Multiple sequence alignment - TraesCS2D01G575000
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 | TraesCS2D01G575000 | chr2D | 100.000 | 6152 | 0 | 0 | 425 | 6576 | 639364760 | 639358609 | 0.000000e+00 | 11361.0 |
1 | TraesCS2D01G575000 | chr2D | 94.240 | 3403 | 133 | 23 | 2213 | 5607 | 639137839 | 639134492 | 0.000000e+00 | 5140.0 |
2 | TraesCS2D01G575000 | chr2D | 81.770 | 2474 | 373 | 53 | 2950 | 5400 | 638864278 | 638861860 | 0.000000e+00 | 1999.0 |
3 | TraesCS2D01G575000 | chr2D | 86.336 | 1493 | 172 | 23 | 2950 | 4429 | 639278726 | 639277253 | 0.000000e+00 | 1598.0 |
4 | TraesCS2D01G575000 | chr2D | 86.764 | 1375 | 160 | 15 | 3060 | 4429 | 639090090 | 639088733 | 0.000000e+00 | 1511.0 |
5 | TraesCS2D01G575000 | chr2D | 90.252 | 872 | 77 | 4 | 1077 | 1947 | 638876110 | 638875246 | 0.000000e+00 | 1133.0 |
6 | TraesCS2D01G575000 | chr2D | 91.754 | 764 | 37 | 11 | 5630 | 6374 | 639134503 | 639133747 | 0.000000e+00 | 1038.0 |
7 | TraesCS2D01G575000 | chr2D | 86.591 | 880 | 106 | 3 | 1076 | 1949 | 639148128 | 639147255 | 0.000000e+00 | 961.0 |
8 | TraesCS2D01G575000 | chr2D | 86.580 | 842 | 100 | 8 | 1122 | 1959 | 639279723 | 639278891 | 0.000000e+00 | 917.0 |
9 | TraesCS2D01G575000 | chr2D | 88.319 | 702 | 49 | 15 | 5630 | 6311 | 639087525 | 639086837 | 0.000000e+00 | 811.0 |
10 | TraesCS2D01G575000 | chr2D | 81.243 | 949 | 133 | 29 | 4470 | 5400 | 639277101 | 639276180 | 0.000000e+00 | 725.0 |
11 | TraesCS2D01G575000 | chr2D | 79.388 | 883 | 149 | 17 | 1080 | 1950 | 639092543 | 639091682 | 5.680000e-165 | 592.0 |
12 | TraesCS2D01G575000 | chr2D | 92.617 | 298 | 19 | 3 | 5630 | 5926 | 639276054 | 639275759 | 6.090000e-115 | 425.0 |
13 | TraesCS2D01G575000 | chr2D | 88.724 | 337 | 35 | 3 | 5640 | 5975 | 639151606 | 639151272 | 6.140000e-110 | 409.0 |
14 | TraesCS2D01G575000 | chr2D | 97.630 | 211 | 5 | 0 | 6366 | 6576 | 639130633 | 639130423 | 4.850000e-96 | 363.0 |
15 | TraesCS2D01G575000 | chr2D | 93.145 | 248 | 5 | 3 | 1945 | 2185 | 639138617 | 639138375 | 2.920000e-93 | 353.0 |
16 | TraesCS2D01G575000 | chr2D | 100.000 | 86 | 0 | 0 | 1 | 86 | 639365184 | 639365099 | 6.830000e-35 | 159.0 |
17 | TraesCS2D01G575000 | chr2D | 90.244 | 82 | 8 | 0 | 5907 | 5988 | 639275749 | 639275668 | 2.510000e-19 | 108.0 |
18 | TraesCS2D01G575000 | chr2D | 97.368 | 38 | 1 | 0 | 2185 | 2222 | 639138218 | 639138181 | 1.530000e-06 | 65.8 |
19 | TraesCS2D01G575000 | chr2D | 92.857 | 42 | 3 | 0 | 918 | 959 | 639092646 | 639092605 | 1.980000e-05 | 62.1 |
20 | TraesCS2D01G575000 | chr2B | 86.383 | 2306 | 252 | 43 | 2973 | 5260 | 798193162 | 798190901 | 0.000000e+00 | 2462.0 |
21 | TraesCS2D01G575000 | chr2B | 94.355 | 1488 | 73 | 9 | 701 | 2185 | 798195746 | 798194267 | 0.000000e+00 | 2272.0 |
22 | TraesCS2D01G575000 | chr2B | 83.066 | 2244 | 320 | 43 | 2950 | 5174 | 798226625 | 798224423 | 0.000000e+00 | 1984.0 |
23 | TraesCS2D01G575000 | chr2B | 82.016 | 2391 | 341 | 53 | 3060 | 5399 | 798156874 | 798154522 | 0.000000e+00 | 1951.0 |
24 | TraesCS2D01G575000 | chr2B | 82.138 | 2329 | 352 | 46 | 2950 | 5260 | 798331131 | 798328849 | 0.000000e+00 | 1938.0 |
25 | TraesCS2D01G575000 | chr2B | 84.074 | 1193 | 152 | 22 | 763 | 1945 | 798159538 | 798158374 | 0.000000e+00 | 1116.0 |
26 | TraesCS2D01G575000 | chr2B | 94.181 | 653 | 25 | 7 | 2215 | 2862 | 798194065 | 798193421 | 0.000000e+00 | 983.0 |
27 | TraesCS2D01G575000 | chr2B | 91.532 | 555 | 17 | 7 | 436 | 969 | 798257176 | 798256631 | 0.000000e+00 | 737.0 |
28 | TraesCS2D01G575000 | chr2B | 91.532 | 555 | 17 | 7 | 436 | 969 | 798266954 | 798266409 | 0.000000e+00 | 737.0 |
29 | TraesCS2D01G575000 | chr2B | 88.245 | 604 | 59 | 6 | 1350 | 1947 | 798236137 | 798235540 | 0.000000e+00 | 712.0 |
30 | TraesCS2D01G575000 | chr2B | 94.502 | 291 | 15 | 1 | 1018 | 1307 | 798256646 | 798256356 | 1.300000e-121 | 448.0 |
31 | TraesCS2D01G575000 | chr2B | 94.502 | 291 | 15 | 1 | 1018 | 1307 | 798266424 | 798266134 | 1.300000e-121 | 448.0 |
32 | TraesCS2D01G575000 | chr2B | 89.205 | 352 | 33 | 3 | 5630 | 5978 | 798154370 | 798154021 | 1.010000e-117 | 435.0 |
33 | TraesCS2D01G575000 | chr2B | 87.017 | 362 | 41 | 6 | 5630 | 5988 | 798184053 | 798183695 | 2.860000e-108 | 403.0 |
34 | TraesCS2D01G575000 | chr2B | 83.575 | 414 | 54 | 7 | 1076 | 1478 | 798338748 | 798338338 | 6.230000e-100 | 375.0 |
35 | TraesCS2D01G575000 | chr2B | 87.692 | 325 | 34 | 5 | 5650 | 5970 | 798357657 | 798357335 | 2.240000e-99 | 374.0 |
36 | TraesCS2D01G575000 | chr2B | 86.341 | 205 | 18 | 7 | 5630 | 5825 | 798328633 | 798328430 | 1.440000e-51 | 215.0 |
37 | TraesCS2D01G575000 | chr2B | 84.783 | 92 | 4 | 2 | 5 | 86 | 798257523 | 798257432 | 4.230000e-12 | 84.2 |
38 | TraesCS2D01G575000 | chr2B | 84.783 | 92 | 4 | 2 | 5 | 86 | 798267301 | 798267210 | 4.230000e-12 | 84.2 |
