Multiple sequence alignment - TraesCS1A01G333200
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 | TraesCS1A01G333200 | chr1A | 100.000 | 4816 | 0 | 0 | 1 | 4816 | 521288175 | 521292990 | 0.000000e+00 | 8894.0 |
1 | TraesCS1A01G333200 | chr1B | 91.621 | 4153 | 196 | 60 | 760 | 4816 | 575860871 | 575864967 | 0.000000e+00 | 5602.0 |
2 | TraesCS1A01G333200 | chr1B | 89.205 | 176 | 13 | 4 | 535 | 710 | 575841450 | 575841619 | 1.050000e-51 | 215.0 |
3 | TraesCS1A01G333200 | chr1B | 100.000 | 34 | 0 | 0 | 4360 | 4393 | 442222780 | 442222747 | 4.020000e-06 | 63.9 |
4 | TraesCS1A01G333200 | chr1B | 100.000 | 34 | 0 | 0 | 4360 | 4393 | 442237433 | 442237400 | 4.020000e-06 | 63.9 |
5 | TraesCS1A01G333200 | chr1B | 100.000 | 34 | 0 | 0 | 4360 | 4393 | 442245281 | 442245248 | 4.020000e-06 | 63.9 |
6 | TraesCS1A01G333200 | chr1D | 91.891 | 2121 | 105 | 26 | 2752 | 4816 | 426176904 | 426179013 | 0.000000e+00 | 2902.0 |
7 | TraesCS1A01G333200 | chr1D | 89.357 | 1353 | 84 | 21 | 725 | 2038 | 426174602 | 426175933 | 0.000000e+00 | 1646.0 |
8 | TraesCS1A01G333200 | chr1D | 91.364 | 799 | 54 | 6 | 2042 | 2834 | 426175979 | 426176768 | 0.000000e+00 | 1079.0 |
9 | TraesCS1A01G333200 | chr1D | 89.152 | 719 | 48 | 14 | 1 | 718 | 426173419 | 426174108 | 0.000000e+00 | 869.0 |
10 | TraesCS1A01G333200 | chr1D | 80.903 | 487 | 83 | 8 | 21 | 503 | 377201255 | 377200775 | 4.550000e-100 | 375.0 |
11 | TraesCS1A01G333200 | chr7D | 82.449 | 490 | 81 | 5 | 18 | 503 | 199356147 | 199355659 | 1.600000e-114 | 424.0 |
12 | TraesCS1A01G333200 | chr7D | 74.884 | 215 | 32 | 18 | 4360 | 4556 | 431246457 | 431246667 | 1.440000e-10 | 78.7 |
13 | TraesCS1A01G333200 | chr7D | 84.906 | 53 | 7 | 1 | 4362 | 4413 | 635522944 | 635522996 | 9.000000e-03 | 52.8 |
14 | TraesCS1A01G333200 | chr7B | 81.657 | 507 | 86 | 7 | 1 | 503 | 221894656 | 221894153 | 9.640000e-112 | 414.0 |
15 | TraesCS1A01G333200 | chr7B | 81.299 | 508 | 86 | 8 | 1 | 502 | 163488888 | 163488384 | 2.090000e-108 | 403.0 |
16 | TraesCS1A01G333200 | chr7B | 78.389 | 509 | 101 | 8 | 5 | 508 | 123730934 | 123731438 | 6.010000e-84 | 322.0 |
17 | TraesCS1A01G333200 | chr7A | 81.423 | 506 | 88 | 6 | 1 | 502 | 209156065 | 209155562 | 4.490000e-110 | 409.0 |
18 | TraesCS1A01G333200 | chr7A | 80.769 | 468 | 81 | 8 | 41 | 503 | 261825460 | 261824997 | 1.650000e-94 | 357.0 |
19 | TraesCS1A01G333200 | chr5A | 81.573 | 483 | 84 | 5 | 7 | 486 | 42115539 | 42115059 | 1.260000e-105 | 394.0 |
20 | TraesCS1A01G333200 | chrUn | 100.000 | 34 | 0 | 0 | 4360 | 4393 | 465949244 | 465949277 | 4.020000e-06 | 63.9 |
21 | TraesCS1A01G333200 | chr6D | 97.059 | 34 | 1 | 0 | 4360 | 4393 | 327022416 | 327022383 | 1.870000e-04 | 58.4 |
These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.
