Multiple sequence alignment - TraesCS7A01G071000
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 | TraesCS7A01G071000 | chr7A | 100.000 | 4463 | 0 | 0 | 1 | 4463 | 36647655 | 36652117 | 0.000000e+00 | 8242.0 |
1 | TraesCS7A01G071000 | chr7D | 91.524 | 3858 | 241 | 41 | 370 | 4174 | 36993560 | 36997384 | 0.000000e+00 | 5234.0 |
2 | TraesCS7A01G071000 | chr7D | 92.027 | 301 | 19 | 4 | 1 | 298 | 36993242 | 36993540 | 6.900000e-113 | 418.0 |
3 | TraesCS7A01G071000 | chr4A | 87.307 | 4136 | 375 | 73 | 94 | 4170 | 689352866 | 689356910 | 0.000000e+00 | 4591.0 |
4 | TraesCS7A01G071000 | chr4A | 94.340 | 106 | 5 | 1 | 4356 | 4460 | 689357167 | 689357272 | 1.280000e-35 | 161.0 |
5 | TraesCS7A01G071000 | chr4A | 96.364 | 55 | 2 | 0 | 12 | 66 | 689352815 | 689352869 | 1.710000e-14 | 91.6 |
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 | TraesCS7A01G071000 | chr7A | 36647655 | 36652117 | 4462 | False | 8242.000000 | 8242 | 100.000000 | 1 | 4463 | 1 | chr7A.!!$F1 | 4462 |
1 | TraesCS7A01G071000 | chr7D | 36993242 | 36997384 | 4142 | False | 2826.000000 | 5234 | 91.775500 | 1 | 4174 | 2 | chr7D.!!$F1 | 4173 |
2 | TraesCS7A01G071000 | chr4A | 689352815 | 689357272 | 4457 | False | 1614.533333 | 4591 | 92.670333 | 12 | 4460 | 3 | chr4A.!!$F1 | 4448 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
882 | 942 | 0.033503 | TATGGAGCCTCGTGGTCTCA | 60.034 | 55.0 | 21.30 | 11.57 | 41.34 | 3.27 | F |
942 | 1003 | 0.535335 | TATTCGTGGGACAGACTGCC | 59.465 | 55.0 | 1.25 | 4.89 | 41.80 | 4.85 | F |
2322 | 2408 | 0.757188 | CCTCCCTCGTGCTCACCTAT | 60.757 | 60.0 | 0.00 | 0.00 | 0.00 | 2.57 | F |
2721 | 2810 | 0.176449 | TGCTCATCATCTGGGACACG | 59.824 | 55.0 | 0.00 | 0.00 | 0.00 | 4.49 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1896 | 1981 | 0.179089 | ATGAGGATCGCTGCAGACAC | 60.179 | 55.0 | 20.43 | 4.99 | 38.61 | 3.67 | R |
2614 | 2703 | 0.389391 | ATGTCCTTACCATCGCCGAG | 59.611 | 55.0 | 0.00 | 0.00 | 0.00 | 4.63 | R |
3352 | 3447 | 0.170561 | TCGTAGAAGCCGAGCAGAAC | 59.829 | 55.0 | 0.00 | 0.00 | 0.00 | 3.01 | R |
3615 | 3710 | 0.745845 | AGCTTACCTTCCGCAGCATG | 60.746 | 55.0 | 0.00 | 0.00 | 40.87 | 4.06 | 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 |
---|---|---|---|---|---|---|---|---|---|
75 | 76 | 4.332828 | GGTCACCTGCTTTAATACAAGGT | 58.667 | 43.478 | 0.00 | 0.00 | 0.00 | 3.50 |
115 | 118 | 6.780031 | TCCCTTTGGAAAAATCAACAGACATA | 59.220 | 34.615 | 0.00 | 0.00 | 37.86 | 2.29 |
181 | 184 | 6.198650 | TCAAAATGATCGTGCATGAAGAAT | 57.801 | 33.333 | 13.65 | 4.21 | 0.00 | 2.40 |
225 | 228 | 1.133853 | AGGATGGGATTGCTGAAGAGC | 60.134 | 52.381 | 0.00 | 0.00 | 46.44 | 4.09 |
303 | 306 | 7.862648 | TGCTACGATGAAGTATAAGTAGTCTG | 58.137 | 38.462 | 0.00 | 0.00 | 34.84 | 3.51 |
309 | 312 | 7.115520 | CGATGAAGTATAAGTAGTCTGCATTGG | 59.884 | 40.741 | 0.00 | 0.00 | 0.00 | 3.16 |
311 | 314 | 6.382859 | TGAAGTATAAGTAGTCTGCATTGGGA | 59.617 | 38.462 | 0.00 | 0.00 | 0.00 | 4.37 |
320 | 323 | 0.620556 | CTGCATTGGGACTACAGGGT | 59.379 | 55.000 | 0.00 | 0.00 | 0.00 | 4.34 |
321 | 324 | 0.327924 | TGCATTGGGACTACAGGGTG | 59.672 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
324 | 327 | 2.817839 | GCATTGGGACTACAGGGTGTTT | 60.818 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
325 | 328 | 2.943036 | TTGGGACTACAGGGTGTTTC | 57.057 | 50.000 | 0.00 | 0.00 | 0.00 | 2.78 |
326 | 329 | 1.061546 | TGGGACTACAGGGTGTTTCC | 58.938 | 55.000 | 0.00 | 0.00 | 33.10 | 3.13 |
327 | 330 | 1.061546 | GGGACTACAGGGTGTTTCCA | 58.938 | 55.000 | 8.77 | 0.00 | 34.64 | 3.53 |
328 | 331 | 1.271217 | GGGACTACAGGGTGTTTCCAC | 60.271 | 57.143 | 8.77 | 0.00 | 41.06 | 4.02 |
329 | 332 | 1.697982 | GGACTACAGGGTGTTTCCACT | 59.302 | 52.381 | 0.00 | 0.00 | 41.53 | 4.00 |
330 | 333 | 2.105993 | GGACTACAGGGTGTTTCCACTT | 59.894 | 50.000 | 0.00 | 0.00 | 41.53 | 3.16 |
332 | 335 | 3.813724 | GACTACAGGGTGTTTCCACTTTC | 59.186 | 47.826 | 0.00 | 0.00 | 41.53 | 2.62 |
333 | 336 | 2.067365 | ACAGGGTGTTTCCACTTTCC | 57.933 | 50.000 | 0.00 | 0.00 | 41.53 | 3.13 |
334 | 337 | 1.286553 | ACAGGGTGTTTCCACTTTCCA | 59.713 | 47.619 | 0.00 | 0.00 | 41.53 | 3.53 |
335 | 338 | 1.956477 | CAGGGTGTTTCCACTTTCCAG | 59.044 | 52.381 | 0.00 | 0.00 | 41.53 | 3.86 |
336 | 339 | 1.569072 | AGGGTGTTTCCACTTTCCAGT | 59.431 | 47.619 | 0.00 | 0.00 | 41.53 | 4.00 |
337 | 340 | 2.781174 | AGGGTGTTTCCACTTTCCAGTA | 59.219 | 45.455 | 0.00 | 0.00 | 41.53 | 2.74 |
338 | 341 | 3.146847 | GGGTGTTTCCACTTTCCAGTAG | 58.853 | 50.000 | 0.00 | 0.00 | 41.53 | 2.57 |
339 | 342 | 3.434596 | GGGTGTTTCCACTTTCCAGTAGT | 60.435 | 47.826 | 0.00 | 0.00 | 41.53 | 2.73 |
