Multiple sequence alignment - TraesCS3A01G005900
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 | TraesCS3A01G005900 | chr3A | 100.000 | 3004 | 0 | 0 | 1 | 3004 | 7202717 | 7199714 | 0.000000e+00 | 5548 |
1 | TraesCS3A01G005900 | chr3A | 97.076 | 171 | 4 | 1 | 700 | 870 | 710866862 | 710866693 | 1.360000e-73 | 287 |
2 | TraesCS3A01G005900 | chr3A | 96.512 | 172 | 5 | 1 | 698 | 869 | 157045214 | 157045384 | 1.760000e-72 | 283 |
3 | TraesCS3A01G005900 | chr3D | 94.045 | 1377 | 51 | 15 | 866 | 2235 | 1845191 | 1846543 | 0.000000e+00 | 2060 |
4 | TraesCS3A01G005900 | chr3D | 91.699 | 783 | 42 | 13 | 2228 | 3004 | 1846862 | 1847627 | 0.000000e+00 | 1064 |
5 | TraesCS3A01G005900 | chr3D | 85.734 | 715 | 68 | 18 | 1 | 704 | 1844501 | 1845192 | 0.000000e+00 | 725 |
6 | TraesCS3A01G005900 | chr3D | 85.926 | 135 | 17 | 1 | 2726 | 2858 | 471085025 | 471085159 | 3.120000e-30 | 143 |
7 | TraesCS3A01G005900 | chr3D | 79.500 | 200 | 27 | 12 | 2240 | 2435 | 504046516 | 504046327 | 2.430000e-26 | 130 |
8 | TraesCS3A01G005900 | chr3D | 83.459 | 133 | 21 | 1 | 2726 | 2858 | 13975211 | 13975342 | 4.070000e-24 | 122 |
9 | TraesCS3A01G005900 | chr3B | 94.350 | 1292 | 38 | 15 | 866 | 2141 | 4202083 | 4203355 | 0.000000e+00 | 1951 |
10 | TraesCS3A01G005900 | chr3B | 95.276 | 995 | 26 | 10 | 866 | 1858 | 5058277 | 5059252 | 0.000000e+00 | 1557 |
11 | TraesCS3A01G005900 | chr3B | 86.176 | 680 | 72 | 16 | 1 | 670 | 5056497 | 5057164 | 0.000000e+00 | 715 |
12 | TraesCS3A01G005900 | chr3B | 85.735 | 680 | 77 | 16 | 1 | 670 | 4200338 | 4201007 | 0.000000e+00 | 701 |
13 | TraesCS3A01G005900 | chr6A | 95.082 | 183 | 7 | 2 | 687 | 868 | 96715942 | 96716123 | 1.360000e-73 | 287 |
14 | TraesCS3A01G005900 | chr6A | 96.512 | 172 | 5 | 1 | 698 | 869 | 349516471 | 349516641 | 1.760000e-72 | 283 |
15 | TraesCS3A01G005900 | chr4B | 95.531 | 179 | 5 | 3 | 702 | 878 | 658178326 | 658178149 | 1.760000e-72 | 283 |
16 | TraesCS3A01G005900 | chr5D | 96.491 | 171 | 5 | 1 | 698 | 868 | 355074731 | 355074562 | 6.340000e-72 | 281 |
17 | TraesCS3A01G005900 | chr5D | 95.808 | 167 | 6 | 1 | 703 | 869 | 66671785 | 66671950 | 4.940000e-68 | 268 |
18 | TraesCS3A01G005900 | chr1A | 94.505 | 182 | 6 | 4 | 687 | 868 | 425168432 | 425168609 | 8.200000e-71 | 278 |
19 | TraesCS3A01G005900 | chr5A | 93.548 | 186 | 9 | 3 | 699 | 884 | 693314951 | 693314769 | 1.060000e-69 | 274 |
20 | TraesCS3A01G005900 | chr5A | 86.179 | 123 | 13 | 4 | 2736 | 2856 | 443736599 | 443736479 | 2.430000e-26 | 130 |
21 | TraesCS3A01G005900 | chrUn | 82.096 | 229 | 33 | 6 | 2251 | 2474 | 421241263 | 421241488 | 3.950000e-44 | 189 |
22 | TraesCS3A01G005900 | chr2B | 82.096 | 229 | 33 | 6 | 2251 | 2474 | 7030993 | 7031218 | 3.950000e-44 | 189 |
23 | TraesCS3A01G005900 | chr2B | 82.096 | 229 | 33 | 6 | 2251 | 2474 | 7125188 | 7125413 | 3.950000e-44 | 189 |
24 | TraesCS3A01G005900 | chr2B | 81.659 | 229 | 34 | 6 | 2251 | 2474 | 7069684 | 7069909 | 1.840000e-42 | 183 |
25 | TraesCS3A01G005900 | chr2B | 81.659 | 229 | 34 | 6 | 2251 | 2474 | 7111353 | 7111578 | 1.840000e-42 | 183 |
26 | TraesCS3A01G005900 | chr2B | 81.223 | 229 | 35 | 5 | 2251 | 2474 | 454765205 | 454764980 | 8.560000e-41 | 178 |
27 | TraesCS3A01G005900 | chr2B | 83.582 | 134 | 20 | 2 | 2726 | 2858 | 697731054 | 697730922 | 1.130000e-24 | 124 |
28 | TraesCS3A01G005900 | chr5B | 81.771 | 192 | 32 | 3 | 2284 | 2473 | 288439959 | 288439769 | 1.110000e-34 | 158 |
29 | TraesCS3A01G005900 | chr1D | 81.250 | 192 | 28 | 7 | 2281 | 2467 | 474358238 | 474358050 | 6.710000e-32 | 148 |
30 | TraesCS3A01G005900 | chr1D | 86.992 | 123 | 13 | 3 | 2735 | 2857 | 326785902 | 326785783 | 5.220000e-28 | 135 |
31 | TraesCS3A01G005900 | chr7D | 89.815 | 108 | 9 | 2 | 2228 | 2335 | 129804595 | 129804490 | 1.450000e-28 | 137 |
32 | TraesCS3A01G005900 | chr7D | 85.484 | 124 | 17 | 1 | 2734 | 2857 | 364623888 | 364624010 | 8.740000e-26 | 128 |
33 | TraesCS3A01G005900 | chr2A | 84.328 | 134 | 16 | 2 | 2726 | 2859 | 753679495 | 753679367 | 3.140000e-25 | 126 |
34 | TraesCS3A01G005900 | chr7B | 84.921 | 126 | 15 | 4 | 2735 | 2859 | 730394969 | 730395091 | 1.130000e-24 | 124 |
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 | TraesCS3A01G005900 | chr3A | 7199714 | 7202717 | 3003 | True | 5548 | 5548 | 100.000000 | 1 | 3004 | 1 | chr3A.!!$R1 | 3003 |
1 | TraesCS3A01G005900 | chr3D | 1844501 | 1847627 | 3126 | False | 1283 | 2060 | 90.492667 | 1 | 3004 | 3 | chr3D.!!$F3 | 3003 |
2 | TraesCS3A01G005900 | chr3B | 4200338 | 4203355 | 3017 | False | 1326 | 1951 | 90.042500 | 1 | 2141 | 2 | chr3B.!!$F1 | 2140 |
3 | TraesCS3A01G005900 | chr3B | 5056497 | 5059252 | 2755 | False | 1136 | 1557 | 90.726000 | 1 | 1858 | 2 | chr3B.!!$F2 | 1857 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
585 | 597 | 0.041839 | CAGATGGCTAAATCGCACGC | 60.042 | 55.0 | 0.0 | 0.0 | 0.0 | 5.34 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2556 | 4001 | 0.10412 | TCGGATGTAGATGCAACGGG | 59.896 | 55.0 | 0.0 | 0.0 | 0.0 | 5.28 | 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 |