query | scaffold | start | end | length | rev.comp | avg.bitscore | max.bitscore | avg.percent.identical | query.start | query.end | num_hsp | groupid | homo_length | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
0 | TraesCS1A01G333200 | chr1A | 521288175 | 521292990 | 4815 | False | 8894 | 8894 | 100.000 | 1 | 4816 | 1 | chr1A.!!$F1 | 4815 |
1 | TraesCS1A01G333200 | chr1B | 575860871 | 575864967 | 4096 | False | 5602 | 5602 | 91.621 | 760 | 4816 | 1 | chr1B.!!$F2 | 4056 |
2 | TraesCS1A01G333200 | chr1D | 426173419 | 426179013 | 5594 | False | 1624 | 2902 | 90.441 | 1 | 4816 | 4 | chr1D.!!$F1 | 4815 |
3 | TraesCS1A01G333200 | chr7B | 221894153 | 221894656 | 503 | True | 414 | 414 | 81.657 | 1 | 503 | 1 | chr7B.!!$R2 | 502 |
4 | TraesCS1A01G333200 | chr7B | 163488384 | 163488888 | 504 | True | 403 | 403 | 81.299 | 1 | 502 | 1 | chr7B.!!$R1 | 501 |
5 | TraesCS1A01G333200 | chr7B | 123730934 | 123731438 | 504 | False | 322 | 322 | 78.389 | 5 | 508 | 1 | chr7B.!!$F1 | 503 |
6 | TraesCS1A01G333200 | chr7A | 209155562 | 209156065 | 503 | True | 409 | 409 | 81.423 | 1 | 502 | 1 | chr7A.!!$R1 | 501 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
556 | 563 | 0.102120 | CGAGCTGGTCCAGATCAGTC | 59.898 | 60.000 | 31.18 | 14.27 | 45.80 | 3.51 | F |
557 | 564 | 0.463620 | GAGCTGGTCCAGATCAGTCC | 59.536 | 60.000 | 28.45 | 4.69 | 44.99 | 3.85 | F |
1602 | 2139 | 1.013596 | TGACGCTGAAGGTGTGTTTG | 58.986 | 50.000 | 0.00 | 0.00 | 38.95 | 2.93 | F |
3032 | 3877 | 1.524621 | CCGTATTGGCAGCCTCCAG | 60.525 | 63.158 | 14.15 | 0.18 | 37.44 | 3.86 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1371 | 1886 | 0.034896 | ATTGAGCTCGGTTTGGACGT | 59.965 | 50.000 | 9.64 | 0.00 | 0.0 | 4.34 | R |
1865 | 2429 | 0.803740 | GCAAGAAAGCTGCAGAGGAG | 59.196 | 55.000 | 20.43 | 0.58 | 0.0 | 3.69 | R |
3467 | 4319 | 0.325933 | CTGACCAGACCAATCCTGCA | 59.674 | 55.000 | 0.00 | 0.00 | 0.0 | 4.41 | R |
3998 | 4859 | 1.885887 | CCAAAAGTTGCCGATGAGGAA | 59.114 | 47.619 | 0.00 | 0.00 | 45.0 | 3.36 | 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 |
---|---|---|---|---|---|---|---|---|---|
56 | 58 | 1.134487 | CGCTAACGCATTGGTGGTG | 59.866 | 57.895 | 0.00 | 0.00 | 35.30 | 4.17 |
86 | 90 | 5.716228 | TCTCCAATGCCATATGAAGTTTTGT | 59.284 | 36.000 | 3.65 | 0.00 | 0.00 | 2.83 |
143 | 147 | 0.832135 | GCCCCTCGACCATGGAGATA | 60.832 | 60.000 | 21.47 | 0.00 | 33.27 | 1.98 |
168 | 172 | 5.535043 | AAGTTTTGCTTCTTGTTGCTTTG | 57.465 | 34.783 | 0.00 | 0.00 | 30.06 | 2.77 |
220 | 224 | 8.471609 | TCAATGTTGCAACTTGATAATCATCAT | 58.528 | 29.630 | 28.61 | 7.73 | 40.85 | 2.45 |
245 | 249 | 6.183360 | TGTTGTATAGTCTGGACGCAATATCA | 60.183 | 38.462 | 0.00 | 0.00 | 36.20 | 2.15 |
256 | 261 | 4.515191 | GGACGCAATATCATGTTGTACCAT | 59.485 | 41.667 | 0.00 | 0.00 | 0.00 | 3.55 |
278 | 283 | 0.322546 | GACCGAGGGCAGACCATTTT | 60.323 | 55.000 | 0.00 | 0.00 | 43.89 | 1.82 |
279 | 284 | 0.988832 | ACCGAGGGCAGACCATTTTA | 59.011 | 50.000 | 0.00 | 0.00 | 43.89 | 1.52 |
280 | 285 | 1.564348 | ACCGAGGGCAGACCATTTTAT | 59.436 | 47.619 | 0.00 | 0.00 | 43.89 | 1.40 |
281 | 286 | 1.949525 | CCGAGGGCAGACCATTTTATG | 59.050 | 52.381 | 0.00 | 0.00 | 43.89 | 1.90 |
282 | 287 | 1.334869 | CGAGGGCAGACCATTTTATGC | 59.665 | 52.381 | 0.00 | 0.00 | 43.89 | 3.14 |
