Multiple sequence alignment - TraesCS3B01G343400
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 | TraesCS3B01G343400 | chr3B | 100.000 | 4989 | 0 | 0 | 1 | 4989 | 552233972 | 552228984 | 0.000000e+00 | 9214 |
1 | TraesCS3B01G343400 | chr3A | 93.526 | 4557 | 232 | 20 | 448 | 4989 | 564947027 | 564942519 | 0.000000e+00 | 6722 |
2 | TraesCS3B01G343400 | chr3A | 86.866 | 434 | 29 | 12 | 1 | 425 | 564947431 | 564947017 | 1.270000e-125 | 460 |
3 | TraesCS3B01G343400 | chr3D | 93.495 | 4443 | 197 | 23 | 555 | 4989 | 424008557 | 424012915 | 0.000000e+00 | 6519 |
4 | TraesCS3B01G343400 | chr3D | 82.865 | 356 | 31 | 12 | 1 | 344 | 424008000 | 424008337 | 4.890000e-75 | 292 |
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 | TraesCS3B01G343400 | chr3B | 552228984 | 552233972 | 4988 | True | 9214.0 | 9214 | 100.000 | 1 | 4989 | 1 | chr3B.!!$R1 | 4988 |
1 | TraesCS3B01G343400 | chr3A | 564942519 | 564947431 | 4912 | True | 3591.0 | 6722 | 90.196 | 1 | 4989 | 2 | chr3A.!!$R1 | 4988 |
2 | TraesCS3B01G343400 | chr3D | 424008000 | 424012915 | 4915 | False | 3405.5 | 6519 | 88.180 | 1 | 4989 | 2 | chr3D.!!$F1 | 4988 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
93 | 100 | 0.115152 | CCCCCTTCCTTTTTGGCTCT | 59.885 | 55.0 | 0.00 | 0.0 | 35.26 | 4.09 | F |
126 | 133 | 0.179018 | TCGCAGATCGGGATCTCTCA | 60.179 | 55.0 | 8.19 | 0.0 | 45.78 | 3.27 | F |
1164 | 1287 | 0.242825 | TACCTTGTCCGTTCTGCTCG | 59.757 | 55.0 | 0.00 | 0.0 | 0.00 | 5.03 | F |
2364 | 2491 | 0.036010 | AGGGGACAGAAATCACTGCG | 60.036 | 55.0 | 0.00 | 0.0 | 41.06 | 5.18 | F |
2518 | 2660 | 0.817654 | TCTCCACTGTAGCATCCACG | 59.182 | 55.0 | 0.00 | 0.0 | 0.00 | 4.94 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1109 | 1232 | 0.038166 | ACGGGCAAATCTGGTGATGT | 59.962 | 50.000 | 0.00 | 0.0 | 32.44 | 3.06 | R |
1188 | 1311 | 0.242825 | TGTAGAAGCACGGTTCCTCG | 59.757 | 55.000 | 5.40 | 0.0 | 0.00 | 4.63 | R |
2938 | 3081 | 0.108186 | TGTAGGCCTCGTTCATGCTG | 60.108 | 55.000 | 9.68 | 0.0 | 0.00 | 4.41 | R |
3291 | 3434 | 0.386113 | GCAGAGGAGGTGTATCGACC | 59.614 | 60.000 | 0.00 | 0.0 | 36.09 | 4.79 | R |
4030 | 4173 | 1.780309 | ACAAGTTGGGTGGGAATCTGA | 59.220 | 47.619 | 7.96 | 0.0 | 0.00 | 3.27 | 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 |
---|---|---|---|---|---|---|---|---|---|
62 | 63 | 2.695314 | CTTAGCCTTAAGCCAGCCG | 58.305 | 57.895 | 0.00 | 0.00 | 45.47 | 5.52 |
63 | 64 | 1.440145 | CTTAGCCTTAAGCCAGCCGC | 61.440 | 60.000 | 0.00 | 0.00 | 45.47 | 6.53 |
64 | 65 | 2.886730 | TTAGCCTTAAGCCAGCCGCC | 62.887 | 60.000 | 0.00 | 0.00 | 45.47 | 6.13 |
93 | 100 | 0.115152 | CCCCCTTCCTTTTTGGCTCT | 59.885 | 55.000 | 0.00 | 0.00 | 35.26 | 4.09 |
107 | 114 | 3.842923 | CTCTGCTCCGGCCATCGT | 61.843 | 66.667 | 2.24 | 0.00 | 37.74 | 3.73 |
126 | 133 | 0.179018 | TCGCAGATCGGGATCTCTCA | 60.179 | 55.000 | 8.19 | 0.00 | 45.78 | 3.27 |
179 | 189 | 5.242838 | CAGGCGAGGTTCTAATTCTATCTCT | 59.757 | 44.000 | 0.00 | 0.00 | 0.00 | 3.10 |
185 | 195 | 6.381250 | AGGTTCTAATTCTATCTCTGCTCCT | 58.619 | 40.000 | 0.00 | 0.00 | 0.00 | 3.69 |
196 | 206 | 2.499289 | TCTCTGCTCCTCCTGTGATTTC | 59.501 | 50.000 | 0.00 | 0.00 | 0.00 | 2.17 |
197 | 207 | 1.556911 | TCTGCTCCTCCTGTGATTTCC | 59.443 | 52.381 | 0.00 | 0.00 | 0.00 | 3.13 |
241 | 251 | 1.705186 | AGCTTAGTTTGCTTCCTGGGA | 59.295 | 47.619 | 0.00 | 0.00 | 37.52 | 4.37 |
242 | 252 | 1.813178 | GCTTAGTTTGCTTCCTGGGAC | 59.187 | 52.381 | 0.00 | 0.00 | 0.00 | 4.46 |
243 | 253 | 2.553247 | GCTTAGTTTGCTTCCTGGGACT | 60.553 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
244 | 254 | 2.859165 | TAGTTTGCTTCCTGGGACTG | 57.141 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
245 | 255 | 0.846693 | AGTTTGCTTCCTGGGACTGT | 59.153 | 50.000 | 0.00 | 0.00 | 0.00 | 3.55 |
246 | 256 | 0.954452 | GTTTGCTTCCTGGGACTGTG | 59.046 | 55.000 | 0.00 | 0.00 | 0.00 | 3.66 |
348 | 365 | 3.570125 | TCTGTACGCATCCTAGATTCCTG | 59.430 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
349 | 366 | 2.628178 | TGTACGCATCCTAGATTCCTGG | 59.372 | 50.000 | 0.00 | 0.00 | 0.00 | 4.45 |
418 | 444 | 2.695147 | CCCACAGCTTTGAGGAAAAGTT | 59.305 | 45.455 | 0.17 | 0.00 | 46.05 | 2.66 |
424 | 450 | 5.966742 | AGCTTTGAGGAAAAGTTGGTATC | 57.033 | 39.130 | 0.30 | 0.00 | 46.05 | 2.24 |