---|---|---|---|---|---|---|---|---|---|
107 | 108 | 7.202526 | ACTATTTTGGAGATTGTTGTTGTGTG | 58.797 | 34.615 | 0.00 | 0.00 | 0.00 | 3.82 |
108 | 109 | 4.383850 | TTTGGAGATTGTTGTTGTGTGG | 57.616 | 40.909 | 0.00 | 0.00 | 0.00 | 4.17 |
109 | 110 | 3.011566 | TGGAGATTGTTGTTGTGTGGT | 57.988 | 42.857 | 0.00 | 0.00 | 0.00 | 4.16 |
110 | 111 | 3.360867 | TGGAGATTGTTGTTGTGTGGTT | 58.639 | 40.909 | 0.00 | 0.00 | 0.00 | 3.67 |
175 | 180 | 2.151502 | TTTTCTTCAACTGGCCACCA | 57.848 | 45.000 | 0.00 | 0.00 | 0.00 | 4.17 |
187 | 192 | 1.754226 | TGGCCACCAGAGTTGTTTTTC | 59.246 | 47.619 | 0.00 | 0.00 | 0.00 | 2.29 |
193 | 198 | 3.625764 | CACCAGAGTTGTTTTTCCTTCGA | 59.374 | 43.478 | 0.00 | 0.00 | 0.00 | 3.71 |
252 | 257 | 2.047274 | CGGCGACTGTGGGACAAT | 60.047 | 61.111 | 0.00 | 0.00 | 44.16 | 2.71 |
332 | 337 | 3.680620 | ATCCATGGTGACCGCGGTG | 62.681 | 63.158 | 39.65 | 20.44 | 0.00 | 4.94 |
342 | 347 | 2.819595 | CCGCGGTGTGGGATTCAG | 60.820 | 66.667 | 19.50 | 0.00 | 0.00 | 3.02 |
344 | 349 | 1.671054 | CGCGGTGTGGGATTCAGTT | 60.671 | 57.895 | 0.00 | 0.00 | 0.00 | 3.16 |
350 | 361 | 1.537202 | GTGTGGGATTCAGTTGTGCTC | 59.463 | 52.381 | 0.00 | 0.00 | 0.00 | 4.26 |
363 | 374 | 2.933287 | TGCTCCAATCCCGGTGGT | 60.933 | 61.111 | 9.27 | 0.00 | 37.43 | 4.16 |
408 | 419 | 2.560861 | CGGGCATGTCCACAAACG | 59.439 | 61.111 | 18.31 | 0.00 | 36.21 | 3.60 |
446 | 457 | 3.126703 | TTGAGGGTTGGAAGCGGCA | 62.127 | 57.895 | 1.45 | 0.00 | 0.00 | 5.69 |
533 | 545 | 3.574396 | AGTGAGAAAGAAGACGACATGGA | 59.426 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
539 | 551 | 2.374184 | AGAAGACGACATGGAGAGAGG | 58.626 | 52.381 | 0.00 | 0.00 | 0.00 | 3.69 |
540 | 552 | 2.025793 | AGAAGACGACATGGAGAGAGGA | 60.026 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
541 | 553 | 1.757682 | AGACGACATGGAGAGAGGAC | 58.242 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
542 | 554 | 1.004862 | AGACGACATGGAGAGAGGACA | 59.995 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
543 | 555 | 2.028130 | GACGACATGGAGAGAGGACAT | 58.972 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
568 | 580 | 4.832266 | AGGATCAGATCTAACAGCTACCAG | 59.168 | 45.833 | 10.36 | 0.00 | 0.00 | 4.00 |
581 | 593 | 1.801178 | GCTACCAGATGGCTAAATCGC | 59.199 | 52.381 | 0.00 | 0.00 | 39.32 | 4.58 |
585 | 597 | 0.041839 | CAGATGGCTAAATCGCACGC | 60.042 | 55.000 | 0.00 | 0.00 | 0.00 | 5.34 |
586 | 598 | 0.179073 | AGATGGCTAAATCGCACGCT | 60.179 | 50.000 | 0.00 | 0.00 | 0.00 | 5.07 |
589 | 601 | 0.672091 | TGGCTAAATCGCACGCTTGA | 60.672 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
597 | 609 | 3.127533 | GCACGCTTGAAGGCCGAT | 61.128 | 61.111 | 0.00 | 0.00 | 0.00 | 4.18 |
619 | 631 | 2.126110 | CCAAATTTGGGGCGACGC | 60.126 | 61.111 | 26.87 | 12.43 | 44.70 | 5.19 |
647 | 659 | 1.134371 | CCTAGCACTGCCCTTTAGACC | 60.134 | 57.143 | 0.00 | 0.00 | 0.00 | 3.85 |
652 | 664 | 3.203040 | AGCACTGCCCTTTAGACCAATAT | 59.797 | 43.478 | 0.00 | 0.00 | 0.00 | 1.28 |
657 | 669 | 7.201911 | GCACTGCCCTTTAGACCAATATTATTT | 60.202 | 37.037 | 0.00 | 0.00 | 0.00 | 1.40 |
658 | 670 | 9.349713 | CACTGCCCTTTAGACCAATATTATTTA | 57.650 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
685 | 1778 | 6.838382 | TGGCTAAGATAATCTAAAGTTCCCC | 58.162 | 40.000 | 0.00 | 0.00 | 0.00 | 4.81 |
712 | 1805 | 6.525578 | TTTATGCATATACTACTCCCTCCG | 57.474 | 41.667 | 7.36 | 0.00 | 0.00 | 4.63 |
713 | 1806 | 3.520691 | TGCATATACTACTCCCTCCGT | 57.479 | 47.619 | 0.00 | 0.00 | 0.00 | 4.69 |
714 | 1807 | 3.840991 | TGCATATACTACTCCCTCCGTT | 58.159 | 45.455 | 0.00 | 0.00 | 0.00 | 4.44 |
715 | 1808 | 4.220724 | TGCATATACTACTCCCTCCGTTT | 58.779 | 43.478 | 0.00 | 0.00 | 0.00 | 3.60 |
716 | 1809 | 4.280174 | TGCATATACTACTCCCTCCGTTTC | 59.720 | 45.833 | 0.00 | 0.00 | 0.00 | 2.78 |
717 | 1810 | 4.523558 | GCATATACTACTCCCTCCGTTTCT | 59.476 | 45.833 | 0.00 | 0.00 | 0.00 | 2.52 |
718 | 1811 | 5.709164 | GCATATACTACTCCCTCCGTTTCTA | 59.291 | 44.000 | 0.00 | 0.00 | 0.00 | 2.10 |
719 | 1812 | 6.208204 | GCATATACTACTCCCTCCGTTTCTAA | 59.792 | 42.308 | 0.00 | 0.00 | 0.00 | 2.10 |
720 | 1813 | 7.255730 | GCATATACTACTCCCTCCGTTTCTAAA | 60.256 | 40.741 | 0.00 | 0.00 | 0.00 | 1.85 |
721 | 1814 | 8.804204 | CATATACTACTCCCTCCGTTTCTAAAT | 58.196 | 37.037 | 0.00 | 0.00 | 0.00 | 1.40 |
723 | 1816 | 8.953223 | ATACTACTCCCTCCGTTTCTAAATAT | 57.047 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
724 | 1817 | 7.672122 | ACTACTCCCTCCGTTTCTAAATATT | 57.328 | 36.000 | 0.00 | 0.00 | 0.00 | 1.28 |
725 | 1818 | 8.087303 | ACTACTCCCTCCGTTTCTAAATATTT | 57.913 | 34.615 | 5.89 | 5.89 | 0.00 | 1.40 |
726 | 1819 | 7.985752 | ACTACTCCCTCCGTTTCTAAATATTTG | 59.014 | 37.037 | 11.05 | 1.65 | 0.00 | 2.32 |
727 | 1820 | 6.718294 | ACTCCCTCCGTTTCTAAATATTTGT | 58.282 | 36.000 | 11.05 | 0.00 | 0.00 | 2.83 |
728 | 1821 | 6.822170 | ACTCCCTCCGTTTCTAAATATTTGTC | 59.178 | 38.462 | 11.05 | 0.00 | 0.00 | 3.18 |
729 | 1822 | 6.954232 | TCCCTCCGTTTCTAAATATTTGTCT | 58.046 | 36.000 | 11.05 | 0.00 | 0.00 | 3.41 |
