGTTGAAGTGAATCTTTTCTT | 58.191 | 32.000 | 0.00 | 0.00 | 36.40 | 2.52 |
41 | 42 | 6.395426 | TGCATGTTGAAGTGAATCTTTTCT | 57.605 | 33.333 | 0.00 | 0.00 | 36.40 | 2.52 |
42 | 43 | 7.010367 | TGTTTGCATGTTGAAGTGAATCTTTTC | 59.990 | 33.333 | 0.00 | 0.00 | 36.40 | 2.29 |
43 | 44 | 6.817641 | TGTTTGCATGTTGAAGTGAATCTTTT | 59.182 | 30.769 | 0.00 | 0.00 | 36.40 | 2.27 |
44 | 45 | 6.339730 | TGTTTGCATGTTGAAGTGAATCTTT | 58.660 | 32.000 | 0.00 | 0.00 | 36.40 | 2.52 |
45 | 46 | 5.904941 | TGTTTGCATGTTGAAGTGAATCTT | 58.095 | 33.333 | 0.00 | 0.00 | 39.32 | 2.40 |
46 | 47 | 5.518848 | TGTTTGCATGTTGAAGTGAATCT | 57.481 | 34.783 | 0.00 | 0.00 | 0.00 | 2.40 |
47 | 48 | 6.148270 | CATGTTTGCATGTTGAAGTGAATC | 57.852 | 37.500 | 0.00 | 0.00 | 45.48 | 2.52 |
199 | 200 | 8.908903 | TGCGGGAATATTTTGTAATACATTTCT | 58.091 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
200 | 201 | 9.522804 | TTGCGGGAATATTTTGTAATACATTTC | 57.477 | 29.630 | 0.00 | 0.00 | 0.00 | 2.17 |
201 | 202 | 9.308318 | GTTGCGGGAATATTTTGTAATACATTT | 57.692 | 29.630 | 0.00 | 0.00 | 0.00 | 2.32 |
202 | 203 | 8.470805 | TGTTGCGGGAATATTTTGTAATACATT | 58.529 | 29.630 | 0.00 | 0.00 | 0.00 | 2.71 |
203 | 204 | 8.001881 | TGTTGCGGGAATATTTTGTAATACAT | 57.998 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
204 | 205 | 7.392494 | TGTTGCGGGAATATTTTGTAATACA | 57.608 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
205 | 206 | 7.044576 | CGTTGTTGCGGGAATATTTTGTAATAC | 60.045 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
206 | 207 | 6.967767 | CGTTGTTGCGGGAATATTTTGTAATA | 59.032 | 34.615 | 0.00 | 0.00 | 0.00 | 0.98 |
207 | 208 | 5.802956 | CGTTGTTGCGGGAATATTTTGTAAT | 59.197 | 36.000 | 0.00 | 0.00 | 0.00 | 1.89 |
208 | 209 | 5.154932 | CGTTGTTGCGGGAATATTTTGTAA | 58.845 | 37.500 | 0.00 | 0.00 | 0.00 | 2.41 |
209 | 210 | 4.215827 | ACGTTGTTGCGGGAATATTTTGTA | 59.784 | 37.500 | 0.00 | 0.00 | 35.98 | 2.41 |
210 | 211 | 3.004944 | ACGTTGTTGCGGGAATATTTTGT | 59.995 | 39.130 | 0.00 | 0.00 | 35.98 | 2.83 |
211 | 212 | 3.363426 | CACGTTGTTGCGGGAATATTTTG | 59.637 | 43.478 | 0.00 | 0.00 | 37.48 | 2.44 |
212 | 213 | 3.570559 | CACGTTGTTGCGGGAATATTTT | 58.429 | 40.909 | 0.00 | 0.00 | 37.48 | 1.82 |
213 | 214 | 2.669950 | GCACGTTGTTGCGGGAATATTT | 60.670 | 45.455 | 0.00 | 0.00 | 37.48 | 1.40 |
214 | 215 | 1.135517 | GCACGTTGTTGCGGGAATATT | 60.136 | 47.619 | 0.00 | 0.00 | 37.48 | 1.28 |
215 | 216 | 0.450184 | GCACGTTGTTGCGGGAATAT | 59.550 | 50.000 | 0.00 | 0.00 | 37.48 | 1.28 |
