Multiple sequence alignment - TraesCS5B01G514000
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 | TraesCS5B01G514000 | chr5B | 100.000 | 5660 | 0 | 0 | 1 | 5660 | 679129989 | 679135648 | 0.000000e+00 | 10453 |
1 | TraesCS5B01G514000 | chr5B | 85.971 | 278 | 20 | 11 | 5392 | 5660 | 679220891 | 679221158 | 4.320000e-71 | 279 |
2 | TraesCS5B01G514000 | chr5B | 90.909 | 110 | 10 | 0 | 129 | 238 | 679113828 | 679113937 | 1.270000e-31 | 148 |
3 | TraesCS5B01G514000 | chr5B | 89.691 | 97 | 7 | 2 | 5370 | 5466 | 679134762 | 679134855 | 2.770000e-23 | 121 |
4 | TraesCS5B01G514000 | chr5B | 89.691 | 97 | 7 | 2 | 4774 | 4867 | 679135358 | 679135454 | 2.770000e-23 | 121 |
5 | TraesCS5B01G514000 | chr5B | 90.000 | 80 | 5 | 2 | 4791 | 4867 | 679220886 | 679220965 | 3.610000e-17 | 100 |
6 | TraesCS5B01G514000 | chr4A | 94.297 | 3735 | 165 | 24 | 1709 | 5426 | 631645095 | 631641392 | 0.000000e+00 | 5674 |
7 | TraesCS5B01G514000 | chr4A | 90.244 | 1148 | 52 | 11 | 608 | 1719 | 631646169 | 631645046 | 0.000000e+00 | 1445 |
8 | TraesCS5B01G514000 | chr4A | 86.667 | 255 | 16 | 6 | 5424 | 5660 | 631639618 | 631639364 | 3.360000e-67 | 267 |
9 | TraesCS5B01G514000 | chr4A | 86.070 | 201 | 26 | 2 | 5365 | 5564 | 631642034 | 631641835 | 1.240000e-51 | 215 |
10 | TraesCS5B01G514000 | chr5D | 94.694 | 3298 | 134 | 7 | 1706 | 4981 | 538163494 | 538166772 | 0.000000e+00 | 5083 |
11 | TraesCS5B01G514000 | chr5D | 90.185 | 1355 | 73 | 20 | 401 | 1716 | 538162210 | 538163543 | 0.000000e+00 | 1711 |
12 | TraesCS5B01G514000 | chr5D | 88.809 | 697 | 46 | 12 | 4983 | 5660 | 538166857 | 538167540 | 0.000000e+00 | 826 |
13 | TraesCS5B01G514000 | chr5D | 87.755 | 392 | 37 | 3 | 3 | 390 | 538161687 | 538162071 | 1.120000e-121 | 448 |
14 | TraesCS5B01G514000 | chr5D | 85.075 | 201 | 28 | 2 | 5365 | 5564 | 538166548 | 538166747 | 2.670000e-48 | 204 |
15 | TraesCS5B01G514000 | chr5D | 80.303 | 264 | 32 | 9 | 4774 | 5022 | 538167232 | 538167490 | 1.250000e-41 | 182 |
16 | TraesCS5B01G514000 | chr5A | 89.437 | 426 | 44 | 1 | 2368 | 2792 | 517854506 | 517854081 | 2.320000e-148 | 536 |
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 | TraesCS5B01G514000 | chr5B | 679129989 | 679135648 | 5659 | False | 3565.00 | 10453 | 93.127333 | 1 | 5660 | 3 | chr5B.!!$F2 | 5659 |
1 | TraesCS5B01G514000 | chr4A | 631639364 | 631646169 | 6805 | True | 1900.25 | 5674 | 89.319500 | 608 | 5660 | 4 | chr4A.!!$R1 | 5052 |
2 | TraesCS5B01G514000 | chr5D | 538161687 | 538167540 | 5853 | False | 1409.00 | 5083 | 87.803500 | 3 | 5660 | 6 | chr5D.!!$F1 | 5657 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
415 | 548 | 0.308376 | TTTTACGCGTGGCAACCTTC | 59.692 | 50.0 | 24.59 | 0.0 | 0.00 | 3.46 | F |
1641 | 1823 | 0.322277 | CTGGTGCTGAGGCTGTCAAT | 60.322 | 55.0 | 0.00 | 0.0 | 39.59 | 2.57 | F |
2441 | 2623 | 0.106894 | GATCCCATCCAACCGTCTCC | 59.893 | 60.0 | 0.00 | 0.0 | 0.00 | 3.71 | F |
3357 | 3539 | 0.536006 | ATGGCCTTATCTGGAAGCGC | 60.536 | 55.0 | 3.32 | 0.0 | 0.00 | 5.92 | F |
4092 | 4274 | 0.523966 | CGGAGTCCTCGATATCAGCC | 59.476 | 60.0 | 7.77 | 0.0 | 0.00 | 4.85 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1658 | 1840 | 0.038166 | ACCAGCGTCACCAATGGAAT | 59.962 | 50.000 | 6.16 | 0.0 | 36.62 | 3.01 | R |
2784 | 2966 | 0.478507 | CACTCTTTCCCACCCCTGTT | 59.521 | 55.000 | 0.00 | 0.0 | 0.00 | 3.16 | R |
3995 | 4177 | 1.412079 | TGCTTTGGCAACTTCATGGT | 58.588 | 45.000 | 0.00 | 0.0 | 46.36 | 3.55 | R |
4480 | 4662 | 0.109723 | TTTGAAGTCCTTCCCACGGG | 59.890 | 55.000 | 4.67 | 0.0 | 38.77 | 5.28 | R |
5292 | 5580 | 1.229658 | AGAGGGGTTGGAGGAGTGG | 60.230 | 63.158 | 0.00 | 0.0 | 0.00 | 4.00 | 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 |
---|---|---|---|---|---|---|---|---|---|
42 | 43 | 4.927049 | ACACCTTCTCAATCACATGGAAT | 58.073 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
107 | 111 | 3.006247 | GCCAAGAAAGCTAGAGGTTCAG | 58.994 | 50.000 | 0.00 | 0.00 | 34.26 | 3.02 |
109 | 113 | 4.249661 | CCAAGAAAGCTAGAGGTTCAGAC | 58.750 | 47.826 | 0.00 | 0.00 | 34.26 | 3.51 |
110 | 114 | 3.859411 | AGAAAGCTAGAGGTTCAGACG | 57.141 | 47.619 | 0.00 | 0.00 | 34.26 | 4.18 |
111 | 115 | 2.494073 | AGAAAGCTAGAGGTTCAGACGG | 59.506 | 50.000 | 0.00 | 0.00 | 34.26 | 4.79 |
115 | 119 | 1.956159 | GCTAGAGGTTCAGACGGAGGT | 60.956 | 57.143 | 0.00 | 0.00 | 0.00 | 3.85 |
122 | 126 | 2.527100 | GTTCAGACGGAGGTATTGACG | 58.473 | 52.381 | 0.00 | 0.00 | 0.00 | 4.35 |
129 | 133 | 1.749635 | CGGAGGTATTGACGAGGGAGA | 60.750 | 57.143 | 0.00 | 0.00 | 0.00 | 3.71 |
158 | 162 | 8.465999 | TCCATTTAAAATATCAAGATTGTGCGT | 58.534 | 29.630 | 0.00 | 0.00 | 0.00 | 5.24 |
227 | 231 | 8.697507 | ATCACCTCATATTAAATCAAAGACCC | 57.302 | 34.615 | 0.00 | 0.00 | 0.00 | 4.46 |
241 | 245 | 7.865706 | ATCAAAGACCCAGTAAATGATGTAC | 57.134 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
243 | 247 | 7.227873 | TCAAAGACCCAGTAAATGATGTACAA | 58.772 | 34.615 | 0.00 | 0.00 | 0.00 | 2.41 |
245 | 249 | 8.522830 | CAAAGACCCAGTAAATGATGTACAATT | 58.477 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