730 | 1823 | 7.399634 | TCCCTCCGTTTCTAAATATTTGTCTT | 58.600 | 34.615 | 11.05 | 0.00 | 0.00 | 3.01 |
731 | 1824 | 7.886446 | TCCCTCCGTTTCTAAATATTTGTCTTT | 59.114 | 33.333 | 11.05 | 0.00 | 0.00 | 2.52 |
732 | 1825 | 8.182227 | CCCTCCGTTTCTAAATATTTGTCTTTC | 58.818 | 37.037 | 11.05 | 0.00 | 0.00 | 2.62 |
733 | 1826 | 8.947115 | CCTCCGTTTCTAAATATTTGTCTTTCT | 58.053 | 33.333 | 11.05 | 0.00 | 0.00 | 2.52 |
752 | 1845 | 8.988064 | TCTTTCTAGACATTTCACATGACTAC | 57.012 | 34.615 | 0.00 | 0.00 | 0.00 | 2.73 |
753 | 1846 | 8.807118 | TCTTTCTAGACATTTCACATGACTACT | 58.193 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
755 | 1848 | 9.856488 | TTTCTAGACATTTCACATGACTACTAC | 57.144 | 33.333 | 0.00 | 0.00 | 0.00 | 2.73 |
756 | 1849 | 8.575649 | TCTAGACATTTCACATGACTACTACA | 57.424 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
757 | 1850 | 9.190317 | TCTAGACATTTCACATGACTACTACAT | 57.810 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
760 | 1853 | 7.915923 | AGACATTTCACATGACTACTACATACG | 59.084 | 37.037 | 0.00 | 0.00 | 0.00 | 3.06 |
761 | 1854 | 6.978659 | ACATTTCACATGACTACTACATACGG | 59.021 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
762 | 1855 | 6.762702 | TTTCACATGACTACTACATACGGA | 57.237 | 37.500 | 0.00 | 0.00 | 0.00 | 4.69 |
763 | 1856 | 6.954487 | TTCACATGACTACTACATACGGAT | 57.046 | 37.500 | 0.00 | 0.00 | 0.00 | 4.18 |
764 | 1857 | 6.313744 | TCACATGACTACTACATACGGATG | 57.686 | 41.667 | 5.94 | 5.94 | 39.16 | 3.51 |
766 | 1859 | 6.993902 | TCACATGACTACTACATACGGATGTA | 59.006 | 38.462 | 19.32 | 19.32 | 44.77 | 2.29 |
767 | 1860 | 7.664318 | TCACATGACTACTACATACGGATGTAT | 59.336 | 37.037 | 20.64 | 13.02 | 45.42 | 2.29 |
807 | 1900 | 7.516198 | AGTGTAGATTCACTCATTTTGCTTT | 57.484 | 32.000 | 0.00 | 0.00 | 44.07 | 3.51 |
808 | 1901 | 7.365741 | AGTGTAGATTCACTCATTTTGCTTTG | 58.634 | 34.615 | 0.00 | 0.00 | 44.07 | 2.77 |
809 | 1902 | 7.013655 | AGTGTAGATTCACTCATTTTGCTTTGT | 59.986 | 33.333 | 0.00 | 0.00 | 44.07 | 2.83 |
810 | 1903 | 8.289618 | GTGTAGATTCACTCATTTTGCTTTGTA | 58.710 | 33.333 | 0.00 | 0.00 | 35.68 | 2.41 |
811 | 1904 | 9.013229 | TGTAGATTCACTCATTTTGCTTTGTAT | 57.987 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
812 | 1905 | 9.282247 | GTAGATTCACTCATTTTGCTTTGTATG | 57.718 | 33.333 | 0.00 | 0.00 | 0.00 | 2.39 |
813 | 1906 | 7.889469 | AGATTCACTCATTTTGCTTTGTATGT | 58.111 | 30.769 | 0.00 | 0.00 | 0.00 | 2.29 |
814 | 1907 | 9.013229 | AGATTCACTCATTTTGCTTTGTATGTA | 57.987 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
815 | 1908 | 9.282247 | GATTCACTCATTTTGCTTTGTATGTAG | 57.718 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
816 | 1909 | 7.744087 | TCACTCATTTTGCTTTGTATGTAGT | 57.256 | 32.000 | 0.00 | 0.00 | 0.00 | 2.73 |
817 | 1910 | 7.806690 | TCACTCATTTTGCTTTGTATGTAGTC | 58.193 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
818 | 1911 | 7.443879 | TCACTCATTTTGCTTTGTATGTAGTCA | 59.556 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
819 | 1912 | 7.535258 | CACTCATTTTGCTTTGTATGTAGTCAC | 59.465 | 37.037 | 0.00 | 0.00 | 0.00 | 3.67 |
820 | 1913 | 7.445402 | ACTCATTTTGCTTTGTATGTAGTCACT | 59.555 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
821 | 1914 | 8.165239 | TCATTTTGCTTTGTATGTAGTCACTT | 57.835 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
822 | 1915 | 8.075574 | TCATTTTGCTTTGTATGTAGTCACTTG | 58.924 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
823 | 1916 | 6.935741 | TTTGCTTTGTATGTAGTCACTTGT | 57.064 | 33.333 | 0.00 | 0.00 | 0.00 | 3.16 |
824 | 1917 | 6.935741 | TTGCTTTGTATGTAGTCACTTGTT | 57.064 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
825 | 1918 | 6.299023 | TGCTTTGTATGTAGTCACTTGTTG | 57.701 | 37.500 | 0.00 | 0.00 | 0.00 | 3.33 |
826 | 1919 | 6.052360 | TGCTTTGTATGTAGTCACTTGTTGA | 58.948 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
827 | 1920 | 6.540551 | TGCTTTGTATGTAGTCACTTGTTGAA | 59.459 | 34.615 | 0.00 | 0.00 | 35.39 | 2.69 |
828 | 1921 | 7.066404 | TGCTTTGTATGTAGTCACTTGTTGAAA | 59.934 | 33.333 | 0.00 | 0.00 | 35.39 | 2.69 |
829 | 1922 | 8.076178 | GCTTTGTATGTAGTCACTTGTTGAAAT | 58.924 | 33.333 | 0.00 | 0.00 | 35.39 | 2.17 |
832 | 1925 | 8.542497 | TGTATGTAGTCACTTGTTGAAATACC | 57.458 | 34.615 | 0.00 | 0.00 | 35.39 | 2.73 |
833 | 1926 | 8.372459 | TGTATGTAGTCACTTGTTGAAATACCT | 58.628 | 33.333 | 0.00 | 0.00 | 35.39 | 3.08 |
834 | 1927 | 9.865321 | GTATGTAGTCACTTGTTGAAATACCTA | 57.135 | 33.333 | 0.00 | 0.00 | 35.39 | 3.08 |
836 | 1929 | 8.185506 | TGTAGTCACTTGTTGAAATACCTAGA | 57.814 | 34.615 | 0.00 | 0.00 | 35.39 | 2.43 |
837 | 1930 | 8.644216 | TGTAGTCACTTGTTGAAATACCTAGAA | 58.356 | 33.333 | 0.00 | 0.00 | 35.39 | 2.10 |
838 | 1931 | 9.485206 | GTAGTCACTTGTTGAAATACCTAGAAA | 57.515 | 33.333 | 0.00 | 0.00 | 35.39 | 2.52 |
839 | 1932 | 8.608844 | AGTCACTTGTTGAAATACCTAGAAAG | 57.391 | 34.615 | 0.00 | 0.00 | 35.39 | 2.62 |
840 | 1933 | 8.429641 | AGTCACTTGTTGAAATACCTAGAAAGA | 58.570 | 33.333 | 0.00 | 0.00 | 35.39 | 2.52 |