425 | 451 | 5.385198 | AGCTTTGAGGAAAAGTTGGTATCA | 58.615 | 37.500 | 0.30 | 0.00 | 46.05 | 2.15 |
426 | 452 | 5.241728 | AGCTTTGAGGAAAAGTTGGTATCAC | 59.758 | 40.000 | 0.30 | 0.00 | 46.05 | 3.06 |
427 | 453 | 5.241728 | GCTTTGAGGAAAAGTTGGTATCACT | 59.758 | 40.000 | 0.30 | 0.00 | 46.05 | 3.41 |
428 | 454 | 6.633500 | TTTGAGGAAAAGTTGGTATCACTG | 57.367 | 37.500 | 0.00 | 0.00 | 0.00 | 3.66 |
429 | 455 | 5.304686 | TGAGGAAAAGTTGGTATCACTGT | 57.695 | 39.130 | 0.00 | 0.00 | 0.00 | 3.55 |
430 | 456 | 5.690865 | TGAGGAAAAGTTGGTATCACTGTT | 58.309 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
431 | 457 | 6.833041 | TGAGGAAAAGTTGGTATCACTGTTA | 58.167 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
432 | 458 | 6.934645 | TGAGGAAAAGTTGGTATCACTGTTAG | 59.065 | 38.462 | 0.00 | 0.00 | 0.00 | 2.34 |
433 | 459 | 7.074653 | AGGAAAAGTTGGTATCACTGTTAGA | 57.925 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
434 | 460 | 7.514721 | AGGAAAAGTTGGTATCACTGTTAGAA | 58.485 | 34.615 | 0.00 | 0.00 | 0.00 | 2.10 |
435 | 461 | 8.164070 | AGGAAAAGTTGGTATCACTGTTAGAAT | 58.836 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
436 | 462 | 8.451748 | GGAAAAGTTGGTATCACTGTTAGAATC | 58.548 | 37.037 | 0.00 | 0.00 | 0.00 | 2.52 |
437 | 463 | 7.923414 | AAAGTTGGTATCACTGTTAGAATCC | 57.077 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
438 | 464 | 5.990668 | AGTTGGTATCACTGTTAGAATCCC | 58.009 | 41.667 | 0.00 | 0.00 | 0.00 | 3.85 |
439 | 465 | 5.487488 | AGTTGGTATCACTGTTAGAATCCCA | 59.513 | 40.000 | 0.00 | 0.00 | 0.00 | 4.37 |
440 | 466 | 6.158695 | AGTTGGTATCACTGTTAGAATCCCAT | 59.841 | 38.462 | 0.00 | 0.00 | 0.00 | 4.00 |
441 | 467 | 6.575244 | TGGTATCACTGTTAGAATCCCATT | 57.425 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
442 | 468 | 7.684317 | TGGTATCACTGTTAGAATCCCATTA | 57.316 | 36.000 | 0.00 | 0.00 | 0.00 | 1.90 |
443 | 469 | 8.275187 | TGGTATCACTGTTAGAATCCCATTAT | 57.725 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
444 | 470 | 8.156820 | TGGTATCACTGTTAGAATCCCATTATG | 58.843 | 37.037 | 0.00 | 0.00 | 0.00 | 1.90 |
445 | 471 | 7.119846 | GGTATCACTGTTAGAATCCCATTATGC | 59.880 | 40.741 | 0.00 | 0.00 | 0.00 | 3.14 |
446 | 472 | 5.376625 | TCACTGTTAGAATCCCATTATGCC | 58.623 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
447 | 473 | 5.104151 | TCACTGTTAGAATCCCATTATGCCA | 60.104 | 40.000 | 0.00 | 0.00 | 0.00 | 4.92 |
448 | 474 | 5.593909 | CACTGTTAGAATCCCATTATGCCAA | 59.406 | 40.000 | 0.00 | 0.00 | 0.00 | 4.52 |
449 | 475 | 5.829924 | ACTGTTAGAATCCCATTATGCCAAG | 59.170 | 40.000 | 0.00 | 0.00 | 0.00 | 3.61 |
450 | 476 | 5.765510 | TGTTAGAATCCCATTATGCCAAGT | 58.234 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
453 | 479 | 3.205056 | AGAATCCCATTATGCCAAGTGGA | 59.795 | 43.478 | 0.18 | 0.00 | 37.39 | 4.02 |
467 | 493 | 0.673644 | AGTGGATTTCGTTGCCGGAG | 60.674 | 55.000 | 5.05 | 0.00 | 33.95 | 4.63 |
479 | 505 | 1.268066 | TGCCGGAGTATGGTGTGTTA | 58.732 | 50.000 | 5.05 | 0.00 | 0.00 | 2.41 |
483 | 509 | 2.612212 | CCGGAGTATGGTGTGTTATTGC | 59.388 | 50.000 | 0.00 | 0.00 | 0.00 | 3.56 |
488 | 514 | 1.750193 | ATGGTGTGTTATTGCCGGAG | 58.250 | 50.000 | 5.05 | 0.00 | 0.00 | 4.63 |
508 | 534 | 3.924144 | AGTTTAGTTGCTCAGCTCTCAG | 58.076 | 45.455 | 0.00 | 0.00 | 0.00 | 3.35 |
525 | 551 | 3.321968 | TCTCAGCAAGTTTCAGCTCACTA | 59.678 | 43.478 | 0.00 | 0.00 | 39.50 | 2.74 |
528 | 554 | 3.561310 | CAGCAAGTTTCAGCTCACTACAA | 59.439 | 43.478 | 0.00 | 0.00 | 39.50 | 2.41 |
545 | 571 | 1.134580 | ACAAGGATCATCTGTCCTGCG | 60.135 | 52.381 | 0.00 | 0.00 | 45.23 | 5.18 |
554 | 580 | 6.428159 | GGATCATCTGTCCTGCGTAATTTATT | 59.572 | 38.462 | 0.00 | 0.00 | 32.85 | 1.40 |
599 | 721 | 2.159379 | GCCAATTAGCCACTGTAGTTGC | 60.159 | 50.000 | 0.19 | 0.19 | 37.00 | 4.17 |
600 | 722 | 2.423538 | CCAATTAGCCACTGTAGTTGCC | 59.576 | 50.000 | 4.66 | 0.00 | 37.40 | 4.52 |
601 | 723 | 3.347216 | CAATTAGCCACTGTAGTTGCCT | 58.653 | 45.455 | 4.66 | 0.00 | 37.40 | 4.75 |
602 | 724 | 4.513442 | CAATTAGCCACTGTAGTTGCCTA | 58.487 | 43.478 | 4.66 | 0.00 | 37.40 | 3.93 |
603 | 725 | 3.887621 | TTAGCCACTGTAGTTGCCTAG | 57.112 | 47.619 | 4.66 | 0.00 | 37.40 | 3.02 |
604 | 726 | 1.645710 | AGCCACTGTAGTTGCCTAGT | 58.354 | 50.000 | 4.66 | 0.00 | 37.40 | 2.57 |
605 | 727 | 1.276421 | AGCCACTGTAGTTGCCTAGTG | 59.724 | 52.381 | 4.66 | 0.00 | 37.40 | 2.74 |