340 | 343 | 3.564225 | GGTGTTTCCACTTTCCAGTAGTG | 59.436 | 47.826 | 0.00 | 0.00 | 41.53 | 2.74 |
341 | 344 | 3.003378 | GTGTTTCCACTTTCCAGTAGTGC | 59.997 | 47.826 | 0.00 | 0.00 | 41.28 | 4.40 |
342 | 345 | 2.552743 | GTTTCCACTTTCCAGTAGTGCC | 59.447 | 50.000 | 0.00 | 0.00 | 41.28 | 5.01 |
343 | 346 | 1.429930 | TCCACTTTCCAGTAGTGCCA | 58.570 | 50.000 | 0.00 | 0.00 | 41.28 | 4.92 |
356 | 359 | 5.880332 | CCAGTAGTGCCAATGTAATAACACT | 59.120 | 40.000 | 0.00 | 0.00 | 38.78 | 3.55 |
389 | 403 | 3.064545 | GGAGCTACAACATGATTGCACTC | 59.935 | 47.826 | 0.00 | 7.99 | 0.00 | 3.51 |
395 | 409 | 4.863491 | ACAACATGATTGCACTCTGTTTC | 58.137 | 39.130 | 14.63 | 0.00 | 0.00 | 2.78 |
485 | 499 | 4.685169 | TGATTTTCTTCGATGAGTTGGC | 57.315 | 40.909 | 0.94 | 0.00 | 0.00 | 4.52 |
486 | 500 | 4.071423 | TGATTTTCTTCGATGAGTTGGCA | 58.929 | 39.130 | 0.94 | 0.00 | 0.00 | 4.92 |
487 | 501 | 3.896648 | TTTTCTTCGATGAGTTGGCAC | 57.103 | 42.857 | 0.94 | 0.00 | 0.00 | 5.01 |
488 | 502 | 2.542020 | TTCTTCGATGAGTTGGCACA | 57.458 | 45.000 | 0.94 | 0.00 | 0.00 | 4.57 |
516 | 534 | 6.942532 | TGCATATTGTATCCTTGTTCTTCC | 57.057 | 37.500 | 0.00 | 0.00 | 0.00 | 3.46 |
586 | 620 | 1.720301 | CAGAATTGAGCAGCGAGGC | 59.280 | 57.895 | 0.00 | 0.00 | 0.00 | 4.70 |
600 | 634 | 4.553156 | GCAGCGAGGCGATATACTATAGAC | 60.553 | 50.000 | 6.78 | 0.00 | 0.00 | 2.59 |
630 | 664 | 4.041723 | TCATATACAGCATGAACGACACG | 58.958 | 43.478 | 0.00 | 0.00 | 39.69 | 4.49 |
638 | 672 | 1.583856 | CATGAACGACACGGAGAATCG | 59.416 | 52.381 | 0.00 | 0.00 | 42.20 | 3.34 |
650 | 684 | 5.105877 | ACACGGAGAATCGAAGACTTCAATA | 60.106 | 40.000 | 15.36 | 0.60 | 42.51 | 1.90 |
651 | 685 | 5.805486 | CACGGAGAATCGAAGACTTCAATAA | 59.195 | 40.000 | 15.36 | 0.00 | 42.51 | 1.40 |
652 | 686 | 6.020281 | CACGGAGAATCGAAGACTTCAATAAG | 60.020 | 42.308 | 15.36 | 0.00 | 42.51 | 1.73 |
653 | 687 | 6.127703 | ACGGAGAATCGAAGACTTCAATAAGA | 60.128 | 38.462 | 15.36 | 4.34 | 42.51 | 2.10 |
654 | 688 | 6.416455 | CGGAGAATCGAAGACTTCAATAAGAG | 59.584 | 42.308 | 15.36 | 0.00 | 42.51 | 2.85 |
655 | 689 | 6.200097 | GGAGAATCGAAGACTTCAATAAGAGC | 59.800 | 42.308 | 15.36 | 1.62 | 42.51 | 4.09 |
656 | 690 | 6.634805 | AGAATCGAAGACTTCAATAAGAGCA | 58.365 | 36.000 | 15.36 | 0.00 | 42.51 | 4.26 |
657 | 691 | 7.099764 | AGAATCGAAGACTTCAATAAGAGCAA | 58.900 | 34.615 | 15.36 | 0.00 | 42.51 | 3.91 |
658 | 692 | 7.768120 | AGAATCGAAGACTTCAATAAGAGCAAT | 59.232 | 33.333 | 15.36 | 0.00 | 42.51 | 3.56 |
659 | 693 | 8.948631 | AATCGAAGACTTCAATAAGAGCAATA | 57.051 | 30.769 | 15.36 | 0.00 | 42.51 | 1.90 |
660 | 694 | 9.553064 | AATCGAAGACTTCAATAAGAGCAATAT | 57.447 | 29.630 | 15.36 | 0.00 | 42.51 | 1.28 |
661 | 695 | 8.357796 | TCGAAGACTTCAATAAGAGCAATATG | 57.642 | 34.615 | 15.36 | 0.00 | 36.50 | 1.78 |
662 | 696 | 7.042456 | TCGAAGACTTCAATAAGAGCAATATGC | 60.042 | 37.037 | 15.36 | 0.00 | 38.77 | 3.14 |
663 | 697 | 7.254556 | CGAAGACTTCAATAAGAGCAATATGCA | 60.255 | 37.037 | 15.36 | 0.00 | 39.99 | 3.96 |
664 | 698 | 7.870509 | AGACTTCAATAAGAGCAATATGCAA | 57.129 | 32.000 | 5.01 | 0.00 | 39.99 | 4.08 |
665 | 699 | 8.284945 | AGACTTCAATAAGAGCAATATGCAAA | 57.715 | 30.769 | 5.01 | 0.00 | 39.99 | 3.68 |
666 | 700 | 8.910944 | AGACTTCAATAAGAGCAATATGCAAAT | 58.089 | 29.630 | 5.01 | 0.00 | 39.99 | 2.32 |
676 | 710 | 5.710513 | GCAATATGCAAATATCCTCCACA | 57.289 | 39.130 | 0.00 | 0.00 | 44.26 | 4.17 |
677 | 711 | 6.276832 | GCAATATGCAAATATCCTCCACAT | 57.723 | 37.500 | 0.00 | 0.00 | 44.26 | 3.21 |
678 | 712 | 6.327934 | GCAATATGCAAATATCCTCCACATC | 58.672 | 40.000 | 0.00 | 0.00 | 44.26 | 3.06 |
679 | 713 | 6.071784 | GCAATATGCAAATATCCTCCACATCA | 60.072 | 38.462 | 0.00 | 0.00 | 44.26 | 3.07 |
680 | 714 | 7.535997 | CAATATGCAAATATCCTCCACATCAG | 58.464 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
701 | 735 | 2.164422 | GGGTGCATTTTAGAAGCTCCAC | 59.836 | 50.000 | 0.00 | 0.00 | 42.15 | 4.02 |
703 | 737 | 3.445096 | GGTGCATTTTAGAAGCTCCACAT | 59.555 | 43.478 | 0.00 | 0.00 | 40.58 | 3.21 |
725 | 759 | 3.008375 | TCAGGGTTTGACATCCTCTTCAG | 59.992 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
789 | 846 | 2.934932 | TGGCATCTGCTGGTGGGA | 60.935 | 61.111 | 5.95 | 0.00 | 41.70 | 4.37 |
806 | 864 | 1.043022 | GGAGCATAATTTGGCTGGGG | 58.957 | 55.000 | 8.11 | 0.00 | 41.22 | 4.96 |
808 | 866 | 2.387757 | GAGCATAATTTGGCTGGGGAA | 58.612 | 47.619 | 8.11 | 0.00 | 41.22 | 3.97 |
882 | 942 | 0.033503 | TATGGAGCCTCGTGGTCTCA | 60.034 | 55.000 | 21.30 | 11.57 | 41.34 | 3.27 |
933 | 994 | 4.900684 | TCTCAACATTGTTATTCGTGGGA | 58.099 | 39.130 | 0.86 | 0.00 | 0.00 | 4.37 |