248 | 252 | 8.739972 | AGACCCAGTAAATGATGTACAATTTTC | 58.260 | 33.333 | 10.07 | 6.28 | 0.00 | 2.29 |
272 | 276 | 9.782900 | TTCAAATCTTAAGGGGAAGGATAAAAT | 57.217 | 29.630 | 1.85 | 0.00 | 0.00 | 1.82 |
296 | 300 | 3.769739 | ACCAGTTTGAGACACATGCTA | 57.230 | 42.857 | 0.00 | 0.00 | 0.00 | 3.49 |
297 | 301 | 4.292186 | ACCAGTTTGAGACACATGCTAT | 57.708 | 40.909 | 0.00 | 0.00 | 0.00 | 2.97 |
299 | 303 | 5.994250 | ACCAGTTTGAGACACATGCTATAT | 58.006 | 37.500 | 0.00 | 0.00 | 0.00 | 0.86 |
331 | 336 | 5.582550 | CAAAAAGGGAGTTCAAAGACAGTC | 58.417 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
332 | 337 | 4.503714 | AAAGGGAGTTCAAAGACAGTCA | 57.496 | 40.909 | 2.66 | 0.00 | 0.00 | 3.41 |
390 | 395 | 9.223099 | CATCATGTGATGTAATCTGCCTTATTA | 57.777 | 33.333 | 13.53 | 0.00 | 45.81 | 0.98 |
391 | 396 | 8.607441 | TCATGTGATGTAATCTGCCTTATTAC | 57.393 | 34.615 | 0.00 | 0.00 | 45.81 | 1.89 |
392 | 397 | 7.384932 | TCATGTGATGTAATCTGCCTTATTACG | 59.615 | 37.037 | 0.00 | 0.00 | 45.81 | 3.18 |
395 | 400 | 8.364894 | TGTGATGTAATCTGCCTTATTACGTAT | 58.635 | 33.333 | 0.00 | 0.00 | 45.81 | 3.06 |
396 | 401 | 9.204570 | GTGATGTAATCTGCCTTATTACGTATT | 57.795 | 33.333 | 0.00 | 0.00 | 45.81 | 1.89 |
397 | 402 | 9.772973 | TGATGTAATCTGCCTTATTACGTATTT | 57.227 | 29.630 | 0.00 | 0.00 | 45.81 | 1.40 |
415 | 548 | 0.308376 | TTTTACGCGTGGCAACCTTC | 59.692 | 50.000 | 24.59 | 0.00 | 0.00 | 3.46 |
450 | 585 | 8.715191 | TGTCAAACTTCTTTGCATGTATTTTT | 57.285 | 26.923 | 0.00 | 0.00 | 37.31 | 1.94 |
458 | 593 | 3.763097 | TGCATGTATTTTTCTGCCTCG | 57.237 | 42.857 | 0.00 | 0.00 | 33.70 | 4.63 |
459 | 594 | 3.081061 | TGCATGTATTTTTCTGCCTCGT | 58.919 | 40.909 | 0.00 | 0.00 | 33.70 | 4.18 |
463 | 598 | 6.127758 | TGCATGTATTTTTCTGCCTCGTATTT | 60.128 | 34.615 | 0.00 | 0.00 | 33.70 | 1.40 |
466 | 601 | 9.781834 | CATGTATTTTTCTGCCTCGTATTTTTA | 57.218 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
554 | 689 | 3.569194 | TGTTGTACATGTCCACCACTT | 57.431 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
556 | 691 | 3.118223 | TGTTGTACATGTCCACCACTTCA | 60.118 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
557 | 692 | 3.120321 | TGTACATGTCCACCACTTCAC | 57.880 | 47.619 | 0.00 | 0.00 | 0.00 | 3.18 |
567 | 705 | 2.374184 | CACCACTTCACCACCAAGAAA | 58.626 | 47.619 | 0.00 | 0.00 | 0.00 | 2.52 |
570 | 708 | 4.766891 | CACCACTTCACCACCAAGAAATAT | 59.233 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
599 | 737 | 2.232941 | CTCCAATGCAAGGCAACAAGAT | 59.767 | 45.455 | 3.76 | 0.00 | 43.62 | 2.40 |
601 | 739 | 2.028839 | CCAATGCAAGGCAACAAGATGA | 60.029 | 45.455 | 0.00 | 0.00 | 43.62 | 2.92 |
603 | 741 | 2.275134 | TGCAAGGCAACAAGATGAGA | 57.725 | 45.000 | 0.00 | 0.00 | 34.76 | 3.27 |
649 | 788 | 4.707448 | ACTAAAATCACCACACACCACAAA | 59.293 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
694 | 836 | 1.455849 | CAACACAAGGAGGGAGCCA | 59.544 | 57.895 | 0.00 | 0.00 | 0.00 | 4.75 |
712 | 857 | 6.750501 | GGGAGCCAAAGAAACGATAATAAAAC | 59.249 | 38.462 | 0.00 | 0.00 | 0.00 | 2.43 |
728 | 873 | 6.755542 | AATAAAACCCCCAAATTTCACTCA | 57.244 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
744 | 889 | 6.773976 | TTCACTCAAACAAGAGTCCAATTT | 57.226 | 33.333 | 0.00 | 0.00 | 45.35 | 1.82 |
748 | 893 | 8.912988 | TCACTCAAACAAGAGTCCAATTTTTAT | 58.087 | 29.630 | 0.00 | 0.00 | 45.35 | 1.40 |
782 | 927 | 1.062962 | CCAAACCCTAGCCCATCCAAT | 60.063 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
783 | 928 | 2.310538 | CAAACCCTAGCCCATCCAATC | 58.689 | 52.381 | 0.00 | 0.00 | 0.00 | 2.67 |
784 | 929 | 0.853530 | AACCCTAGCCCATCCAATCC | 59.146 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
785 | 930 | 0.328450 | ACCCTAGCCCATCCAATCCA | 60.328 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
786 | 931 | 0.852842 | CCCTAGCCCATCCAATCCAA | 59.147 | 55.000 | 0.00 | 0.00 | 0.00 | 3.53 |
787 | 932 | 1.479389 | CCCTAGCCCATCCAATCCAAC | 60.479 | 57.143 | 0.00 | 0.00 | 0.00 | 3.77 |
788 | 933 | 1.479389 | CCTAGCCCATCCAATCCAACC | 60.479 | 57.143 | 0.00 | 0.00 | 0.00 | 3.77 |
790 | 935 | 1.001503 | GCCCATCCAATCCAACCCA | 59.998 | 57.895 | 0.00 | 0.00 | 0.00 | 4.51 |
791 | 936 | 0.398948 | GCCCATCCAATCCAACCCAT | 60.399 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
792 | 937 | 1.708341 | CCCATCCAATCCAACCCATC | 58.292 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
793 | 938 | 1.708341 | CCATCCAATCCAACCCATCC | 58.292 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
794 | 939 | 1.063038 | CCATCCAATCCAACCCATCCA | 60.063 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
891 | 1036 | 2.722201 | GCCACCACTACTCCCGGAG | 61.722 | 68.421 | 13.31 | 13.31 | 35.52 | 4.63 |
906 | 1051 | 3.036959 | GAGGGAGGGAGGGAGGGA | 61.037 | 72.222 | 0.00 | 0.00 | 0.00 | 4.20 |
907 | 1052 | 3.039526 | AGGGAGGGAGGGAGGGAG | 61.040 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
908 | 1053 | 3.036959 | GGGAGGGAGGGAGGGAGA | 61.037 | 72.222 | 0.00 | 0.00 | 0.00 | 3.71 |
909 | 1054 | 2.284151 | GGAGGGAGGGAGGGAGAC | 59.716 | 72.222 | 0.00 | 0.00 | 0.00 | 3.36 |
1068 | 1223 | 2.493501 | GAAGACGAGGGGTACGCC | 59.506 | 66.667 | 20.94 | 20.94 | 44.92 | 5.68 |