284 | 289 | 3.026694 | GAGGGCAGACCATTTTATGCTT | 58.973 | 45.455 | 0.00 | 0.00 | 43.89 | 3.91 |
385 | 392 | 8.527567 | TTTGGAATCAATGAATACGAAAAACC | 57.472 | 30.769 | 0.00 | 0.00 | 32.28 | 3.27 |
390 | 397 | 8.742554 | AATCAATGAATACGAAAAACCTGTTC | 57.257 | 30.769 | 0.00 | 0.00 | 0.00 | 3.18 |
460 | 467 | 5.825679 | TGTACCAGGGATATTTGCATGTTAC | 59.174 | 40.000 | 0.00 | 0.00 | 0.00 | 2.50 |
490 | 497 | 9.906660 | TGGATGAATTGTGTTATTTTCTGTAAC | 57.093 | 29.630 | 0.00 | 0.00 | 33.67 | 2.50 |
517 | 524 | 0.326264 | AGTGTCAGAGTTGGATGGCC | 59.674 | 55.000 | 0.00 | 0.00 | 0.00 | 5.36 |
519 | 526 | 1.296715 | GTCAGAGTTGGATGGCCGT | 59.703 | 57.895 | 0.00 | 0.00 | 36.79 | 5.68 |
533 | 540 | 4.082523 | CCGTCCCCGCATCAGTGT | 62.083 | 66.667 | 0.00 | 0.00 | 0.00 | 3.55 |
535 | 542 | 2.125106 | GTCCCCGCATCAGTGTCC | 60.125 | 66.667 | 0.00 | 0.00 | 0.00 | 4.02 |
536 | 543 | 3.770040 | TCCCCGCATCAGTGTCCG | 61.770 | 66.667 | 0.00 | 0.00 | 0.00 | 4.79 |
541 | 548 | 3.558411 | GCATCAGTGTCCGCGAGC | 61.558 | 66.667 | 8.23 | 0.00 | 0.00 | 5.03 |
542 | 549 | 2.182791 | CATCAGTGTCCGCGAGCT | 59.817 | 61.111 | 8.23 | 0.00 | 0.00 | 4.09 |
543 | 550 | 2.163390 | CATCAGTGTCCGCGAGCTG | 61.163 | 63.158 | 8.23 | 10.18 | 0.00 | 4.24 |
544 | 551 | 3.362399 | ATCAGTGTCCGCGAGCTGG | 62.362 | 63.158 | 8.23 | 0.00 | 0.00 | 4.85 |
545 | 552 | 4.363990 | CAGTGTCCGCGAGCTGGT | 62.364 | 66.667 | 8.23 | 0.00 | 0.00 | 4.00 |
546 | 553 | 4.057428 | AGTGTCCGCGAGCTGGTC | 62.057 | 66.667 | 8.23 | 0.00 | 0.00 | 4.02 |
549 | 556 | 4.803426 | GTCCGCGAGCTGGTCCAG | 62.803 | 72.222 | 15.15 | 15.15 | 34.12 | 3.86 |
551 | 558 | 3.842923 | CCGCGAGCTGGTCCAGAT | 61.843 | 66.667 | 23.77 | 17.55 | 32.44 | 2.90 |
552 | 559 | 2.279120 | CGCGAGCTGGTCCAGATC | 60.279 | 66.667 | 24.63 | 24.63 | 42.60 | 2.75 |
553 | 560 | 2.895680 | GCGAGCTGGTCCAGATCA | 59.104 | 61.111 | 31.18 | 0.00 | 45.80 | 2.92 |
554 | 561 | 1.227205 | GCGAGCTGGTCCAGATCAG | 60.227 | 63.158 | 31.18 | 24.40 | 45.80 | 2.90 |
555 | 562 | 1.954362 | GCGAGCTGGTCCAGATCAGT | 61.954 | 60.000 | 31.18 | 7.72 | 45.80 | 3.41 |
556 | 563 | 0.102120 | CGAGCTGGTCCAGATCAGTC | 59.898 | 60.000 | 31.18 | 14.27 | 45.80 | 3.51 |
557 | 564 | 0.463620 | GAGCTGGTCCAGATCAGTCC | 59.536 | 60.000 | 28.45 | 4.69 | 44.99 | 3.85 |
558 | 565 | 1.142748 | GCTGGTCCAGATCAGTCCG | 59.857 | 63.158 | 23.77 | 0.00 | 41.51 | 4.79 |
559 | 566 | 1.142748 | CTGGTCCAGATCAGTCCGC | 59.857 | 63.158 | 14.26 | 0.00 | 34.90 | 5.54 |
560 | 567 | 2.105128 | GGTCCAGATCAGTCCGCG | 59.895 | 66.667 | 0.00 | 0.00 | 0.00 | 6.46 |
561 | 568 | 2.105128 | GTCCAGATCAGTCCGCGG | 59.895 | 66.667 | 22.12 | 22.12 | 0.00 | 6.46 |
562 | 569 | 2.044352 | TCCAGATCAGTCCGCGGA | 60.044 | 61.111 | 27.28 | 27.28 | 0.00 | 5.54 |
563 | 570 | 2.105128 | CCAGATCAGTCCGCGGAC | 59.895 | 66.667 | 43.92 | 43.92 | 44.86 | 4.79 |
593 | 600 | 1.496857 | TGTCCATTTCAGGGGTCAACA | 59.503 | 47.619 | 0.00 | 0.00 | 0.00 | 3.33 |
621 | 628 | 4.943705 | AGATGCCCTAACATAGTTTGTGTG | 59.056 | 41.667 | 0.00 | 0.00 | 38.99 | 3.82 |
628 | 635 | 6.727824 | CTAACATAGTTTGTGTGAGGAAGG | 57.272 | 41.667 | 0.00 | 0.00 | 38.99 | 3.46 |
646 | 653 | 5.365314 | AGGAAGGAGAAGAACACTATCATCC | 59.635 | 44.000 | 0.00 | 0.00 | 0.00 | 3.51 |
648 | 655 | 4.537751 | AGGAGAAGAACACTATCATCCGA | 58.462 | 43.478 | 0.00 | 0.00 | 0.00 | 4.55 |