841 | 1934 | 8.496751 | GTCACTTGTTGAAATACCTAGAAAGAC | 58.503 | 37.037 | 0.00 | 0.00 | 35.39 | 3.01 |
842 | 1935 | 8.208224 | TCACTTGTTGAAATACCTAGAAAGACA | 58.792 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
843 | 1936 | 8.836413 | CACTTGTTGAAATACCTAGAAAGACAA | 58.164 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
844 | 1937 | 9.057089 | ACTTGTTGAAATACCTAGAAAGACAAG | 57.943 | 33.333 | 0.00 | 0.00 | 43.36 | 3.16 |
845 | 1938 | 8.974060 | TTGTTGAAATACCTAGAAAGACAAGT | 57.026 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
856 | 1949 | 8.041919 | ACCTAGAAAGACAAGTATTTAGGAAGC | 58.958 | 37.037 | 13.29 | 0.00 | 29.07 | 3.86 |
857 | 1950 | 6.969828 | AGAAAGACAAGTATTTAGGAAGCG | 57.030 | 37.500 | 0.00 | 0.00 | 0.00 | 4.68 |
858 | 1951 | 5.875359 | AGAAAGACAAGTATTTAGGAAGCGG | 59.125 | 40.000 | 0.00 | 0.00 | 0.00 | 5.52 |
859 | 1952 | 5.416271 | AAGACAAGTATTTAGGAAGCGGA | 57.584 | 39.130 | 0.00 | 0.00 | 0.00 | 5.54 |
860 | 1953 | 5.012328 | AGACAAGTATTTAGGAAGCGGAG | 57.988 | 43.478 | 0.00 | 0.00 | 0.00 | 4.63 |
861 | 1954 | 4.120589 | GACAAGTATTTAGGAAGCGGAGG | 58.879 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
862 | 1955 | 3.118371 | ACAAGTATTTAGGAAGCGGAGGG | 60.118 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
863 | 1956 | 3.042059 | AGTATTTAGGAAGCGGAGGGA | 57.958 | 47.619 | 0.00 | 0.00 | 0.00 | 4.20 |
864 | 1957 | 2.966516 | AGTATTTAGGAAGCGGAGGGAG | 59.033 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
865 | 1958 | 1.880941 | ATTTAGGAAGCGGAGGGAGT | 58.119 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
866 | 1959 | 2.537633 | TTTAGGAAGCGGAGGGAGTA | 57.462 | 50.000 | 0.00 | 0.00 | 0.00 | 2.59 |
877 | 1970 | 2.106857 | CGGAGGGAGTAGTGGAGTATCT | 59.893 | 54.545 | 0.00 | 0.00 | 33.73 | 1.98 |
878 | 1971 | 3.492337 | GGAGGGAGTAGTGGAGTATCTG | 58.508 | 54.545 | 0.00 | 0.00 | 33.73 | 2.90 |
879 | 1972 | 2.888414 | GAGGGAGTAGTGGAGTATCTGC | 59.112 | 54.545 | 0.00 | 0.00 | 33.73 | 4.26 |
951 | 2044 | 4.033009 | GGAAATGGATTTGGGTCCTCATT | 58.967 | 43.478 | 0.00 | 0.00 | 39.12 | 2.57 |
1792 | 2891 | 3.254892 | GCCTACTTCAAGTCAGTGCTAC | 58.745 | 50.000 | 0.00 | 0.00 | 0.00 | 3.58 |
1798 | 2899 | 2.160205 | TCAAGTCAGTGCTACGCTAGT | 58.840 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
1833 | 2934 | 1.008361 | CCGCAAGCAAAATTCACCGG | 61.008 | 55.000 | 0.00 | 0.00 | 0.00 | 5.28 |
2000 | 3118 | 0.683973 | ACTGTGGAGTCCTTGAGCAG | 59.316 | 55.000 | 11.33 | 12.38 | 0.00 | 4.24 |
2001 | 3119 | 0.683973 | CTGTGGAGTCCTTGAGCAGT | 59.316 | 55.000 | 11.33 | 0.00 | 0.00 | 4.40 |
2002 | 3120 | 1.895798 | CTGTGGAGTCCTTGAGCAGTA | 59.104 | 52.381 | 11.33 | 0.00 | 0.00 | 2.74 |
2022 | 3140 | 8.492782 | AGCAGTAGTAGTAGTAGTGGAATAAGA | 58.507 | 37.037 | 17.76 | 0.00 | 0.00 | 2.10 |
2056 | 3174 | 3.767673 | ACTTGAGATTCATGCATGGCTTT | 59.232 | 39.130 | 25.97 | 10.25 | 0.00 | 3.51 |
2062 | 3180 | 3.598019 | TTCATGCATGGCTTTCTTTCC | 57.402 | 42.857 | 25.97 | 0.00 | 0.00 | 3.13 |
2110 | 3229 | 5.587844 | ACATTGCAACCAGTCTTAGATCATC | 59.412 | 40.000 | 0.00 | 0.00 | 0.00 | 2.92 |
2132 | 3251 | 1.407656 | AAGGCGTCCAAGGACAGTGA | 61.408 | 55.000 | 18.57 | 0.00 | 44.77 | 3.41 |
2141 | 3260 | 3.068024 | TCCAAGGACAGTGAATTTGTTGC | 59.932 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
2142 | 3261 | 3.181477 | CCAAGGACAGTGAATTTGTTGCA | 60.181 | 43.478 | 0.00 | 0.00 | 0.00 | 4.08 |
2143 | 3262 | 4.431809 | CAAGGACAGTGAATTTGTTGCAA | 58.568 | 39.130 | 0.00 | 0.00 | 0.00 | 4.08 |
2144 | 3263 | 4.734398 | AGGACAGTGAATTTGTTGCAAA | 57.266 | 36.364 | 0.00 | 0.00 | 0.00 | 3.68 |
2152 | 3271 | 5.754890 | AGTGAATTTGTTGCAAAATGGAGTC | 59.245 | 36.000 | 0.00 | 0.00 | 30.21 | 3.36 |
2163 | 3282 | 4.207019 | GCAAAATGGAGTCGAGTTTTGTTG | 59.793 | 41.667 | 18.92 | 8.01 | 41.30 | 3.33 |
2166 | 3285 | 5.576447 | AATGGAGTCGAGTTTTGTTGTTT | 57.424 | 34.783 | 0.00 | 0.00 | 0.00 | 2.83 |
2167 | 3286 | 4.349663 | TGGAGTCGAGTTTTGTTGTTTG | 57.650 | 40.909 | 0.00 | 0.00 | 0.00 | 2.93 |
2168 | 3287 | 4.004314 | TGGAGTCGAGTTTTGTTGTTTGA | 58.996 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
2171 | 3290 | 5.859648 | GGAGTCGAGTTTTGTTGTTTGAAAA | 59.140 | 36.000 | 0.00 | 0.00 | 0.00 | 2.29 |
2173 | 3292 | 5.861787 | AGTCGAGTTTTGTTGTTTGAAAAGG | 59.138 | 36.000 | 0.00 | 0.00 | 0.00 | 3.11 |
2174 | 3293 | 5.859648 | GTCGAGTTTTGTTGTTTGAAAAGGA | 59.140 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2205 | 3324 | 0.261991 | TCCGGGCTTCTAGATCCACT | 59.738 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2212 | 3331 | 4.263243 | GGGCTTCTAGATCCACTAATGCAT | 60.263 | 45.833 | 12.10 | 0.00 | 0.00 | 3.96 |
2222 | 3341 | 7.400439 | AGATCCACTAATGCATGCAACTATAT | 58.600 | 34.615 | 26.68 | 12.23 | 0.00 | 0.86 |
2274 | 3719 | 2.363172 | GGGGAGGAAGAAGCTCGCT | 61.363 | 63.158 | 0.00 | 0.00 | 0.00 | 4.93 |
2279 | 3724 | 1.672356 | GGAAGAAGCTCGCTGGCAA | 60.672 | 57.895 | 0.00 | 0.00 | 34.17 | 4.52 |
2385 | 3830 | 1.369321 | CGAGGCTAGAGGAATGGCC | 59.631 | 63.158 | 0.00 | 0.00 | 46.63 | 5.36 |