935 | 996 | 4.390264 | TCAACATTGTTATTCGTGGGACA | 58.610 | 39.130 | 0.86 | 0.00 | 0.00 | 4.02 |
942 | 1003 | 0.535335 | TATTCGTGGGACAGACTGCC | 59.465 | 55.000 | 1.25 | 4.89 | 41.80 | 4.85 |
1061 | 1122 | 8.489489 | AGATGACAAGGTATGTAATTGTGAGAT | 58.511 | 33.333 | 0.00 | 0.00 | 44.12 | 2.75 |
1065 | 1126 | 7.796054 | ACAAGGTATGTAATTGTGAGATAGCT | 58.204 | 34.615 | 0.00 | 0.00 | 41.63 | 3.32 |
1085 | 1152 | 4.826183 | AGCTATACGATACGAGTTTTCCCT | 59.174 | 41.667 | 0.00 | 0.00 | 0.00 | 4.20 |
1154 | 1221 | 5.907866 | TTGTATATCTTCACACCAGTCGA | 57.092 | 39.130 | 0.00 | 0.00 | 0.00 | 4.20 |
1160 | 1227 | 8.969267 | GTATATCTTCACACCAGTCGATTTAAG | 58.031 | 37.037 | 0.00 | 0.00 | 0.00 | 1.85 |
1218 | 1285 | 3.774734 | TCTGGTCCTAGCTTACAAGACA | 58.225 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
1219 | 1286 | 4.353777 | TCTGGTCCTAGCTTACAAGACAT | 58.646 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
1269 | 1340 | 6.667848 | TCACTTCACCTCTCTATGTTTATCCA | 59.332 | 38.462 | 0.00 | 0.00 | 0.00 | 3.41 |
1308 | 1379 | 0.818296 | CCACCGAGGAAGACTACCTG | 59.182 | 60.000 | 0.00 | 0.00 | 41.22 | 4.00 |
1378 | 1449 | 5.233225 | TCAAGTACATATGCATAGCTCTGC | 58.767 | 41.667 | 16.67 | 16.67 | 42.62 | 4.26 |
1402 | 1473 | 2.224281 | GCCGATGATCATGGTGAAGGTA | 60.224 | 50.000 | 14.30 | 0.00 | 0.00 | 3.08 |
1404 | 1477 | 3.809832 | CCGATGATCATGGTGAAGGTAAC | 59.190 | 47.826 | 14.30 | 0.00 | 0.00 | 2.50 |
1406 | 1479 | 4.875536 | CGATGATCATGGTGAAGGTAACAA | 59.124 | 41.667 | 14.30 | 0.00 | 41.41 | 2.83 |
1442 | 1515 | 7.982252 | AGATTCTCCCAAGCTATCAATGATAA | 58.018 | 34.615 | 4.37 | 0.00 | 0.00 | 1.75 |
1446 | 1519 | 9.730705 | TTCTCCCAAGCTATCAATGATAAATAG | 57.269 | 33.333 | 4.37 | 0.00 | 0.00 | 1.73 |
1455 | 1528 | 4.641396 | TCAATGATAAATAGGCCAGACCG | 58.359 | 43.478 | 5.01 | 0.00 | 46.52 | 4.79 |
1471 | 1546 | 6.293462 | GGCCAGACCGTATATTTCTTGATTTC | 60.293 | 42.308 | 0.00 | 0.00 | 0.00 | 2.17 |
1473 | 1548 | 7.012421 | GCCAGACCGTATATTTCTTGATTTCTT | 59.988 | 37.037 | 0.00 | 0.00 | 0.00 | 2.52 |
1495 | 1570 | 9.581289 | TTCTTACTTGATGGGAGTTATTTTTCA | 57.419 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
1496 | 1571 | 9.581289 | TCTTACTTGATGGGAGTTATTTTTCAA | 57.419 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
1528 | 1603 | 5.002464 | GCACATTTGCCATGTATTCTCTT | 57.998 | 39.130 | 0.00 | 0.00 | 43.66 | 2.85 |
1531 | 1606 | 6.493116 | CACATTTGCCATGTATTCTCTTCTC | 58.507 | 40.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1579 | 1654 | 5.163652 | CCTCCCGTCCAAAAAGATTTACATC | 60.164 | 44.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1756 | 1831 | 4.252073 | CTGCTATTTCAGTCTTGTCTGCT | 58.748 | 43.478 | 0.00 | 0.00 | 35.63 | 4.24 |
1808 | 1883 | 4.622313 | CCGTCAGTAAACGTATGCAGTTAA | 59.378 | 41.667 | 0.00 | 0.00 | 41.01 | 2.01 |
1817 | 1892 | 6.569179 | AACGTATGCAGTTAATCCAAAGTT | 57.431 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
1829 | 1904 | 9.750125 | AGTTAATCCAAAGTTGTGAATTTCTTC | 57.250 | 29.630 | 0.00 | 0.00 | 0.00 | 2.87 |
1834 | 1909 | 6.479660 | TCCAAAGTTGTGAATTTCTTCATTGC | 59.520 | 34.615 | 0.00 | 0.00 | 43.08 | 3.56 |
1835 | 1910 | 6.258287 | CCAAAGTTGTGAATTTCTTCATTGCA | 59.742 | 34.615 | 0.00 | 0.00 | 43.08 | 4.08 |
1837 | 1912 | 6.833342 | AGTTGTGAATTTCTTCATTGCAAC | 57.167 | 33.333 | 0.00 | 10.13 | 43.08 | 4.17 |
1838 | 1913 | 6.339730 | AGTTGTGAATTTCTTCATTGCAACA | 58.660 | 32.000 | 0.00 | 0.00 | 42.52 | 3.33 |
1866 | 1947 | 3.937814 | TGTGCTTAATAGTGTGTCTGGG | 58.062 | 45.455 | 0.00 | 0.00 | 0.00 | 4.45 |
1894 | 1979 | 2.283143 | TTTGCAGCTGTGGTGGAGGT | 62.283 | 55.000 | 16.64 | 0.00 | 32.39 | 3.85 |
1896 | 1981 | 2.263741 | GCAGCTGTGGTGGAGGTTG | 61.264 | 63.158 | 16.64 | 0.00 | 0.00 | 3.77 |
1970 | 2055 | 6.504954 | CGTCGAAAGTGAGTTTCATATTCTCG | 60.505 | 42.308 | 12.72 | 0.00 | 44.38 | 4.04 |
2073 | 2158 | 1.337728 | CCTTGTCGCCACACTACATCA | 60.338 | 52.381 | 0.00 | 0.00 | 29.76 | 3.07 |
2141 | 2226 | 1.338200 | GGAACCGTTCTCTGCATCACT | 60.338 | 52.381 | 11.03 | 0.00 | 0.00 | 3.41 |
2154 | 2239 | 3.090790 | TGCATCACTGGCATGTACATTT | 58.909 | 40.909 | 5.37 | 0.00 | 36.11 | 2.32 |
2158 | 2243 | 5.163622 | GCATCACTGGCATGTACATTTAAGT | 60.164 | 40.000 | 5.37 | 6.91 | 0.00 | 2.24 |
2163 | 2248 | 8.851145 | TCACTGGCATGTACATTTAAGTTTTTA | 58.149 | 29.630 | 5.37 | 0.00 | 0.00 | 1.52 |
2176 | 2262 | 9.672086 | CATTTAAGTTTTTATCTGTTTCACGGA | 57.328 | 29.630 | 0.00 | 0.00 | 37.97 | 4.69 |
2178 | 2264 | 6.687081 | AAGTTTTTATCTGTTTCACGGACA | 57.313 | 33.333 | 0.00 | 0.00 | 36.13 | 4.02 |