657 | 664 | 3.574396 | ACACTATCATCCGATTGATCCGT | 59.426 | 43.478 | 3.69 | 1.59 | 37.51 | 4.69 |
660 | 667 | 5.119279 | CACTATCATCCGATTGATCCGTTTC | 59.881 | 44.000 | 3.69 | 0.00 | 37.51 | 2.78 |
718 | 725 | 5.993106 | TCACATTCACACGTCAAATACAA | 57.007 | 34.783 | 0.00 | 0.00 | 0.00 | 2.41 |
720 | 727 | 5.525745 | TCACATTCACACGTCAAATACAAGT | 59.474 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
721 | 728 | 5.845953 | CACATTCACACGTCAAATACAAGTC | 59.154 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
722 | 729 | 5.758296 | ACATTCACACGTCAAATACAAGTCT | 59.242 | 36.000 | 0.00 | 0.00 | 0.00 | 3.24 |
752 | 1246 | 1.280206 | CGTTTCCAAGTCCGTCCGTC | 61.280 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
786 | 1283 | 2.281761 | CACCCTGTCCTGTGCCAC | 60.282 | 66.667 | 0.00 | 0.00 | 0.00 | 5.01 |
916 | 1416 | 1.187087 | GGTCACTGTACAGGAGGAGG | 58.813 | 60.000 | 26.12 | 8.79 | 0.00 | 4.30 |
1193 | 1706 | 3.369388 | GTCCCTCCCTCCCTCCCT | 61.369 | 72.222 | 0.00 | 0.00 | 0.00 | 4.20 |
1226 | 1739 | 6.258947 | CCGTCTCTTTCTTTCTTCAGAGTTTT | 59.741 | 38.462 | 0.00 | 0.00 | 35.28 | 2.43 |
1314 | 1829 | 2.688666 | TACCTGCTGGAGCCCCTG | 60.689 | 66.667 | 17.64 | 0.00 | 41.18 | 4.45 |
1323 | 1838 | 3.580319 | GAGCCCCTGTGGTGGGTT | 61.580 | 66.667 | 0.00 | 0.00 | 45.70 | 4.11 |
1339 | 1854 | 1.064758 | GGGTTGGCATGATCACCAGTA | 60.065 | 52.381 | 0.00 | 0.00 | 37.24 | 2.74 |
1344 | 1859 | 2.216898 | GGCATGATCACCAGTAAGCTC | 58.783 | 52.381 | 0.00 | 0.00 | 0.00 | 4.09 |
1346 | 1861 | 2.843701 | CATGATCACCAGTAAGCTCCC | 58.156 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
1353 | 1868 | 3.514309 | TCACCAGTAAGCTCCCTTTCTAC | 59.486 | 47.826 | 0.00 | 0.00 | 32.47 | 2.59 |
1355 | 1870 | 3.908103 | ACCAGTAAGCTCCCTTTCTACAA | 59.092 | 43.478 | 0.00 | 0.00 | 32.47 | 2.41 |
1358 | 1873 | 5.172205 | CAGTAAGCTCCCTTTCTACAAGTC | 58.828 | 45.833 | 0.00 | 0.00 | 32.47 | 3.01 |
1359 | 1874 | 3.704800 | AAGCTCCCTTTCTACAAGTCC | 57.295 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
1362 | 1877 | 4.027437 | AGCTCCCTTTCTACAAGTCCTAG | 58.973 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
1364 | 1879 | 4.382147 | GCTCCCTTTCTACAAGTCCTAGTG | 60.382 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
1365 | 1880 | 4.748701 | TCCCTTTCTACAAGTCCTAGTGT | 58.251 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
1366 | 1881 | 5.895807 | TCCCTTTCTACAAGTCCTAGTGTA | 58.104 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
1367 | 1882 | 5.713861 | TCCCTTTCTACAAGTCCTAGTGTAC | 59.286 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1368 | 1883 | 5.105432 | CCCTTTCTACAAGTCCTAGTGTACC | 60.105 | 48.000 | 0.00 | 0.00 | 0.00 | 3.34 |
1369 | 1884 | 5.479375 | CCTTTCTACAAGTCCTAGTGTACCA | 59.521 | 44.000 | 0.00 | 0.00 | 0.00 | 3.25 |
1371 | 1886 | 6.982160 | TTCTACAAGTCCTAGTGTACCAAA | 57.018 | 37.500 | 0.00 | 0.00 | 0.00 | 3.28 |
1372 | 1887 | 6.336842 | TCTACAAGTCCTAGTGTACCAAAC | 57.663 | 41.667 | 0.00 | 0.00 | 0.00 | 2.93 |
1374 | 1889 | 3.385755 | ACAAGTCCTAGTGTACCAAACGT | 59.614 | 43.478 | 0.00 | 0.00 | 0.00 | 3.99 |
1380 | 1895 | 3.495753 | CCTAGTGTACCAAACGTCCAAAC | 59.504 | 47.826 | 0.00 | 0.00 | 0.00 | 2.93 |