1641 | 1823 | 0.322277 | CTGGTGCTGAGGCTGTCAAT | 60.322 | 55.000 | 0.00 | 0.00 | 39.59 | 2.57 |
1658 | 1840 | 1.782201 | AATGGTGTGGAGCCTGAGCA | 61.782 | 55.000 | 0.00 | 0.00 | 43.56 | 4.26 |
1706 | 1888 | 2.022195 | CATTGTGGATGCTTCAGAGGG | 58.978 | 52.381 | 1.64 | 0.00 | 0.00 | 4.30 |
1707 | 1889 | 0.329261 | TTGTGGATGCTTCAGAGGGG | 59.671 | 55.000 | 1.64 | 0.00 | 0.00 | 4.79 |
1708 | 1890 | 1.225704 | GTGGATGCTTCAGAGGGGG | 59.774 | 63.158 | 1.64 | 0.00 | 0.00 | 5.40 |
1709 | 1891 | 1.082766 | TGGATGCTTCAGAGGGGGA | 59.917 | 57.895 | 1.64 | 0.00 | 0.00 | 4.81 |
1710 | 1892 | 1.274703 | TGGATGCTTCAGAGGGGGAC | 61.275 | 60.000 | 1.64 | 0.00 | 0.00 | 4.46 |
1711 | 1893 | 1.144936 | GATGCTTCAGAGGGGGACG | 59.855 | 63.158 | 0.00 | 0.00 | 0.00 | 4.79 |
1712 | 1894 | 2.932130 | GATGCTTCAGAGGGGGACGC | 62.932 | 65.000 | 0.00 | 0.00 | 43.76 | 5.19 |
1723 | 1905 | 4.408821 | GGGACGCTGGTGGCATGA | 62.409 | 66.667 | 0.00 | 0.00 | 41.91 | 3.07 |
1807 | 1989 | 2.698855 | GCCTCCTGCACTGAATTCTA | 57.301 | 50.000 | 7.05 | 0.00 | 40.77 | 2.10 |
1836 | 2018 | 4.630644 | AGAAGAAGATGCTGGTCTTGAA | 57.369 | 40.909 | 4.67 | 0.00 | 38.51 | 2.69 |
1837 | 2019 | 4.577875 | AGAAGAAGATGCTGGTCTTGAAG | 58.422 | 43.478 | 4.67 | 0.00 | 38.51 | 3.02 |
1843 | 2025 | 2.550830 | TGCTGGTCTTGAAGTTCTCC | 57.449 | 50.000 | 4.17 | 2.79 | 0.00 | 3.71 |
1875 | 2057 | 3.758023 | CTGATGCAAAAGATACCACACCA | 59.242 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
1898 | 2080 | 0.609151 | CATGGGGTTGCTGAATTGCA | 59.391 | 50.000 | 0.00 | 0.00 | 41.65 | 4.08 |
1908 | 2090 | 2.094442 | TGCTGAATTGCATCATGTGGTG | 60.094 | 45.455 | 0.00 | 0.00 | 38.12 | 4.17 |
1928 | 2110 | 4.021894 | GGTGAGTTCTACAGAAGCAGAAGA | 60.022 | 45.833 | 0.00 | 0.00 | 34.27 | 2.87 |
1930 | 2112 | 5.576384 | GTGAGTTCTACAGAAGCAGAAGATG | 59.424 | 44.000 | 0.00 | 0.00 | 34.27 | 2.90 |
1946 | 2128 | 0.445436 | GATGCTGGTGCTGAAGTTCG | 59.555 | 55.000 | 0.00 | 0.00 | 40.48 | 3.95 |
1956 | 2138 | 1.727213 | GCTGAAGTTCGCAATGCTGAC | 60.727 | 52.381 | 2.94 | 1.54 | 0.00 | 3.51 |
1964 | 2146 | 1.066645 | TCGCAATGCTGACTCTGATGT | 60.067 | 47.619 | 2.94 | 0.00 | 0.00 | 3.06 |
1982 | 2164 | 1.338674 | TGTGAAAGATACCACGCCCAG | 60.339 | 52.381 | 0.00 | 0.00 | 36.15 | 4.45 |
2009 | 2191 | 3.480470 | AGGTTGTCACACATTCTGAAGG | 58.520 | 45.455 | 0.00 | 0.00 | 0.00 | 3.46 |
2016 | 2198 | 1.143684 | ACACATTCTGAAGGTGCCAGT | 59.856 | 47.619 | 28.78 | 11.65 | 46.37 | 4.00 |
2026 | 2208 | 1.656587 | AGGTGCCAGTCCTGAACATA | 58.343 | 50.000 | 0.00 | 0.00 | 33.62 | 2.29 |
2032 | 2214 | 1.942657 | CCAGTCCTGAACATATTGCCG | 59.057 | 52.381 | 0.00 | 0.00 | 0.00 | 5.69 |
2051 | 2233 | 3.658398 | CAAGAGATGCCCCAGTTGT | 57.342 | 52.632 | 0.00 | 0.00 | 0.00 | 3.32 |
2105 | 2287 | 0.110823 | CAGTTTACTGTTGACGCGGC | 60.111 | 55.000 | 12.47 | 8.67 | 39.09 | 6.53 |
2118 | 2300 | 1.153647 | CGCGGCTCATCACAAGGTA | 60.154 | 57.895 | 0.00 | 0.00 | 0.00 | 3.08 |
2136 | 2318 | 3.846588 | AGGTAGATGGTGAAACTGATGGT | 59.153 | 43.478 | 0.00 | 0.00 | 36.74 | 3.55 |
2154 | 2336 | 3.942829 | TGGTGATCATGAACCTTCTGAC | 58.057 | 45.455 | 15.90 | 0.20 | 37.36 | 3.51 |
2198 | 2380 | 1.605202 | CGGGACAAACAATGCTTTGGG | 60.605 | 52.381 | 15.92 | 7.98 | 37.15 | 4.12 |
2325 | 2507 | 0.321996 | AGTTGAGCGGAAAGGAGACC | 59.678 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2439 | 2621 | 0.833287 | CTGATCCCATCCAACCGTCT | 59.167 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
2441 | 2623 | 0.106894 | GATCCCATCCAACCGTCTCC | 59.893 | 60.000 | 0.00 | 0.00 | 0.00 | 3.71 |
2449 | 2631 | 1.530013 | CCAACCGTCTCCTACCGTGT | 61.530 | 60.000 | 0.00 | 0.00 | 0.00 | 4.49 |
2650 | 2832 | 4.207955 | AGTGTTATATCGGCTCAGTCTCA | 58.792 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
2751 | 2933 | 3.906846 | AGACAGAGGGAACAGATGACTTT | 59.093 | 43.478 | 0.00 | 0.00 | 0.00 | 2.66 |
2781 | 2963 | 3.355378 | CTGCAATGTATTGGTCCTTGGA | 58.645 | 45.455 | 6.72 | 0.00 | 38.21 | 3.53 |
2784 | 2966 | 4.590647 | TGCAATGTATTGGTCCTTGGAAAA | 59.409 | 37.500 | 6.72 | 0.00 | 38.21 | 2.29 |
2820 | 3002 | 7.094377 | GGAAAGAGTGCAACAATAAACTCCATA | 60.094 | 37.037 | 0.00 | 0.00 | 41.43 | 2.74 |
2840 | 3022 | 5.124457 | CCATATTTGGCGAGGATAAATCCAG | 59.876 | 44.000 | 11.51 | 6.04 | 42.07 | 3.86 |
3357 | 3539 | 0.536006 | ATGGCCTTATCTGGAAGCGC | 60.536 | 55.000 | 3.32 | 0.00 | 0.00 | 5.92 |
3460 | 3642 | 2.100584 | CTCTTTGATCTCCGTCTCCAGG | 59.899 | 54.545 | 0.00 | 0.00 | 0.00 | 4.45 |
3577 | 3759 | 6.888088 | AGATGTTGATCCTGATGAATTGTTGA | 59.112 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
3747 | 3929 | 1.446907 | AGGAACAGCGCAGAAGATTG | 58.553 | 50.000 | 11.47 | 0.00 | 0.00 | 2.67 |
3760 | 3942 | 5.648572 | GCAGAAGATTGAAGGAAATGAAGG | 58.351 | 41.667 | 0.00 | 0.00 | 0.00 | 3.46 |
3784 | 3966 | 6.296087 | GGAGAGTGAGGGCAATGATTATGATA | 60.296 | 42.308 | 0.00 | 0.00 | 0.00 | 2.15 |
3788 | 3970 | 7.921304 | AGTGAGGGCAATGATTATGATATACA | 58.079 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
3876 | 4058 | 2.223044 | GCCATCTTCGTTTGATTCCGAC | 60.223 | 50.000 | 0.00 | 0.00 | 31.95 | 4.79 |
3995 | 4177 | 1.338674 | CGGTGTGAGCCTCCAATACAA | 60.339 | 52.381 | 0.00 | 0.00 | 0.00 | 2.41 |