694 | 816 | 6.067217 | AGACTGGCTTTATACTTCACCAAT | 57.933 | 37.500 | 0.00 | 0.00 | 0.00 | 3.16 |
698 | 820 | 5.192927 | TGGCTTTATACTTCACCAATCCTG | 58.807 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
729 | 851 | 3.379372 | GCTGCAATGACACTACCATCATT | 59.621 | 43.478 | 0.00 | 0.00 | 44.52 | 2.57 |
736 | 858 | 7.649306 | GCAATGACACTACCATCATTATTTTCC | 59.351 | 37.037 | 0.00 | 0.00 | 42.35 | 3.13 |
759 | 881 | 5.468072 | CCCGTTCATCTTCTCAATGATAAGG | 59.532 | 44.000 | 8.25 | 0.00 | 33.36 | 2.69 |
769 | 892 | 5.018809 | TCTCAATGATAAGGCAAAGGCTTT | 58.981 | 37.500 | 6.68 | 6.68 | 46.16 | 3.51 |
847 | 970 | 5.064558 | TGTTACTTTTATCACCAAGCGGAA | 58.935 | 37.500 | 0.00 | 0.00 | 35.59 | 4.30 |
869 | 992 | 8.932791 | CGGAATAACTGTAACACTGAAGTAAAT | 58.067 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
887 | 1010 | 7.158099 | AGTAAATTCCCACTTTGCTGATTAC | 57.842 | 36.000 | 0.00 | 0.00 | 29.07 | 1.89 |
891 | 1014 | 6.759497 | ATTCCCACTTTGCTGATTACTAAC | 57.241 | 37.500 | 0.00 | 0.00 | 0.00 | 2.34 |
957 | 1080 | 2.093973 | CCTCTGACCATCTAAACAGCGT | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 5.07 |
964 | 1087 | 2.159627 | CCATCTAAACAGCGTGTTGGAC | 59.840 | 50.000 | 4.51 | 0.00 | 40.14 | 4.02 |
966 | 1089 | 1.139256 | TCTAAACAGCGTGTTGGACCA | 59.861 | 47.619 | 0.00 | 0.00 | 40.14 | 4.02 |
1164 | 1287 | 0.242825 | TACCTTGTCCGTTCTGCTCG | 59.757 | 55.000 | 0.00 | 0.00 | 0.00 | 5.03 |
1185 | 1308 | 1.133325 | AGGCTAGATCATGTCCTCGGT | 60.133 | 52.381 | 0.00 | 0.00 | 0.00 | 4.69 |
1188 | 1311 | 3.305471 | GGCTAGATCATGTCCTCGGTAAC | 60.305 | 52.174 | 0.00 | 0.00 | 0.00 | 2.50 |
1361 | 1484 | 3.864583 | CCAAACAACAATGACAACACAGG | 59.135 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
1369 | 1492 | 1.148273 | GACAACACAGGTGAGCCCA | 59.852 | 57.895 | 6.40 | 0.00 | 34.66 | 5.36 |
1381 | 1504 | 2.927856 | AGCCCACCGTGGATGTCA | 60.928 | 61.111 | 19.81 | 0.00 | 40.96 | 3.58 |
1573 | 1696 | 1.811965 | CATGGCAACTGGACGAATCAA | 59.188 | 47.619 | 0.00 | 0.00 | 37.61 | 2.57 |
1722 | 1845 | 7.614583 | CCTCATGAAGCCTATGATATGGAAAAT | 59.385 | 37.037 | 0.00 | 0.00 | 34.33 | 1.82 |
1768 | 1891 | 4.927267 | TTTGAGATACCAGGTGTTCCAT | 57.073 | 40.909 | 0.76 | 0.00 | 35.89 | 3.41 |
1769 | 1892 | 4.487714 | TTGAGATACCAGGTGTTCCATC | 57.512 | 45.455 | 0.76 | 0.00 | 35.89 | 3.51 |
1775 | 1898 | 1.379044 | CAGGTGTTCCATCCCCTGC | 60.379 | 63.158 | 0.00 | 0.00 | 38.19 | 4.85 |
1859 | 1982 | 1.358877 | TGTTCGGCAGATCATGTTCG | 58.641 | 50.000 | 0.00 | 0.61 | 0.00 | 3.95 |
1860 | 1983 | 0.652592 | GTTCGGCAGATCATGTTCGG | 59.347 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1943 | 2066 | 0.461516 | AGACGAGCATCACAGCATGG | 60.462 | 55.000 | 0.00 | 0.00 | 43.62 | 3.66 |
2162 | 2289 | 1.203287 | TCAGAGGACGAATGACAGCAG | 59.797 | 52.381 | 0.00 | 0.00 | 0.00 | 4.24 |
2295 | 2422 | 8.236586 | TGAAGGACATTTTGTTTCTATTCATCG | 58.763 | 33.333 | 0.00 | 0.00 | 0.00 | 3.84 |
2301 | 2428 | 7.807907 | ACATTTTGTTTCTATTCATCGAACCAC | 59.192 | 33.333 | 0.00 | 0.00 | 0.00 | 4.16 |
2311 | 2438 | 2.150390 | CATCGAACCACCATGACACAA | 58.850 | 47.619 | 0.00 | 0.00 | 0.00 | 3.33 |
2350 | 2477 | 0.117140 | TCCAGAAGAAGCTCAGGGGA | 59.883 | 55.000 | 0.00 | 0.00 | 0.00 | 4.81 |
2351 | 2478 | 0.251634 | CCAGAAGAAGCTCAGGGGAC | 59.748 | 60.000 | 0.00 | 0.00 | 0.00 | 4.46 |
2364 | 2491 | 0.036010 | AGGGGACAGAAATCACTGCG | 60.036 | 55.000 | 0.00 | 0.00 | 41.06 | 5.18 |
2375 | 2502 | 5.521372 | CAGAAATCACTGCGATATCAAGTGA | 59.479 | 40.000 | 27.66 | 27.66 | 42.57 | 3.41 |
2377 | 2504 | 2.797491 | TCACTGCGATATCAAGTGACG | 58.203 | 47.619 | 24.32 | 8.66 | 35.00 | 4.35 |
2379 | 2506 | 3.375922 | TCACTGCGATATCAAGTGACGTA | 59.624 | 43.478 | 24.32 | 10.50 | 35.00 | 3.57 |
2407 | 2534 | 4.080356 | ACCAGAGAAGCACATTGGCTAATA | 60.080 | 41.667 | 0.00 | 0.00 | 45.07 | 0.98 |
2445 | 2572 | 4.008916 | ACCAGTACCCAAGGACTATCAT | 57.991 | 45.455 | 0.00 | 0.00 | 0.00 | 2.45 |
2460 | 2587 | 7.568349 | AGGACTATCATTATGTTGCTTCAGAA | 58.432 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
2461 | 2588 | 7.714377 | AGGACTATCATTATGTTGCTTCAGAAG | 59.286 | 37.037 | 5.72 | 5.72 | 0.00 | 2.85 |
2462 | 2589 | 7.712639 | GGACTATCATTATGTTGCTTCAGAAGA | 59.287 | 37.037 | 14.86 | 0.00 | 0.00 | 2.87 |
2463 | 2590 | 9.270640 | GACTATCATTATGTTGCTTCAGAAGAT | 57.729 | 33.333 | 14.86 | 0.97 | 0.00 | 2.40 |