39 | TraesCS2D01G575000 | chr2B | 94.872 | 39 | 2 | 0 | 977 | 1015 | 610020598 | 610020636 | 1.980000e-05 | 62.1 |
40 | TraesCS2D01G575000 | chr2A | 82.270 | 2397 | 339 | 55 | 3060 | 5400 | 764725879 | 764723513 | 0.000000e+00 | 1993.0 |
41 | TraesCS2D01G575000 | chr2A | 84.365 | 1260 | 156 | 22 | 704 | 1950 | 764728902 | 764727671 | 0.000000e+00 | 1197.0 |
42 | TraesCS2D01G575000 | chr2A | 88.451 | 355 | 34 | 4 | 5630 | 5981 | 764723362 | 764723012 | 7.880000e-114 | 422.0 |
43 | TraesCS2D01G575000 | chr2A | 77.778 | 216 | 31 | 6 | 5409 | 5607 | 764723566 | 764723351 | 4.170000e-22 | 117.0 |
44 | TraesCS2D01G575000 | chr6A | 77.857 | 140 | 29 | 2 | 1684 | 1822 | 4596939 | 4596801 | 1.170000e-12 | 86.1 |
45 | TraesCS2D01G575000 | chr7A | 95.000 | 40 | 2 | 0 | 977 | 1016 | 705502268 | 705502307 | 5.500000e-06 | 63.9 |
46 | TraesCS2D01G575000 | chr7A | 100.000 | 32 | 0 | 0 | 985 | 1016 | 67682643 | 67682674 | 7.120000e-05 | 60.2 |
47 | TraesCS2D01G575000 | chr6D | 97.297 | 37 | 1 | 0 | 980 | 1016 | 320198087 | 320198051 | 5.500000e-06 | 63.9 |
48 | TraesCS2D01G575000 | chr7D | 92.500 | 40 | 3 | 0 | 977 | 1016 | 613714901 | 613714940 | 2.560000e-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 | TraesCS2D01G575000 | chr2D | 639358609 | 639365184 | 6575 | True | 5760.000000 | 11361 | 100.000000 | 1 | 6576 | 2 | chr2D.!!$R7 | 6575 |
1 | TraesCS2D01G575000 | chr2D | 638861860 | 638864278 | 2418 | True | 1999.000000 | 1999 | 81.770000 | 2950 | 5400 | 1 | chr2D.!!$R1 | 2450 |
2 | TraesCS2D01G575000 | chr2D | 639130423 | 639138617 | 8194 | True | 1391.960000 | 5140 | 94.827400 | 1945 | 6576 | 5 | chr2D.!!$R4 | 4631 |
3 | TraesCS2D01G575000 | chr2D | 638875246 | 638876110 | 864 | True | 1133.000000 | 1133 | 90.252000 | 1077 | 1947 | 1 | chr2D.!!$R2 | 870 |
4 | TraesCS2D01G575000 | chr2D | 639275668 | 639279723 | 4055 | True | 754.600000 | 1598 | 87.404000 | 1122 | 5988 | 5 | chr2D.!!$R6 | 4866 |
5 | TraesCS2D01G575000 | chr2D | 639086837 | 639092646 | 5809 | True | 744.025000 | 1511 | 86.832000 | 918 | 6311 | 4 | chr2D.!!$R3 | 5393 |
6 | TraesCS2D01G575000 | chr2D | 639147255 | 639151606 | 4351 | True | 685.000000 | 961 | 87.657500 | 1076 | 5975 | 2 | chr2D.!!$R5 | 4899 |
7 | TraesCS2D01G575000 | chr2B | 798224423 | 798226625 | 2202 | True | 1984.000000 | 1984 | 83.066000 | 2950 | 5174 | 1 | chr2B.!!$R2 | 2224 |
8 | TraesCS2D01G575000 | chr2B | 798190901 | 798195746 | 4845 | True | 1905.666667 | 2462 | 91.639667 | 701 | 5260 | 3 | chr2B.!!$R7 | 4559 |
9 | TraesCS2D01G575000 | chr2B | 798154021 | 798159538 | 5517 | True | 1167.333333 | 1951 | 85.098333 | 763 | 5978 | 3 | chr2B.!!$R6 | 5215 |
10 | TraesCS2D01G575000 | chr2B | 798328430 | 798331131 | 2701 | True | 1076.500000 | 1938 | 84.239500 | 2950 | 5825 | 2 | chr2B.!!$R10 | 2875 |
11 | TraesCS2D01G575000 | chr2B | 798235540 | 798236137 | 597 | True | 712.000000 | 712 | 88.245000 | 1350 | 1947 | 1 | chr2B.!!$R3 | 597 |
12 | TraesCS2D01G575000 | chr2B | 798256356 | 798257523 | 1167 | True | 423.066667 | 737 | 90.272333 | 5 | 1307 | 3 | chr2B.!!$R8 | 1302 |
13 | TraesCS2D01G575000 | chr2B | 798266134 | 798267301 | 1167 | True | 423.066667 | 737 | 90.272333 | 5 | 1307 | 3 | chr2B.!!$R9 | 1302 |
14 | TraesCS2D01G575000 | chr2A | 764723012 | 764728902 | 5890 | True | 932.250000 | 1993 | 83.216000 | 704 | 5981 | 4 | chr2A.!!$R1 | 5277 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
40 | 49 | 1.067250 | GTGAGCAGAGGAGGATCGC | 59.933 | 63.158 | 0.00 | 0.0 | 34.37 | 4.58 | F |
1375 | 3785 | 0.249868 | CTCTCCTGGTGCGTGTTGAA | 60.250 | 55.000 | 0.00 | 0.0 | 0.00 | 2.69 | F |
1668 | 4090 | 0.396435 | AAGATCAGTGACGGCAACCA | 59.604 | 50.000 | 0.00 | 0.0 | 0.00 | 3.67 | F |
1932 | 4354 | 2.233676 | TGCTAGTCCGAGAATTGCTTCA | 59.766 | 45.455 | 8.52 | 0.0 | 30.85 | 3.02 | F |
3016 | 6576 | 1.423541 | ACACCACCCATTGCTCAAGTA | 59.576 | 47.619 | 0.00 | 0.0 | 0.00 | 2.24 | F |
3716 | 7315 | 2.715046 | TGAAACTGATAGCCTGCTTGG | 58.285 | 47.619 | 0.00 | 0.0 | 39.35 | 3.61 | F |
4902 | 8619 | 0.033366 | GCCAATGGTTCAACGCCTTT | 59.967 | 50.000 | 0.00 | 0.0 | 0.00 | 3.11 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1668 | 4090 | 0.745845 | GAGATGCGCCTTGGACACAT | 60.746 | 55.000 | 4.18 | 0.00 | 0.00 | 3.21 | R |
2941 | 6499 | 0.179140 | GCTGGGTGTTTGTGTGTGTG | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.82 | R |
2944 | 6502 | 0.396974 | ATGGCTGGGTGTTTGTGTGT | 60.397 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 | R |
3883 | 7485 | 1.303643 | CCAAAGGTGTGCCTCCCTC | 60.304 | 63.158 | 0.00 | 0.00 | 46.33 | 4.30 | R |
4449 | 8055 | 1.239296 | ACCGTTGTCAGATCGTCCGA | 61.239 | 55.000 | 0.00 | 0.00 | 0.00 | 4.55 | R |
5504 | 9329 | 0.613260 | ACATGCAACTAGGGCGAGAA | 59.387 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 | R |