2389 | 3834 | 1.453669 | GCTAGAGGAATGGCCAGGG | 59.546 | 63.158 | 13.05 | 0.00 | 40.02 | 4.45 |
2430 | 3875 | 3.412408 | GGAGGTTGAGGGGAGGGC | 61.412 | 72.222 | 0.00 | 0.00 | 0.00 | 5.19 |
2530 | 3975 | 3.055094 | GCTGGAGGTAGATGAACAGGAAA | 60.055 | 47.826 | 0.00 | 0.00 | 0.00 | 3.13 |
2556 | 4001 | 3.963428 | TCAGAGGTGGAAGAAAGCTAC | 57.037 | 47.619 | 0.00 | 0.00 | 0.00 | 3.58 |
2557 | 4002 | 2.567615 | TCAGAGGTGGAAGAAAGCTACC | 59.432 | 50.000 | 0.00 | 0.00 | 37.18 | 3.18 |
2568 | 4016 | 2.500098 | AGAAAGCTACCCGTTGCATCTA | 59.500 | 45.455 | 4.18 | 0.00 | 31.98 | 1.98 |
2641 | 4089 | 1.024536 | TACCCCTAGCCTCTCCCTTT | 58.975 | 55.000 | 0.00 | 0.00 | 0.00 | 3.11 |
2649 | 4097 | 3.147553 | AGCCTCTCCCTTTTTCTCAAC | 57.852 | 47.619 | 0.00 | 0.00 | 0.00 | 3.18 |
2753 | 4202 | 6.253013 | GTTTGCTTTAGTGTTTGTAGTCGTT | 58.747 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2769 | 4218 | 0.179145 | CGTTGCTAGGTGGTCTACGG | 60.179 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2783 | 4232 | 4.957954 | TGGTCTACGGATGTAGGTGTAATT | 59.042 | 41.667 | 2.88 | 0.00 | 46.65 | 1.40 |
2824 | 4273 | 6.374053 | TGTTCGTGGTAATGTCATGATTGAAT | 59.626 | 34.615 | 0.00 | 0.00 | 32.48 | 2.57 |
2826 | 4275 | 8.559536 | GTTCGTGGTAATGTCATGATTGAATAT | 58.440 | 33.333 | 0.00 | 0.00 | 32.48 | 1.28 |
2886 | 4335 | 4.332186 | CATTGAGAATGTTCCAGTGACG | 57.668 | 45.455 | 0.00 | 0.00 | 34.18 | 4.35 |
2895 | 4344 | 0.944311 | TTCCAGTGACGCGAAAGAGC | 60.944 | 55.000 | 15.93 | 0.00 | 0.00 | 4.09 |
2912 | 4361 | 6.346120 | CGAAAGAGCATATTTGATACTGGTCG | 60.346 | 42.308 | 0.00 | 0.00 | 40.19 | 4.79 |
2953 | 4402 | 1.839354 | TCCACCAATGCTGCATCTCTA | 59.161 | 47.619 | 16.55 | 0.00 | 0.00 | 2.43 |
2972 | 4421 | 8.523658 | CATCTCTATGACGGGAAAGAACATATA | 58.476 | 37.037 | 0.00 | 0.00 | 34.84 | 0.86 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
175 | 180 | 4.377897 | ACGATCGAAGGAAAAACAACTCT | 58.622 | 39.130 | 24.34 | 0.00 | 0.00 | 3.24 |
203 | 208 | 4.177026 | ACTAGCACATTCGTGTTCTGATC | 58.823 | 43.478 | 0.00 | 0.00 | 45.50 | 2.92 |
207 | 212 | 2.228103 | TCGACTAGCACATTCGTGTTCT | 59.772 | 45.455 | 0.00 | 0.00 | 45.50 | 3.01 |
214 | 219 | 2.120232 | CCATCGTCGACTAGCACATTC | 58.880 | 52.381 | 14.70 | 0.00 | 0.00 | 2.67 |
217 | 222 | 1.138883 | GCCATCGTCGACTAGCACA | 59.861 | 57.895 | 14.70 | 0.00 | 0.00 | 4.57 |
246 | 251 | 3.238108 | ACATCTCTCGTGTCATTGTCC | 57.762 | 47.619 | 0.00 | 0.00 | 0.00 | 4.02 |
252 | 257 | 2.135139 | GTTGCAACATCTCTCGTGTCA | 58.865 | 47.619 | 24.52 | 0.00 | 0.00 | 3.58 |
304 | 309 | 1.142262 | TCACCATGGATGCATCTCTGG | 59.858 | 52.381 | 30.28 | 30.28 | 35.70 | 3.86 |
332 | 337 | 1.168714 | GGAGCACAACTGAATCCCAC | 58.831 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
342 | 347 | 1.303317 | ACCGGGATTGGAGCACAAC | 60.303 | 57.895 | 6.32 | 0.00 | 42.94 | 3.32 |
344 | 349 | 2.350895 | CACCGGGATTGGAGCACA | 59.649 | 61.111 | 6.32 | 0.00 | 0.00 | 4.57 |
350 | 361 | 1.691337 | TCCCTACCACCGGGATTGG | 60.691 | 63.158 | 6.32 | 7.32 | 45.67 | 3.16 |
363 | 374 | 3.341629 | ACGAGGTCCCCGTCCCTA | 61.342 | 66.667 | 0.00 | 0.00 | 34.97 | 3.53 |
390 | 401 | 2.961768 | GTTTGTGGACATGCCCGG | 59.038 | 61.111 | 0.00 | 0.00 | 34.97 | 5.73 |
401 | 412 | 3.905678 | TTTGCCCCGCCGTTTGTG | 61.906 | 61.111 | 0.00 | 0.00 | 0.00 | 3.33 |
507 | 519 | 2.225963 | GTCGTCTTCTTTCTCACTCCGA | 59.774 | 50.000 | 0.00 | 0.00 | 0.00 | 4.55 |
509 | 521 | 3.644884 | TGTCGTCTTCTTTCTCACTCC | 57.355 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
517 | 529 | 3.194542 | CCTCTCTCCATGTCGTCTTCTTT | 59.805 | 47.826 | 0.00 | 0.00 | 0.00 | 2.52 |
533 | 545 | 3.969466 | TCTGATCCTCATGTCCTCTCT | 57.031 | 47.619 | 0.00 | 0.00 | 0.00 | 3.10 |
539 | 551 | 5.010922 | AGCTGTTAGATCTGATCCTCATGTC | 59.989 | 44.000 | 13.83 | 0.00 | 0.00 | 3.06 |
540 | 552 | 4.900652 | AGCTGTTAGATCTGATCCTCATGT | 59.099 | 41.667 | 13.83 | 0.00 | 0.00 | 3.21 |
541 | 553 | 5.471556 | AGCTGTTAGATCTGATCCTCATG | 57.528 | 43.478 | 13.83 | 4.07 | 0.00 | 3.07 |
542 | 554 | 5.480073 | GGTAGCTGTTAGATCTGATCCTCAT | 59.520 | 44.000 | 13.83 | 0.00 | 0.00 | 2.90 |
543 | 555 | 4.830046 | GGTAGCTGTTAGATCTGATCCTCA | 59.170 | 45.833 | 13.83 | 9.66 | 0.00 | 3.86 |
559 | 571 | 3.062763 | CGATTTAGCCATCTGGTAGCTG | 58.937 | 50.000 | 0.00 | 0.00 | 37.45 | 4.24 |
563 | 575 | 2.801699 | CGTGCGATTTAGCCATCTGGTA | 60.802 | 50.000 | 0.00 | 0.00 | 37.57 | 3.25 |
564 | 576 | 1.668419 | GTGCGATTTAGCCATCTGGT | 58.332 | 50.000 | 0.00 | 0.00 | 37.57 | 4.00 |
568 | 580 | 0.657840 | AAGCGTGCGATTTAGCCATC | 59.342 | 50.000 | 0.00 | 0.00 | 36.02 | 3.51 |
581 | 593 | 2.802667 | CGATCGGCCTTCAAGCGTG | 61.803 | 63.158 | 7.38 | 0.00 | 0.00 | 5.34 |
603 | 615 | 2.503809 | CGCGTCGCCCCAAATTTG | 60.504 | 61.111 | 12.44 | 11.40 | 0.00 | 2.32 |
631 | 643 | 1.839424 | ATTGGTCTAAAGGGCAGTGC | 58.161 | 50.000 | 6.55 | 6.55 | 0.00 | 4.40 |
657 | 669 | 9.998106 | GGAACTTTAGATTATCTTAGCCATGTA | 57.002 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
658 | 670 | 7.939588 | GGGAACTTTAGATTATCTTAGCCATGT | 59.060 | 37.037 | 0.00 | 0.00 | 0.00 | 3.21 |