2466 | 2593 | 8.969260 | ATCATTATGTTGCTTCAGAAGATACA | 57.031 | 30.769 | 14.86 | 15.52 | 0.00 | 2.29 |
2467 | 2594 | 8.969260 | TCATTATGTTGCTTCAGAAGATACAT | 57.031 | 30.769 | 23.36 | 23.36 | 37.60 | 2.29 |
2471 | 2598 | 7.976135 | ATGTTGCTTCAGAAGATACATATCC | 57.024 | 36.000 | 20.65 | 1.71 | 34.45 | 2.59 |
2472 | 2599 | 5.985530 | TGTTGCTTCAGAAGATACATATCCG | 59.014 | 40.000 | 14.86 | 0.00 | 33.17 | 4.18 |
2473 | 2600 | 6.183360 | TGTTGCTTCAGAAGATACATATCCGA | 60.183 | 38.462 | 14.86 | 0.00 | 33.17 | 4.55 |
2474 | 2601 | 6.405278 | TGCTTCAGAAGATACATATCCGAA | 57.595 | 37.500 | 14.86 | 0.00 | 33.17 | 4.30 |
2514 | 2656 | 4.400884 | TCTCTCTTTCTCCACTGTAGCATC | 59.599 | 45.833 | 0.00 | 0.00 | 0.00 | 3.91 |
2518 | 2660 | 0.817654 | TCTCCACTGTAGCATCCACG | 59.182 | 55.000 | 0.00 | 0.00 | 0.00 | 4.94 |
2526 | 2668 | 5.414765 | CCACTGTAGCATCCACGTATCTATA | 59.585 | 44.000 | 0.00 | 0.00 | 0.00 | 1.31 |
2579 | 2721 | 7.992033 | ACTCTCTTTCAGATAATTTCAGGGATG | 59.008 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
2720 | 2862 | 5.656416 | TCCAGTTCAACTTCCAAAGATTTGT | 59.344 | 36.000 | 4.71 | 0.00 | 36.45 | 2.83 |
2737 | 2879 | 7.770801 | AGATTTGTTAGCAAAAGGTTTGTTC | 57.229 | 32.000 | 8.89 | 0.04 | 46.23 | 3.18 |
2813 | 2956 | 7.114754 | ACCATTTTGATCAGATGCTAAAGAGA | 58.885 | 34.615 | 13.05 | 0.00 | 0.00 | 3.10 |
2890 | 3033 | 2.025863 | GCCATTGAGGAACATCCCCAG | 61.026 | 57.143 | 0.00 | 0.00 | 41.22 | 4.45 |
2938 | 3081 | 4.584325 | AGACCATCTCTTAGCACTCAGATC | 59.416 | 45.833 | 0.00 | 0.00 | 0.00 | 2.75 |
2962 | 3105 | 2.961526 | TGAACGAGGCCTACAATCTC | 57.038 | 50.000 | 4.42 | 0.00 | 0.00 | 2.75 |
3004 | 3147 | 1.000359 | CCCATCCCCAACCTTGACC | 60.000 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
3031 | 3174 | 3.074390 | TGATTCTTGGAAAGGGCTCTTCA | 59.926 | 43.478 | 0.00 | 0.00 | 46.24 | 3.02 |
3070 | 3213 | 2.692557 | ACTGAGGCTACTGCTATCACAG | 59.307 | 50.000 | 0.00 | 0.00 | 43.59 | 3.66 |
3155 | 3298 | 2.290641 | GGGCGTGGTGATGATTTGATAC | 59.709 | 50.000 | 0.00 | 0.00 | 0.00 | 2.24 |
3175 | 3318 | 6.595326 | TGATACTGCAGAACATAACAAGAAGG | 59.405 | 38.462 | 23.35 | 0.00 | 0.00 | 3.46 |
3291 | 3434 | 3.058570 | CGACAGATTGATCTAGACCGGAG | 60.059 | 52.174 | 9.46 | 0.00 | 34.85 | 4.63 |
3334 | 3477 | 2.093711 | GGAGCTGGAAGAAGAGAGGAAC | 60.094 | 54.545 | 0.00 | 0.00 | 34.07 | 3.62 |
3337 | 3480 | 0.608640 | TGGAAGAAGAGAGGAACGCC | 59.391 | 55.000 | 0.00 | 0.00 | 0.00 | 5.68 |
3503 | 3646 | 1.077915 | GCTGCTTGCTCAGAGAGAAC | 58.922 | 55.000 | 0.00 | 0.00 | 38.95 | 3.01 |
3578 | 3721 | 2.525105 | TGGAGGGCCAATAAAGGAAC | 57.475 | 50.000 | 6.18 | 0.00 | 42.49 | 3.62 |
3583 | 3726 | 4.281657 | GAGGGCCAATAAAGGAACAAGAT | 58.718 | 43.478 | 6.18 | 0.00 | 0.00 | 2.40 |
3584 | 3727 | 4.026052 | AGGGCCAATAAAGGAACAAGATG | 58.974 | 43.478 | 6.18 | 0.00 | 0.00 | 2.90 |
3608 | 3751 | 2.958355 | CAGCTCCCCTTTGAAGAACAAA | 59.042 | 45.455 | 0.00 | 0.00 | 44.79 | 2.83 |
3701 | 3844 | 3.303132 | GCTTCACTTGTACTCCAACAACG | 60.303 | 47.826 | 0.00 | 0.00 | 35.56 | 4.10 |
3799 | 3942 | 5.671735 | TCAATCTTCTAGAATGGATGGGGAA | 59.328 | 40.000 | 5.44 | 0.00 | 0.00 | 3.97 |
3817 | 3960 | 3.471680 | GGAAGCTGACCTATCCACATTC | 58.528 | 50.000 | 0.00 | 0.00 | 32.08 | 2.67 |
4030 | 4173 | 2.033299 | CACACAAAACCTCTTCGTGCAT | 59.967 | 45.455 | 0.00 | 0.00 | 0.00 | 3.96 |
4091 | 4234 | 8.257306 | TGTGCTCCAAAAGAAAAGAAATAGTTT | 58.743 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
4179 | 4323 | 4.438744 | GGCAAGTATACTGGCATGTGTTTC | 60.439 | 45.833 | 29.19 | 9.36 | 44.72 | 2.78 |
4330 | 4476 | 0.871722 | GTGTGTGTGTGTGTGTGTGT | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
4332 | 4478 | 0.871722 | GTGTGTGTGTGTGTGTGTGT | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
4487 | 4635 | 1.969589 | GTCGGCGACAAAACCCCAT | 60.970 | 57.895 | 33.07 | 0.00 | 32.09 | 4.00 |
4655 | 4803 | 6.205101 | CCTTTTGGAATGAGAAGGAGAATG | 57.795 | 41.667 | 0.00 | 0.00 | 44.07 | 2.67 |
4656 | 4804 | 5.948162 | CCTTTTGGAATGAGAAGGAGAATGA | 59.052 | 40.000 | 0.00 | 0.00 | 44.07 | 2.57 |
4657 | 4805 | 6.095160 | CCTTTTGGAATGAGAAGGAGAATGAG | 59.905 | 42.308 | 0.00 | 0.00 | 44.07 | 2.90 |
4658 | 4806 | 6.378661 | TTTGGAATGAGAAGGAGAATGAGA | 57.621 | 37.500 | 0.00 | 0.00 | 0.00 | 3.27 |