6016 | 9907 | 0.458669 | CCTTAAAGCAGCAGCCATGG | 59.541 | 55.000 | 7.63 | 7.63 | 43.56 | 3.66 | 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 |
---|---|---|---|---|---|---|---|---|---|
38 | 47 | 1.739049 | CCGTGAGCAGAGGAGGATC | 59.261 | 63.158 | 0.00 | 0.00 | 0.00 | 3.36 |
40 | 49 | 1.067250 | GTGAGCAGAGGAGGATCGC | 59.933 | 63.158 | 0.00 | 0.00 | 34.37 | 4.58 |
51 | 60 | 3.224324 | GGATCGCGCTACCCCTCA | 61.224 | 66.667 | 5.56 | 0.00 | 0.00 | 3.86 |
56 | 65 | 1.079405 | CGCGCTACCCCTCAAAAGA | 60.079 | 57.895 | 5.56 | 0.00 | 0.00 | 2.52 |
477 | 651 | 2.552315 | CTGTACCATTCTTTTGGCGTGT | 59.448 | 45.455 | 0.00 | 0.00 | 40.68 | 4.49 |
556 | 730 | 8.784043 | ACTACACCTTCAAAAATTGTACTCATC | 58.216 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
557 | 731 | 7.581213 | ACACCTTCAAAAATTGTACTCATCA | 57.419 | 32.000 | 0.00 | 0.00 | 0.00 | 3.07 |
560 | 734 | 9.559958 | CACCTTCAAAAATTGTACTCATCATAC | 57.440 | 33.333 | 0.00 | 0.00 | 0.00 | 2.39 |
561 | 735 | 9.520515 | ACCTTCAAAAATTGTACTCATCATACT | 57.479 | 29.630 | 0.00 | 0.00 | 0.00 | 2.12 |
639 | 813 | 6.201615 | GGATTAGTTATAGTTGGTTGCCGTAC | 59.798 | 42.308 | 0.00 | 0.00 | 0.00 | 3.67 |
721 | 915 | 5.111989 | CGAACCAAGAGAGCAAGATTGATA | 58.888 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
956 | 1152 | 8.980481 | TTTGTGATATCTCTTTATTCCCCTTC | 57.020 | 34.615 | 3.98 | 0.00 | 0.00 | 3.46 |
973 | 1172 | 6.433441 | TCCCCTTCTACTAGTCTCTTAAAGG | 58.567 | 44.000 | 0.00 | 4.95 | 33.41 | 3.11 |
978 | 1177 | 9.810545 | CCTTCTACTAGTCTCTTAAAGGAAATG | 57.189 | 37.037 | 0.00 | 0.00 | 35.17 | 2.32 |
1074 | 1274 | 7.230747 | TCTTTTCTTGTGGTATTCAGATCCAA | 58.769 | 34.615 | 0.00 | 0.00 | 32.82 | 3.53 |
1253 | 3663 | 2.051334 | TATTATGCGTGCTGCCCTTT | 57.949 | 45.000 | 0.00 | 0.00 | 45.60 | 3.11 |
1285 | 3695 | 2.510238 | GTGCCGCGAGATCAGCTT | 60.510 | 61.111 | 8.23 | 0.00 | 0.00 | 3.74 |
1309 | 3719 | 2.749076 | CGATCAGATCAAGTTTTGGGCA | 59.251 | 45.455 | 11.12 | 0.00 | 0.00 | 5.36 |
1375 | 3785 | 0.249868 | CTCTCCTGGTGCGTGTTGAA | 60.250 | 55.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1436 | 3852 | 3.355378 | CTCATGGCCAAGATGGTAAACA | 58.645 | 45.455 | 10.96 | 0.00 | 40.46 | 2.83 |
1637 | 4059 | 2.172717 | GGCCTAGATAAAGCAAGGGACA | 59.827 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1664 | 4086 | 1.618343 | TCAAGAAGATCAGTGACGGCA | 59.382 | 47.619 | 0.00 | 0.00 | 0.00 | 5.69 |
1668 | 4090 | 0.396435 | AAGATCAGTGACGGCAACCA | 59.604 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1699 | 4121 | 2.315011 | GCGCATCTCAAGATACTCTCG | 58.685 | 52.381 | 0.30 | 0.00 | 32.63 | 4.04 |
1932 | 4354 | 2.233676 | TGCTAGTCCGAGAATTGCTTCA | 59.766 | 45.455 | 8.52 | 0.00 | 30.85 | 3.02 |
1950 | 4372 | 4.031426 | GCTTCACGATAAAAGGTACGTCAG | 59.969 | 45.833 | 0.00 | 0.00 | 36.86 | 3.51 |
2034 | 4509 | 6.814954 | TCCCTAGACATCTAAGCAATTTCT | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 2.52 |
2193 | 5076 | 7.661536 | AGTTCATTAGATAAGGTGACTGCTA | 57.338 | 36.000 | 0.00 | 0.00 | 42.68 | 3.49 |
2253 | 5492 | 9.663904 | CCGTATTTTGTGATTGTATTTGATAGG | 57.336 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
2567 | 5831 | 9.748708 | ATATTTGTTTTCATGGACATAAATCCG | 57.251 | 29.630 | 0.00 | 0.00 | 42.24 | 4.18 |
2795 | 6074 | 6.471519 | CGTACTACACTAGGTGTAATTGCTTC | 59.528 | 42.308 | 10.96 | 0.00 | 46.35 | 3.86 |
2880 | 6159 | 8.634444 | AGTGTTGCCTTTTTACATTTGTATACA | 58.366 | 29.630 | 0.08 | 0.08 | 0.00 | 2.29 |
3016 | 6576 | 1.423541 | ACACCACCCATTGCTCAAGTA | 59.576 | 47.619 | 0.00 | 0.00 | 0.00 | 2.24 |
3035 | 6600 | 5.394224 | AGTAGTAGCAACAGACCTCTTTC | 57.606 | 43.478 | 0.00 | 0.00 | 0.00 | 2.62 |
3036 | 6601 | 4.833380 | AGTAGTAGCAACAGACCTCTTTCA | 59.167 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
3320 | 6892 | 3.638627 | ACATCTCTCTTATGATGACGCCA | 59.361 | 43.478 | 9.54 | 0.00 | 41.69 | 5.69 |
3716 | 7315 | 2.715046 | TGAAACTGATAGCCTGCTTGG | 58.285 | 47.619 | 0.00 | 0.00 | 39.35 | 3.61 |
4442 | 8048 | 3.390967 | TCGCCTTTATCTGGAATGGATGA | 59.609 | 43.478 | 0.00 | 0.00 | 0.00 | 2.92 |
4449 | 8055 | 3.981071 | TCTGGAATGGATGAAGTCGTT | 57.019 | 42.857 | 0.00 | 0.00 | 0.00 | 3.85 |
4515 | 8232 | 3.302365 | ACATGCAAAAATTCGGGAGTG | 57.698 | 42.857 | 0.00 | 0.00 | 0.00 | 3.51 |
4691 | 8408 | 7.607991 | CACCTTGATCTAACAACTAACAGGAAT | 59.392 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
4902 | 8619 | 0.033366 | GCCAATGGTTCAACGCCTTT | 59.967 | 50.000 | 0.00 | 0.00 | 0.00 | 3.11 |
4914 | 8631 | 1.301401 | CGCCTTTGGTTCGGTCTCA | 60.301 | 57.895 | 0.00 | 0.00 | 0.00 | 3.27 |
5062 | 8779 | 2.025981 | TGCTGAGGTATTTGGCAGATGT | 60.026 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
5377 | 9136 | 5.894807 | GCAATATGCACTGTATTTGGTTCT | 58.105 | 37.500 | 0.00 | 0.00 | 44.26 | 3.01 |
5378 | 9137 | 6.332630 | GCAATATGCACTGTATTTGGTTCTT | 58.667 | 36.000 | 0.00 | 0.00 | 44.26 | 2.52 |