690 | 1783 | 5.577100 | ACGGAGGGAGTAGTATATGCATAA | 58.423 | 41.667 | 11.13 | 0.00 | 0.00 | 1.90 |
694 | 1787 | 4.523558 | AGAAACGGAGGGAGTAGTATATGC | 59.476 | 45.833 | 0.00 | 0.00 | 0.00 | 3.14 |
699 | 1792 | 8.773033 | AATATTTAGAAACGGAGGGAGTAGTA | 57.227 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
704 | 1797 | 7.048512 | AGACAAATATTTAGAAACGGAGGGAG | 58.951 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
705 | 1798 | 6.954232 | AGACAAATATTTAGAAACGGAGGGA | 58.046 | 36.000 | 0.00 | 0.00 | 0.00 | 4.20 |
706 | 1799 | 7.625828 | AAGACAAATATTTAGAAACGGAGGG | 57.374 | 36.000 | 0.00 | 0.00 | 0.00 | 4.30 |
707 | 1800 | 8.947115 | AGAAAGACAAATATTTAGAAACGGAGG | 58.053 | 33.333 | 0.00 | 0.00 | 0.00 | 4.30 |
727 | 1820 | 8.807118 | AGTAGTCATGTGAAATGTCTAGAAAGA | 58.193 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
728 | 1821 | 8.994429 | AGTAGTCATGTGAAATGTCTAGAAAG | 57.006 | 34.615 | 0.00 | 0.00 | 0.00 | 2.62 |
729 | 1822 | 9.856488 | GTAGTAGTCATGTGAAATGTCTAGAAA | 57.144 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
730 | 1823 | 9.020731 | TGTAGTAGTCATGTGAAATGTCTAGAA | 57.979 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
731 | 1824 | 8.575649 | TGTAGTAGTCATGTGAAATGTCTAGA | 57.424 | 34.615 | 0.00 | 0.00 | 0.00 | 2.43 |
734 | 1827 | 7.915923 | CGTATGTAGTAGTCATGTGAAATGTCT | 59.084 | 37.037 | 0.00 | 0.00 | 0.00 | 3.41 |
735 | 1828 | 7.167635 | CCGTATGTAGTAGTCATGTGAAATGTC | 59.832 | 40.741 | 0.00 | 0.00 | 0.00 | 3.06 |
736 | 1829 | 6.978659 | CCGTATGTAGTAGTCATGTGAAATGT | 59.021 | 38.462 | 0.00 | 0.00 | 0.00 | 2.71 |
737 | 1830 | 7.200455 | TCCGTATGTAGTAGTCATGTGAAATG | 58.800 | 38.462 | 0.00 | 0.00 | 0.00 | 2.32 |
738 | 1831 | 7.342769 | TCCGTATGTAGTAGTCATGTGAAAT | 57.657 | 36.000 | 0.00 | 0.00 | 0.00 | 2.17 |
739 | 1832 | 6.762702 | TCCGTATGTAGTAGTCATGTGAAA | 57.237 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
740 | 1833 | 6.320418 | ACATCCGTATGTAGTAGTCATGTGAA | 59.680 | 38.462 | 0.00 | 0.00 | 44.66 | 3.18 |
741 | 1834 | 5.826208 | ACATCCGTATGTAGTAGTCATGTGA | 59.174 | 40.000 | 0.00 | 0.00 | 44.66 | 3.58 |
742 | 1835 | 6.073327 | ACATCCGTATGTAGTAGTCATGTG | 57.927 | 41.667 | 0.00 | 0.00 | 44.66 | 3.21 |
784 | 1877 | 7.141363 | ACAAAGCAAAATGAGTGAATCTACAC | 58.859 | 34.615 | 0.00 | 0.00 | 40.60 | 2.90 |
785 | 1878 | 7.275888 | ACAAAGCAAAATGAGTGAATCTACA | 57.724 | 32.000 | 0.00 | 0.00 | 0.00 | 2.74 |
786 | 1879 | 9.282247 | CATACAAAGCAAAATGAGTGAATCTAC | 57.718 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
787 | 1880 | 9.013229 | ACATACAAAGCAAAATGAGTGAATCTA | 57.987 | 29.630 | 0.00 | 0.00 | 0.00 | 1.98 |
788 | 1881 | 7.889469 | ACATACAAAGCAAAATGAGTGAATCT | 58.111 | 30.769 | 0.00 | 0.00 | 0.00 | 2.40 |
789 | 1882 | 9.282247 | CTACATACAAAGCAAAATGAGTGAATC | 57.718 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
790 | 1883 | 8.796475 | ACTACATACAAAGCAAAATGAGTGAAT | 58.204 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
791 | 1884 | 8.165239 | ACTACATACAAAGCAAAATGAGTGAA | 57.835 | 30.769 | 0.00 | 0.00 | 0.00 | 3.18 |
792 | 1885 | 7.443879 | TGACTACATACAAAGCAAAATGAGTGA | 59.556 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
793 | 1886 | 7.535258 | GTGACTACATACAAAGCAAAATGAGTG | 59.465 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
794 | 1887 | 7.445402 | AGTGACTACATACAAAGCAAAATGAGT | 59.555 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
795 | 1888 | 7.810658 | AGTGACTACATACAAAGCAAAATGAG | 58.189 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
796 | 1889 | 7.744087 | AGTGACTACATACAAAGCAAAATGA | 57.256 | 32.000 | 0.00 | 0.00 | 0.00 | 2.57 |
797 | 1890 | 7.862372 | ACAAGTGACTACATACAAAGCAAAATG | 59.138 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
798 | 1891 | 7.940850 | ACAAGTGACTACATACAAAGCAAAAT | 58.059 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
799 | 1892 | 7.328277 | ACAAGTGACTACATACAAAGCAAAA | 57.672 | 32.000 | 0.00 | 0.00 | 0.00 | 2.44 |
800 | 1893 | 6.935741 | ACAAGTGACTACATACAAAGCAAA | 57.064 | 33.333 | 0.00 | 0.00 | 0.00 | 3.68 |
801 | 1894 | 6.540551 | TCAACAAGTGACTACATACAAAGCAA | 59.459 | 34.615 | 0.00 | 0.00 | 0.00 | 3.91 |
802 | 1895 | 6.052360 | TCAACAAGTGACTACATACAAAGCA | 58.948 | 36.000 | 0.00 | 0.00 | 0.00 | 3.91 |
803 | 1896 | 6.539649 | TCAACAAGTGACTACATACAAAGC | 57.460 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
806 | 1899 | 8.995220 | GGTATTTCAACAAGTGACTACATACAA | 58.005 | 33.333 | 0.00 | 0.00 | 35.39 | 2.41 |
807 | 1900 | 8.372459 | AGGTATTTCAACAAGTGACTACATACA | 58.628 | 33.333 | 0.00 | 0.00 | 35.39 | 2.29 |
808 | 1901 | 8.773404 | AGGTATTTCAACAAGTGACTACATAC | 57.227 | 34.615 | 0.00 | 0.00 | 35.39 | 2.39 |
810 | 1903 | 8.812972 | TCTAGGTATTTCAACAAGTGACTACAT | 58.187 | 33.333 | 0.00 | 0.00 | 35.39 | 2.29 |
811 | 1904 | 8.185506 | TCTAGGTATTTCAACAAGTGACTACA | 57.814 | 34.615 | 0.00 | 0.00 | 35.39 | 2.74 |
812 | 1905 | 9.485206 | TTTCTAGGTATTTCAACAAGTGACTAC | 57.515 | 33.333 | 0.00 | 0.00 | 35.39 | 2.73 |