4659 | 4807 | 6.378661 | TTGGAATGAGAAGGAGAATGAGAA | 57.621 | 37.500 | 0.00 | 0.00 | 0.00 | 2.87 |
4660 | 4808 | 5.987098 | TGGAATGAGAAGGAGAATGAGAAG | 58.013 | 41.667 | 0.00 | 0.00 | 0.00 | 2.85 |
4673 | 4821 | 3.678056 | ATGAGAAGTTACGGTTGAGCA | 57.322 | 42.857 | 0.00 | 0.00 | 0.00 | 4.26 |
4674 | 4822 | 3.026630 | TGAGAAGTTACGGTTGAGCAG | 57.973 | 47.619 | 0.00 | 0.00 | 0.00 | 4.24 |
4791 | 4947 | 4.923871 | GCGATACATGTATTCCTCATTCGT | 59.076 | 41.667 | 19.19 | 0.00 | 30.65 | 3.85 |
4906 | 5062 | 1.740025 | GGCTTGGATGAAAAGGAGTCG | 59.260 | 52.381 | 0.00 | 0.00 | 0.00 | 4.18 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
126 | 133 | 1.591594 | CCGATAATCAGCACGCCGT | 60.592 | 57.895 | 0.00 | 0.00 | 0.00 | 5.68 |
179 | 189 | 1.661463 | AGGAAATCACAGGAGGAGCA | 58.339 | 50.000 | 0.00 | 0.00 | 0.00 | 4.26 |
185 | 195 | 2.553028 | GCCACAGAAGGAAATCACAGGA | 60.553 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
196 | 206 | 2.046892 | CGGGTCAGCCACAGAAGG | 60.047 | 66.667 | 0.00 | 0.00 | 36.17 | 3.46 |
197 | 207 | 1.669115 | CACGGGTCAGCCACAGAAG | 60.669 | 63.158 | 0.00 | 0.00 | 36.17 | 2.85 |
241 | 251 | 1.458639 | GCTTCCTTGCAAGGCACAGT | 61.459 | 55.000 | 36.24 | 0.00 | 46.06 | 3.55 |
242 | 252 | 1.288127 | GCTTCCTTGCAAGGCACAG | 59.712 | 57.895 | 36.24 | 29.41 | 46.06 | 3.66 |
243 | 253 | 1.042003 | TTGCTTCCTTGCAAGGCACA | 61.042 | 50.000 | 36.24 | 28.85 | 46.43 | 4.57 |
244 | 254 | 1.741525 | TTGCTTCCTTGCAAGGCAC | 59.258 | 52.632 | 36.24 | 26.91 | 46.43 | 5.01 |
245 | 255 | 4.274012 | TTGCTTCCTTGCAAGGCA | 57.726 | 50.000 | 36.24 | 27.91 | 46.43 | 4.75 |
265 | 281 | 2.218603 | AGGAACAACACGGTAAGCAAG | 58.781 | 47.619 | 0.00 | 0.00 | 0.00 | 4.01 |
267 | 283 | 2.335316 | AAGGAACAACACGGTAAGCA | 57.665 | 45.000 | 0.00 | 0.00 | 0.00 | 3.91 |
268 | 284 | 3.703286 | AAAAGGAACAACACGGTAAGC | 57.297 | 42.857 | 0.00 | 0.00 | 0.00 | 3.09 |
269 | 285 | 7.198306 | AGAATAAAAGGAACAACACGGTAAG | 57.802 | 36.000 | 0.00 | 0.00 | 0.00 | 2.34 |
271 | 287 | 7.933033 | ACTAAGAATAAAAGGAACAACACGGTA | 59.067 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
272 | 288 | 6.769341 | ACTAAGAATAAAAGGAACAACACGGT | 59.231 | 34.615 | 0.00 | 0.00 | 0.00 | 4.83 |
320 | 337 | 5.592104 | TCTAGGATGCGTACAGAATCAAA | 57.408 | 39.130 | 7.64 | 0.00 | 36.57 | 2.69 |
348 | 365 | 8.638873 | CCAAATCCCCAATAGAAAATAACTACC | 58.361 | 37.037 | 0.00 | 0.00 | 0.00 | 3.18 |
349 | 366 | 8.638873 | CCCAAATCCCCAATAGAAAATAACTAC | 58.361 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
364 | 390 | 0.549902 | TCTCAGCTCCCAAATCCCCA | 60.550 | 55.000 | 0.00 | 0.00 | 0.00 | 4.96 |
418 | 444 | 6.575244 | AATGGGATTCTAACAGTGATACCA | 57.425 | 37.500 | 0.00 | 0.00 | 0.00 | 3.25 |
419 | 445 | 7.119846 | GCATAATGGGATTCTAACAGTGATACC | 59.880 | 40.741 | 0.00 | 0.00 | 0.00 | 2.73 |
420 | 446 | 7.119846 | GGCATAATGGGATTCTAACAGTGATAC | 59.880 | 40.741 | 0.00 | 0.00 | 0.00 | 2.24 |
421 | 447 | 7.168219 | GGCATAATGGGATTCTAACAGTGATA | 58.832 | 38.462 | 0.00 | 0.00 | 0.00 | 2.15 |
422 | 448 | 6.006449 | GGCATAATGGGATTCTAACAGTGAT | 58.994 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
423 | 449 | 5.104151 | TGGCATAATGGGATTCTAACAGTGA | 60.104 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
424 | 450 | 5.132502 | TGGCATAATGGGATTCTAACAGTG | 58.867 | 41.667 | 0.00 | 0.00 | 0.00 | 3.66 |
425 | 451 | 5.387113 | TGGCATAATGGGATTCTAACAGT | 57.613 | 39.130 | 0.00 | 0.00 | 0.00 | 3.55 |
426 | 452 | 5.829924 | ACTTGGCATAATGGGATTCTAACAG | 59.170 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
427 | 453 | 5.593909 | CACTTGGCATAATGGGATTCTAACA | 59.406 | 40.000 | 0.00 | 0.00 | 0.00 | 2.41 |
428 | 454 | 5.010012 | CCACTTGGCATAATGGGATTCTAAC | 59.990 | 44.000 | 4.66 | 0.00 | 0.00 | 2.34 |
429 | 455 | 5.103728 | TCCACTTGGCATAATGGGATTCTAA | 60.104 | 40.000 | 11.08 | 0.00 | 32.73 | 2.10 |
430 | 456 | 4.415179 | TCCACTTGGCATAATGGGATTCTA | 59.585 | 41.667 | 11.08 | 0.00 | 32.73 | 2.10 |
431 | 457 | 3.205056 | TCCACTTGGCATAATGGGATTCT | 59.795 | 43.478 | 11.08 | 0.00 | 32.73 | 2.40 |
432 | 458 | 3.565307 | TCCACTTGGCATAATGGGATTC | 58.435 | 45.455 | 11.08 | 0.00 | 32.73 | 2.52 |
433 | 459 | 3.686227 | TCCACTTGGCATAATGGGATT | 57.314 | 42.857 | 11.08 | 0.00 | 32.73 | 3.01 |
434 | 460 | 3.909427 | ATCCACTTGGCATAATGGGAT | 57.091 | 42.857 | 11.08 | 6.60 | 32.73 | 3.85 |