5379 | 9138 | 6.813152 | GCAATATGCACTGTATTTGGTTCTTT | 59.187 | 34.615 | 0.00 | 0.00 | 44.26 | 2.52 |
5380 | 9139 | 7.201461 | GCAATATGCACTGTATTTGGTTCTTTG | 60.201 | 37.037 | 0.00 | 0.00 | 44.26 | 2.77 |
5381 | 9140 | 5.789643 | ATGCACTGTATTTGGTTCTTTGT | 57.210 | 34.783 | 0.00 | 0.00 | 0.00 | 2.83 |
5382 | 9141 | 5.181690 | TGCACTGTATTTGGTTCTTTGTC | 57.818 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
5383 | 9142 | 4.887071 | TGCACTGTATTTGGTTCTTTGTCT | 59.113 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
5384 | 9143 | 5.008613 | TGCACTGTATTTGGTTCTTTGTCTC | 59.991 | 40.000 | 0.00 | 0.00 | 0.00 | 3.36 |
5385 | 9144 | 5.239525 | GCACTGTATTTGGTTCTTTGTCTCT | 59.760 | 40.000 | 0.00 | 0.00 | 0.00 | 3.10 |
5386 | 9145 | 6.662616 | CACTGTATTTGGTTCTTTGTCTCTG | 58.337 | 40.000 | 0.00 | 0.00 | 0.00 | 3.35 |
5387 | 9146 | 5.239525 | ACTGTATTTGGTTCTTTGTCTCTGC | 59.760 | 40.000 | 0.00 | 0.00 | 0.00 | 4.26 |
5388 | 9147 | 4.518970 | TGTATTTGGTTCTTTGTCTCTGCC | 59.481 | 41.667 | 0.00 | 0.00 | 0.00 | 4.85 |
5389 | 9148 | 3.297134 | TTTGGTTCTTTGTCTCTGCCT | 57.703 | 42.857 | 0.00 | 0.00 | 0.00 | 4.75 |
5390 | 9149 | 3.297134 | TTGGTTCTTTGTCTCTGCCTT | 57.703 | 42.857 | 0.00 | 0.00 | 0.00 | 4.35 |
5391 | 9150 | 3.297134 | TGGTTCTTTGTCTCTGCCTTT | 57.703 | 42.857 | 0.00 | 0.00 | 0.00 | 3.11 |
5392 | 9151 | 2.951642 | TGGTTCTTTGTCTCTGCCTTTG | 59.048 | 45.455 | 0.00 | 0.00 | 0.00 | 2.77 |
5393 | 9152 | 3.214328 | GGTTCTTTGTCTCTGCCTTTGA | 58.786 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
5394 | 9153 | 3.823304 | GGTTCTTTGTCTCTGCCTTTGAT | 59.177 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
5395 | 9154 | 4.279420 | GGTTCTTTGTCTCTGCCTTTGATT | 59.721 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
5396 | 9155 | 5.221322 | GGTTCTTTGTCTCTGCCTTTGATTT | 60.221 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
5397 | 9156 | 5.695851 | TCTTTGTCTCTGCCTTTGATTTC | 57.304 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
5398 | 9157 | 5.132502 | TCTTTGTCTCTGCCTTTGATTTCA | 58.867 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
5399 | 9158 | 5.240183 | TCTTTGTCTCTGCCTTTGATTTCAG | 59.760 | 40.000 | 0.00 | 0.00 | 0.00 | 3.02 |
5400 | 9159 | 4.090761 | TGTCTCTGCCTTTGATTTCAGT | 57.909 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
5401 | 9160 | 4.067896 | TGTCTCTGCCTTTGATTTCAGTC | 58.932 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
5402 | 9161 | 4.067896 | GTCTCTGCCTTTGATTTCAGTCA | 58.932 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
5403 | 9162 | 4.153835 | GTCTCTGCCTTTGATTTCAGTCAG | 59.846 | 45.833 | 0.00 | 0.00 | 0.00 | 3.51 |
5404 | 9163 | 3.415212 | TCTGCCTTTGATTTCAGTCAGG | 58.585 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
5405 | 9164 | 3.072915 | TCTGCCTTTGATTTCAGTCAGGA | 59.927 | 43.478 | 6.68 | 0.00 | 0.00 | 3.86 |
5406 | 9165 | 4.015084 | CTGCCTTTGATTTCAGTCAGGAT | 58.985 | 43.478 | 6.68 | 0.00 | 0.00 | 3.24 |
5407 | 9166 | 4.410099 | TGCCTTTGATTTCAGTCAGGATT | 58.590 | 39.130 | 6.68 | 0.00 | 0.00 | 3.01 |
5408 | 9167 | 4.834496 | TGCCTTTGATTTCAGTCAGGATTT | 59.166 | 37.500 | 6.68 | 0.00 | 0.00 | 2.17 |
5409 | 9168 | 5.305128 | TGCCTTTGATTTCAGTCAGGATTTT | 59.695 | 36.000 | 6.68 | 0.00 | 0.00 | 1.82 |
5410 | 9169 | 5.866092 | GCCTTTGATTTCAGTCAGGATTTTC | 59.134 | 40.000 | 6.68 | 0.00 | 0.00 | 2.29 |
5411 | 9170 | 6.294955 | GCCTTTGATTTCAGTCAGGATTTTCT | 60.295 | 38.462 | 6.68 | 0.00 | 0.00 | 2.52 |
5412 | 9171 | 7.664758 | CCTTTGATTTCAGTCAGGATTTTCTT | 58.335 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
5413 | 9172 | 7.811713 | CCTTTGATTTCAGTCAGGATTTTCTTC | 59.188 | 37.037 | 0.00 | 0.00 | 0.00 | 2.87 |
5469 | 9290 | 2.751806 | GCCTTTGATTTCAGCTAGCAGT | 59.248 | 45.455 | 18.83 | 0.00 | 0.00 | 4.40 |
5484 | 9305 | 0.645868 | GCAGTAGGTGATTTCGTCGC | 59.354 | 55.000 | 0.00 | 0.00 | 36.60 | 5.19 |
5491 | 9312 | 1.743623 | TGATTTCGTCGCCGGCATT | 60.744 | 52.632 | 28.98 | 2.04 | 33.95 | 3.56 |
5503 | 9328 | 2.072298 | GCCGGCATTGACTCTATCATC | 58.928 | 52.381 | 24.80 | 0.00 | 37.11 | 2.92 |
5504 | 9329 | 2.289320 | GCCGGCATTGACTCTATCATCT | 60.289 | 50.000 | 24.80 | 0.00 | 37.11 | 2.90 |
5505 | 9330 | 3.805108 | GCCGGCATTGACTCTATCATCTT | 60.805 | 47.826 | 24.80 | 0.00 | 37.11 | 2.40 |
5508 | 9346 | 4.922692 | CGGCATTGACTCTATCATCTTCTC | 59.077 | 45.833 | 0.00 | 0.00 | 37.11 | 2.87 |
5513 | 9351 | 3.153919 | GACTCTATCATCTTCTCGCCCT | 58.846 | 50.000 | 0.00 | 0.00 | 0.00 | 5.19 |
5523 | 9361 | 0.613260 | TTCTCGCCCTAGTTGCATGT | 59.387 | 50.000 | 0.00 | 0.00 | 0.00 | 3.21 |
5527 | 9365 | 3.006940 | CTCGCCCTAGTTGCATGTTTTA | 58.993 | 45.455 | 0.00 | 0.00 | 0.00 | 1.52 |
5529 | 9367 | 2.097466 | CGCCCTAGTTGCATGTTTTAGG | 59.903 | 50.000 | 0.00 | 1.55 | 0.00 | 2.69 |
5533 | 9371 | 3.378427 | CCTAGTTGCATGTTTTAGGGCTC | 59.622 | 47.826 | 0.00 | 0.00 | 0.00 | 4.70 |