1381 | 1896 | 2.291365 | AGTGTACCAAACGTCCAAACC | 58.709 | 47.619 | 0.00 | 0.00 | 0.00 | 3.27 |
1573 | 2108 | 5.644644 | GTGGTTTTAATCTGCAATCCTGAG | 58.355 | 41.667 | 0.00 | 0.00 | 0.00 | 3.35 |
1579 | 2114 | 8.411683 | GTTTTAATCTGCAATCCTGAGATTCAT | 58.588 | 33.333 | 0.00 | 0.00 | 40.89 | 2.57 |
1586 | 2121 | 5.761726 | TGCAATCCTGAGATTCATATGTGAC | 59.238 | 40.000 | 1.90 | 0.00 | 40.89 | 3.67 |
1602 | 2139 | 1.013596 | TGACGCTGAAGGTGTGTTTG | 58.986 | 50.000 | 0.00 | 0.00 | 38.95 | 2.93 |
1842 | 2405 | 3.941483 | CCATGTTTTAGGAAGTGCGATCT | 59.059 | 43.478 | 0.00 | 0.00 | 0.00 | 2.75 |
1845 | 2408 | 6.093495 | CCATGTTTTAGGAAGTGCGATCTAAA | 59.907 | 38.462 | 0.00 | 0.00 | 32.09 | 1.85 |
1847 | 2410 | 7.681939 | TGTTTTAGGAAGTGCGATCTAAAAT | 57.318 | 32.000 | 9.37 | 0.00 | 41.03 | 1.82 |
1848 | 2411 | 7.526608 | TGTTTTAGGAAGTGCGATCTAAAATG | 58.473 | 34.615 | 9.37 | 0.00 | 41.03 | 2.32 |
1849 | 2412 | 7.174253 | TGTTTTAGGAAGTGCGATCTAAAATGT | 59.826 | 33.333 | 9.37 | 0.00 | 41.03 | 2.71 |
1850 | 2413 | 8.662141 | GTTTTAGGAAGTGCGATCTAAAATGTA | 58.338 | 33.333 | 9.37 | 0.00 | 41.03 | 2.29 |
1851 | 2414 | 8.958119 | TTTAGGAAGTGCGATCTAAAATGTAT | 57.042 | 30.769 | 0.00 | 0.00 | 31.33 | 2.29 |
1852 | 2415 | 8.958119 | TTAGGAAGTGCGATCTAAAATGTATT | 57.042 | 30.769 | 0.00 | 0.00 | 0.00 | 1.89 |
1937 | 2501 | 2.158623 | TGTGCTGGTGTTCCATTTCTCT | 60.159 | 45.455 | 0.00 | 0.00 | 43.43 | 3.10 |
1943 | 2507 | 4.425772 | TGGTGTTCCATTTCTCTCCTCTA | 58.574 | 43.478 | 0.00 | 0.00 | 39.03 | 2.43 |
1961 | 2525 | 2.233605 | TATGGGGGCAGTCGAACGTG | 62.234 | 60.000 | 0.00 | 0.00 | 0.00 | 4.49 |
2011 | 2575 | 5.188163 | TGATGGGTTCTCTTTCGGTAATGTA | 59.812 | 40.000 | 0.00 | 0.00 | 0.00 | 2.29 |
2084 | 2690 | 7.012232 | TCACCGAGTTTTTATTTTAACCTTCGT | 59.988 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
2149 | 2755 | 6.877322 | GTGTTAAAGCTCTTGGTACATCCTTA | 59.123 | 38.462 | 0.00 | 0.00 | 39.30 | 2.69 |
2188 | 2794 | 4.021016 | GGGACGAATCAGTTAGCATATCCT | 60.021 | 45.833 | 0.00 | 0.00 | 0.00 | 3.24 |
2326 | 2932 | 6.822667 | TGTATCCTTATGCTAAATGCCATG | 57.177 | 37.500 | 0.00 | 0.00 | 42.00 | 3.66 |
2362 | 2968 | 9.922305 | CTTTTCGAAGATTGATTCATTAGTACC | 57.078 | 33.333 | 0.00 | 0.00 | 35.04 | 3.34 |
2378 | 2984 | 3.179685 | AGTACCCCCTCCAGTTCTTTAC | 58.820 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
2396 | 3002 | 4.481930 | TTACAACTTGCTTTGGACATCG | 57.518 | 40.909 | 0.00 | 0.00 | 0.00 | 3.84 |
2517 | 3123 | 8.806146 | ACCTTGCAAAACAAATCTACTCATATT | 58.194 | 29.630 | 0.00 | 0.00 | 37.96 | 1.28 |
2534 | 3142 | 7.011994 | ACTCATATTATTTTCATGCCCCATCA | 58.988 | 34.615 | 0.00 | 0.00 | 0.00 | 3.07 |
2552 | 3160 | 7.231317 | GCCCCATCAACATATTTTAGAAGATCA | 59.769 | 37.037 | 0.00 | 0.00 | 0.00 | 2.92 |
2616 | 3224 | 3.030291 | ACATGTTTTGCAGAACTGGGAA | 58.970 | 40.909 | 19.62 | 0.93 | 0.00 | 3.97 |
2646 | 3254 | 9.195411 | GAACATCAAATTTGAATGCTTGAACTA | 57.805 | 29.630 | 23.91 | 0.00 | 41.13 | 2.24 |
2671 | 3279 | 3.743396 | CCTGAAGCAATAGAGATAACCGC | 59.257 | 47.826 | 0.00 | 0.00 | 0.00 | 5.68 |
2677 | 3285 | 6.835819 | AGCAATAGAGATAACCGCACTATA | 57.164 | 37.500 | 0.00 | 0.00 | 0.00 | 1.31 |
2770 | 3488 | 7.789831 | TGTTCATTAGGATAATGACTAGGGAGT | 59.210 | 37.037 | 10.88 | 0.00 | 36.49 | 3.85 |
2771 | 3489 | 8.652290 | GTTCATTAGGATAATGACTAGGGAGTT | 58.348 | 37.037 | 10.88 | 0.00 | 36.49 | 3.01 |