435 | 461 | 3.686227 | AATCCACTTGGCATAATGGGA | 57.314 | 42.857 | 11.08 | 4.77 | 32.73 | 4.37 |
436 | 462 | 3.243501 | CGAAATCCACTTGGCATAATGGG | 60.244 | 47.826 | 11.08 | 0.00 | 32.73 | 4.00 |
437 | 463 | 3.381272 | ACGAAATCCACTTGGCATAATGG | 59.619 | 43.478 | 5.97 | 5.97 | 34.44 | 3.16 |
438 | 464 | 4.637483 | ACGAAATCCACTTGGCATAATG | 57.363 | 40.909 | 0.00 | 0.00 | 34.44 | 1.90 |
439 | 465 | 4.677779 | GCAACGAAATCCACTTGGCATAAT | 60.678 | 41.667 | 0.00 | 0.00 | 34.44 | 1.28 |
440 | 466 | 3.366883 | GCAACGAAATCCACTTGGCATAA | 60.367 | 43.478 | 0.00 | 0.00 | 34.44 | 1.90 |
441 | 467 | 2.163412 | GCAACGAAATCCACTTGGCATA | 59.837 | 45.455 | 0.00 | 0.00 | 34.44 | 3.14 |
442 | 468 | 1.067635 | GCAACGAAATCCACTTGGCAT | 60.068 | 47.619 | 0.00 | 0.00 | 34.44 | 4.40 |
443 | 469 | 0.313672 | GCAACGAAATCCACTTGGCA | 59.686 | 50.000 | 0.00 | 0.00 | 34.44 | 4.92 |
444 | 470 | 0.388520 | GGCAACGAAATCCACTTGGC | 60.389 | 55.000 | 0.00 | 0.00 | 34.44 | 4.52 |
445 | 471 | 3.792716 | GGCAACGAAATCCACTTGG | 57.207 | 52.632 | 0.00 | 0.00 | 0.00 | 3.61 |
467 | 493 | 2.612212 | CTCCGGCAATAACACACCATAC | 59.388 | 50.000 | 0.00 | 0.00 | 0.00 | 2.39 |
479 | 505 | 2.084546 | GAGCAACTAAACTCCGGCAAT | 58.915 | 47.619 | 0.00 | 0.00 | 0.00 | 3.56 |
483 | 509 | 1.079503 | GCTGAGCAACTAAACTCCGG | 58.920 | 55.000 | 0.00 | 0.00 | 31.65 | 5.14 |
488 | 514 | 2.414825 | GCTGAGAGCTGAGCAACTAAAC | 59.585 | 50.000 | 7.39 | 0.00 | 39.66 | 2.01 |
508 | 534 | 3.058639 | CCTTGTAGTGAGCTGAAACTTGC | 60.059 | 47.826 | 0.00 | 0.00 | 0.00 | 4.01 |
525 | 551 | 1.134580 | CGCAGGACAGATGATCCTTGT | 60.135 | 52.381 | 0.00 | 0.00 | 44.64 | 3.16 |
554 | 580 | 3.617284 | TCGCAGATACACTAGACCAAGA | 58.383 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
684 | 806 | 4.262635 | CGATATAGGCAGGATTGGTGAAGT | 60.263 | 45.833 | 0.00 | 0.00 | 0.00 | 3.01 |
694 | 816 | 1.047801 | TTGCAGCGATATAGGCAGGA | 58.952 | 50.000 | 0.00 | 0.00 | 37.59 | 3.86 |
698 | 820 | 2.158449 | GTGTCATTGCAGCGATATAGGC | 59.842 | 50.000 | 0.00 | 0.00 | 0.00 | 3.93 |
729 | 851 | 7.109501 | TCATTGAGAAGATGAACGGGAAAATA | 58.890 | 34.615 | 0.00 | 0.00 | 30.96 | 1.40 |
736 | 858 | 5.049818 | GCCTTATCATTGAGAAGATGAACGG | 60.050 | 44.000 | 19.95 | 5.88 | 37.11 | 4.44 |
847 | 970 | 9.227777 | GGGAATTTACTTCAGTGTTACAGTTAT | 57.772 | 33.333 | 0.00 | 0.00 | 35.41 | 1.89 |
869 | 992 | 5.007682 | GGTTAGTAATCAGCAAAGTGGGAA | 58.992 | 41.667 | 0.00 | 0.00 | 0.00 | 3.97 |
872 | 995 | 6.381801 | CAAAGGTTAGTAATCAGCAAAGTGG | 58.618 | 40.000 | 0.00 | 0.00 | 0.00 | 4.00 |
887 | 1010 | 6.136541 | ACAAGAAGTCAAAGCAAAGGTTAG | 57.863 | 37.500 | 0.00 | 0.00 | 0.00 | 2.34 |
891 | 1014 | 4.540824 | GCTACAAGAAGTCAAAGCAAAGG | 58.459 | 43.478 | 0.00 | 0.00 | 0.00 | 3.11 |
957 | 1080 | 0.537653 | TCACGACAGTTGGTCCAACA | 59.462 | 50.000 | 31.59 | 10.58 | 45.66 | 3.33 |
964 | 1087 | 2.663602 | CTCGAATCTTCACGACAGTTGG | 59.336 | 50.000 | 0.00 | 0.00 | 34.82 | 3.77 |
966 | 1089 | 3.644884 | ACTCGAATCTTCACGACAGTT | 57.355 | 42.857 | 0.00 | 0.00 | 34.82 | 3.16 |
1109 | 1232 | 0.038166 | ACGGGCAAATCTGGTGATGT | 59.962 | 50.000 | 0.00 | 0.00 | 32.44 | 3.06 |
1164 | 1287 | 1.543802 | CCGAGGACATGATCTAGCCTC | 59.456 | 57.143 | 0.00 | 11.85 | 41.29 | 4.70 |
1185 | 1308 | 0.963962 | AGAAGCACGGTTCCTCGTTA | 59.036 | 50.000 | 5.40 | 0.00 | 41.86 | 3.18 |
1188 | 1311 | 0.242825 | TGTAGAAGCACGGTTCCTCG | 59.757 | 55.000 | 5.40 | 0.00 | 0.00 | 4.63 |
1197 | 1320 | 4.574013 | CAGATCAATTCCCTGTAGAAGCAC | 59.426 | 45.833 | 0.00 | 0.00 | 0.00 | 4.40 |
1361 | 1484 | 2.436646 | CATCCACGGTGGGCTCAC | 60.437 | 66.667 | 26.07 | 8.68 | 42.91 | 3.51 |
1369 | 1492 | 2.565391 | TGAGTACATTGACATCCACGGT | 59.435 | 45.455 | 0.00 | 0.00 | 0.00 | 4.83 |
1381 | 1504 | 3.194968 | CCCTGAGTACCGTTGAGTACATT | 59.805 | 47.826 | 0.00 | 0.00 | 44.19 | 2.71 |
1518 | 1641 | 3.044986 | CGTGCAAATCTTTGGTGACTTG | 58.955 | 45.455 | 4.93 | 0.00 | 38.57 | 3.16 |
1573 | 1696 | 6.098982 | TGGTGGTAAATGTCTTTGGTTTCAAT | 59.901 | 34.615 | 0.00 | 0.00 | 32.28 | 2.57 |
1613 | 1736 | 6.067350 | TGTAGAGCACTGTATCTCTCATGAT | 58.933 | 40.000 | 12.99 | 0.00 | 40.00 | 2.45 |
1722 | 1845 | 6.352016 | ACTGCATCTTCTTGAAAGTCTCTA | 57.648 | 37.500 | 0.00 | 0.00 | 0.00 | 2.43 |
1734 | 1857 | 6.240894 | TGGTATCTCAAAAACTGCATCTTCT | 58.759 | 36.000 | 0.00 | 0.00 | 0.00 | 2.85 |