813 | 1906 | 9.706691 | CTTTCTAGGTATTTCAACAAGTGACTA | 57.293 | 33.333 | 0.00 | 0.00 | 35.39 | 2.59 |
814 | 1907 | 8.429641 | TCTTTCTAGGTATTTCAACAAGTGACT | 58.570 | 33.333 | 0.00 | 0.00 | 35.39 | 3.41 |
815 | 1908 | 8.496751 | GTCTTTCTAGGTATTTCAACAAGTGAC | 58.503 | 37.037 | 0.00 | 0.00 | 35.39 | 3.67 |
816 | 1909 | 8.208224 | TGTCTTTCTAGGTATTTCAACAAGTGA | 58.792 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
817 | 1910 | 8.378172 | TGTCTTTCTAGGTATTTCAACAAGTG | 57.622 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
818 | 1911 | 8.974060 | TTGTCTTTCTAGGTATTTCAACAAGT | 57.026 | 30.769 | 0.00 | 0.00 | 0.00 | 3.16 |
819 | 1912 | 9.057089 | ACTTGTCTTTCTAGGTATTTCAACAAG | 57.943 | 33.333 | 0.00 | 0.00 | 43.26 | 3.16 |
820 | 1913 | 8.974060 | ACTTGTCTTTCTAGGTATTTCAACAA | 57.026 | 30.769 | 0.00 | 0.00 | 0.00 | 2.83 |
830 | 1923 | 8.041919 | GCTTCCTAAATACTTGTCTTTCTAGGT | 58.958 | 37.037 | 0.00 | 0.00 | 0.00 | 3.08 |
831 | 1924 | 7.222999 | CGCTTCCTAAATACTTGTCTTTCTAGG | 59.777 | 40.741 | 0.00 | 0.00 | 0.00 | 3.02 |
832 | 1925 | 7.222999 | CCGCTTCCTAAATACTTGTCTTTCTAG | 59.777 | 40.741 | 0.00 | 0.00 | 0.00 | 2.43 |
833 | 1926 | 7.039882 | CCGCTTCCTAAATACTTGTCTTTCTA | 58.960 | 38.462 | 0.00 | 0.00 | 0.00 | 2.10 |
834 | 1927 | 5.875359 | CCGCTTCCTAAATACTTGTCTTTCT | 59.125 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
835 | 1928 | 5.873164 | TCCGCTTCCTAAATACTTGTCTTTC | 59.127 | 40.000 | 0.00 | 0.00 | 0.00 | 2.62 |
836 | 1929 | 5.801380 | TCCGCTTCCTAAATACTTGTCTTT | 58.199 | 37.500 | 0.00 | 0.00 | 0.00 | 2.52 |
837 | 1930 | 5.416271 | TCCGCTTCCTAAATACTTGTCTT | 57.584 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
838 | 1931 | 4.141914 | CCTCCGCTTCCTAAATACTTGTCT | 60.142 | 45.833 | 0.00 | 0.00 | 0.00 | 3.41 |
839 | 1932 | 4.120589 | CCTCCGCTTCCTAAATACTTGTC | 58.879 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
840 | 1933 | 3.118371 | CCCTCCGCTTCCTAAATACTTGT | 60.118 | 47.826 | 0.00 | 0.00 | 0.00 | 3.16 |
841 | 1934 | 3.134081 | TCCCTCCGCTTCCTAAATACTTG | 59.866 | 47.826 | 0.00 | 0.00 | 0.00 | 3.16 |
842 | 1935 | 3.381335 | TCCCTCCGCTTCCTAAATACTT | 58.619 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
843 | 1936 | 2.966516 | CTCCCTCCGCTTCCTAAATACT | 59.033 | 50.000 | 0.00 | 0.00 | 0.00 | 2.12 |
844 | 1937 | 2.699321 | ACTCCCTCCGCTTCCTAAATAC | 59.301 | 50.000 | 0.00 | 0.00 | 0.00 | 1.89 |
845 | 1938 | 3.042059 | ACTCCCTCCGCTTCCTAAATA | 57.958 | 47.619 | 0.00 | 0.00 | 0.00 | 1.40 |
846 | 1939 | 1.880941 | ACTCCCTCCGCTTCCTAAAT | 58.119 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
847 | 1940 | 2.292061 | ACTACTCCCTCCGCTTCCTAAA | 60.292 | 50.000 | 0.00 | 0.00 | 0.00 | 1.85 |
848 | 1941 | 1.287146 | ACTACTCCCTCCGCTTCCTAA | 59.713 | 52.381 | 0.00 | 0.00 | 0.00 | 2.69 |
849 | 1942 | 0.924823 | ACTACTCCCTCCGCTTCCTA | 59.075 | 55.000 | 0.00 | 0.00 | 0.00 | 2.94 |
850 | 1943 | 0.684805 | CACTACTCCCTCCGCTTCCT | 60.685 | 60.000 | 0.00 | 0.00 | 0.00 | 3.36 |
851 | 1944 | 1.677637 | CCACTACTCCCTCCGCTTCC | 61.678 | 65.000 | 0.00 | 0.00 | 0.00 | 3.46 |
852 | 1945 | 0.683504 | TCCACTACTCCCTCCGCTTC | 60.684 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
853 | 1946 | 0.684805 | CTCCACTACTCCCTCCGCTT | 60.685 | 60.000 | 0.00 | 0.00 | 0.00 | 4.68 |
854 | 1947 | 1.076632 | CTCCACTACTCCCTCCGCT | 60.077 | 63.158 | 0.00 | 0.00 | 0.00 | 5.52 |
855 | 1948 | 0.106819 | TACTCCACTACTCCCTCCGC | 60.107 | 60.000 | 0.00 | 0.00 | 0.00 | 5.54 |
856 | 1949 | 2.106857 | AGATACTCCACTACTCCCTCCG | 59.893 | 54.545 | 0.00 | 0.00 | 0.00 | 4.63 |
857 | 1950 | 3.492337 | CAGATACTCCACTACTCCCTCC | 58.508 | 54.545 | 0.00 | 0.00 | 0.00 | 4.30 |
858 | 1951 | 2.888414 | GCAGATACTCCACTACTCCCTC | 59.112 | 54.545 | 0.00 | 0.00 | 0.00 | 4.30 |
859 | 1952 | 2.245028 | TGCAGATACTCCACTACTCCCT | 59.755 | 50.000 | 0.00 | 0.00 | 0.00 | 4.20 |
860 | 1953 | 2.667470 | TGCAGATACTCCACTACTCCC | 58.333 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
861 | 1954 | 3.553922 | GCATGCAGATACTCCACTACTCC | 60.554 | 52.174 | 14.21 | 0.00 | 0.00 | 3.85 |
862 | 1955 | 3.553922 | GGCATGCAGATACTCCACTACTC | 60.554 | 52.174 | 21.36 | 0.00 | 0.00 | 2.59 |
863 | 1956 | 2.366916 | GGCATGCAGATACTCCACTACT | 59.633 | 50.000 | 21.36 | 0.00 | 0.00 | 2.57 |
864 | 1957 | 2.366916 | AGGCATGCAGATACTCCACTAC | 59.633 | 50.000 | 21.36 | 0.00 | 0.00 | 2.73 |
865 | 1958 | 2.366590 | CAGGCATGCAGATACTCCACTA | 59.633 | 50.000 | 21.36 | 0.00 | 0.00 | 2.74 |
866 | 1959 | 1.140452 | CAGGCATGCAGATACTCCACT | 59.860 | 52.381 | 21.36 | 0.00 | 0.00 | 4.00 |
877 | 1970 | 1.477700 | GCTGAATAAACCAGGCATGCA | 59.522 | 47.619 | 21.36 | 0.00 | 32.51 | 3.96 |
878 | 1971 | 2.214387 | GCTGAATAAACCAGGCATGC | 57.786 | 50.000 | 9.90 | 9.90 | 32.51 | 4.06 |
1207 | 2300 | 4.451150 | GTCGATGCAGGGTGCCGA | 62.451 | 66.667 | 0.00 | 0.00 | 44.23 | 5.54 |
1209 | 2302 | 4.451150 | TCGTCGATGCAGGGTGCC | 62.451 | 66.667 | 0.00 | 0.00 | 44.23 | 5.01 |
1210 | 2303 | 2.887568 | CTCGTCGATGCAGGGTGC | 60.888 | 66.667 | 0.00 | 0.00 | 45.29 | 5.01 |
1211 | 2304 | 2.887568 | GCTCGTCGATGCAGGGTG | 60.888 | 66.667 | 0.00 | 0.00 | 0.00 | 4.61 |