5555 | 9393 | 5.809001 | TCCTGCATCTTCAGTTTATGTTCT | 58.191 | 37.500 | 0.00 | 0.00 | 32.32 | 3.01 |
5593 | 9435 | 7.333528 | AGATAAACTTCTGTGTGCTTTTGAA | 57.666 | 32.000 | 0.00 | 0.00 | 0.00 | 2.69 |
5607 | 9449 | 8.690840 | GTGTGCTTTTGAATGTACTGTTTATTC | 58.309 | 33.333 | 0.00 | 8.77 | 0.00 | 1.75 |
5608 | 9450 | 7.865385 | TGTGCTTTTGAATGTACTGTTTATTCC | 59.135 | 33.333 | 11.62 | 1.41 | 31.47 | 3.01 |
5609 | 9451 | 7.328493 | GTGCTTTTGAATGTACTGTTTATTCCC | 59.672 | 37.037 | 11.62 | 0.00 | 31.47 | 3.97 |
5610 | 9452 | 6.811665 | GCTTTTGAATGTACTGTTTATTCCCC | 59.188 | 38.462 | 11.62 | 0.00 | 31.47 | 4.81 |
5612 | 9454 | 3.942748 | TGAATGTACTGTTTATTCCCCGC | 59.057 | 43.478 | 11.62 | 0.00 | 31.47 | 6.13 |
5614 | 9456 | 3.420300 | TGTACTGTTTATTCCCCGCAA | 57.580 | 42.857 | 0.00 | 0.00 | 0.00 | 4.85 |
5615 | 9457 | 3.752665 | TGTACTGTTTATTCCCCGCAAA | 58.247 | 40.909 | 0.00 | 0.00 | 0.00 | 3.68 |
5616 | 9458 | 4.142790 | TGTACTGTTTATTCCCCGCAAAA | 58.857 | 39.130 | 0.00 | 0.00 | 0.00 | 2.44 |
5617 | 9459 | 3.653539 | ACTGTTTATTCCCCGCAAAAC | 57.346 | 42.857 | 0.00 | 0.00 | 33.46 | 2.43 |
5618 | 9460 | 2.959707 | ACTGTTTATTCCCCGCAAAACA | 59.040 | 40.909 | 0.00 | 0.00 | 38.97 | 2.83 |
5619 | 9461 | 3.385111 | ACTGTTTATTCCCCGCAAAACAA | 59.615 | 39.130 | 0.00 | 0.00 | 40.28 | 2.83 |
5620 | 9462 | 4.141914 | ACTGTTTATTCCCCGCAAAACAAA | 60.142 | 37.500 | 0.00 | 0.00 | 40.28 | 2.83 |
5621 | 9463 | 4.766375 | TGTTTATTCCCCGCAAAACAAAA | 58.234 | 34.783 | 0.00 | 0.00 | 38.50 | 2.44 |
5622 | 9464 | 4.571176 | TGTTTATTCCCCGCAAAACAAAAC | 59.429 | 37.500 | 0.00 | 0.00 | 38.50 | 2.43 |
5623 | 9465 | 2.990066 | ATTCCCCGCAAAACAAAACA | 57.010 | 40.000 | 0.00 | 0.00 | 0.00 | 2.83 |
5624 | 9466 | 2.762535 | TTCCCCGCAAAACAAAACAA | 57.237 | 40.000 | 0.00 | 0.00 | 0.00 | 2.83 |
5625 | 9467 | 2.762535 | TCCCCGCAAAACAAAACAAA | 57.237 | 40.000 | 0.00 | 0.00 | 0.00 | 2.83 |
5626 | 9468 | 3.053831 | TCCCCGCAAAACAAAACAAAA | 57.946 | 38.095 | 0.00 | 0.00 | 0.00 | 2.44 |
5627 | 9469 | 3.408634 | TCCCCGCAAAACAAAACAAAAA | 58.591 | 36.364 | 0.00 | 0.00 | 0.00 | 1.94 |
5628 | 9470 | 3.188667 | TCCCCGCAAAACAAAACAAAAAC | 59.811 | 39.130 | 0.00 | 0.00 | 0.00 | 2.43 |
5629 | 9471 | 3.156753 | CCCGCAAAACAAAACAAAAACG | 58.843 | 40.909 | 0.00 | 0.00 | 0.00 | 3.60 |
5630 | 9472 | 3.364068 | CCCGCAAAACAAAACAAAAACGT | 60.364 | 39.130 | 0.00 | 0.00 | 0.00 | 3.99 |
5631 | 9473 | 4.143179 | CCCGCAAAACAAAACAAAAACGTA | 60.143 | 37.500 | 0.00 | 0.00 | 0.00 | 3.57 |
5632 | 9474 | 4.777030 | CCGCAAAACAAAACAAAAACGTAC | 59.223 | 37.500 | 0.00 | 0.00 | 0.00 | 3.67 |
5633 | 9475 | 5.388578 | CCGCAAAACAAAACAAAAACGTACT | 60.389 | 36.000 | 0.00 | 0.00 | 0.00 | 2.73 |
5634 | 9476 | 6.065781 | CGCAAAACAAAACAAAAACGTACTT | 58.934 | 32.000 | 0.00 | 0.00 | 0.00 | 2.24 |
5648 | 9490 | 9.403869 | CAAAAACGTACTTTTTATTTGCTGAAC | 57.596 | 29.630 | 10.16 | 0.00 | 39.61 | 3.18 |
5700 | 9544 | 3.124686 | TGGTGCGCCAGGTTTTTC | 58.875 | 55.556 | 16.89 | 0.00 | 40.46 | 2.29 |
5724 | 9568 | 2.241176 | CCCTTAGGTTATGTTCCCAGCA | 59.759 | 50.000 | 0.00 | 0.00 | 0.00 | 4.41 |
5902 | 9748 | 4.748701 | TCTAGGGTCCTCAGTTTTACTGT | 58.251 | 43.478 | 6.71 | 0.00 | 46.03 | 3.55 |
5910 | 9785 | 5.467063 | GTCCTCAGTTTTACTGTCTGAAAGG | 59.533 | 44.000 | 6.71 | 5.46 | 46.03 | 3.11 |
5936 | 9811 | 5.185635 | AGCTAGCTCATGATGAACTATCCTC | 59.814 | 44.000 | 12.68 | 0.00 | 34.77 | 3.71 |
5969 | 9844 | 7.938140 | TTCCTTCCAAATGAGTAGTTTATGG | 57.062 | 36.000 | 0.00 | 0.00 | 0.00 | 2.74 |
5971 | 9846 | 7.110155 | TCCTTCCAAATGAGTAGTTTATGGTC | 58.890 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
5992 | 9867 | 7.739498 | GGTCTACAACCTCACTTTTTAATGA | 57.261 | 36.000 | 0.00 | 0.00 | 45.45 | 2.57 |
6005 | 9896 | 0.459489 | TTAATGATTTGCCTGGCGCC | 59.541 | 50.000 | 22.73 | 22.73 | 36.24 | 6.53 |
6044 | 9935 | 3.545703 | TGCTGCTTTAAGGCTCCTTATC | 58.454 | 45.455 | 11.19 | 3.55 | 38.20 | 1.75 |
6247 | 10138 | 9.466497 | TTTTACATTAAGATCTCAAGCAGGAAT | 57.534 | 29.630 | 0.00 | 0.00 | 0.00 | 3.01 |
6344 | 10235 | 7.612244 | ACTTCAGCTTAGTCTAATACAGAGTCA | 59.388 | 37.037 | 0.00 | 0.00 | 38.03 | 3.41 |
6345 | 10236 | 7.323049 | TCAGCTTAGTCTAATACAGAGTCAC | 57.677 | 40.000 | 0.00 | 0.00 | 38.03 | 3.67 |
6439 | 13452 | 8.186821 | CACAAAAGAATCTTCCCATATCTGAAC | 58.813 | 37.037 | 0.00 | 0.00 | 0.00 | 3.18 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 3.701604 | CTGCGACCCTGCCGAGTAC | 62.702 | 68.421 | 0.00 | 0.00 | 0.00 | 2.73 |
38 | 47 | 0.672401 | TTCTTTTGAGGGGTAGCGCG | 60.672 | 55.000 | 0.00 | 0.00 | 0.00 | 6.86 |
40 | 49 | 3.408634 | TCTTTTCTTTTGAGGGGTAGCG | 58.591 | 45.455 | 0.00 | 0.00 | 0.00 | 4.26 |
477 | 651 | 4.452795 | TCGATTTGTCTTGCCGTGAAATTA | 59.547 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
956 | 1152 | 9.575783 | GTCACATTTCCTTTAAGAGACTAGTAG | 57.424 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