4092 | 4274 | 0.523966 | CGGAGTCCTCGATATCAGCC | 59.476 | 60.000 | 7.77 | 0.00 | 0.00 | 4.85 |
4200 | 4382 | 3.891366 | CCAAGTTCAGGAACACCAAGAAT | 59.109 | 43.478 | 14.06 | 0.00 | 43.47 | 2.40 |
4327 | 4509 | 2.884997 | AAACGCTGGTGCTGTGTCCA | 62.885 | 55.000 | 0.00 | 0.00 | 36.97 | 4.02 |
4480 | 4662 | 2.492088 | GCAAACTTGGATACCCAGTTCC | 59.508 | 50.000 | 7.53 | 0.69 | 44.60 | 3.62 |
4587 | 4769 | 1.859703 | GAGCATCTGACGATTGCTCTG | 59.140 | 52.381 | 18.85 | 0.00 | 41.85 | 3.35 |
4615 | 4797 | 5.106948 | GGTGTCTATTCGATGGCAATGTATG | 60.107 | 44.000 | 0.00 | 0.00 | 0.00 | 2.39 |
4623 | 4805 | 3.128415 | CGATGGCAATGTATGTGTGGAAA | 59.872 | 43.478 | 0.00 | 0.00 | 0.00 | 3.13 |
4726 | 4918 | 3.202151 | TGTCCCTCTTGTTTGAGTTTCCT | 59.798 | 43.478 | 0.00 | 0.00 | 32.50 | 3.36 |
4754 | 4946 | 8.319143 | TGTTCTATTAAACTACTGTTGAAGCC | 57.681 | 34.615 | 0.00 | 0.00 | 36.39 | 4.35 |
4759 | 4951 | 3.305398 | AACTACTGTTGAAGCCTCTCG | 57.695 | 47.619 | 0.00 | 0.00 | 34.71 | 4.04 |
4762 | 4954 | 0.601311 | ACTGTTGAAGCCTCTCGTGC | 60.601 | 55.000 | 0.00 | 0.00 | 0.00 | 5.34 |
4768 | 4960 | 0.739112 | GAAGCCTCTCGTGCTCCTTG | 60.739 | 60.000 | 0.00 | 0.00 | 38.34 | 3.61 |
4771 | 4963 | 0.603975 | GCCTCTCGTGCTCCTTGTTT | 60.604 | 55.000 | 0.00 | 0.00 | 0.00 | 2.83 |
4880 | 5085 | 3.653344 | TCATGCTGGCGATGTACTTATC | 58.347 | 45.455 | 0.00 | 0.00 | 0.00 | 1.75 |
4888 | 5093 | 5.620206 | TGGCGATGTACTTATCCATGAAAT | 58.380 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
4889 | 5094 | 6.061441 | TGGCGATGTACTTATCCATGAAATT | 58.939 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
4924 | 5129 | 3.616219 | TGTGCAACTGTCTACCTGTTTT | 58.384 | 40.909 | 0.00 | 0.00 | 38.04 | 2.43 |
4925 | 5130 | 4.771903 | TGTGCAACTGTCTACCTGTTTTA | 58.228 | 39.130 | 0.00 | 0.00 | 38.04 | 1.52 |
4926 | 5131 | 5.373222 | TGTGCAACTGTCTACCTGTTTTAT | 58.627 | 37.500 | 0.00 | 0.00 | 38.04 | 1.40 |
4972 | 5177 | 2.644676 | GTTCTTCCAGCCTTCCATACC | 58.355 | 52.381 | 0.00 | 0.00 | 0.00 | 2.73 |
5012 | 5300 | 8.292448 | CAGACAATAAATAGAAGTGTGCAAAGT | 58.708 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
5022 | 5310 | 1.363807 | GTGCAAAGTTGGCAGTCCC | 59.636 | 57.895 | 4.79 | 0.00 | 42.85 | 4.46 |
5023 | 5311 | 1.076412 | TGCAAAGTTGGCAGTCCCA | 60.076 | 52.632 | 0.00 | 0.00 | 43.51 | 4.37 |
5077 | 5365 | 5.339008 | TCACACTTTATGCTCGGAAGTAT | 57.661 | 39.130 | 0.00 | 0.00 | 32.69 | 2.12 |
5090 | 5378 | 2.695666 | CGGAAGTATGGAGTCCAGTCAT | 59.304 | 50.000 | 18.69 | 5.94 | 36.75 | 3.06 |
5091 | 5379 | 3.243569 | CGGAAGTATGGAGTCCAGTCATC | 60.244 | 52.174 | 18.69 | 14.00 | 36.75 | 2.92 |
5098 | 5386 | 3.942829 | TGGAGTCCAGTCATCATTTGTC | 58.057 | 45.455 | 8.12 | 0.00 | 0.00 | 3.18 |
5147 | 5435 | 2.835156 | AGAGAAGGTCAACCCTCTTAGC | 59.165 | 50.000 | 1.91 | 0.00 | 45.47 | 3.09 |
5148 | 5436 | 2.835156 | GAGAAGGTCAACCCTCTTAGCT | 59.165 | 50.000 | 1.91 | 0.00 | 45.47 | 3.32 |
5149 | 5437 | 4.024670 | GAGAAGGTCAACCCTCTTAGCTA | 58.975 | 47.826 | 1.91 | 0.00 | 45.47 | 3.32 |
5150 | 5438 | 4.027437 | AGAAGGTCAACCCTCTTAGCTAG | 58.973 | 47.826 | 0.00 | 0.00 | 45.47 | 3.42 |
5151 | 5439 | 3.759815 | AGGTCAACCCTCTTAGCTAGA | 57.240 | 47.619 | 0.00 | 0.00 | 40.71 | 2.43 |
5152 | 5440 | 4.027437 | AAGGTCAACCCTCTTAGCTAGAG | 58.973 | 47.826 | 11.24 | 11.24 | 45.47 | 2.43 |
5202 | 5490 | 1.201855 | GCGACTCTGAAATTGACTGCG | 60.202 | 52.381 | 0.00 | 0.00 | 0.00 | 5.18 |
5215 | 5503 | 1.798223 | TGACTGCGTTGACTATTGTGC | 59.202 | 47.619 | 0.00 | 0.00 | 0.00 | 4.57 |
5269 | 5557 | 1.021968 | GTTGTGGGTGCTTCGACTTT | 58.978 | 50.000 | 0.00 | 0.00 | 0.00 | 2.66 |
5270 | 5558 | 1.021202 | TTGTGGGTGCTTCGACTTTG | 58.979 | 50.000 | 0.00 | 0.00 | 0.00 | 2.77 |
5272 | 5560 | 1.021968 | GTGGGTGCTTCGACTTTGTT | 58.978 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
5273 | 5561 | 1.021202 | TGGGTGCTTCGACTTTGTTG | 58.979 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
5274 | 5562 | 0.317854 | GGGTGCTTCGACTTTGTTGC | 60.318 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
5275 | 5563 | 0.380378 | GGTGCTTCGACTTTGTTGCA | 59.620 | 50.000 | 0.00 | 0.00 | 0.00 | 4.08 |
5276 | 5564 | 1.597937 | GGTGCTTCGACTTTGTTGCAG | 60.598 | 52.381 | 0.00 | 0.00 | 0.00 | 4.41 |
5277 | 5565 | 0.029300 | TGCTTCGACTTTGTTGCAGC | 59.971 | 50.000 | 0.00 | 0.00 | 36.88 | 5.25 |
5292 | 5580 | 4.450036 | AGCCCCTTCCCCTACCCC | 62.450 | 72.222 | 0.00 | 0.00 | 0.00 | 4.95 |
5349 | 5637 | 4.586618 | CTCAACCAGGAGACAGCG | 57.413 | 61.111 | 0.00 | 0.00 | 37.05 | 5.18 |
5374 | 5662 | 1.064240 | TGGATCTGGCATTGCATGTCT | 60.064 | 47.619 | 11.39 | 0.00 | 35.48 | 3.41 |
5377 | 5665 | 3.439476 | GGATCTGGCATTGCATGTCTATC | 59.561 | 47.826 | 11.39 | 4.43 | 35.48 | 2.08 |
5390 | 5678 | 6.585416 | TGCATGTCTATCTGTGTTGACATAT | 58.415 | 36.000 | 7.07 | 0.00 | 45.01 | 1.78 |
5442 | 7508 | 2.953466 | TAACACCACCGAGTAGATGC | 57.047 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
5451 | 7517 | 3.804325 | CACCGAGTAGATGCCTATGTTTG | 59.196 | 47.826 | 0.00 | 0.00 | 0.00 | 2.93 |
5457 | 7523 | 6.701841 | CGAGTAGATGCCTATGTTTGTATTGT | 59.298 | 38.462 | 0.00 | 0.00 | 0.00 | 2.71 |