2214 | 2300 | 6.016943 | CCTCCATTGACAAACTTACCGTTTTA | 60.017 | 38.462 | 0.00 | 0.00 | 43.06 | 1.52 |
2286 | 2372 | 3.900601 | AGAGGTCTATCCAGATCGCATTT | 59.099 | 43.478 | 0.00 | 0.00 | 36.97 | 2.32 |
2292 | 2378 | 3.548745 | ATCCAGATCGCATTTCTCACA | 57.451 | 42.857 | 0.00 | 0.00 | 0.00 | 3.58 |
2319 | 2405 | 3.775654 | CCCTCCCTCGTGCTCACC | 61.776 | 72.222 | 0.00 | 0.00 | 0.00 | 4.02 |
2322 | 2408 | 0.757188 | CCTCCCTCGTGCTCACCTAT | 60.757 | 60.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2415 | 2501 | 1.024579 | CCGTGTACTGGCCCATGTTC | 61.025 | 60.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2427 | 2516 | 0.795698 | CCATGTTCGTCATTGCGACA | 59.204 | 50.000 | 3.27 | 5.81 | 45.70 | 4.35 |
2436 | 2525 | 2.033141 | ATTGCGACACTGGCAGCT | 59.967 | 55.556 | 15.89 | 0.00 | 42.12 | 4.24 |
2490 | 2579 | 1.256812 | TCTCCGTCATCAAGCAGTCA | 58.743 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2613 | 2702 | 2.351276 | GTTGGTGCCATCCTCGGT | 59.649 | 61.111 | 0.00 | 0.00 | 0.00 | 4.69 |
2614 | 2703 | 1.745489 | GTTGGTGCCATCCTCGGTC | 60.745 | 63.158 | 0.00 | 0.00 | 0.00 | 4.79 |
2634 | 2723 | 0.387929 | TCGGCGATGGTAAGGACATC | 59.612 | 55.000 | 4.99 | 0.00 | 40.95 | 3.06 |
2673 | 2762 | 3.966665 | TGGTAGTCATCATGGTCATGCTA | 59.033 | 43.478 | 6.10 | 0.26 | 38.65 | 3.49 |
2721 | 2810 | 0.176449 | TGCTCATCATCTGGGACACG | 59.824 | 55.000 | 0.00 | 0.00 | 0.00 | 4.49 |
2793 | 2882 | 1.371758 | CTACGTGAGCGCAGTGTGT | 60.372 | 57.895 | 11.47 | 3.66 | 42.83 | 3.72 |
2848 | 2937 | 2.546373 | GCAGTGTCATTGTTGTTGGCAT | 60.546 | 45.455 | 0.00 | 0.00 | 30.31 | 4.40 |
2850 | 2939 | 4.795635 | GCAGTGTCATTGTTGTTGGCATTA | 60.796 | 41.667 | 0.00 | 0.00 | 30.31 | 1.90 |
2871 | 2960 | 4.689612 | AATCATGTTCGGCTGGTACTAT | 57.310 | 40.909 | 0.00 | 0.00 | 0.00 | 2.12 |
3009 | 3098 | 1.002990 | CATGCAGGACTGGCTCACA | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 3.58 |
3045 | 3134 | 0.324614 | ACATCAGGAACATGCGGTCA | 59.675 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
3075 | 3164 | 2.039084 | GGTGACCATCTTCCTCACACTT | 59.961 | 50.000 | 0.00 | 0.00 | 36.76 | 3.16 |
3210 | 3299 | 2.400158 | CGAGGAGGACGAACTCGCT | 61.400 | 63.158 | 0.00 | 0.00 | 45.97 | 4.93 |
3212 | 3301 | 1.303398 | AGGAGGACGAACTCGCTGA | 60.303 | 57.895 | 0.00 | 0.00 | 44.43 | 4.26 |
3324 | 3419 | 1.523758 | GCAAGATGAGGTTCCACGTT | 58.476 | 50.000 | 0.00 | 0.00 | 0.00 | 3.99 |
3330 | 3425 | 0.817634 | TGAGGTTCCACGTTGGCAAG | 60.818 | 55.000 | 0.00 | 0.00 | 37.47 | 4.01 |
3339 | 3434 | 2.112297 | GTTGGCAAGGACACGGGA | 59.888 | 61.111 | 0.00 | 0.00 | 0.00 | 5.14 |
3352 | 3447 | 2.106332 | CGGGATTCTTCGACCGGG | 59.894 | 66.667 | 6.32 | 0.00 | 42.48 | 5.73 |
3360 | 3455 | 1.446272 | CTTCGACCGGGTTCTGCTC | 60.446 | 63.158 | 6.32 | 0.00 | 0.00 | 4.26 |
3430 | 3525 | 3.415087 | GGATCCCCCTGCAGCAGT | 61.415 | 66.667 | 21.26 | 1.48 | 0.00 | 4.40 |
3452 | 3547 | 0.662970 | GTCGAGATCGGCATGCTCTC | 60.663 | 60.000 | 18.92 | 19.69 | 44.43 | 3.20 |
3546 | 3641 | 1.414919 | TCGGTTGTTTCAGCTACCTGT | 59.585 | 47.619 | 0.00 | 0.00 | 40.09 | 4.00 |
3599 | 3694 | 3.003394 | TCAGTATGAAGGTTGCCATGG | 57.997 | 47.619 | 7.63 | 7.63 | 45.97 | 3.66 |
3607 | 3702 | 3.195396 | TGAAGGTTGCCATGGAATAAAGC | 59.805 | 43.478 | 18.40 | 12.81 | 0.00 | 3.51 |
3615 | 3710 | 6.573664 | TGCCATGGAATAAAGCATGTATAC | 57.426 | 37.500 | 18.40 | 0.00 | 0.00 | 1.47 |
3657 | 3752 | 6.923508 | GCTTTTGCAACCATAACTTAAGAGTT | 59.076 | 34.615 | 10.09 | 0.00 | 45.76 | 3.01 |
3662 | 3757 | 5.391629 | GCAACCATAACTTAAGAGTTTCGGG | 60.392 | 44.000 | 10.09 | 3.91 | 43.48 | 5.14 |
3687 | 3782 | 4.578105 | ACTCTGGAAACTTTCAGCTCAAAG | 59.422 | 41.667 | 8.73 | 8.73 | 39.03 | 2.77 |
3806 | 3901 | 5.395642 | GTTGTGGGTAATTTATGTTGGTCG | 58.604 | 41.667 | 0.00 | 0.00 | 0.00 | 4.79 |
4098 | 4196 | 7.981102 | AATGACTTGGTAGTAACTCTTTTCC | 57.019 | 36.000 | 0.00 | 0.00 | 33.84 | 3.13 |
4155 | 4253 | 0.745468 | GGATGTAGAGGTCGGTGGTC | 59.255 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
4157 | 4255 | 2.032620 | GATGTAGAGGTCGGTGGTCAT | 58.967 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
4248 | 4350 | 0.850100 | TTCCAACCCACACATCCAGT | 59.150 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
4290 | 4400 | 6.986904 | AACTAATTAGCTTAGCCAAGTGTC | 57.013 | 37.500 | 12.54 | 0.00 | 40.53 | 3.67 |
4296 | 4406 | 3.412386 | AGCTTAGCCAAGTGTCGAAATT | 58.588 | 40.909 | 0.00 | 0.00 | 34.00 | 1.82 |
4301 | 4411 | 3.964909 | AGCCAAGTGTCGAAATTTGAAC | 58.035 | 40.909 | 12.12 | 4.42 | 0.00 | 3.18 |