2839 | 3683 | 6.983906 | TCTTCTCAGCAACCATAGATATCA | 57.016 | 37.500 | 5.32 | 0.00 | 0.00 | 2.15 |
2871 | 3715 | 7.856145 | AGAATCGGAGGATTATGATAATTGC | 57.144 | 36.000 | 0.00 | 0.00 | 42.86 | 3.56 |
2872 | 3716 | 7.628234 | AGAATCGGAGGATTATGATAATTGCT | 58.372 | 34.615 | 0.00 | 0.00 | 42.86 | 3.91 |
2912 | 3756 | 5.935789 | TGTGCATGTAGGAACCTACTTAAAC | 59.064 | 40.000 | 25.11 | 19.77 | 46.53 | 2.01 |
3015 | 3860 | 5.163513 | CCATGTTCATTTGCAAGTTCTACC | 58.836 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
3032 | 3877 | 1.524621 | CCGTATTGGCAGCCTCCAG | 60.525 | 63.158 | 14.15 | 0.18 | 37.44 | 3.86 |
3046 | 3891 | 5.730550 | CAGCCTCCAGTGTAGTAATTGTTA | 58.269 | 41.667 | 0.00 | 0.00 | 0.00 | 2.41 |
3050 | 3895 | 6.092259 | GCCTCCAGTGTAGTAATTGTTACTTG | 59.908 | 42.308 | 7.58 | 1.23 | 43.70 | 3.16 |
3306 | 4153 | 4.100189 | ACTGGGACTACAGCTTAGCATAAG | 59.900 | 45.833 | 7.07 | 2.58 | 42.21 | 1.73 |
3353 | 4202 | 3.426159 | CCTGCAACAGTTTAGTAATGCCG | 60.426 | 47.826 | 3.59 | 0.00 | 33.01 | 5.69 |
3546 | 4398 | 2.103432 | TGTCGTGTTGTCTGGTACCATT | 59.897 | 45.455 | 16.75 | 0.00 | 0.00 | 3.16 |
3582 | 4434 | 3.136626 | CCAAGGATTACGAAAGGATCCCT | 59.863 | 47.826 | 8.55 | 0.00 | 44.29 | 4.20 |
3614 | 4466 | 6.270231 | AGAAGTATGTAACCCTGACTGAACTT | 59.730 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
3624 | 4476 | 3.142174 | CTGACTGAACTTCCACCCTTTC | 58.858 | 50.000 | 0.00 | 0.00 | 0.00 | 2.62 |
3627 | 4479 | 2.158608 | ACTGAACTTCCACCCTTTCCAG | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3640 | 4492 | 6.183361 | CCACCCTTTCCAGTCATATATTCAGA | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 3.27 |
3644 | 4496 | 8.790718 | CCCTTTCCAGTCATATATTCAGATTTG | 58.209 | 37.037 | 0.00 | 0.00 | 0.00 | 2.32 |
3648 | 4500 | 8.985315 | TCCAGTCATATATTCAGATTTGCTTT | 57.015 | 30.769 | 0.00 | 0.00 | 0.00 | 3.51 |
3649 | 4501 | 8.843262 | TCCAGTCATATATTCAGATTTGCTTTG | 58.157 | 33.333 | 0.00 | 0.00 | 0.00 | 2.77 |
3650 | 4502 | 8.843262 | CCAGTCATATATTCAGATTTGCTTTGA | 58.157 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
3657 | 4509 | 6.785337 | ATTCAGATTTGCTTTGATCCATGA | 57.215 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
3662 | 4521 | 6.642540 | CAGATTTGCTTTGATCCATGATCATG | 59.357 | 38.462 | 25.97 | 25.97 | 46.52 | 3.07 |
3665 | 4524 | 4.788679 | TGCTTTGATCCATGATCATGACT | 58.211 | 39.130 | 32.71 | 20.44 | 46.52 | 3.41 |
3667 | 4526 | 5.064558 | GCTTTGATCCATGATCATGACTCT | 58.935 | 41.667 | 32.71 | 15.90 | 46.52 | 3.24 |
3676 | 4537 | 7.567458 | TCCATGATCATGACTCTATTGTTTCA | 58.433 | 34.615 | 32.71 | 0.00 | 41.20 | 2.69 |
3678 | 4539 | 8.847196 | CCATGATCATGACTCTATTGTTTCATT | 58.153 | 33.333 | 32.71 | 0.00 | 41.20 | 2.57 |
3710 | 4571 | 0.390124 | TTTACGCACCGTTGTCTCCT | 59.610 | 50.000 | 0.00 | 0.00 | 41.54 | 3.69 |
3731 | 4592 | 2.151202 | ACGTCGGCAACAAGATTGAAT | 58.849 | 42.857 | 0.00 | 0.00 | 0.00 | 2.57 |
3752 | 4613 | 1.272769 | GGAGAACTACTGAGGCACGTT | 59.727 | 52.381 | 0.00 | 0.00 | 0.00 | 3.99 |
3776 | 4637 | 2.035632 | GAGGATGTGAGGAGAACCGAT | 58.964 | 52.381 | 0.00 | 0.00 | 41.83 | 4.18 |
3826 | 4687 | 2.975489 | AGATGTACTAGGCATTGGAGGG | 59.025 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3893 | 4754 | 2.462889 | CACTCCATTGTGTTGTGTTGC | 58.537 | 47.619 | 0.00 | 0.00 | 33.61 | 4.17 |