5484 | 7550 | 8.916062 | TCATGCTGTTGATAAATATTCATGGTT | 58.084 | 29.630 | 0.00 | 0.00 | 32.20 | 3.67 |
5522 | 7588 | 1.415289 | TGCCATTTCATTGTGCAACCA | 59.585 | 42.857 | 0.00 | 0.00 | 34.36 | 3.67 |
5545 | 7611 | 9.331466 | ACCATCTACCTGTTCAGATATCATATT | 57.669 | 33.333 | 5.32 | 0.00 | 30.32 | 1.28 |
5550 | 7616 | 9.212641 | CTACCTGTTCAGATATCATATTTGTGG | 57.787 | 37.037 | 5.32 | 0.51 | 0.00 | 4.17 |
5576 | 7659 | 3.901222 | TCTGTGGTTCATTGTCTACCAGA | 59.099 | 43.478 | 0.00 | 0.00 | 42.28 | 3.86 |
5582 | 7666 | 6.016276 | GTGGTTCATTGTCTACCAGAAACAAT | 60.016 | 38.462 | 0.00 | 0.00 | 42.28 | 2.71 |
5595 | 7679 | 6.628185 | ACCAGAAACAATACTAGAAGTACGG | 58.372 | 40.000 | 0.00 | 0.00 | 32.84 | 4.02 |
5625 | 7709 | 4.953579 | GGCAATCCAGGAACACCTTTTATA | 59.046 | 41.667 | 0.00 | 0.00 | 30.75 | 0.98 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
75 | 79 | 8.978874 | TCTAGCTTTCTTGGCAAATATTATCA | 57.021 | 30.769 | 0.00 | 0.00 | 0.00 | 2.15 |
76 | 80 | 8.510505 | CCTCTAGCTTTCTTGGCAAATATTATC | 58.489 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
95 | 99 | 0.741915 | CCTCCGTCTGAACCTCTAGC | 59.258 | 60.000 | 0.00 | 0.00 | 0.00 | 3.42 |
107 | 111 | 0.384669 | CCCTCGTCAATACCTCCGTC | 59.615 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
109 | 113 | 0.669077 | CTCCCTCGTCAATACCTCCG | 59.331 | 60.000 | 0.00 | 0.00 | 0.00 | 4.63 |
110 | 114 | 1.957877 | CTCTCCCTCGTCAATACCTCC | 59.042 | 57.143 | 0.00 | 0.00 | 0.00 | 4.30 |
111 | 115 | 2.657143 | ACTCTCCCTCGTCAATACCTC | 58.343 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
115 | 119 | 3.095912 | TGGAACTCTCCCTCGTCAATA | 57.904 | 47.619 | 0.00 | 0.00 | 41.64 | 1.90 |
122 | 126 | 8.980481 | TGATATTTTAAATGGAACTCTCCCTC | 57.020 | 34.615 | 0.00 | 0.00 | 41.64 | 4.30 |
181 | 185 | 8.141268 | GGTGATTTTTCCTAGTCAATGTGAAAA | 58.859 | 33.333 | 0.00 | 0.00 | 34.22 | 2.29 |
201 | 205 | 9.136323 | GGGTCTTTGATTTAATATGAGGTGATT | 57.864 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
202 | 206 | 8.281531 | TGGGTCTTTGATTTAATATGAGGTGAT | 58.718 | 33.333 | 0.00 | 0.00 | 0.00 | 3.06 |
225 | 229 | 9.703892 | TTTGAAAATTGTACATCATTTACTGGG | 57.296 | 29.630 | 6.05 | 0.00 | 0.00 | 4.45 |
238 | 242 | 9.639601 | CTTCCCCTTAAGATTTGAAAATTGTAC | 57.360 | 33.333 | 3.36 | 0.00 | 0.00 | 2.90 |
241 | 245 | 7.906327 | TCCTTCCCCTTAAGATTTGAAAATTG | 58.094 | 34.615 | 3.36 | 0.00 | 0.00 | 2.32 |
243 | 247 | 9.782900 | TTATCCTTCCCCTTAAGATTTGAAAAT | 57.217 | 29.630 | 3.36 | 0.00 | 0.00 | 1.82 |
245 | 249 | 9.608718 | TTTTATCCTTCCCCTTAAGATTTGAAA | 57.391 | 29.630 | 3.36 | 0.00 | 0.00 | 2.69 |
253 | 257 | 9.262240 | TGGTTTTATTTTATCCTTCCCCTTAAG | 57.738 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
260 | 264 | 9.639601 | CTCAAACTGGTTTTATTTTATCCTTCC | 57.360 | 33.333 | 0.00 | 0.00 | 0.00 | 3.46 |
272 | 276 | 4.887071 | AGCATGTGTCTCAAACTGGTTTTA | 59.113 | 37.500 | 0.00 | 0.00 | 0.00 | 1.52 |
276 | 280 | 2.645838 | AGCATGTGTCTCAAACTGGT | 57.354 | 45.000 | 0.00 | 0.00 | 0.00 | 4.00 |
277 | 281 | 8.437360 | TTTATATAGCATGTGTCTCAAACTGG | 57.563 | 34.615 | 0.00 | 0.00 | 0.00 | 4.00 |
324 | 329 | 5.012458 | TCAAGTCCATTCAATCTGACTGTCT | 59.988 | 40.000 | 9.51 | 0.00 | 38.07 | 3.41 |
331 | 336 | 9.063615 | TCATCATAATCAAGTCCATTCAATCTG | 57.936 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
332 | 337 | 9.809395 | ATCATCATAATCAAGTCCATTCAATCT | 57.191 | 29.630 | 0.00 | 0.00 | 0.00 | 2.40 |
390 | 395 | 1.146637 | TGCCACGCGTAAAAATACGT | 58.853 | 45.000 | 13.44 | 0.00 | 44.53 | 3.57 |
391 | 396 | 1.899971 | GTTGCCACGCGTAAAAATACG | 59.100 | 47.619 | 13.44 | 4.14 | 45.39 | 3.06 |
392 | 397 | 2.095617 | AGGTTGCCACGCGTAAAAATAC | 60.096 | 45.455 | 13.44 | 5.64 | 0.00 | 1.89 |
395 | 400 | 0.739561 | AAGGTTGCCACGCGTAAAAA | 59.260 | 45.000 | 13.44 | 3.12 | 0.00 | 1.94 |
396 | 401 | 0.308376 | GAAGGTTGCCACGCGTAAAA | 59.692 | 50.000 | 13.44 | 3.54 | 0.00 | 1.52 |
397 | 402 | 1.508808 | GGAAGGTTGCCACGCGTAAA | 61.509 | 55.000 | 13.44 | 3.97 | 0.00 | 2.01 |
398 | 403 | 1.962306 | GGAAGGTTGCCACGCGTAA | 60.962 | 57.895 | 13.44 | 0.00 | 0.00 | 3.18 |
399 | 404 | 2.357760 | GGAAGGTTGCCACGCGTA | 60.358 | 61.111 | 13.44 | 0.00 | 0.00 | 4.42 |
402 | 535 | 0.179097 | TTTTTGGAAGGTTGCCACGC | 60.179 | 50.000 | 0.00 | 0.00 | 34.56 | 5.34 |
423 | 558 | 8.891671 | AAATACATGCAAAGAAGTTTGACATT | 57.108 | 26.923 | 0.00 | 0.00 | 45.22 | 2.71 |
428 | 563 | 7.795272 | GCAGAAAAATACATGCAAAGAAGTTTG | 59.205 | 33.333 | 0.00 | 0.00 | 45.18 | 2.93 |
435 | 570 | 4.560035 | CGAGGCAGAAAAATACATGCAAAG | 59.440 | 41.667 | 0.00 | 0.00 | 40.46 | 2.77 |
439 | 574 | 3.764885 | ACGAGGCAGAAAAATACATGC | 57.235 | 42.857 | 0.00 | 0.00 | 37.95 | 4.06 |
440 | 575 | 8.687824 | AAAAATACGAGGCAGAAAAATACATG | 57.312 | 30.769 | 0.00 | 0.00 | 0.00 | 3.21 |
472 | 607 | 9.442047 | TTGTTGTTTATTTTGTGTGGAAGAAAT | 57.558 | 25.926 | 0.00 | 0.00 | 0.00 | 2.17 |
536 | 671 | 3.472652 | GTGAAGTGGTGGACATGTACAA | 58.527 | 45.455 | 13.68 | 0.00 | 0.00 | 2.41 |
543 | 678 | 1.275421 | TGGTGGTGAAGTGGTGGACA | 61.275 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