4305 | 4415 | 4.681025 | CCAAGTGTCGAAATTTGAACCATG | 59.319 | 41.667 | 12.12 | 0.00 | 0.00 | 3.66 |
4317 | 4427 | 4.371624 | TTGAACCATGGATCTCAACACT | 57.628 | 40.909 | 21.47 | 0.00 | 0.00 | 3.55 |
4326 | 4436 | 4.297768 | TGGATCTCAACACTCATATGGGA | 58.702 | 43.478 | 10.29 | 0.00 | 0.00 | 4.37 |
4332 | 4442 | 5.044919 | TCTCAACACTCATATGGGATTGGTT | 60.045 | 40.000 | 10.29 | 5.35 | 0.00 | 3.67 |
4357 | 4467 | 9.807921 | TTAACTTGGGAGTTTCATCTTTAATCT | 57.192 | 29.630 | 0.00 | 0.00 | 43.48 | 2.40 |
4442 | 4662 | 1.074084 | TGTTTCCATGGCTTTCGGGTA | 59.926 | 47.619 | 6.96 | 0.00 | 0.00 | 3.69 |
4443 | 4663 | 1.743394 | GTTTCCATGGCTTTCGGGTAG | 59.257 | 52.381 | 6.96 | 0.00 | 0.00 | 3.18 |
4460 | 4680 | 7.356089 | TCGGGTAGCTTTGAGATAATTCTTA | 57.644 | 36.000 | 0.00 | 0.00 | 30.30 | 2.10 |
4461 | 4681 | 7.963532 | TCGGGTAGCTTTGAGATAATTCTTAT | 58.036 | 34.615 | 0.00 | 0.00 | 30.30 | 1.73 |
4462 | 4682 | 8.429641 | TCGGGTAGCTTTGAGATAATTCTTATT | 58.570 | 33.333 | 0.00 | 0.00 | 30.30 | 1.40 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
24 | 25 | 4.423732 | ACTGCAAAGCACTAACACAAAAG | 58.576 | 39.130 | 0.00 | 0.00 | 33.79 | 2.27 |
75 | 76 | 1.649321 | AGGGATTGACAGCTGACAGA | 58.351 | 50.000 | 23.35 | 11.65 | 0.00 | 3.41 |
173 | 176 | 6.028131 | TCCCCTGCTAGATCATATTCTTCAT | 58.972 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
181 | 184 | 7.038017 | CCTCTTTTTATCCCCTGCTAGATCATA | 60.038 | 40.741 | 0.00 | 0.00 | 0.00 | 2.15 |
225 | 228 | 0.967380 | GCCATGGTGGGTTCCTGAAG | 60.967 | 60.000 | 14.67 | 0.00 | 38.19 | 3.02 |
303 | 306 | 0.328258 | ACACCCTGTAGTCCCAATGC | 59.672 | 55.000 | 0.00 | 0.00 | 0.00 | 3.56 |
320 | 323 | 3.211045 | GCACTACTGGAAAGTGGAAACA | 58.789 | 45.455 | 5.47 | 0.00 | 43.71 | 2.83 |
321 | 324 | 2.552743 | GGCACTACTGGAAAGTGGAAAC | 59.447 | 50.000 | 5.47 | 0.00 | 43.71 | 2.78 |
324 | 327 | 1.429930 | TGGCACTACTGGAAAGTGGA | 58.570 | 50.000 | 5.47 | 0.00 | 43.71 | 4.02 |
325 | 328 | 2.270352 | TTGGCACTACTGGAAAGTGG | 57.730 | 50.000 | 5.47 | 0.00 | 43.71 | 4.00 |
326 | 329 | 3.149196 | ACATTGGCACTACTGGAAAGTG | 58.851 | 45.455 | 0.00 | 0.00 | 45.80 | 3.16 |
327 | 330 | 3.508845 | ACATTGGCACTACTGGAAAGT | 57.491 | 42.857 | 0.00 | 0.00 | 0.00 | 2.66 |
328 | 331 | 7.120579 | TGTTATTACATTGGCACTACTGGAAAG | 59.879 | 37.037 | 0.00 | 0.00 | 0.00 | 2.62 |
329 | 332 | 6.943146 | TGTTATTACATTGGCACTACTGGAAA | 59.057 | 34.615 | 0.00 | 0.00 | 0.00 | 3.13 |
330 | 333 | 6.373216 | GTGTTATTACATTGGCACTACTGGAA | 59.627 | 38.462 | 0.00 | 0.00 | 36.50 | 3.53 |
332 | 335 | 5.880332 | AGTGTTATTACATTGGCACTACTGG | 59.120 | 40.000 | 0.00 | 0.00 | 36.50 | 4.00 |
333 | 336 | 6.985188 | AGTGTTATTACATTGGCACTACTG | 57.015 | 37.500 | 0.00 | 0.00 | 36.50 | 2.74 |
334 | 337 | 6.598064 | GGAAGTGTTATTACATTGGCACTACT | 59.402 | 38.462 | 0.00 | 0.00 | 36.34 | 2.57 |
335 | 338 | 6.183360 | GGGAAGTGTTATTACATTGGCACTAC | 60.183 | 42.308 | 0.00 | 0.00 | 36.34 | 2.73 |
336 | 339 | 5.883673 | GGGAAGTGTTATTACATTGGCACTA | 59.116 | 40.000 | 0.00 | 0.00 | 36.34 | 2.74 |
337 | 340 | 4.705023 | GGGAAGTGTTATTACATTGGCACT | 59.295 | 41.667 | 0.00 | 0.00 | 38.62 | 4.40 |
338 | 341 | 4.705023 | AGGGAAGTGTTATTACATTGGCAC | 59.295 | 41.667 | 0.00 | 0.00 | 36.50 | 5.01 |
339 | 342 | 4.929479 | AGGGAAGTGTTATTACATTGGCA | 58.071 | 39.130 | 0.00 | 0.00 | 36.50 | 4.92 |
340 | 343 | 5.193679 | AGAGGGAAGTGTTATTACATTGGC | 58.806 | 41.667 | 0.00 | 0.00 | 36.50 | 4.52 |
341 | 344 | 7.703058 | AAAGAGGGAAGTGTTATTACATTGG | 57.297 | 36.000 | 0.00 | 0.00 | 36.50 | 3.16 |
342 | 345 | 8.028938 | CCAAAAGAGGGAAGTGTTATTACATTG | 58.971 | 37.037 | 0.00 | 0.00 | 36.50 | 2.82 |
343 | 346 | 7.947890 | TCCAAAAGAGGGAAGTGTTATTACATT | 59.052 | 33.333 | 0.00 | 0.00 | 36.50 | 2.71 |
356 | 359 | 3.137544 | TGTTGTAGCTCCAAAAGAGGGAA | 59.862 | 43.478 | 0.00 | 0.00 | 43.46 | 3.97 |
389 | 403 | 7.607250 | ACTCATAGTGGTCTTTAGAGAAACAG | 58.393 | 38.462 | 0.00 | 0.00 | 32.66 | 3.16 |
395 | 409 | 5.821516 | ACGACTCATAGTGGTCTTTAGAG | 57.178 | 43.478 | 0.00 | 0.00 | 31.27 | 2.43 |
485 | 499 | 8.102800 | ACAAGGATACAATATGCATGTATGTG | 57.897 | 34.615 | 14.59 | 11.81 | 42.48 | 3.21 |
486 | 500 | 8.696043 | AACAAGGATACAATATGCATGTATGT | 57.304 | 30.769 | 14.59 | 14.95 | 42.48 | 2.29 |
487 | 501 | 9.006839 | AGAACAAGGATACAATATGCATGTATG | 57.993 | 33.333 | 14.59 | 10.48 | 42.48 | 2.39 |
488 | 502 | 9.578576 | AAGAACAAGGATACAATATGCATGTAT | 57.421 | 29.630 | 10.16 | 10.36 | 44.49 | 2.29 |
498 | 512 | 7.496346 | TGAGTAGGAAGAACAAGGATACAAT | 57.504 | 36.000 | 0.00 | 0.00 | 41.41 | 2.71 |
554 | 572 | 0.178981 | ATTCTGCCTGTGCACACCTT | 60.179 | 50.000 | 17.42 | 0.00 | 44.23 | 3.50 |