216 | 217 | 1.870383 | GCACGTTGTTGCGGGAATA | 59.130 | 52.632 | 0.00 | 0.00 | 37.48 | 1.75 |
217 | 218 | 2.642700 | GCACGTTGTTGCGGGAAT | 59.357 | 55.556 | 0.00 | 0.00 | 37.48 | 3.01 |
224 | 225 | 3.206211 | AATGCCCCGCACGTTGTTG | 62.206 | 57.895 | 0.00 | 0.00 | 43.04 | 3.33 |
225 | 226 | 2.909965 | AATGCCCCGCACGTTGTT | 60.910 | 55.556 | 0.00 | 0.00 | 43.04 | 2.83 |
226 | 227 | 3.669344 | CAATGCCCCGCACGTTGT | 61.669 | 61.111 | 0.00 | 0.00 | 43.04 | 3.32 |
227 | 228 | 3.609214 | GACAATGCCCCGCACGTTG | 62.609 | 63.158 | 0.00 | 0.00 | 43.04 | 4.10 |
228 | 229 | 2.457743 | TAGACAATGCCCCGCACGTT | 62.458 | 55.000 | 0.00 | 0.00 | 43.04 | 3.99 |
229 | 230 | 2.852495 | CTAGACAATGCCCCGCACGT | 62.852 | 60.000 | 0.00 | 0.00 | 43.04 | 4.49 |
230 | 231 | 2.125310 | TAGACAATGCCCCGCACG | 60.125 | 61.111 | 0.00 | 0.00 | 43.04 | 5.34 |
231 | 232 | 0.676782 | AACTAGACAATGCCCCGCAC | 60.677 | 55.000 | 0.00 | 0.00 | 43.04 | 5.34 |
232 | 233 | 0.037590 | AAACTAGACAATGCCCCGCA | 59.962 | 50.000 | 0.00 | 0.00 | 44.86 | 5.69 |
233 | 234 | 0.451783 | CAAACTAGACAATGCCCCGC | 59.548 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
234 | 235 | 1.094785 | CCAAACTAGACAATGCCCCG | 58.905 | 55.000 | 0.00 | 0.00 | 0.00 | 5.73 |
235 | 236 | 2.026262 | TCTCCAAACTAGACAATGCCCC | 60.026 | 50.000 | 0.00 | 0.00 | 0.00 | 5.80 |
236 | 237 | 3.350219 | TCTCCAAACTAGACAATGCCC | 57.650 | 47.619 | 0.00 | 0.00 | 0.00 | 5.36 |
237 | 238 | 4.327680 | ACTTCTCCAAACTAGACAATGCC | 58.672 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
238 | 239 | 5.335191 | CCAACTTCTCCAAACTAGACAATGC | 60.335 | 44.000 | 0.00 | 0.00 | 0.00 | 3.56 |
239 | 240 | 5.997746 | TCCAACTTCTCCAAACTAGACAATG | 59.002 | 40.000 | 0.00 | 0.00 | 0.00 | 2.82 |
240 | 241 | 5.998363 | GTCCAACTTCTCCAAACTAGACAAT | 59.002 | 40.000 | 0.00 | 0.00 | 0.00 | 2.71 |
241 | 242 | 5.104693 | TGTCCAACTTCTCCAAACTAGACAA | 60.105 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
242 | 243 | 4.407621 | TGTCCAACTTCTCCAAACTAGACA | 59.592 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
243 | 244 | 4.957296 | TGTCCAACTTCTCCAAACTAGAC | 58.043 | 43.478 | 0.00 | 0.00 | 0.00 | 2.59 |
244 | 245 | 5.104693 | TGTTGTCCAACTTCTCCAAACTAGA | 60.105 | 40.000 | 11.14 | 0.00 | 41.67 | 2.43 |
245 | 246 | 5.123227 | TGTTGTCCAACTTCTCCAAACTAG | 58.877 | 41.667 | 11.14 | 0.00 | 41.67 | 2.57 |
246 | 247 | 5.105567 | TGTTGTCCAACTTCTCCAAACTA | 57.894 | 39.130 | 11.14 | 0.00 | 41.67 | 2.24 |