554 | 689 | 7.013834 | AGGGTTTTAATATTTCTTGGTGGTGA | 58.986 | 34.615 | 0.00 | 0.00 | 0.00 | 4.02 |
556 | 691 | 6.439375 | GGAGGGTTTTAATATTTCTTGGTGGT | 59.561 | 38.462 | 0.00 | 0.00 | 0.00 | 4.16 |
557 | 692 | 6.439058 | TGGAGGGTTTTAATATTTCTTGGTGG | 59.561 | 38.462 | 0.00 | 0.00 | 0.00 | 4.61 |
567 | 705 | 5.163311 | GCCTTGCATTGGAGGGTTTTAATAT | 60.163 | 40.000 | 8.12 | 0.00 | 33.52 | 1.28 |
570 | 708 | 2.301583 | GCCTTGCATTGGAGGGTTTTAA | 59.698 | 45.455 | 8.12 | 0.00 | 33.52 | 1.52 |
694 | 836 | 7.541916 | TTGGGGGTTTTATTATCGTTTCTTT | 57.458 | 32.000 | 0.00 | 0.00 | 0.00 | 2.52 |
712 | 857 | 4.100808 | TCTTGTTTGAGTGAAATTTGGGGG | 59.899 | 41.667 | 0.00 | 0.00 | 0.00 | 5.40 |
728 | 873 | 7.508687 | AGGCAATAAAAATTGGACTCTTGTTT | 58.491 | 30.769 | 0.72 | 0.00 | 32.43 | 2.83 |
744 | 889 | 5.105917 | GGTTTGGATCTTTCGAGGCAATAAA | 60.106 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
748 | 893 | 2.159382 | GGTTTGGATCTTTCGAGGCAA | 58.841 | 47.619 | 0.00 | 0.00 | 0.00 | 4.52 |
782 | 927 | 2.543797 | GGGTGGTGGATGGGTTGGA | 61.544 | 63.158 | 0.00 | 0.00 | 0.00 | 3.53 |
783 | 928 | 2.037208 | GGGTGGTGGATGGGTTGG | 59.963 | 66.667 | 0.00 | 0.00 | 0.00 | 3.77 |
784 | 929 | 1.304381 | CAGGGTGGTGGATGGGTTG | 60.304 | 63.158 | 0.00 | 0.00 | 0.00 | 3.77 |
785 | 930 | 3.180282 | CAGGGTGGTGGATGGGTT | 58.820 | 61.111 | 0.00 | 0.00 | 0.00 | 4.11 |
786 | 931 | 3.661648 | GCAGGGTGGTGGATGGGT | 61.662 | 66.667 | 0.00 | 0.00 | 0.00 | 4.51 |
787 | 932 | 4.802051 | CGCAGGGTGGTGGATGGG | 62.802 | 72.222 | 0.00 | 0.00 | 0.00 | 4.00 |
891 | 1036 | 3.036959 | TCTCCCTCCCTCCCTCCC | 61.037 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
896 | 1041 | 3.742248 | CTCGGGTCTCCCTCCCTCC | 62.742 | 73.684 | 3.25 | 0.00 | 42.67 | 4.30 |
897 | 1042 | 2.123640 | CTCGGGTCTCCCTCCCTC | 60.124 | 72.222 | 3.25 | 0.00 | 42.67 | 4.30 |
898 | 1043 | 2.617538 | TCTCGGGTCTCCCTCCCT | 60.618 | 66.667 | 3.25 | 0.00 | 42.67 | 4.20 |
899 | 1044 | 2.442458 | GTCTCGGGTCTCCCTCCC | 60.442 | 72.222 | 3.25 | 0.00 | 42.67 | 4.30 |
901 | 1046 | 2.442458 | GGGTCTCGGGTCTCCCTC | 60.442 | 72.222 | 3.25 | 0.00 | 42.67 | 4.30 |
902 | 1047 | 1.294426 | TATGGGTCTCGGGTCTCCCT | 61.294 | 60.000 | 12.45 | 3.63 | 42.67 | 4.20 |
906 | 1051 | 1.946984 | TGTTTATGGGTCTCGGGTCT | 58.053 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
907 | 1052 | 2.745821 | GTTTGTTTATGGGTCTCGGGTC | 59.254 | 50.000 | 0.00 | 0.00 | 0.00 | 4.46 |
908 | 1053 | 2.553685 | GGTTTGTTTATGGGTCTCGGGT | 60.554 | 50.000 | 0.00 | 0.00 | 0.00 | 5.28 |
909 | 1054 | 2.089201 | GGTTTGTTTATGGGTCTCGGG | 58.911 | 52.381 | 0.00 | 0.00 | 0.00 | 5.14 |
918 | 1063 | 1.153920 | GCGGGCGGGTTTGTTTATG | 60.154 | 57.895 | 0.00 | 0.00 | 0.00 | 1.90 |
1053 | 1208 | 2.439883 | GAGGCGTACCCCTCGTCT | 60.440 | 66.667 | 10.78 | 0.00 | 45.88 | 4.18 |
1551 | 1733 | 4.317367 | GATTTACCAAATCAGCGAACGCG | 61.317 | 47.826 | 3.53 | 3.53 | 45.18 | 6.01 |
1641 | 1823 | 1.782201 | AATGCTCAGGCTCCACACCA | 61.782 | 55.000 | 0.00 | 0.00 | 39.59 | 4.17 |
1658 | 1840 | 0.038166 | ACCAGCGTCACCAATGGAAT | 59.962 | 50.000 | 6.16 | 0.00 | 36.62 | 3.01 |
1686 | 1868 | 2.022195 | CCCTCTGAAGCATCCACAATG | 58.978 | 52.381 | 0.00 | 0.00 | 38.50 | 2.82 |
1687 | 1869 | 1.064166 | CCCCTCTGAAGCATCCACAAT | 60.064 | 52.381 | 0.00 | 0.00 | 0.00 | 2.71 |
1688 | 1870 | 0.329261 | CCCCTCTGAAGCATCCACAA | 59.671 | 55.000 | 0.00 | 0.00 | 0.00 | 3.33 |
1689 | 1871 | 1.565390 | CCCCCTCTGAAGCATCCACA | 61.565 | 60.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1690 | 1872 | 1.225704 | CCCCCTCTGAAGCATCCAC | 59.774 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
1691 | 1873 | 1.082766 | TCCCCCTCTGAAGCATCCA | 59.917 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
1692 | 1874 | 1.529309 | GTCCCCCTCTGAAGCATCC | 59.471 | 63.158 | 0.00 | 0.00 | 0.00 | 3.51 |
1693 | 1875 | 1.144936 | CGTCCCCCTCTGAAGCATC | 59.855 | 63.158 | 0.00 | 0.00 | 0.00 | 3.91 |
1694 | 1876 | 3.036429 | GCGTCCCCCTCTGAAGCAT | 62.036 | 63.158 | 0.00 | 0.00 | 37.22 | 3.79 |
1695 | 1877 | 3.706373 | GCGTCCCCCTCTGAAGCA | 61.706 | 66.667 | 0.00 | 0.00 | 37.22 | 3.91 |
1696 | 1878 | 3.394836 | AGCGTCCCCCTCTGAAGC | 61.395 | 66.667 | 0.00 | 0.00 | 37.47 | 3.86 |
1697 | 1879 | 2.581354 | CAGCGTCCCCCTCTGAAG | 59.419 | 66.667 | 0.00 | 0.00 | 0.00 | 3.02 |
1698 | 1880 | 3.003173 | CCAGCGTCCCCCTCTGAA | 61.003 | 66.667 | 0.00 | 0.00 | 0.00 | 3.02 |
1699 | 1881 | 4.316823 | ACCAGCGTCCCCCTCTGA | 62.317 | 66.667 | 0.00 | 0.00 | 0.00 | 3.27 |
1700 | 1882 | 4.087892 | CACCAGCGTCCCCCTCTG | 62.088 | 72.222 | 0.00 | 0.00 | 0.00 | 3.35 |
1711 | 1893 | 1.141019 | CAATGCTCATGCCACCAGC | 59.859 | 57.895 | 0.00 | 0.00 | 44.14 | 4.85 |
1712 | 1894 | 0.172578 | CACAATGCTCATGCCACCAG | 59.827 | 55.000 | 0.00 | 0.00 | 38.71 | 4.00 |
1713 | 1895 | 1.252215 | CCACAATGCTCATGCCACCA | 61.252 | 55.000 | 0.00 | 0.00 | 38.71 | 4.17 |
1714 | 1896 | 0.966875 | TCCACAATGCTCATGCCACC | 60.967 | 55.000 | 0.00 | 0.00 | 38.71 | 4.61 |
1715 | 1897 | 1.108776 | ATCCACAATGCTCATGCCAC | 58.891 | 50.000 | 0.00 | 0.00 | 38.71 | 5.01 |
1716 | 1898 | 1.107945 | CATCCACAATGCTCATGCCA | 58.892 | 50.000 | 0.00 | 0.00 | 38.71 | 4.92 |