973 | 1172 | 8.275632 | GGTTAGCAAAATCAAAAGTCACATTTC | 58.724 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
978 | 1177 | 6.039616 | TGTGGTTAGCAAAATCAAAAGTCAC | 58.960 | 36.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1253 | 3663 | 2.113774 | CACCTCTGCCACCTTGCA | 59.886 | 61.111 | 0.00 | 0.00 | 39.37 | 4.08 |
1285 | 3695 | 4.002982 | CCCAAAACTTGATCTGATCGTCA | 58.997 | 43.478 | 12.65 | 0.00 | 0.00 | 4.35 |
1309 | 3719 | 4.851639 | AGACAGCTCCCTAACATCATTT | 57.148 | 40.909 | 0.00 | 0.00 | 0.00 | 2.32 |
1436 | 3852 | 3.306019 | CGAGCCTTGCCCTTTTTAAACAT | 60.306 | 43.478 | 0.00 | 0.00 | 0.00 | 2.71 |
1637 | 4059 | 7.386299 | GCCGTCACTGATCTTCTTGATAATATT | 59.614 | 37.037 | 0.00 | 0.00 | 35.14 | 1.28 |
1664 | 4086 | 2.268076 | GCGCCTTGGACACATGGTT | 61.268 | 57.895 | 0.00 | 0.00 | 42.37 | 3.67 |
1668 | 4090 | 0.745845 | GAGATGCGCCTTGGACACAT | 60.746 | 55.000 | 4.18 | 0.00 | 0.00 | 3.21 |
1699 | 4121 | 3.055891 | CCAATCCTCCAAATCCAACAACC | 60.056 | 47.826 | 0.00 | 0.00 | 0.00 | 3.77 |
1738 | 4160 | 5.247110 | TGGAAGGGCATCATATACTTCTCTC | 59.753 | 44.000 | 0.00 | 0.00 | 38.06 | 3.20 |
1932 | 4354 | 2.231964 | TGGCTGACGTACCTTTTATCGT | 59.768 | 45.455 | 0.00 | 0.00 | 39.21 | 3.73 |
2034 | 4509 | 1.344438 | CTGGTCAGGATTGGCGCTATA | 59.656 | 52.381 | 7.64 | 0.00 | 0.00 | 1.31 |
2116 | 4601 | 2.698274 | AGATACATATGCGTGTCACCCA | 59.302 | 45.455 | 1.58 | 0.00 | 33.62 | 4.51 |
2253 | 5492 | 5.182760 | AGTCAAAATGAATGGAAGAGACAGC | 59.817 | 40.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2302 | 5546 | 6.061231 | ACTTAGTAAGTTGCAAAGAACAGC | 57.939 | 37.500 | 9.85 | 0.00 | 39.04 | 4.40 |
2638 | 5902 | 4.019174 | ACAAGAGGGGATTAAAGTGCATG | 58.981 | 43.478 | 0.00 | 0.00 | 0.00 | 4.06 |
2795 | 6074 | 5.428783 | TCTTAGGAATTAGACCCCTCCAAAG | 59.571 | 44.000 | 0.00 | 0.00 | 0.00 | 2.77 |
2880 | 6159 | 7.012327 | CCCACAATTTGAATCGTACTATCACAT | 59.988 | 37.037 | 2.79 | 0.00 | 0.00 | 3.21 |
2937 | 6495 | 1.271102 | GGGTGTTTGTGTGTGTGTGTT | 59.729 | 47.619 | 0.00 | 0.00 | 0.00 | 3.32 |
2938 | 6496 | 0.885196 | GGGTGTTTGTGTGTGTGTGT | 59.115 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
2939 | 6497 | 0.884514 | TGGGTGTTTGTGTGTGTGTG | 59.115 | 50.000 | 0.00 | 0.00 | 0.00 | 3.82 |
2940 | 6498 | 1.173043 | CTGGGTGTTTGTGTGTGTGT | 58.827 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
2941 | 6499 | 0.179140 | GCTGGGTGTTTGTGTGTGTG | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.82 |
2942 | 6500 | 1.319614 | GGCTGGGTGTTTGTGTGTGT | 61.320 | 55.000 | 0.00 | 0.00 | 0.00 | 3.72 |
2943 | 6501 | 1.318886 | TGGCTGGGTGTTTGTGTGTG | 61.319 | 55.000 | 0.00 | 0.00 | 0.00 | 3.82 |
2944 | 6502 | 0.396974 | ATGGCTGGGTGTTTGTGTGT | 60.397 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3016 | 6576 | 3.898123 | TCTGAAAGAGGTCTGTTGCTACT | 59.102 | 43.478 | 0.00 | 0.00 | 38.67 | 2.57 |
3035 | 6600 | 5.449588 | GCATGTCAACCACCTCAATAATCTG | 60.450 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3036 | 6601 | 4.641989 | GCATGTCAACCACCTCAATAATCT | 59.358 | 41.667 | 0.00 | 0.00 | 0.00 | 2.40 |
3300 | 6872 | 4.586421 | TCTTGGCGTCATCATAAGAGAGAT | 59.414 | 41.667 | 0.00 | 0.00 | 0.00 | 2.75 |
3716 | 7315 | 4.123506 | GTTGAAGTAGCTATCTCCAAGCC | 58.876 | 47.826 | 0.00 | 0.00 | 41.02 | 4.35 |
3882 | 7484 | 1.455849 | CAAAGGTGTGCCTCCCTCA | 59.544 | 57.895 | 0.00 | 0.00 | 46.33 | 3.86 |
3883 | 7485 | 1.303643 | CCAAAGGTGTGCCTCCCTC | 60.304 | 63.158 | 0.00 | 0.00 | 46.33 | 4.30 |
4032 | 7637 | 7.254590 | CGCAAAACTTGAAATATAGAGAGAGGG | 60.255 | 40.741 | 0.00 | 0.00 | 0.00 | 4.30 |
4033 | 7638 | 7.278868 | ACGCAAAACTTGAAATATAGAGAGAGG | 59.721 | 37.037 | 0.00 | 0.00 | 0.00 | 3.69 |
4034 | 7639 | 8.113062 | CACGCAAAACTTGAAATATAGAGAGAG | 58.887 | 37.037 | 0.00 | 0.00 | 0.00 | 3.20 |
4449 | 8055 | 1.239296 | ACCGTTGTCAGATCGTCCGA | 61.239 | 55.000 | 0.00 | 0.00 | 0.00 | 4.55 |
4515 | 8232 | 6.325919 | AGAATCAACATCGGAGATCTCTAC | 57.674 | 41.667 | 21.81 | 5.83 | 45.12 | 2.59 |
4691 | 8408 | 3.387699 | TCTGAATATCTCCGGATTGCACA | 59.612 | 43.478 | 3.57 | 0.81 | 33.71 | 4.57 |
4902 | 8619 | 1.699730 | TTCACTCTGAGACCGAACCA | 58.300 | 50.000 | 12.44 | 0.00 | 0.00 | 3.67 |
4914 | 8631 | 3.450457 | GGACTGAGGATGTCATTCACTCT | 59.550 | 47.826 | 11.82 | 0.00 | 36.73 | 3.24 |
5062 | 8779 | 1.273552 | GGGTGGGATTTTTGGGATGGA | 60.274 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
5354 | 9113 | 5.894807 | AGAACCAAATACAGTGCATATTGC | 58.105 | 37.500 | 0.00 | 0.00 | 45.29 | 3.56 |
5355 | 9114 | 7.814107 | ACAAAGAACCAAATACAGTGCATATTG | 59.186 | 33.333 | 0.00 | 0.00 | 0.00 | 1.90 |
5356 | 9115 | 7.895759 | ACAAAGAACCAAATACAGTGCATATT | 58.104 | 30.769 | 0.00 | 0.00 | 0.00 | 1.28 |
5358 | 9117 | 6.714810 | AGACAAAGAACCAAATACAGTGCATA | 59.285 | 34.615 | 0.00 | 0.00 | 0.00 | 3.14 |
5359 | 9118 | 5.536161 | AGACAAAGAACCAAATACAGTGCAT | 59.464 | 36.000 | 0.00 | 0.00 | 0.00 | 3.96 |