247 | 248 | 3.963129 | TGTTGTCCAACTTCTCCAAACT | 58.037 | 40.909 | 11.14 | 0.00 | 41.67 | 2.66 |
248 | 249 | 4.261614 | GGATGTTGTCCAACTTCTCCAAAC | 60.262 | 45.833 | 19.32 | 4.83 | 46.96 | 2.93 |
249 | 250 | 3.888930 | GGATGTTGTCCAACTTCTCCAAA | 59.111 | 43.478 | 19.32 | 0.00 | 46.96 | 3.28 |
250 | 251 | 3.486383 | GGATGTTGTCCAACTTCTCCAA | 58.514 | 45.455 | 19.32 | 0.00 | 46.96 | 3.53 |
251 | 252 | 3.140325 | GGATGTTGTCCAACTTCTCCA | 57.860 | 47.619 | 19.32 | 0.00 | 46.96 | 3.86 |
261 | 262 | 1.743995 | CCCCGTTCGGATGTTGTCC | 60.744 | 63.158 | 13.08 | 0.00 | 44.10 | 4.02 |
262 | 263 | 1.004200 | ACCCCGTTCGGATGTTGTC | 60.004 | 57.895 | 13.08 | 0.00 | 0.00 | 3.18 |
263 | 264 | 1.302192 | CACCCCGTTCGGATGTTGT | 60.302 | 57.895 | 13.08 | 0.00 | 0.00 | 3.32 |
264 | 265 | 0.037139 | TACACCCCGTTCGGATGTTG | 60.037 | 55.000 | 19.95 | 11.06 | 0.00 | 3.33 |
265 | 266 | 0.686224 | TTACACCCCGTTCGGATGTT | 59.314 | 50.000 | 19.95 | 9.45 | 0.00 | 2.71 |
266 | 267 | 0.686224 | TTTACACCCCGTTCGGATGT | 59.314 | 50.000 | 19.15 | 19.15 | 0.00 | 3.06 |
267 | 268 | 2.032680 | ATTTACACCCCGTTCGGATG | 57.967 | 50.000 | 13.08 | 12.31 | 0.00 | 3.51 |
268 | 269 | 5.549742 | TTATATTTACACCCCGTTCGGAT | 57.450 | 39.130 | 13.08 | 0.00 | 0.00 | 4.18 |
269 | 270 | 5.350504 | TTTATATTTACACCCCGTTCGGA | 57.649 | 39.130 | 13.08 | 0.00 | 0.00 | 4.55 |
270 | 271 | 6.930722 | ACTATTTATATTTACACCCCGTTCGG | 59.069 | 38.462 | 4.08 | 4.08 | 0.00 | 4.30 |
271 | 272 | 7.951530 | ACTATTTATATTTACACCCCGTTCG | 57.048 | 36.000 | 0.00 | 0.00 | 0.00 | 3.95 |
446 | 447 | 0.109342 | GATCCATTCGGGCTCCACAT | 59.891 | 55.000 | 0.00 | 0.00 | 36.21 | 3.21 |
471 | 472 | 6.100004 | TCTAGAAATGCTACCGAAACTTCTG | 58.900 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
559 | 560 | 2.931320 | GCTTAACTCGGAAGTCAGGGTG | 60.931 | 54.545 | 0.00 | 0.00 | 33.48 | 4.61 |
621 | 623 | 1.073284 | TGGTTGTTCTGAGGTAAGGGC | 59.927 | 52.381 | 0.00 | 0.00 | 0.00 | 5.19 |
655 | 658 | 2.870411 | ACCTTAACTCGCAAGTCACAAC | 59.130 | 45.455 | 0.00 | 0.00 | 33.48 | 3.32 |
656 | 659 | 3.188159 | ACCTTAACTCGCAAGTCACAA | 57.812 | 42.857 | 0.00 | 0.00 | 33.48 | 3.33 |
657 | 660 | 2.902705 | ACCTTAACTCGCAAGTCACA | 57.097 | 45.000 | 0.00 | 0.00 | 33.48 | 3.58 |
658 | 661 | 3.059120 | GGAAACCTTAACTCGCAAGTCAC | 60.059 | 47.826 | 0.00 | 0.00 | 33.48 | 3.67 |
659 | 662 | 3.135994 | GGAAACCTTAACTCGCAAGTCA | 58.864 | 45.455 | 0.00 | 0.00 | 33.48 | 3.41 |