1717 | 1899 | 3.959478 | CATCCACAATGCTCATGCC | 57.041 | 52.632 | 0.00 | 0.00 | 38.71 | 4.40 |
1764 | 1946 | 1.230635 | CCACGACAACTTGCTCCTGG | 61.231 | 60.000 | 0.00 | 0.00 | 0.00 | 4.45 |
1797 | 1979 | 8.865090 | TCTTCTTCTTCTTGAGTAGAATTCAGT | 58.135 | 33.333 | 8.44 | 0.00 | 41.89 | 3.41 |
1798 | 1980 | 9.874205 | ATCTTCTTCTTCTTGAGTAGAATTCAG | 57.126 | 33.333 | 8.44 | 0.00 | 41.89 | 3.02 |
1807 | 1989 | 4.041444 | ACCAGCATCTTCTTCTTCTTGAGT | 59.959 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
1836 | 2018 | 4.443175 | GCATCAGAGTCATCATGGAGAACT | 60.443 | 45.833 | 0.00 | 0.00 | 0.00 | 3.01 |
1837 | 2019 | 3.808726 | GCATCAGAGTCATCATGGAGAAC | 59.191 | 47.826 | 0.00 | 0.00 | 0.00 | 3.01 |
1843 | 2025 | 5.813080 | TCTTTTGCATCAGAGTCATCATG | 57.187 | 39.130 | 0.00 | 0.00 | 0.00 | 3.07 |
1898 | 2080 | 5.728471 | CTTCTGTAGAACTCACCACATGAT | 58.272 | 41.667 | 0.00 | 0.00 | 36.48 | 2.45 |
1928 | 2110 | 1.580845 | GCGAACTTCAGCACCAGCAT | 61.581 | 55.000 | 0.00 | 0.00 | 45.49 | 3.79 |
1930 | 2112 | 1.785041 | TTGCGAACTTCAGCACCAGC | 61.785 | 55.000 | 7.51 | 0.00 | 43.69 | 4.85 |
1936 | 2118 | 0.518636 | TCAGCATTGCGAACTTCAGC | 59.481 | 50.000 | 2.38 | 0.00 | 0.00 | 4.26 |
1946 | 2128 | 2.353323 | TCACATCAGAGTCAGCATTGC | 58.647 | 47.619 | 0.00 | 0.00 | 0.00 | 3.56 |
1956 | 2138 | 3.553511 | GCGTGGTATCTTTCACATCAGAG | 59.446 | 47.826 | 0.00 | 0.00 | 33.83 | 3.35 |
1964 | 2146 | 0.251916 | CCTGGGCGTGGTATCTTTCA | 59.748 | 55.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1982 | 2164 | 1.538047 | ATGTGTGACAACCTCATGCC | 58.462 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2009 | 2191 | 2.098117 | GCAATATGTTCAGGACTGGCAC | 59.902 | 50.000 | 0.00 | 0.00 | 0.00 | 5.01 |
2016 | 2198 | 2.016318 | CTTGCGGCAATATGTTCAGGA | 58.984 | 47.619 | 16.80 | 0.00 | 0.00 | 3.86 |
2105 | 2287 | 4.743057 | TCACCATCTACCTTGTGATGAG | 57.257 | 45.455 | 0.00 | 0.00 | 41.69 | 2.90 |
2118 | 2300 | 4.019051 | TGATCACCATCAGTTTCACCATCT | 60.019 | 41.667 | 0.00 | 0.00 | 33.80 | 2.90 |
2136 | 2318 | 4.245660 | GTTCGTCAGAAGGTTCATGATCA | 58.754 | 43.478 | 0.00 | 0.00 | 36.99 | 2.92 |
2172 | 2354 | 2.684881 | AGCATTGTTTGTCCCGATGATC | 59.315 | 45.455 | 0.00 | 0.00 | 0.00 | 2.92 |
2178 | 2360 | 1.605202 | CCCAAAGCATTGTTTGTCCCG | 60.605 | 52.381 | 0.43 | 0.00 | 35.93 | 5.14 |
2198 | 2380 | 4.886489 | CCTCCATTTCTTTTCCAGGAGATC | 59.114 | 45.833 | 7.80 | 0.00 | 44.12 | 2.75 |
2245 | 2427 | 1.080569 | CATCCAAACCAAGGCGTGC | 60.081 | 57.895 | 0.00 | 0.00 | 0.00 | 5.34 |
2249 | 2431 | 3.091545 | TCTGAATCATCCAAACCAAGGC | 58.908 | 45.455 | 0.00 | 0.00 | 0.00 | 4.35 |
2251 | 2433 | 5.067413 | CCTCATCTGAATCATCCAAACCAAG | 59.933 | 44.000 | 0.00 | 0.00 | 0.00 | 3.61 |
2287 | 2469 | 6.464222 | TCAACTCCTCAACTTCATAATCGTT | 58.536 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2289 | 2471 | 5.006165 | GCTCAACTCCTCAACTTCATAATCG | 59.994 | 44.000 | 0.00 | 0.00 | 0.00 | 3.34 |
2325 | 2507 | 4.025015 | AGCTGCATAATCAAAAAGCTCG | 57.975 | 40.909 | 1.02 | 0.00 | 36.26 | 5.03 |
2361 | 2543 | 1.377202 | TGATCTGTTTGCCGCCCTC | 60.377 | 57.895 | 0.00 | 0.00 | 0.00 | 4.30 |
2425 | 2607 | 0.464452 | GTAGGAGACGGTTGGATGGG | 59.536 | 60.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2471 | 2653 | 1.141881 | ACCGCATGAGTAGAAGCCG | 59.858 | 57.895 | 0.00 | 0.00 | 0.00 | 5.52 |
2650 | 2832 | 0.682209 | ATGCGCCTGAAGCCTTCAAT | 60.682 | 50.000 | 8.74 | 0.00 | 39.58 | 2.57 |
2751 | 2933 | 5.263599 | ACCAATACATTGCAGGAGAATTCA | 58.736 | 37.500 | 8.44 | 0.00 | 36.48 | 2.57 |
2781 | 2963 | 2.023404 | ACTCTTTCCCACCCCTGTTTTT | 60.023 | 45.455 | 0.00 | 0.00 | 0.00 | 1.94 |
2784 | 2966 | 0.478507 | CACTCTTTCCCACCCCTGTT | 59.521 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2840 | 3022 | 4.870363 | TGCTGGTAGAAAAGCATTTGTTC | 58.130 | 39.130 | 0.00 | 0.00 | 44.26 | 3.18 |
2941 | 3123 | 5.047377 | TGTTTGATTTTCCATCCCTAACTGC | 60.047 | 40.000 | 0.00 | 0.00 | 0.00 | 4.40 |
3357 | 3539 | 3.028921 | GCACAGGAGGAGGAGCAGG | 62.029 | 68.421 | 0.00 | 0.00 | 0.00 | 4.85 |
3460 | 3642 | 2.303311 | AGAAGTAAGGAAGTGGAGGCAC | 59.697 | 50.000 | 0.00 | 0.00 | 0.00 | 5.01 |
3577 | 3759 | 5.128499 | ACTCTTCATCCTCTTGATCGTCATT | 59.872 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3747 | 3929 | 4.512484 | CCTCACTCTCCTTCATTTCCTTC | 58.488 | 47.826 | 0.00 | 0.00 | 0.00 | 3.46 |
3760 | 3942 | 4.965814 | TCATAATCATTGCCCTCACTCTC | 58.034 | 43.478 | 0.00 | 0.00 | 0.00 | 3.20 |
3784 | 3966 | 6.271624 | TCAGGATGATCATTCTCCACATGTAT | 59.728 | 38.462 | 14.01 | 0.00 | 42.56 | 2.29 |
3864 | 4046 | 2.618053 | ACTGGATCGTCGGAATCAAAC | 58.382 | 47.619 | 0.00 | 0.00 | 0.00 | 2.93 |
3876 | 4058 | 3.320733 | CGATAGCGGTATACTGGATCG | 57.679 | 52.381 | 13.59 | 12.78 | 0.00 | 3.69 |
3995 | 4177 | 1.412079 | TGCTTTGGCAACTTCATGGT | 58.588 | 45.000 | 0.00 | 0.00 | 46.36 | 3.55 |
4012 | 4194 | 2.360165 | CCCACATAGAAGCTGGAAATGC | 59.640 | 50.000 | 0.00 | 0.00 | 0.00 | 3.56 |
4200 | 4382 | 2.766263 | CAGACCTCCAGTAGTGGCATTA | 59.234 | 50.000 | 12.14 | 0.00 | 44.60 | 1.90 |
4327 | 4509 | 2.401583 | TGCGCAGTATCACCTTTCAT | 57.598 | 45.000 | 5.66 | 0.00 | 0.00 | 2.57 |