5360 | 9119 | 4.887071 | AGACAAAGAACCAAATACAGTGCA | 59.113 | 37.500 | 0.00 | 0.00 | 0.00 | 4.57 |
5361 | 9120 | 5.239525 | AGAGACAAAGAACCAAATACAGTGC | 59.760 | 40.000 | 0.00 | 0.00 | 0.00 | 4.40 |
5362 | 9121 | 6.662616 | CAGAGACAAAGAACCAAATACAGTG | 58.337 | 40.000 | 0.00 | 0.00 | 0.00 | 3.66 |
5363 | 9122 | 5.239525 | GCAGAGACAAAGAACCAAATACAGT | 59.760 | 40.000 | 0.00 | 0.00 | 0.00 | 3.55 |
5364 | 9123 | 5.335191 | GGCAGAGACAAAGAACCAAATACAG | 60.335 | 44.000 | 0.00 | 0.00 | 0.00 | 2.74 |
5365 | 9124 | 4.518970 | GGCAGAGACAAAGAACCAAATACA | 59.481 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
5366 | 9125 | 4.762251 | AGGCAGAGACAAAGAACCAAATAC | 59.238 | 41.667 | 0.00 | 0.00 | 0.00 | 1.89 |
5367 | 9126 | 4.985538 | AGGCAGAGACAAAGAACCAAATA | 58.014 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
5368 | 9127 | 3.837355 | AGGCAGAGACAAAGAACCAAAT | 58.163 | 40.909 | 0.00 | 0.00 | 0.00 | 2.32 |
5369 | 9128 | 3.297134 | AGGCAGAGACAAAGAACCAAA | 57.703 | 42.857 | 0.00 | 0.00 | 0.00 | 3.28 |
5370 | 9129 | 3.297134 | AAGGCAGAGACAAAGAACCAA | 57.703 | 42.857 | 0.00 | 0.00 | 0.00 | 3.67 |
5371 | 9130 | 2.951642 | CAAAGGCAGAGACAAAGAACCA | 59.048 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
5372 | 9131 | 3.214328 | TCAAAGGCAGAGACAAAGAACC | 58.786 | 45.455 | 0.00 | 0.00 | 0.00 | 3.62 |
5373 | 9132 | 5.444663 | AATCAAAGGCAGAGACAAAGAAC | 57.555 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
5374 | 9133 | 5.593909 | TGAAATCAAAGGCAGAGACAAAGAA | 59.406 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
5375 | 9134 | 5.132502 | TGAAATCAAAGGCAGAGACAAAGA | 58.867 | 37.500 | 0.00 | 0.00 | 0.00 | 2.52 |
5376 | 9135 | 5.009410 | ACTGAAATCAAAGGCAGAGACAAAG | 59.991 | 40.000 | 0.00 | 0.00 | 32.86 | 2.77 |
5377 | 9136 | 4.889409 | ACTGAAATCAAAGGCAGAGACAAA | 59.111 | 37.500 | 0.00 | 0.00 | 32.86 | 2.83 |
5378 | 9137 | 4.464008 | ACTGAAATCAAAGGCAGAGACAA | 58.536 | 39.130 | 0.00 | 0.00 | 32.86 | 3.18 |
5379 | 9138 | 4.067896 | GACTGAAATCAAAGGCAGAGACA | 58.932 | 43.478 | 0.00 | 0.00 | 32.86 | 3.41 |
5380 | 9139 | 4.067896 | TGACTGAAATCAAAGGCAGAGAC | 58.932 | 43.478 | 0.00 | 0.00 | 32.86 | 3.36 |
5381 | 9140 | 4.356405 | TGACTGAAATCAAAGGCAGAGA | 57.644 | 40.909 | 0.00 | 0.00 | 32.86 | 3.10 |
5385 | 9144 | 3.507162 | TCCTGACTGAAATCAAAGGCA | 57.493 | 42.857 | 0.00 | 0.00 | 0.00 | 4.75 |
5386 | 9145 | 5.397142 | AAATCCTGACTGAAATCAAAGGC | 57.603 | 39.130 | 2.92 | 0.00 | 0.00 | 4.35 |
5387 | 9146 | 7.224522 | AGAAAATCCTGACTGAAATCAAAGG | 57.775 | 36.000 | 1.77 | 1.77 | 0.00 | 3.11 |
5388 | 9147 | 8.355169 | TGAAGAAAATCCTGACTGAAATCAAAG | 58.645 | 33.333 | 0.00 | 0.00 | 0.00 | 2.77 |
5389 | 9148 | 8.236585 | TGAAGAAAATCCTGACTGAAATCAAA | 57.763 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
5390 | 9149 | 7.822161 | TGAAGAAAATCCTGACTGAAATCAA | 57.178 | 32.000 | 0.00 | 0.00 | 0.00 | 2.57 |
5391 | 9150 | 7.576287 | GCATGAAGAAAATCCTGACTGAAATCA | 60.576 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
5392 | 9151 | 6.750963 | GCATGAAGAAAATCCTGACTGAAATC | 59.249 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
5393 | 9152 | 6.209986 | TGCATGAAGAAAATCCTGACTGAAAT | 59.790 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 |
5394 | 9153 | 5.535783 | TGCATGAAGAAAATCCTGACTGAAA | 59.464 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
5395 | 9154 | 5.072055 | TGCATGAAGAAAATCCTGACTGAA | 58.928 | 37.500 | 0.00 | 0.00 | 0.00 | 3.02 |
5396 | 9155 | 4.654915 | TGCATGAAGAAAATCCTGACTGA | 58.345 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
5397 | 9156 | 5.381174 | TTGCATGAAGAAAATCCTGACTG | 57.619 | 39.130 | 0.00 | 0.00 | 0.00 | 3.51 |
5398 | 9157 | 7.683704 | GCATATTGCATGAAGAAAATCCTGACT | 60.684 | 37.037 | 0.00 | 0.00 | 44.26 | 3.41 |
5399 | 9158 | 6.420008 | GCATATTGCATGAAGAAAATCCTGAC | 59.580 | 38.462 | 0.00 | 0.00 | 44.26 | 3.51 |
5400 | 9159 | 6.509656 | GCATATTGCATGAAGAAAATCCTGA | 58.490 | 36.000 | 0.00 | 0.00 | 44.26 | 3.86 |
5401 | 9160 | 6.764877 | GCATATTGCATGAAGAAAATCCTG | 57.235 | 37.500 | 0.00 | 0.00 | 44.26 | 3.86 |
5484 | 9305 | 3.674528 | AGATGATAGAGTCAATGCCGG | 57.325 | 47.619 | 0.00 | 0.00 | 40.97 | 6.13 |
5491 | 9312 | 2.887783 | GGGCGAGAAGATGATAGAGTCA | 59.112 | 50.000 | 0.00 | 0.00 | 42.06 | 3.41 |
5503 | 9328 | 1.293924 | CATGCAACTAGGGCGAGAAG | 58.706 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
5504 | 9329 | 0.613260 | ACATGCAACTAGGGCGAGAA | 59.387 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
5505 | 9330 | 0.613260 | AACATGCAACTAGGGCGAGA | 59.387 | 50.000 | 0.00 | 0.00 | 0.00 | 4.04 |
5508 | 9346 | 2.097466 | CCTAAAACATGCAACTAGGGCG | 59.903 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
5513 | 9351 | 3.010138 | AGGAGCCCTAAAACATGCAACTA | 59.990 | 43.478 | 0.00 | 0.00 | 28.47 | 2.24 |
5523 | 9361 | 2.308570 | TGAAGATGCAGGAGCCCTAAAA | 59.691 | 45.455 | 0.00 | 0.00 | 41.13 | 1.52 |