660 | 663 | 2.157085 | CGGAAACCTTAACTCGCAAGTC | 59.843 | 50.000 | 0.00 | 0.00 | 33.48 | 3.01 |
661 | 664 | 2.140717 | CGGAAACCTTAACTCGCAAGT | 58.859 | 47.619 | 0.00 | 0.00 | 37.32 | 3.16 |
1296 | 1303 | 0.378257 | ACGAATCACGCATGCCATTC | 59.622 | 50.000 | 13.15 | 15.30 | 46.94 | 2.67 |
1307 | 1318 | 1.792057 | CGCGCAAACCACGAATCAC | 60.792 | 57.895 | 8.75 | 0.00 | 0.00 | 3.06 |
1308 | 1319 | 1.295357 | ATCGCGCAAACCACGAATCA | 61.295 | 50.000 | 8.75 | 0.00 | 39.56 | 2.57 |
1309 | 1320 | 0.857311 | CATCGCGCAAACCACGAATC | 60.857 | 55.000 | 8.75 | 0.00 | 39.56 | 2.52 |
1424 | 1435 | 4.537015 | GCCACAAGAAGTTTGTCACATAC | 58.463 | 43.478 | 0.00 | 0.00 | 0.00 | 2.39 |
1425 | 1436 | 3.249799 | CGCCACAAGAAGTTTGTCACATA | 59.750 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
1426 | 1437 | 2.033299 | CGCCACAAGAAGTTTGTCACAT | 59.967 | 45.455 | 0.00 | 0.00 | 0.00 | 3.21 |
1440 | 1451 | 2.006888 | GCTCAAACTATAGCGCCACAA | 58.993 | 47.619 | 2.29 | 0.00 | 0.00 | 3.33 |
1528 | 1565 | 7.687941 | TTTCTGAGATAAAGGGAACATGTTC | 57.312 | 36.000 | 27.16 | 27.16 | 38.80 | 3.18 |
1658 | 1725 | 7.867909 | CCAGAACTGAAAAATAGGGAGAAAAAC | 59.132 | 37.037 | 3.19 | 0.00 | 0.00 | 2.43 |
2056 | 2224 | 2.539547 | GCGTTCTATACTTGCGTCCGTA | 60.540 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2063 | 2231 | 3.781280 | GCGTTCTTGCGTTCTATACTTGC | 60.781 | 47.826 | 0.00 | 0.00 | 0.00 | 4.01 |
2342 | 2827 | 5.441500 | TGATTGGCCTTATTTTCATCGGTA | 58.558 | 37.500 | 3.32 | 0.00 | 0.00 | 4.02 |
2346 | 2831 | 5.360714 | TGACCTGATTGGCCTTATTTTCATC | 59.639 | 40.000 | 3.32 | 0.00 | 40.22 | 2.92 |
2359 | 2844 | 1.066143 | ACCTAGCGTTGACCTGATTGG | 60.066 | 52.381 | 0.00 | 0.00 | 42.93 | 3.16 |
2382 | 2867 | 1.442769 | GTGACGTGAACATGAGGCAT | 58.557 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2460 | 2945 | 4.038642 | TGTTTATCAACTTTGTTGGGCCTC | 59.961 | 41.667 | 4.53 | 0.00 | 33.58 | 4.70 |
2728 | 3215 | 2.396590 | TATTTCTGGAACTCACCCGC | 57.603 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
2950 | 3437 | 8.848948 | TGTTCAACATTAATTTACACACACTG | 57.151 | 30.769 | 0.00 | 0.00 | 0.00 | 3.66 |
2957 | 3444 | 9.482627 | GGTTCCAATGTTCAACATTAATTTACA | 57.517 | 29.630 | 15.51 | 0.00 | 46.22 | 2.41 |
3279 | 3785 | 3.713288 | TGACTACAACCAGTTGAACTCG | 58.287 | 45.455 | 17.06 | 0.00 | 42.93 | 4.18 |
3466 | 3972 | 1.450531 | GCAAATCCTCGGGCATCCAG | 61.451 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3527 | 4033 | 8.584157 | TCATTTGAAAAGTGCACCTAATATGTT | 58.416 | 29.630 | 14.63 | 0.00 | 33.04 | 2.71 |