572 | 606 | 0.319728 | ATATCGCCTCGCTGCTCAAT | 59.680 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
600 | 634 | 7.814587 | TCGTTCATGCTGTATATGAAGATTAGG | 59.185 | 37.037 | 0.00 | 0.00 | 43.11 | 2.69 |
617 | 651 | 1.324736 | GATTCTCCGTGTCGTTCATGC | 59.675 | 52.381 | 0.00 | 0.00 | 0.00 | 4.06 |
630 | 664 | 6.200097 | GCTCTTATTGAAGTCTTCGATTCTCC | 59.800 | 42.308 | 18.56 | 3.51 | 35.44 | 3.71 |
638 | 672 | 7.923888 | TGCATATTGCTCTTATTGAAGTCTTC | 58.076 | 34.615 | 5.58 | 5.58 | 45.31 | 2.87 |
650 | 684 | 6.208204 | GTGGAGGATATTTGCATATTGCTCTT | 59.792 | 38.462 | 14.59 | 1.95 | 45.31 | 2.85 |
651 | 685 | 5.709164 | GTGGAGGATATTTGCATATTGCTCT | 59.291 | 40.000 | 14.59 | 3.08 | 45.31 | 4.09 |
652 | 686 | 5.474532 | TGTGGAGGATATTTGCATATTGCTC | 59.525 | 40.000 | 0.00 | 4.17 | 45.31 | 4.26 |
653 | 687 | 5.387788 | TGTGGAGGATATTTGCATATTGCT | 58.612 | 37.500 | 0.00 | 0.00 | 45.31 | 3.91 |
654 | 688 | 5.710513 | TGTGGAGGATATTTGCATATTGC | 57.289 | 39.130 | 0.00 | 0.00 | 45.29 | 3.56 |
655 | 689 | 7.362660 | CCTGATGTGGAGGATATTTGCATATTG | 60.363 | 40.741 | 0.00 | 0.00 | 31.48 | 1.90 |
656 | 690 | 6.662234 | CCTGATGTGGAGGATATTTGCATATT | 59.338 | 38.462 | 0.00 | 0.00 | 31.48 | 1.28 |
657 | 691 | 6.185511 | CCTGATGTGGAGGATATTTGCATAT | 58.814 | 40.000 | 0.00 | 0.00 | 31.48 | 1.78 |
658 | 692 | 5.515359 | CCCTGATGTGGAGGATATTTGCATA | 60.515 | 44.000 | 0.00 | 0.00 | 31.48 | 3.14 |
659 | 693 | 4.404640 | CCTGATGTGGAGGATATTTGCAT | 58.595 | 43.478 | 0.00 | 0.00 | 31.48 | 3.96 |
660 | 694 | 3.435457 | CCCTGATGTGGAGGATATTTGCA | 60.435 | 47.826 | 0.00 | 0.00 | 31.48 | 4.08 |
661 | 695 | 3.152341 | CCCTGATGTGGAGGATATTTGC | 58.848 | 50.000 | 0.00 | 0.00 | 31.48 | 3.68 |
662 | 696 | 4.139786 | CACCCTGATGTGGAGGATATTTG | 58.860 | 47.826 | 0.00 | 0.00 | 31.48 | 2.32 |
663 | 697 | 3.435601 | GCACCCTGATGTGGAGGATATTT | 60.436 | 47.826 | 0.00 | 0.00 | 36.73 | 1.40 |
664 | 698 | 2.107204 | GCACCCTGATGTGGAGGATATT | 59.893 | 50.000 | 0.00 | 0.00 | 36.73 | 1.28 |
665 | 699 | 1.701847 | GCACCCTGATGTGGAGGATAT | 59.298 | 52.381 | 0.00 | 0.00 | 36.73 | 1.63 |
666 | 700 | 1.131638 | GCACCCTGATGTGGAGGATA | 58.868 | 55.000 | 0.00 | 0.00 | 36.73 | 2.59 |
667 | 701 | 0.915872 | TGCACCCTGATGTGGAGGAT | 60.916 | 55.000 | 0.00 | 0.00 | 36.73 | 3.24 |
668 | 702 | 0.915872 | ATGCACCCTGATGTGGAGGA | 60.916 | 55.000 | 0.00 | 0.00 | 40.03 | 3.71 |
669 | 703 | 0.033796 | AATGCACCCTGATGTGGAGG | 60.034 | 55.000 | 0.00 | 0.00 | 40.03 | 4.30 |
670 | 704 | 1.843368 | AAATGCACCCTGATGTGGAG | 58.157 | 50.000 | 0.00 | 0.00 | 40.03 | 3.86 |
671 | 705 | 2.307496 | AAAATGCACCCTGATGTGGA | 57.693 | 45.000 | 0.00 | 0.00 | 40.98 | 4.02 |
672 | 706 | 3.355378 | TCTAAAATGCACCCTGATGTGG | 58.645 | 45.455 | 0.00 | 0.00 | 36.73 | 4.17 |
673 | 707 | 4.676196 | GCTTCTAAAATGCACCCTGATGTG | 60.676 | 45.833 | 0.00 | 0.00 | 39.29 | 3.21 |
674 | 708 | 3.445096 | GCTTCTAAAATGCACCCTGATGT | 59.555 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
675 | 709 | 3.698040 | AGCTTCTAAAATGCACCCTGATG | 59.302 | 43.478 | 0.00 | 0.00 | 0.00 | 3.07 |
676 | 710 | 3.950395 | GAGCTTCTAAAATGCACCCTGAT | 59.050 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
677 | 711 | 3.347216 | GAGCTTCTAAAATGCACCCTGA | 58.653 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
678 | 712 | 2.424956 | GGAGCTTCTAAAATGCACCCTG | 59.575 | 50.000 | 0.00 | 0.00 | 32.61 | 4.45 |
679 | 713 | 2.041620 | TGGAGCTTCTAAAATGCACCCT | 59.958 | 45.455 | 0.00 | 0.00 | 36.79 | 4.34 |
680 | 714 | 2.164422 | GTGGAGCTTCTAAAATGCACCC | 59.836 | 50.000 | 0.00 | 0.00 | 36.79 | 4.61 |
701 | 735 | 3.641434 | AGAGGATGTCAAACCCTGATG | 57.359 | 47.619 | 0.00 | 0.00 | 36.14 | 3.07 |
703 | 737 | 2.978978 | TGAAGAGGATGTCAAACCCTGA | 59.021 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
725 | 759 | 5.392811 | GCTGGAGGATATTTGCATATTGCTC | 60.393 | 44.000 | 0.00 | 4.17 | 45.31 | 4.26 |
761 | 818 | 2.283101 | GATGCCACAAGCCCCACA | 60.283 | 61.111 | 0.00 | 0.00 | 42.71 | 4.17 |
789 | 846 | 2.548464 | TTCCCCAGCCAAATTATGCT | 57.452 | 45.000 | 0.00 | 0.00 | 38.67 | 3.79 |
933 | 994 | 2.681778 | CCCTCGGAGGCAGTCTGT | 60.682 | 66.667 | 18.91 | 0.00 | 32.73 | 3.41 |
942 | 1003 | 1.377333 | GGAACCTTTGCCCTCGGAG | 60.377 | 63.158 | 0.00 | 0.00 | 0.00 | 4.63 |
1006 | 1067 | 1.795768 | TCAACGTCCATTGAGACTGC | 58.204 | 50.000 | 0.00 | 0.00 | 33.62 | 4.40 |
1061 | 1122 | 6.000219 | AGGGAAAACTCGTATCGTATAGCTA | 59.000 | 40.000 | 0.00 | 0.00 | 0.00 | 3.32 |
1138 | 1205 | 5.794894 | ACTTAAATCGACTGGTGTGAAGAT | 58.205 | 37.500 | 0.00 | 0.00 | 0.00 | 2.40 |