3895 | 4756 | 1.682854 | CTCCATTGTGTTGTGTTGCCT | 59.317 | 47.619 | 0.00 | 0.00 | 0.00 | 4.75 |
3998 | 4859 | 5.581874 | CACAGATTGTTGCCAAGTTTTCTTT | 59.418 | 36.000 | 0.00 | 0.00 | 38.17 | 2.52 |
4017 | 4878 | 3.641437 | TTTCCTCATCGGCAACTTTTG | 57.359 | 42.857 | 0.00 | 0.00 | 0.00 | 2.44 |
4018 | 4879 | 1.533625 | TCCTCATCGGCAACTTTTGG | 58.466 | 50.000 | 0.00 | 0.00 | 0.00 | 3.28 |
4025 | 4886 | 3.320673 | TCGGCAACTTTTGGTTTTTGT | 57.679 | 38.095 | 0.00 | 0.00 | 35.74 | 2.83 |
4054 | 4915 | 3.453424 | AGTTTTGTCCACGGCATTTTTC | 58.547 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
4073 | 4934 | 6.749036 | TTTTCCTCCTCTTCTTCTTGTACT | 57.251 | 37.500 | 0.00 | 0.00 | 0.00 | 2.73 |
4095 | 4956 | 6.512297 | ACTGTTTGAGTTTGTTGACTTGTTT | 58.488 | 32.000 | 0.00 | 0.00 | 0.00 | 2.83 |
4109 | 4970 | 0.250684 | TTGTTTGGAGCGATCAGGCA | 60.251 | 50.000 | 1.84 | 0.00 | 34.64 | 4.75 |
4348 | 5211 | 1.931635 | TGTGGGTTATCAAAAGGGGC | 58.068 | 50.000 | 0.00 | 0.00 | 0.00 | 5.80 |
4369 | 5250 | 2.284855 | CGTGCTACGCGTAAAAAGATCC | 60.285 | 50.000 | 20.97 | 0.00 | 33.65 | 3.36 |
4533 | 5414 | 3.392882 | CAAGGTCCTTGTTGCAAAATCC | 58.607 | 45.455 | 21.76 | 0.00 | 36.79 | 3.01 |
4534 | 5415 | 1.970640 | AGGTCCTTGTTGCAAAATCCC | 59.029 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
4561 | 5442 | 7.132213 | TCGTCTCTAATTTTCTGCAACAAAAG | 58.868 | 34.615 | 8.69 | 0.00 | 0.00 | 2.27 |
4582 | 5463 | 1.421268 | TCATGTTGCACAACCTCCTCT | 59.579 | 47.619 | 10.82 | 0.00 | 40.46 | 3.69 |
4656 | 5551 | 9.358872 | CTCTTTTTAATTTCCTGCAATAAGACC | 57.641 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
4682 | 5578 | 5.239525 | GTGTTGCACAACCTCTTTTCTCTAT | 59.760 | 40.000 | 10.82 | 0.00 | 40.46 | 1.98 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
56 | 58 | 1.985473 | TATGGCATTGGAGATGGTGC | 58.015 | 50.000 | 4.78 | 0.00 | 36.88 | 5.01 |
69 | 71 | 3.305950 | GCACCACAAAACTTCATATGGCA | 60.306 | 43.478 | 2.13 | 0.00 | 0.00 | 4.92 |
143 | 147 | 5.582689 | AGCAACAAGAAGCAAAACTTACT | 57.417 | 34.783 | 0.00 | 0.00 | 39.29 | 2.24 |
189 | 193 | 4.556942 | TCAAGTTGCAACATTGAGTGAG | 57.443 | 40.909 | 30.11 | 6.07 | 0.00 | 3.51 |
220 | 224 | 3.945981 | TTGCGTCCAGACTATACAACA | 57.054 | 42.857 | 0.00 | 0.00 | 0.00 | 3.33 |
256 | 261 | 2.043248 | GGTCTGCCCTCGGTCCTA | 60.043 | 66.667 | 0.00 | 0.00 | 0.00 | 2.94 |
278 | 283 | 6.434028 | AGCTTCCTCAACAATGTAAAAGCATA | 59.566 | 34.615 | 15.31 | 0.00 | 37.49 | 3.14 |
279 | 284 | 5.244626 | AGCTTCCTCAACAATGTAAAAGCAT | 59.755 | 36.000 | 15.31 | 0.00 | 37.49 | 3.79 |
280 | 285 | 4.584325 | AGCTTCCTCAACAATGTAAAAGCA | 59.416 | 37.500 | 15.31 | 0.00 | 37.49 | 3.91 |
281 | 286 | 5.126396 | AGCTTCCTCAACAATGTAAAAGC | 57.874 | 39.130 | 8.87 | 8.87 | 36.42 | 3.51 |
282 | 287 | 6.317789 | TGAGCTTCCTCAACAATGTAAAAG | 57.682 | 37.500 | 0.00 | 0.00 | 44.79 | 2.27 |
326 | 332 | 0.108585 | AGTCAGAACCGGCACATGTT | 59.891 | 50.000 | 0.00 | 0.00 | 0.00 | 2.71 |
385 | 392 | 8.331022 | CAACCGAGATAACAAGATATTGAACAG | 58.669 | 37.037 | 7.16 | 0.00 | 0.00 | 3.16 |
441 | 448 | 7.448161 | TCCATAAGTAACATGCAAATATCCCTG | 59.552 | 37.037 | 0.00 | 0.00 | 0.00 | 4.45 |
490 | 497 | 6.093219 | CCATCCAACTCTGACACTCAAAATAG | 59.907 | 42.308 | 0.00 | 0.00 | 0.00 | 1.73 |