3535 | 4041 | 9.590451 | CATATATTTCATTTGAAAAGTGCACCT | 57.410 | 29.630 | 14.63 | 0.00 | 45.81 | 4.00 |
3536 | 4042 | 8.819974 | CCATATATTTCATTTGAAAAGTGCACC | 58.180 | 33.333 | 14.63 | 0.00 | 45.81 | 5.01 |
3670 | 4218 | 4.253685 | GTGCTGCCTGTGATAGTAAAAGA | 58.746 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
4225 | 5011 | 7.307396 | GCTGCAACTACTGTATTACCATACATG | 60.307 | 40.741 | 0.00 | 0.00 | 43.60 | 3.21 |
4236 | 5022 | 3.034635 | AGGCTAGCTGCAACTACTGTAT | 58.965 | 45.455 | 15.72 | 0.00 | 45.15 | 2.29 |
4413 | 5201 | 2.821546 | TGAGCTACCAATCGCATGTAC | 58.178 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
4414 | 5202 | 3.535280 | TTGAGCTACCAATCGCATGTA | 57.465 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
4415 | 5203 | 2.401583 | TTGAGCTACCAATCGCATGT | 57.598 | 45.000 | 0.00 | 0.00 | 0.00 | 3.21 |
4416 | 5204 | 2.603892 | GCATTGAGCTACCAATCGCATG | 60.604 | 50.000 | 13.04 | 0.00 | 41.15 | 4.06 |
4417 | 5205 | 1.605710 | GCATTGAGCTACCAATCGCAT | 59.394 | 47.619 | 13.04 | 0.00 | 41.15 | 4.73 |
4433 | 5221 | 2.154462 | CTTTGACGGACCTTCAGCATT | 58.846 | 47.619 | 0.41 | 0.00 | 0.00 | 3.56 |
4434 | 5222 | 1.611673 | CCTTTGACGGACCTTCAGCAT | 60.612 | 52.381 | 0.41 | 0.00 | 0.00 | 3.79 |
4604 | 5395 | 3.484806 | AACCCGTGCTGTCCACCA | 61.485 | 61.111 | 0.00 | 0.00 | 41.53 | 4.17 |
4787 | 5579 | 1.959282 | ACTAAGACGACCGTTGAACCT | 59.041 | 47.619 | 0.00 | 0.00 | 0.00 | 3.50 |
4971 | 5814 | 0.608035 | CGGTTTAAGAAGGCCCTGCA | 60.608 | 55.000 | 0.00 | 0.00 | 0.00 | 4.41 |
5017 | 5860 | 1.750930 | CAGCGGTGATGAGGGCTAT | 59.249 | 57.895 | 9.50 | 0.00 | 33.72 | 2.97 |
5018 | 5861 | 3.094062 | GCAGCGGTGATGAGGGCTA | 62.094 | 63.158 | 20.69 | 0.00 | 33.72 | 3.93 |
5034 | 5877 | 4.308526 | AGGGATCTCTACTATCGATGCA | 57.691 | 45.455 | 8.54 | 0.00 | 0.00 | 3.96 |
5042 | 5885 | 2.695666 | GCAGTGCAAGGGATCTCTACTA | 59.304 | 50.000 | 11.09 | 0.00 | 0.00 | 1.82 |
5044 | 5887 | 1.208052 | TGCAGTGCAAGGGATCTCTAC | 59.792 | 52.381 | 17.26 | 0.00 | 34.76 | 2.59 |
5074 | 5917 | 2.635443 | CGAAATGGCCCGGCAGTTT | 61.635 | 57.895 | 12.58 | 11.13 | 0.00 | 2.66 |
5104 | 5947 | 2.586357 | GTTGCGAGGGATCGAGGC | 60.586 | 66.667 | 1.17 | 0.00 | 34.64 | 4.70 |
5106 | 5949 | 2.278857 | CGGTTGCGAGGGATCGAG | 60.279 | 66.667 | 1.17 | 0.00 | 34.64 | 4.04 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.