4480 | 4662 | 0.109723 | TTTGAAGTCCTTCCCACGGG | 59.890 | 55.000 | 4.67 | 0.00 | 38.77 | 5.28 |
4587 | 4769 | 4.054780 | TGCCATCGAATAGACACCTAAC | 57.945 | 45.455 | 0.00 | 0.00 | 0.00 | 2.34 |
4615 | 4797 | 2.947448 | GGATGCATCCTTTTCCACAC | 57.053 | 50.000 | 34.20 | 7.44 | 43.73 | 3.82 |
4754 | 4946 | 4.499183 | AGATAAAACAAGGAGCACGAGAG | 58.501 | 43.478 | 0.00 | 0.00 | 0.00 | 3.20 |
4759 | 4951 | 7.965107 | CACAAATAGAGATAAAACAAGGAGCAC | 59.035 | 37.037 | 0.00 | 0.00 | 0.00 | 4.40 |
4762 | 4954 | 9.831737 | CAACACAAATAGAGATAAAACAAGGAG | 57.168 | 33.333 | 0.00 | 0.00 | 0.00 | 3.69 |
4771 | 4963 | 9.317936 | CAGCTATGTCAACACAAATAGAGATAA | 57.682 | 33.333 | 0.00 | 0.00 | 35.64 | 1.75 |
4880 | 5085 | 8.321716 | CACAACAAAATTGCAAAAATTTCATGG | 58.678 | 29.630 | 1.71 | 0.00 | 0.00 | 3.66 |
4900 | 5105 | 2.093181 | ACAGGTAGACAGTTGCACAACA | 60.093 | 45.455 | 15.40 | 0.00 | 43.47 | 3.33 |
4924 | 5129 | 8.806429 | AAGGATAATCACACACATGAAACATA | 57.194 | 30.769 | 0.00 | 0.00 | 30.82 | 2.29 |
4925 | 5130 | 7.707624 | AAGGATAATCACACACATGAAACAT | 57.292 | 32.000 | 0.00 | 0.00 | 30.82 | 2.71 |
4926 | 5131 | 7.369607 | CAAAGGATAATCACACACATGAAACA | 58.630 | 34.615 | 0.00 | 0.00 | 30.82 | 2.83 |
5050 | 5338 | 6.823689 | ACTTCCGAGCATAAAGTGTGAAATAT | 59.176 | 34.615 | 0.00 | 0.00 | 32.22 | 1.28 |
5059 | 5347 | 4.406003 | ACTCCATACTTCCGAGCATAAAGT | 59.594 | 41.667 | 0.00 | 0.00 | 37.10 | 2.66 |
5077 | 5365 | 3.307691 | GGACAAATGATGACTGGACTCCA | 60.308 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
5098 | 5386 | 6.700352 | TGAAAGGGAGCTTTAATTCATTTGG | 58.300 | 36.000 | 0.00 | 0.00 | 0.00 | 3.28 |
5147 | 5435 | 5.635700 | GCTATTGGCCTAAAATCGTCTCTAG | 59.364 | 44.000 | 3.32 | 0.00 | 34.27 | 2.43 |
5148 | 5436 | 5.539048 | GCTATTGGCCTAAAATCGTCTCTA | 58.461 | 41.667 | 3.32 | 0.00 | 34.27 | 2.43 |
5149 | 5437 | 4.381411 | GCTATTGGCCTAAAATCGTCTCT | 58.619 | 43.478 | 3.32 | 0.00 | 34.27 | 3.10 |
5150 | 5438 | 3.184581 | CGCTATTGGCCTAAAATCGTCTC | 59.815 | 47.826 | 3.32 | 0.00 | 37.74 | 3.36 |
5151 | 5439 | 3.131396 | CGCTATTGGCCTAAAATCGTCT | 58.869 | 45.455 | 3.32 | 0.00 | 37.74 | 4.18 |
5152 | 5440 | 2.349532 | GCGCTATTGGCCTAAAATCGTC | 60.350 | 50.000 | 3.32 | 0.00 | 37.74 | 4.20 |
5153 | 5441 | 1.602377 | GCGCTATTGGCCTAAAATCGT | 59.398 | 47.619 | 3.32 | 0.00 | 37.74 | 3.73 |
5181 | 5469 | 1.800586 | GCAGTCAATTTCAGAGTCGCA | 59.199 | 47.619 | 0.00 | 0.00 | 0.00 | 5.10 |
5183 | 5471 | 2.061773 | ACGCAGTCAATTTCAGAGTCG | 58.938 | 47.619 | 0.00 | 0.00 | 29.74 | 4.18 |
5185 | 5473 | 3.248602 | GTCAACGCAGTCAATTTCAGAGT | 59.751 | 43.478 | 0.00 | 0.00 | 45.00 | 3.24 |
5202 | 5490 | 4.702131 | AGAAATCCTGGCACAATAGTCAAC | 59.298 | 41.667 | 0.00 | 0.00 | 38.70 | 3.18 |
5215 | 5503 | 3.960102 | AGAGTCAGCTAGAGAAATCCTGG | 59.040 | 47.826 | 0.00 | 0.00 | 0.00 | 4.45 |
5269 | 5557 | 4.299796 | GGGGAAGGGGCTGCAACA | 62.300 | 66.667 | 0.50 | 0.00 | 0.00 | 3.33 |
5270 | 5558 | 2.612493 | TAGGGGAAGGGGCTGCAAC | 61.612 | 63.158 | 0.50 | 0.00 | 0.00 | 4.17 |
5272 | 5560 | 3.015145 | GTAGGGGAAGGGGCTGCA | 61.015 | 66.667 | 0.50 | 0.00 | 0.00 | 4.41 |
5273 | 5561 | 3.810188 | GGTAGGGGAAGGGGCTGC | 61.810 | 72.222 | 0.00 | 0.00 | 0.00 | 5.25 |
5274 | 5562 | 3.097162 | GGGTAGGGGAAGGGGCTG | 61.097 | 72.222 | 0.00 | 0.00 | 0.00 | 4.85 |
5275 | 5563 | 4.450036 | GGGGTAGGGGAAGGGGCT | 62.450 | 72.222 | 0.00 | 0.00 | 0.00 | 5.19 |
5277 | 5565 | 4.047196 | TGGGGGTAGGGGAAGGGG | 62.047 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
5292 | 5580 | 1.229658 | AGAGGGGTTGGAGGAGTGG | 60.230 | 63.158 | 0.00 | 0.00 | 0.00 | 4.00 |
5349 | 5637 | 2.020131 | CAATGCCAGATCCAGCGTC | 58.980 | 57.895 | 0.10 | 0.00 | 0.00 | 5.19 |
5377 | 5665 | 8.939201 | AGATTCTACAAGATATGTCAACACAG | 57.061 | 34.615 | 0.00 | 0.00 | 42.70 | 3.66 |
5390 | 5678 | 8.424133 | ACATACATGTGCATAGATTCTACAAGA | 58.576 | 33.333 | 9.11 | 0.00 | 40.03 | 3.02 |
5442 | 7508 | 6.855836 | ACAGCATGAACAATACAAACATAGG | 58.144 | 36.000 | 0.00 | 0.00 | 39.69 | 2.57 |
5457 | 7523 | 8.916062 | ACCATGAATATTTATCAACAGCATGAA | 58.084 | 29.630 | 0.00 | 0.00 | 39.69 | 2.57 |
5479 | 7545 | 7.603784 | GGCAAAGTTTTCATGAATAAGAACCAT | 59.396 | 33.333 | 9.40 | 0.58 | 0.00 | 3.55 |
5484 | 7550 | 9.206870 | GAAATGGCAAAGTTTTCATGAATAAGA | 57.793 | 29.630 | 9.40 | 0.00 | 31.29 | 2.10 |
5545 | 7611 | 5.136828 | ACAATGAACCACAGATAACCACAA | 58.863 | 37.500 | 0.00 | 0.00 | 0.00 | 3.33 |
5550 | 7616 | 6.170506 | TGGTAGACAATGAACCACAGATAAC | 58.829 | 40.000 | 3.51 | 0.00 | 38.36 | 1.89 |
5576 | 7659 | 9.367444 | CATCTTTCCGTACTTCTAGTATTGTTT | 57.633 | 33.333 | 0.00 | 0.00 | 32.65 | 2.83 |
5582 | 7666 | 4.951715 | TGCCATCTTTCCGTACTTCTAGTA | 59.048 | 41.667 | 0.00 | 0.00 | 0.00 | 1.82 |
5595 | 7679 | 3.091545 | TGTTCCTGGATTGCCATCTTTC | 58.908 | 45.455 | 0.00 | 0.00 | 44.91 | 2.62 |
5615 | 7699 | 6.954232 | TCCCTAGTTCCAAGTATAAAAGGTG | 58.046 | 40.000 | 0.00 | 0.00 | 0.00 | 4.00 |
5625 | 7709 | 3.882515 | GCCTAGACTCCCTAGTTCCAAGT | 60.883 | 52.174 | 0.00 | 0.00 | 42.63 | 3.16 |
![](/static/images/cyverse_long.png)
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.