1154 | 1221 | 5.869579 | TCTGCAGGAAAGACAGACTTAAAT | 58.130 | 37.500 | 15.13 | 0.00 | 37.93 | 1.40 |
1160 | 1227 | 3.393089 | TCTTCTGCAGGAAAGACAGAC | 57.607 | 47.619 | 15.13 | 0.00 | 40.03 | 3.51 |
1218 | 1285 | 0.882927 | CACCGAACACGACACCCAAT | 60.883 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1219 | 1286 | 1.521906 | CACCGAACACGACACCCAA | 60.522 | 57.895 | 0.00 | 0.00 | 0.00 | 4.12 |
1227 | 1294 | 4.657824 | ACGAGGCCACCGAACACG | 62.658 | 66.667 | 21.82 | 8.77 | 0.00 | 4.49 |
1230 | 1301 | 2.710724 | AAGTGACGAGGCCACCGAAC | 62.711 | 60.000 | 21.82 | 17.80 | 35.23 | 3.95 |
1269 | 1340 | 3.392285 | TGGGATTGGTCAGATTCATCGAT | 59.608 | 43.478 | 0.00 | 0.00 | 0.00 | 3.59 |
1308 | 1379 | 4.940046 | CAGAACATGATGCTGTATATCCCC | 59.060 | 45.833 | 0.00 | 0.00 | 0.00 | 4.81 |
1378 | 1449 | 1.886886 | TCACCATGATCATCGGCATG | 58.113 | 50.000 | 18.55 | 12.84 | 41.11 | 4.06 |
1402 | 1473 | 7.010160 | TGGGAGAATCTCTGGTTAATTTTGTT | 58.990 | 34.615 | 10.38 | 0.00 | 35.73 | 2.83 |
1404 | 1477 | 7.466746 | TTGGGAGAATCTCTGGTTAATTTTG | 57.533 | 36.000 | 10.38 | 0.00 | 35.73 | 2.44 |
1406 | 1479 | 5.654209 | GCTTGGGAGAATCTCTGGTTAATTT | 59.346 | 40.000 | 10.38 | 0.00 | 35.73 | 1.82 |
1442 | 1515 | 6.042781 | TCAAGAAATATACGGTCTGGCCTATT | 59.957 | 38.462 | 3.32 | 0.00 | 34.25 | 1.73 |
1446 | 1519 | 4.067972 | TCAAGAAATATACGGTCTGGCC | 57.932 | 45.455 | 0.00 | 0.00 | 0.00 | 5.36 |
1481 | 1556 | 5.639082 | CACCTGCATTTGAAAAATAACTCCC | 59.361 | 40.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1579 | 1654 | 2.032799 | CGAGACCAGATCCTCTTCTTCG | 59.967 | 54.545 | 0.00 | 0.00 | 0.00 | 3.79 |
1604 | 1679 | 0.673022 | CTTCTGGTCACAGCAGGCTC | 60.673 | 60.000 | 3.02 | 0.00 | 43.47 | 4.70 |
1715 | 1790 | 2.093075 | CAGGTGTGAGAATGCCATCTCT | 60.093 | 50.000 | 14.69 | 0.00 | 44.98 | 3.10 |
1756 | 1831 | 2.724672 | AGGGCCTCTCAGTCCATCTATA | 59.275 | 50.000 | 0.00 | 0.00 | 0.00 | 1.31 |
1808 | 1883 | 7.172019 | GCAATGAAGAAATTCACAACTTTGGAT | 59.828 | 33.333 | 0.00 | 0.00 | 33.23 | 3.41 |
1817 | 1892 | 6.258287 | CCTTTGTTGCAATGAAGAAATTCACA | 59.742 | 34.615 | 20.13 | 1.38 | 33.23 | 3.58 |
1829 | 1904 | 3.395639 | AGCACAATCCTTTGTTGCAATG | 58.604 | 40.909 | 0.59 | 0.00 | 43.57 | 2.82 |
1834 | 1909 | 7.326789 | CACACTATTAAGCACAATCCTTTGTTG | 59.673 | 37.037 | 0.00 | 0.00 | 43.57 | 3.33 |
1835 | 1910 | 7.014230 | ACACACTATTAAGCACAATCCTTTGTT | 59.986 | 33.333 | 0.00 | 0.00 | 43.57 | 2.83 |
1837 | 1912 | 6.913170 | ACACACTATTAAGCACAATCCTTTG | 58.087 | 36.000 | 0.00 | 0.00 | 38.86 | 2.77 |
1838 | 1913 | 6.942576 | AGACACACTATTAAGCACAATCCTTT | 59.057 | 34.615 | 0.00 | 0.00 | 0.00 | 3.11 |
1866 | 1947 | 4.386652 | CACCACAGCTGCAAAACATTAATC | 59.613 | 41.667 | 15.27 | 0.00 | 0.00 | 1.75 |
1894 | 1979 | 0.390340 | GAGGATCGCTGCAGACACAA | 60.390 | 55.000 | 20.43 | 0.00 | 0.00 | 3.33 |
1896 | 1981 | 0.179089 | ATGAGGATCGCTGCAGACAC | 60.179 | 55.000 | 20.43 | 4.99 | 38.61 | 3.67 |
1949 | 2034 | 5.351465 | TGGCGAGAATATGAAACTCACTTTC | 59.649 | 40.000 | 0.00 | 0.00 | 39.11 | 2.62 |
2073 | 2158 | 6.484288 | TCTGGTTGGTCATGAAGAACATAAT | 58.516 | 36.000 | 16.18 | 0.00 | 45.06 | 1.28 |
2141 | 2226 | 9.853555 | CAGATAAAAACTTAAATGTACATGCCA | 57.146 | 29.630 | 9.63 | 0.00 | 0.00 | 4.92 |
2154 | 2239 | 7.496591 | ACTGTCCGTGAAACAGATAAAAACTTA | 59.503 | 33.333 | 10.04 | 0.00 | 45.64 | 2.24 |
2158 | 2243 | 6.094325 | ACAACTGTCCGTGAAACAGATAAAAA | 59.906 | 34.615 | 10.04 | 0.00 | 45.64 | 1.94 |
2163 | 2248 | 3.194005 | ACAACTGTCCGTGAAACAGAT | 57.806 | 42.857 | 10.04 | 0.00 | 45.64 | 2.90 |
2214 | 2300 | 1.033746 | CCTCGGCACCTGCATGAATT | 61.034 | 55.000 | 0.00 | 0.00 | 44.36 | 2.17 |
2286 | 2372 | 2.972713 | GGAGGGGTATATGCTTGTGAGA | 59.027 | 50.000 | 0.00 | 0.00 | 0.00 | 3.27 |
2292 | 2378 | 1.132817 | ACGAGGGAGGGGTATATGCTT | 60.133 | 52.381 | 0.00 | 0.00 | 0.00 | 3.91 |
2319 | 2405 | 2.590007 | GCCGTCTGCCCAGCATAG | 60.590 | 66.667 | 0.00 | 0.00 | 38.13 | 2.23 |
2370 | 2456 | 2.303175 | GGCACAAACTTGTAGAACCCA | 58.697 | 47.619 | 0.00 | 0.00 | 39.91 | 4.51 |
2427 | 2516 | 2.184020 | TTGCCACGATAGCTGCCAGT | 62.184 | 55.000 | 0.00 | 0.00 | 42.67 | 4.00 |
2436 | 2525 | 1.134818 | AGCGATTGACTTGCCACGATA | 60.135 | 47.619 | 0.00 | 0.00 | 34.44 | 2.92 |
2613 | 2702 | 0.681887 | TGTCCTTACCATCGCCGAGA | 60.682 | 55.000 | 0.00 | 0.00 | 0.00 | 4.04 |
2614 | 2703 | 0.389391 | ATGTCCTTACCATCGCCGAG | 59.611 | 55.000 | 0.00 | 0.00 | 0.00 | 4.63 |
2673 | 2762 | 1.194781 | AGAGCAGGACGGTGGTGATT | 61.195 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2739 | 2828 | 2.093973 | CAGGAATGGCACGAAGTAGAGT | 60.094 | 50.000 | 0.00 | 0.00 | 41.61 | 3.24 |