1859 | 1982 | 3.941483 | CACACTGTCAGGGTCATAATTCC | 59.059 | 47.826 | 4.25 | 0.00 | 21.60 | 3.01 |
1860 | 1983 | 4.832248 | TCACACTGTCAGGGTCATAATTC | 58.168 | 43.478 | 4.25 | 0.00 | 21.60 | 2.17 |
1943 | 2066 | 3.290710 | TCTTCAATGGCAATTAGAGGGC | 58.709 | 45.455 | 0.00 | 0.00 | 0.00 | 5.19 |
2125 | 2252 | 4.999311 | CCTCTGACATGATTCAGTTTCACA | 59.001 | 41.667 | 11.82 | 0.00 | 43.19 | 3.58 |
2162 | 2289 | 7.493645 | TGAATTGAGATGTATATGGATCGATGC | 59.506 | 37.037 | 10.37 | 10.37 | 0.00 | 3.91 |
2273 | 2400 | 7.484959 | GGTTCGATGAATAGAAACAAAATGTCC | 59.515 | 37.037 | 0.00 | 0.00 | 34.43 | 4.02 |
2282 | 2409 | 5.584649 | TCATGGTGGTTCGATGAATAGAAAC | 59.415 | 40.000 | 0.00 | 0.00 | 38.10 | 2.78 |
2288 | 2415 | 3.009723 | GTGTCATGGTGGTTCGATGAAT | 58.990 | 45.455 | 0.00 | 0.00 | 41.52 | 2.57 |
2289 | 2416 | 2.224402 | TGTGTCATGGTGGTTCGATGAA | 60.224 | 45.455 | 0.00 | 0.00 | 41.52 | 2.57 |
2295 | 2422 | 3.791973 | TTTGTTGTGTCATGGTGGTTC | 57.208 | 42.857 | 0.00 | 0.00 | 0.00 | 3.62 |
2350 | 2477 | 5.292834 | CACTTGATATCGCAGTGATTTCTGT | 59.707 | 40.000 | 22.17 | 10.17 | 38.57 | 3.41 |
2351 | 2478 | 5.521372 | TCACTTGATATCGCAGTGATTTCTG | 59.479 | 40.000 | 24.02 | 9.70 | 38.57 | 3.02 |
2364 | 2491 | 6.978659 | TCTGGTGAAATACGTCACTTGATATC | 59.021 | 38.462 | 0.00 | 0.00 | 45.98 | 1.63 |
2375 | 2502 | 3.244078 | TGTGCTTCTCTGGTGAAATACGT | 60.244 | 43.478 | 0.00 | 0.00 | 0.00 | 3.57 |
2377 | 2504 | 5.392380 | CCAATGTGCTTCTCTGGTGAAATAC | 60.392 | 44.000 | 0.00 | 0.00 | 0.00 | 1.89 |
2379 | 2506 | 3.508793 | CCAATGTGCTTCTCTGGTGAAAT | 59.491 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
2407 | 2534 | 5.048846 | ACTGGTTCACTTGTAACTGGATT | 57.951 | 39.130 | 0.00 | 0.00 | 0.00 | 3.01 |
2445 | 2572 | 9.494271 | GGATATGTATCTTCTGAAGCAACATAA | 57.506 | 33.333 | 28.44 | 19.77 | 38.32 | 1.90 |
2460 | 2587 | 8.925338 | ACTAAGAAACCTTTCGGATATGTATCT | 58.075 | 33.333 | 0.51 | 0.00 | 41.92 | 1.98 |
2461 | 2588 | 9.543783 | AACTAAGAAACCTTTCGGATATGTATC | 57.456 | 33.333 | 0.00 | 0.00 | 41.92 | 2.24 |
2462 | 2589 | 9.901172 | AAACTAAGAAACCTTTCGGATATGTAT | 57.099 | 29.630 | 0.00 | 0.00 | 41.92 | 2.29 |
2463 | 2590 | 9.729281 | AAAACTAAGAAACCTTTCGGATATGTA | 57.271 | 29.630 | 0.00 | 0.00 | 41.92 | 2.29 |
2464 | 2591 | 8.512138 | CAAAACTAAGAAACCTTTCGGATATGT | 58.488 | 33.333 | 0.00 | 0.00 | 41.92 | 2.29 |
2465 | 2592 | 8.512138 | ACAAAACTAAGAAACCTTTCGGATATG | 58.488 | 33.333 | 0.00 | 0.00 | 41.92 | 1.78 |
2466 | 2593 | 8.631480 | ACAAAACTAAGAAACCTTTCGGATAT | 57.369 | 30.769 | 0.00 | 0.00 | 41.92 | 1.63 |
2467 | 2594 | 7.935210 | AGACAAAACTAAGAAACCTTTCGGATA | 59.065 | 33.333 | 0.00 | 0.00 | 41.92 | 2.59 |
2468 | 2595 | 6.771267 | AGACAAAACTAAGAAACCTTTCGGAT | 59.229 | 34.615 | 0.00 | 0.00 | 41.92 | 4.18 |
2469 | 2596 | 6.117488 | AGACAAAACTAAGAAACCTTTCGGA | 58.883 | 36.000 | 0.00 | 0.00 | 41.92 | 4.55 |
2470 | 2597 | 6.260271 | AGAGACAAAACTAAGAAACCTTTCGG | 59.740 | 38.462 | 0.00 | 0.00 | 41.92 | 4.30 |
2471 | 2598 | 7.224949 | AGAGAGACAAAACTAAGAAACCTTTCG | 59.775 | 37.037 | 0.00 | 0.00 | 41.92 | 3.46 |
2472 | 2599 | 8.439993 | AGAGAGACAAAACTAAGAAACCTTTC | 57.560 | 34.615 | 0.00 | 0.00 | 37.45 | 2.62 |
2473 | 2600 | 8.809468 | AAGAGAGACAAAACTAAGAAACCTTT | 57.191 | 30.769 | 0.00 | 0.00 | 0.00 | 3.11 |
2474 | 2601 | 8.809468 | AAAGAGAGACAAAACTAAGAAACCTT | 57.191 | 30.769 | 0.00 | 0.00 | 0.00 | 3.50 |
2514 | 2656 | 9.491934 | CGAGATTCAGTTAATATAGATACGTGG | 57.508 | 37.037 | 0.00 | 0.00 | 0.00 | 4.94 |
2720 | 2862 | 5.471257 | ACAAACGAACAAACCTTTTGCTAA | 58.529 | 33.333 | 0.00 | 0.00 | 31.61 | 3.09 |
2737 | 2879 | 1.737793 | GCTGGATGGAAGGTACAAACG | 59.262 | 52.381 | 0.00 | 0.00 | 0.00 | 3.60 |
2795 | 2938 | 6.728089 | ATGAGTCTCTTTAGCATCTGATCA | 57.272 | 37.500 | 0.65 | 0.00 | 0.00 | 2.92 |
2806 | 2949 | 7.331026 | CAACTGGTGGAATATGAGTCTCTTTA | 58.669 | 38.462 | 0.65 | 0.00 | 0.00 | 1.85 |
2813 | 2956 | 3.009473 | ACAGCAACTGGTGGAATATGAGT | 59.991 | 43.478 | 13.08 | 0.00 | 46.90 | 3.41 |
2890 | 3033 | 3.701532 | TCACCAACCGTTTCAATTGTC | 57.298 | 42.857 | 5.13 | 0.00 | 0.00 | 3.18 |
2938 | 3081 | 0.108186 | TGTAGGCCTCGTTCATGCTG | 60.108 | 55.000 | 9.68 | 0.00 | 0.00 | 4.41 |
2950 | 3093 | 0.947244 | CAATGGCGAGATTGTAGGCC | 59.053 | 55.000 | 0.00 | 0.00 | 45.76 | 5.19 |