1212 | 2305 | 3.071206 | AGCTCGTCGATGCAGGGT | 61.071 | 61.111 | 15.71 | 0.00 | 0.00 | 4.34 |
1213 | 2306 | 2.584418 | CAGCTCGTCGATGCAGGG | 60.584 | 66.667 | 15.71 | 4.83 | 0.00 | 4.45 |
1792 | 2891 | 2.553079 | AGAAAGAGCGAGAACTAGCG | 57.447 | 50.000 | 0.00 | 0.00 | 36.30 | 4.26 |
1798 | 2899 | 1.291877 | GCGGCAAGAAAGAGCGAGAA | 61.292 | 55.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1881 | 2996 | 0.591170 | ACCCTGCAAAATCACGTTCG | 59.409 | 50.000 | 0.00 | 0.00 | 0.00 | 3.95 |
1885 | 3000 | 1.080569 | GCCACCCTGCAAAATCACG | 60.081 | 57.895 | 0.00 | 0.00 | 0.00 | 4.35 |
2056 | 3174 | 6.136155 | ACAGGAAAGAATGAAAAGGGAAAGA | 58.864 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2062 | 3180 | 4.083271 | GGACGACAGGAAAGAATGAAAAGG | 60.083 | 45.833 | 0.00 | 0.00 | 0.00 | 3.11 |
2110 | 3229 | 1.228124 | TGTCCTTGGACGCCTTTGG | 60.228 | 57.895 | 14.24 | 0.00 | 0.00 | 3.28 |
2132 | 3251 | 4.942852 | TCGACTCCATTTTGCAACAAATT | 58.057 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
2141 | 3260 | 5.339990 | ACAACAAAACTCGACTCCATTTTG | 58.660 | 37.500 | 6.72 | 6.72 | 44.11 | 2.44 |
2142 | 3261 | 5.576447 | ACAACAAAACTCGACTCCATTTT | 57.424 | 34.783 | 0.00 | 0.00 | 0.00 | 1.82 |
2143 | 3262 | 5.576447 | AACAACAAAACTCGACTCCATTT | 57.424 | 34.783 | 0.00 | 0.00 | 0.00 | 2.32 |
2144 | 3263 | 5.124776 | TCAAACAACAAAACTCGACTCCATT | 59.875 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2152 | 3271 | 6.698359 | TTCCTTTTCAAACAACAAAACTCG | 57.302 | 33.333 | 0.00 | 0.00 | 0.00 | 4.18 |
2189 | 3308 | 3.071602 | TGCATTAGTGGATCTAGAAGCCC | 59.928 | 47.826 | 11.31 | 7.24 | 0.00 | 5.19 |
2274 | 3719 | 0.183492 | GATGATGGGGTAGCTTGCCA | 59.817 | 55.000 | 8.92 | 0.00 | 0.00 | 4.92 |
2279 | 3724 | 5.276440 | CCTAAGATAGATGATGGGGTAGCT | 58.724 | 45.833 | 0.00 | 0.00 | 0.00 | 3.32 |
2327 | 3772 | 3.276846 | GCGAACTTGCACCACCGT | 61.277 | 61.111 | 0.00 | 0.00 | 34.15 | 4.83 |
2332 | 3777 | 3.423154 | CTCCGGCGAACTTGCACC | 61.423 | 66.667 | 9.30 | 0.00 | 36.28 | 5.01 |
2364 | 3809 | 1.402896 | CCATTCCTCTAGCCTCGGCA | 61.403 | 60.000 | 11.02 | 0.00 | 44.88 | 5.69 |
2368 | 3813 | 0.396060 | CTGGCCATTCCTCTAGCCTC | 59.604 | 60.000 | 5.51 | 0.00 | 45.94 | 4.70 |
2430 | 3875 | 2.125912 | CGTTGCCTCACCTCCTCG | 60.126 | 66.667 | 0.00 | 0.00 | 0.00 | 4.63 |
2471 | 3916 | 4.941309 | ACAACCACCGGCCGAACC | 62.941 | 66.667 | 30.73 | 0.00 | 0.00 | 3.62 |
2472 | 3917 | 3.656045 | CACAACCACCGGCCGAAC | 61.656 | 66.667 | 30.73 | 0.00 | 0.00 | 3.95 |
2473 | 3918 | 4.939368 | CCACAACCACCGGCCGAA | 62.939 | 66.667 | 30.73 | 0.00 | 0.00 | 4.30 |
2475 | 3920 | 4.939368 | TTCCACAACCACCGGCCG | 62.939 | 66.667 | 21.04 | 21.04 | 0.00 | 6.13 |
2476 | 3921 | 2.969300 | TTCTTCCACAACCACCGGCC | 62.969 | 60.000 | 0.00 | 0.00 | 0.00 | 6.13 |
2477 | 3922 | 1.515521 | CTTCTTCCACAACCACCGGC | 61.516 | 60.000 | 0.00 | 0.00 | 0.00 | 6.13 |
2478 | 3923 | 0.107831 | TCTTCTTCCACAACCACCGG | 59.892 | 55.000 | 0.00 | 0.00 | 0.00 | 5.28 |
2530 | 3975 | 4.455606 | CTTTCTTCCACCTCTGAACAGTT | 58.544 | 43.478 | 1.73 | 0.00 | 0.00 | 3.16 |
2556 | 4001 | 0.104120 | TCGGATGTAGATGCAACGGG | 59.896 | 55.000 | 0.00 | 0.00 | 0.00 | 5.28 |
2557 | 4002 | 1.860950 | CTTCGGATGTAGATGCAACGG | 59.139 | 52.381 | 0.00 | 0.00 | 0.00 | 4.44 |
2568 | 4016 | 1.094785 | CATTTTCGGCCTTCGGATGT | 58.905 | 50.000 | 0.00 | 0.00 | 39.77 | 3.06 |
2641 | 4089 | 7.041440 | TCGCTTGACTTCAATAATGTTGAGAAA | 60.041 | 33.333 | 0.00 | 0.00 | 35.02 | 2.52 |
2649 | 4097 | 4.944962 | TGGTCGCTTGACTTCAATAATG | 57.055 | 40.909 | 0.00 | 0.00 | 42.47 | 1.90 |
2719 | 4168 | 8.596380 | CAAACACTAAAGCAAACCGAATAAAAA | 58.404 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
2720 | 4169 | 7.760340 | ACAAACACTAAAGCAAACCGAATAAAA | 59.240 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
2721 | 4170 | 7.259161 | ACAAACACTAAAGCAAACCGAATAAA | 58.741 | 30.769 | 0.00 | 0.00 | 0.00 | 1.40 |
2730 | 4179 | 6.252281 | CAACGACTACAAACACTAAAGCAAA | 58.748 | 36.000 | 0.00 | 0.00 | 0.00 | 3.68 |
2732 | 4181 | 4.260456 | GCAACGACTACAAACACTAAAGCA | 60.260 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
2734 | 4183 | 5.652744 | AGCAACGACTACAAACACTAAAG | 57.347 | 39.130 | 0.00 | 0.00 | 0.00 | 1.85 |
2753 | 4202 | 1.341679 | ACATCCGTAGACCACCTAGCA | 60.342 | 52.381 | 0.00 | 0.00 | 0.00 | 3.49 |
2875 | 4324 | 0.784778 | CTCTTTCGCGTCACTGGAAC | 59.215 | 55.000 | 5.77 | 0.00 | 0.00 | 3.62 |
2878 | 4327 | 1.016130 | ATGCTCTTTCGCGTCACTGG | 61.016 | 55.000 | 5.77 | 0.00 | 0.00 | 4.00 |
2880 | 4329 | 2.586258 | ATATGCTCTTTCGCGTCACT | 57.414 | 45.000 | 5.77 | 0.00 | 0.00 | 3.41 |
2886 | 4335 | 5.237344 | ACCAGTATCAAATATGCTCTTTCGC | 59.763 | 40.000 | 0.00 | 0.00 | 0.00 | 4.70 |
2895 | 4344 | 5.755375 | AGTCAAGCGACCAGTATCAAATATG | 59.245 | 40.000 | 0.00 | 0.00 | 43.73 | 1.78 |
2912 | 4361 | 8.078596 | GGTGGATCATTATTATTGAAGTCAAGC | 58.921 | 37.037 | 0.00 | 0.00 | 39.47 | 4.01 |
![](/static/images/cyverse_long.png)
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.