2754 | 2843 | 0.399091 | TGCCCTCGAGGATCAGGAAT | 60.399 | 55.000 | 33.39 | 0.00 | 36.06 | 3.01 |
2793 | 2882 | 2.576191 | CCCACCTTTGAGGATCTTGGTA | 59.424 | 50.000 | 0.07 | 0.00 | 37.67 | 3.25 |
2848 | 2937 | 4.481368 | AGTACCAGCCGAACATGATTAA | 57.519 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
2850 | 2939 | 4.380531 | CATAGTACCAGCCGAACATGATT | 58.619 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
2871 | 2960 | 0.895530 | CCGCTTTCCTCTGTCTACCA | 59.104 | 55.000 | 0.00 | 0.00 | 0.00 | 3.25 |
2965 | 3054 | 0.324368 | TAGAAGAAGCAGAGCCCGGA | 60.324 | 55.000 | 0.73 | 0.00 | 0.00 | 5.14 |
3045 | 3134 | 2.592102 | AGATGGTCACCTTGTGCAAT | 57.408 | 45.000 | 0.00 | 0.00 | 32.98 | 3.56 |
3190 | 3279 | 2.039405 | CGAGTTCGTCCTCCTCGGT | 61.039 | 63.158 | 0.00 | 0.00 | 43.20 | 4.69 |
3201 | 3290 | 1.734477 | CACCAGGTCAGCGAGTTCG | 60.734 | 63.158 | 0.00 | 0.00 | 43.27 | 3.95 |
3298 | 3393 | 1.213926 | GAACCTCATCTTGCCCCTGAT | 59.786 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
3324 | 3419 | 1.002624 | GAATCCCGTGTCCTTGCCA | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 4.92 |
3330 | 3425 | 0.459759 | GGTCGAAGAATCCCGTGTCC | 60.460 | 60.000 | 0.00 | 0.00 | 39.69 | 4.02 |
3339 | 3434 | 0.391263 | GCAGAACCCGGTCGAAGAAT | 60.391 | 55.000 | 0.00 | 0.00 | 39.69 | 2.40 |
3351 | 3446 | 0.802607 | CGTAGAAGCCGAGCAGAACC | 60.803 | 60.000 | 0.00 | 0.00 | 0.00 | 3.62 |
3352 | 3447 | 0.170561 | TCGTAGAAGCCGAGCAGAAC | 59.829 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
3360 | 3455 | 0.802607 | GCAGGAACTCGTAGAAGCCG | 60.803 | 60.000 | 0.00 | 0.00 | 34.60 | 5.52 |
3430 | 3525 | 2.278792 | CATGCCGATCTCGACGCA | 60.279 | 61.111 | 0.22 | 3.67 | 43.02 | 5.24 |
3452 | 3547 | 2.509336 | CGTAGCGTCAGGCCTTGG | 60.509 | 66.667 | 0.00 | 0.00 | 45.17 | 3.61 |
3507 | 3602 | 7.041235 | ACAACCGAAAACCAGAACGATTTATTA | 60.041 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
3615 | 3710 | 0.745845 | AGCTTACCTTCCGCAGCATG | 60.746 | 55.000 | 0.00 | 0.00 | 40.87 | 4.06 |
3657 | 3752 | 3.388676 | TGAAAGTTTCCAGAGTACCCGAA | 59.611 | 43.478 | 13.01 | 0.00 | 0.00 | 4.30 |
3662 | 3757 | 4.632153 | TGAGCTGAAAGTTTCCAGAGTAC | 58.368 | 43.478 | 13.01 | 3.94 | 35.30 | 2.73 |
3687 | 3782 | 4.562789 | GGCGAAGAAATTTGGAAGCAATAC | 59.437 | 41.667 | 0.00 | 0.00 | 0.00 | 1.89 |
3758 | 3853 | 9.860650 | ACCACAAGAATTAATATGCTATACCAA | 57.139 | 29.630 | 0.00 | 0.00 | 0.00 | 3.67 |
3834 | 3929 | 4.536090 | TCCTGATAAAGACCAGACCATTGT | 59.464 | 41.667 | 0.00 | 0.00 | 32.37 | 2.71 |
4216 | 4314 | 9.395068 | TGTGTGGGTTGGAAGGTTATATATATA | 57.605 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
4217 | 4315 | 8.282801 | TGTGTGGGTTGGAAGGTTATATATAT | 57.717 | 34.615 | 0.00 | 0.00 | 0.00 | 0.86 |
4218 | 4316 | 7.693533 | TGTGTGGGTTGGAAGGTTATATATA | 57.306 | 36.000 | 0.00 | 0.00 | 0.00 | 0.86 |
4219 | 4317 | 6.584471 | TGTGTGGGTTGGAAGGTTATATAT | 57.416 | 37.500 | 0.00 | 0.00 | 0.00 | 0.86 |
4220 | 4318 | 6.409925 | GGATGTGTGGGTTGGAAGGTTATATA | 60.410 | 42.308 | 0.00 | 0.00 | 0.00 | 0.86 |
4221 | 4319 | 4.938575 | TGTGTGGGTTGGAAGGTTATAT | 57.061 | 40.909 | 0.00 | 0.00 | 0.00 | 0.86 |
4224 | 4322 | 2.224917 | GGATGTGTGGGTTGGAAGGTTA | 60.225 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
4267 | 4369 | 5.581085 | CGACACTTGGCTAAGCTAATTAGTT | 59.419 | 40.000 | 10.10 | 5.13 | 42.57 | 2.24 |
4270 | 4372 | 5.333299 | TCGACACTTGGCTAAGCTAATTA | 57.667 | 39.130 | 10.10 | 0.00 | 37.43 | 1.40 |
4271 | 4373 | 4.202245 | TCGACACTTGGCTAAGCTAATT | 57.798 | 40.909 | 10.10 | 0.00 | 37.43 | 1.40 |
4286 | 4396 | 4.497473 | TCCATGGTTCAAATTTCGACAC | 57.503 | 40.909 | 12.58 | 0.00 | 0.00 | 3.67 |
4290 | 4400 | 5.565592 | TGAGATCCATGGTTCAAATTTCG | 57.434 | 39.130 | 22.09 | 0.00 | 0.00 | 3.46 |
4296 | 4406 | 4.202451 | TGAGTGTTGAGATCCATGGTTCAA | 60.202 | 41.667 | 22.09 | 20.12 | 0.00 | 2.69 |
4301 | 4411 | 5.001874 | CCATATGAGTGTTGAGATCCATGG | 58.998 | 45.833 | 4.97 | 4.97 | 0.00 | 3.66 |
4305 | 4415 | 4.963318 | TCCCATATGAGTGTTGAGATCC | 57.037 | 45.455 | 3.65 | 0.00 | 0.00 | 3.36 |
4317 | 4427 | 5.194740 | TCCCAAGTTAACCAATCCCATATGA | 59.805 | 40.000 | 3.65 | 0.00 | 0.00 | 2.15 |
4326 | 4436 | 6.314917 | AGATGAAACTCCCAAGTTAACCAAT | 58.685 | 36.000 | 0.88 | 0.00 | 45.07 | 3.16 |
4332 | 4442 | 9.449719 | GAGATTAAAGATGAAACTCCCAAGTTA | 57.550 | 33.333 | 0.00 | 0.00 | 45.07 | 2.24 |
4357 | 4467 | 7.050970 | AGCAAGAATCCTAACGTACATATGA | 57.949 | 36.000 | 10.38 | 0.00 | 0.00 | 2.15 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.