3004 | 3147 | 2.098117 | GCCCTTTCCAAGAATCACATCG | 59.902 | 50.000 | 0.00 | 0.00 | 0.00 | 3.84 |
3031 | 3174 | 5.105146 | CCTCAGTTCTCCATTTACACTAGCT | 60.105 | 44.000 | 0.00 | 0.00 | 0.00 | 3.32 |
3073 | 3216 | 2.532715 | AGCCCCCTGGAAGCTGAA | 60.533 | 61.111 | 9.29 | 0.00 | 34.99 | 3.02 |
3076 | 3219 | 4.722535 | TCGAGCCCCCTGGAAGCT | 62.723 | 66.667 | 9.78 | 9.78 | 40.24 | 3.74 |
3127 | 3270 | 2.731571 | ATCACCACGCCCATACGCT | 61.732 | 57.895 | 0.00 | 0.00 | 36.19 | 5.07 |
3155 | 3298 | 5.879223 | AGATCCTTCTTGTTATGTTCTGCAG | 59.121 | 40.000 | 7.63 | 7.63 | 0.00 | 4.41 |
3291 | 3434 | 0.386113 | GCAGAGGAGGTGTATCGACC | 59.614 | 60.000 | 0.00 | 0.00 | 36.09 | 4.79 |
3496 | 3639 | 7.554118 | TCCAATTCCTGTATTTGATGTTCTCTC | 59.446 | 37.037 | 0.00 | 0.00 | 0.00 | 3.20 |
3503 | 3646 | 5.594926 | GGCTTCCAATTCCTGTATTTGATG | 58.405 | 41.667 | 0.00 | 0.00 | 0.00 | 3.07 |
3533 | 3676 | 2.480073 | CAGGTTGTGTCCTGCACTTTTG | 60.480 | 50.000 | 0.00 | 0.00 | 46.53 | 2.44 |
3570 | 3713 | 5.431765 | GGAGCTGATCATCTTGTTCCTTTA | 58.568 | 41.667 | 0.00 | 0.00 | 0.00 | 1.85 |
3572 | 3715 | 3.371380 | GGGAGCTGATCATCTTGTTCCTT | 60.371 | 47.826 | 13.06 | 0.00 | 0.00 | 3.36 |
3575 | 3718 | 2.172293 | AGGGGAGCTGATCATCTTGTTC | 59.828 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3578 | 3721 | 2.950309 | CAAAGGGGAGCTGATCATCTTG | 59.050 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3583 | 3726 | 2.269023 | TCTTCAAAGGGGAGCTGATCA | 58.731 | 47.619 | 0.00 | 0.00 | 0.00 | 2.92 |
3584 | 3727 | 3.013219 | GTTCTTCAAAGGGGAGCTGATC | 58.987 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
3735 | 3878 | 2.242926 | TGGACTCTTGTGTCTCCTCTG | 58.757 | 52.381 | 3.40 | 0.00 | 37.16 | 3.35 |
3799 | 3942 | 2.481441 | TGGAATGTGGATAGGTCAGCT | 58.519 | 47.619 | 0.00 | 0.00 | 0.00 | 4.24 |
3817 | 3960 | 2.935201 | CAAGCTCGAGATTTCCTCTTGG | 59.065 | 50.000 | 18.75 | 0.00 | 39.78 | 3.61 |
4030 | 4173 | 1.780309 | ACAAGTTGGGTGGGAATCTGA | 59.220 | 47.619 | 7.96 | 0.00 | 0.00 | 3.27 |
4087 | 4230 | 7.253905 | TCCTAGATGTAGCAACCTAAAAACT | 57.746 | 36.000 | 0.00 | 0.00 | 0.00 | 2.66 |
4091 | 4234 | 6.869206 | AGTTCCTAGATGTAGCAACCTAAA | 57.131 | 37.500 | 0.20 | 0.00 | 28.13 | 1.85 |
4179 | 4323 | 6.776094 | ACTCGTCTCACAAAGAAAAGAAAAG | 58.224 | 36.000 | 0.00 | 0.00 | 35.21 | 2.27 |
4292 | 4438 | 3.196901 | ACACACACACTTCCTGTTCAGTA | 59.803 | 43.478 | 0.00 | 0.00 | 0.00 | 2.74 |
4330 | 4476 | 2.769663 | AGTCTCAACCAGGTTACACACA | 59.230 | 45.455 | 3.89 | 0.00 | 0.00 | 3.72 |
4332 | 4478 | 3.199071 | ACAAGTCTCAACCAGGTTACACA | 59.801 | 43.478 | 3.89 | 0.00 | 0.00 | 3.72 |
4487 | 4635 | 1.992667 | CTGCAGCTAACGAATCGAACA | 59.007 | 47.619 | 10.55 | 0.00 | 0.00 | 3.18 |
4649 | 4797 | 4.327627 | GCTCAACCGTAACTTCTCATTCTC | 59.672 | 45.833 | 0.00 | 0.00 | 0.00 | 2.87 |
4650 | 4798 | 4.246458 | GCTCAACCGTAACTTCTCATTCT | 58.754 | 43.478 | 0.00 | 0.00 | 0.00 | 2.40 |
4651 | 4799 | 3.994392 | TGCTCAACCGTAACTTCTCATTC | 59.006 | 43.478 | 0.00 | 0.00 | 0.00 | 2.67 |
4652 | 4800 | 3.997021 | CTGCTCAACCGTAACTTCTCATT | 59.003 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
4653 | 4801 | 3.258372 | TCTGCTCAACCGTAACTTCTCAT | 59.742 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
4654 | 4802 | 2.626266 | TCTGCTCAACCGTAACTTCTCA | 59.374 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
4655 | 4803 | 2.987821 | GTCTGCTCAACCGTAACTTCTC | 59.012 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
4656 | 4804 | 2.288886 | GGTCTGCTCAACCGTAACTTCT | 60.289 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
4657 | 4805 | 2.067013 | GGTCTGCTCAACCGTAACTTC | 58.933 | 52.381 | 0.00 | 0.00 | 0.00 | 3.01 |
4658 | 4806 | 1.692519 | AGGTCTGCTCAACCGTAACTT | 59.307 | 47.619 | 0.00 | 0.00 | 41.89 | 2.66 |
4659 | 4807 | 1.339097 | AGGTCTGCTCAACCGTAACT | 58.661 | 50.000 | 0.00 | 0.00 | 41.89 | 2.24 |
4660 | 4808 | 1.798813 | CAAGGTCTGCTCAACCGTAAC | 59.201 | 52.381 | 0.00 | 0.00 | 41.89 | 2.50 |
4673 | 4821 | 1.136329 | ATGGTGCAGGTCCAAGGTCT | 61.136 | 55.000 | 0.00 | 0.00 | 38.52 | 3.85 |
4674 | 4822 | 0.962356 | CATGGTGCAGGTCCAAGGTC | 60.962 | 60.000 | 0.00 | 0.00 | 38.52 | 3.85 |
4739 | 4895 | 1.541147 | CGGTCAATGGTGATGCTTGTT | 59.459 | 47.619 | 0.00 | 0.00 | 35.80 | 2.83 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.