5527 | 9365 | 0.913451 | ACTGAAGATGCAGGAGCCCT | 60.913 | 55.000 | 0.00 | 0.00 | 40.20 | 5.19 |
5529 | 9367 | 1.831580 | AAACTGAAGATGCAGGAGCC | 58.168 | 50.000 | 0.00 | 0.00 | 40.20 | 4.70 |
5530 | 9368 | 3.944015 | ACATAAACTGAAGATGCAGGAGC | 59.056 | 43.478 | 0.00 | 0.00 | 40.20 | 4.70 |
5533 | 9371 | 6.506500 | AAGAACATAAACTGAAGATGCAGG | 57.493 | 37.500 | 0.00 | 0.00 | 40.20 | 4.85 |
5555 | 9393 | 9.521503 | CAGAAGTTTATCTCGATGACATAGAAA | 57.478 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
5573 | 9411 | 5.723295 | ACATTCAAAAGCACACAGAAGTTT | 58.277 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
5593 | 9435 | 3.637911 | TGCGGGGAATAAACAGTACAT | 57.362 | 42.857 | 0.00 | 0.00 | 0.00 | 2.29 |
5607 | 9449 | 3.493272 | GTTTTTGTTTTGTTTTGCGGGG | 58.507 | 40.909 | 0.00 | 0.00 | 0.00 | 5.73 |
5608 | 9450 | 3.156753 | CGTTTTTGTTTTGTTTTGCGGG | 58.843 | 40.909 | 0.00 | 0.00 | 0.00 | 6.13 |
5609 | 9451 | 3.800163 | ACGTTTTTGTTTTGTTTTGCGG | 58.200 | 36.364 | 0.00 | 0.00 | 0.00 | 5.69 |
5610 | 9452 | 5.600648 | AGTACGTTTTTGTTTTGTTTTGCG | 58.399 | 33.333 | 0.00 | 0.00 | 0.00 | 4.85 |
5620 | 9462 | 9.141400 | TCAGCAAATAAAAAGTACGTTTTTGTT | 57.859 | 25.926 | 21.71 | 17.08 | 45.93 | 2.83 |
5621 | 9463 | 8.690680 | TCAGCAAATAAAAAGTACGTTTTTGT | 57.309 | 26.923 | 21.71 | 13.21 | 45.95 | 2.83 |
5622 | 9464 | 9.403869 | GTTCAGCAAATAAAAAGTACGTTTTTG | 57.596 | 29.630 | 21.71 | 15.72 | 45.95 | 2.44 |
5624 | 9466 | 7.977293 | AGGTTCAGCAAATAAAAAGTACGTTTT | 59.023 | 29.630 | 20.62 | 20.62 | 40.26 | 2.43 |
5625 | 9467 | 7.434013 | CAGGTTCAGCAAATAAAAAGTACGTTT | 59.566 | 33.333 | 0.54 | 0.54 | 0.00 | 3.60 |
5626 | 9468 | 6.915843 | CAGGTTCAGCAAATAAAAAGTACGTT | 59.084 | 34.615 | 0.00 | 0.00 | 0.00 | 3.99 |
5627 | 9469 | 6.435428 | CAGGTTCAGCAAATAAAAAGTACGT | 58.565 | 36.000 | 0.00 | 0.00 | 0.00 | 3.57 |
5628 | 9470 | 5.856455 | CCAGGTTCAGCAAATAAAAAGTACG | 59.144 | 40.000 | 0.00 | 0.00 | 0.00 | 3.67 |
5629 | 9471 | 6.745116 | ACCAGGTTCAGCAAATAAAAAGTAC | 58.255 | 36.000 | 0.00 | 0.00 | 0.00 | 2.73 |
5630 | 9472 | 6.969993 | ACCAGGTTCAGCAAATAAAAAGTA | 57.030 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
5631 | 9473 | 5.869649 | ACCAGGTTCAGCAAATAAAAAGT | 57.130 | 34.783 | 0.00 | 0.00 | 0.00 | 2.66 |
5632 | 9474 | 6.511605 | GCAAACCAGGTTCAGCAAATAAAAAG | 60.512 | 38.462 | 19.80 | 0.00 | 0.00 | 2.27 |
5633 | 9475 | 5.295540 | GCAAACCAGGTTCAGCAAATAAAAA | 59.704 | 36.000 | 19.80 | 0.00 | 0.00 | 1.94 |
5634 | 9476 | 4.813697 | GCAAACCAGGTTCAGCAAATAAAA | 59.186 | 37.500 | 19.80 | 0.00 | 0.00 | 1.52 |
5643 | 9485 | 1.605710 | CACTGAGCAAACCAGGTTCAG | 59.394 | 52.381 | 15.08 | 15.08 | 45.58 | 3.02 |
5648 | 9490 | 2.254546 | TACACACTGAGCAAACCAGG | 57.745 | 50.000 | 0.00 | 0.00 | 36.03 | 4.45 |
5700 | 9544 | 2.502538 | TGGGAACATAACCTAAGGGACG | 59.497 | 50.000 | 0.00 | 0.00 | 33.43 | 4.79 |
5724 | 9568 | 5.303165 | CAGGAAAACCCTCTAGTTACGTTT | 58.697 | 41.667 | 0.00 | 0.00 | 45.60 | 3.60 |
5902 | 9748 | 4.281657 | TCATGAGCTAGCTACCTTTCAGA | 58.718 | 43.478 | 19.38 | 7.23 | 0.00 | 3.27 |
5910 | 9785 | 6.152661 | AGGATAGTTCATCATGAGCTAGCTAC | 59.847 | 42.308 | 21.67 | 9.63 | 43.19 | 3.58 |
5936 | 9811 | 6.809869 | ACTCATTTGGAAGGAAAGTGAAAAG | 58.190 | 36.000 | 0.00 | 0.00 | 0.00 | 2.27 |
5971 | 9846 | 8.915654 | GCAAATCATTAAAAAGTGAGGTTGTAG | 58.084 | 33.333 | 0.00 | 0.00 | 31.27 | 2.74 |
5988 | 9863 | 2.894919 | GGCGCCAGGCAAATCATT | 59.105 | 55.556 | 24.80 | 0.00 | 46.16 | 2.57 |
5989 | 9864 | 3.520862 | CGGCGCCAGGCAAATCAT | 61.521 | 61.111 | 28.98 | 0.00 | 46.16 | 2.45 |
5990 | 9865 | 3.993614 | ATCGGCGCCAGGCAAATCA | 62.994 | 57.895 | 28.98 | 1.65 | 46.16 | 2.57 |
5991 | 9866 | 3.211963 | ATCGGCGCCAGGCAAATC | 61.212 | 61.111 | 28.98 | 0.00 | 46.16 | 2.17 |
5992 | 9867 | 3.520862 | CATCGGCGCCAGGCAAAT | 61.521 | 61.111 | 28.98 | 6.42 | 46.16 | 2.32 |
6016 | 9907 | 0.458669 | CCTTAAAGCAGCAGCCATGG | 59.541 | 55.000 | 7.63 | 7.63 | 43.56 | 3.66 |
6026 | 9917 | 5.594317 | GGAATTGATAAGGAGCCTTAAAGCA | 59.406 | 40.000 | 12.62 | 8.81 | 41.21 | 3.91 |
6027 | 9918 | 5.830457 | AGGAATTGATAAGGAGCCTTAAAGC | 59.170 | 40.000 | 12.62 | 6.64 | 41.21 | 3.51 |
6028 | 9919 | 7.888250 | AAGGAATTGATAAGGAGCCTTAAAG | 57.112 | 36.000 | 12.62 | 0.00 | 41.21 | 1.85 |
6044 | 9935 | 9.495754 | GTTCTATCGATTTTGAGAAAGGAATTG | 57.504 | 33.333 | 1.71 | 0.00 | 30.07 | 2.32 |
6157 | 10048 | 7.745620 | AACTCTGAACCAAACTAATAACTGG | 57.254 | 36.000 | 0.00 | 0.00 | 34.95 | 4.00 |
6334 | 10225 | 5.660460 | TGTGCGATAATTGTGACTCTGTAT | 58.340 | 37.500 | 0.00 | 0.00 | 0.00 | 2.29 |
6473 | 13486 | 6.706716 | GTGAGCTATTCTCTGTAATTTACCCC | 59.293 | 42.308 | 4.17 | 0.00 | 42.38 | 4.95 |
6530 | 13543 | 1.951631 | GCAAGGCTAGATCGGCGAC | 60.952 | 63.158 | 13.76 | 6.55 | 34.19 | 5.19 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.