519 | 526 | 3.770040 | CGGACACTGATGCGGGGA | 61.770 | 66.667 | 0.00 | 0.00 | 0.00 | 4.81 |
524 | 531 | 3.558411 | GCTCGCGGACACTGATGC | 61.558 | 66.667 | 6.13 | 0.00 | 0.00 | 3.91 |
529 | 536 | 4.057428 | GACCAGCTCGCGGACACT | 62.057 | 66.667 | 6.13 | 0.00 | 0.00 | 3.55 |
535 | 542 | 2.279120 | GATCTGGACCAGCTCGCG | 60.279 | 66.667 | 17.33 | 0.00 | 0.00 | 5.87 |
536 | 543 | 1.227205 | CTGATCTGGACCAGCTCGC | 60.227 | 63.158 | 17.33 | 6.24 | 30.28 | 5.03 |
538 | 545 | 0.463620 | GGACTGATCTGGACCAGCTC | 59.536 | 60.000 | 17.33 | 17.11 | 33.90 | 4.09 |
539 | 546 | 1.326213 | CGGACTGATCTGGACCAGCT | 61.326 | 60.000 | 17.33 | 7.16 | 33.90 | 4.24 |
540 | 547 | 1.142748 | CGGACTGATCTGGACCAGC | 59.857 | 63.158 | 17.33 | 4.34 | 33.90 | 4.85 |
541 | 548 | 1.142748 | GCGGACTGATCTGGACCAG | 59.857 | 63.158 | 15.99 | 15.99 | 36.53 | 4.00 |
542 | 549 | 2.710902 | CGCGGACTGATCTGGACCA | 61.711 | 63.158 | 0.00 | 0.00 | 0.00 | 4.02 |
543 | 550 | 2.105128 | CGCGGACTGATCTGGACC | 59.895 | 66.667 | 0.00 | 6.34 | 0.00 | 4.46 |
544 | 551 | 2.105128 | CCGCGGACTGATCTGGAC | 59.895 | 66.667 | 24.07 | 0.00 | 0.00 | 4.02 |
545 | 552 | 2.044352 | TCCGCGGACTGATCTGGA | 60.044 | 61.111 | 27.28 | 0.00 | 0.00 | 3.86 |
546 | 553 | 2.105128 | GTCCGCGGACTGATCTGG | 59.895 | 66.667 | 43.32 | 8.23 | 41.57 | 3.86 |
547 | 554 | 0.389817 | TTTGTCCGCGGACTGATCTG | 60.390 | 55.000 | 46.72 | 13.17 | 44.80 | 2.90 |
548 | 555 | 0.320374 | TTTTGTCCGCGGACTGATCT | 59.680 | 50.000 | 46.72 | 0.00 | 44.80 | 2.75 |
549 | 556 | 1.369625 | ATTTTGTCCGCGGACTGATC | 58.630 | 50.000 | 46.72 | 28.72 | 44.80 | 2.92 |
550 | 557 | 2.277084 | GTATTTTGTCCGCGGACTGAT | 58.723 | 47.619 | 46.72 | 37.26 | 44.80 | 2.90 |
551 | 558 | 1.001068 | TGTATTTTGTCCGCGGACTGA | 59.999 | 47.619 | 46.72 | 35.52 | 44.80 | 3.41 |
552 | 559 | 1.434555 | TGTATTTTGTCCGCGGACTG | 58.565 | 50.000 | 46.72 | 16.64 | 44.80 | 3.51 |
553 | 560 | 2.172851 | TTGTATTTTGTCCGCGGACT | 57.827 | 45.000 | 46.72 | 33.85 | 44.80 | 3.85 |
554 | 561 | 2.160813 | ACATTGTATTTTGTCCGCGGAC | 59.839 | 45.455 | 43.88 | 43.88 | 44.77 | 4.79 |
555 | 562 | 2.417239 | GACATTGTATTTTGTCCGCGGA | 59.583 | 45.455 | 27.28 | 27.28 | 36.98 | 5.54 |
556 | 563 | 2.780993 | GACATTGTATTTTGTCCGCGG | 58.219 | 47.619 | 22.12 | 22.12 | 36.98 | 6.46 |
561 | 568 | 6.813152 | CCCTGAAATGGACATTGTATTTTGTC | 59.187 | 38.462 | 0.00 | 0.00 | 41.19 | 3.18 |
562 | 569 | 6.295802 | CCCCTGAAATGGACATTGTATTTTGT | 60.296 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
563 | 570 | 6.108015 | CCCCTGAAATGGACATTGTATTTTG | 58.892 | 40.000 | 0.00 | 0.00 | 0.00 | 2.44 |
564 | 571 | 5.784906 | ACCCCTGAAATGGACATTGTATTTT | 59.215 | 36.000 | 0.00 | 0.00 | 0.00 | 1.82 |
572 | 579 | 2.109834 | TGTTGACCCCTGAAATGGACAT | 59.890 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
593 | 600 | 7.716998 | CACAAACTATGTTAGGGCATCTCTAAT | 59.283 | 37.037 | 0.00 | 0.00 | 41.46 | 1.73 |
621 | 628 | 5.923733 | TGATAGTGTTCTTCTCCTTCCTC | 57.076 | 43.478 | 0.00 | 0.00 | 0.00 | 3.71 |
625 | 632 | 4.956700 | TCGGATGATAGTGTTCTTCTCCTT | 59.043 | 41.667 | 0.00 | 0.00 | 0.00 | 3.36 |
628 | 635 | 6.507900 | TCAATCGGATGATAGTGTTCTTCTC | 58.492 | 40.000 | 0.00 | 0.00 | 33.40 | 2.87 |
646 | 653 | 5.966636 | TCATTAGTGAAACGGATCAATCG | 57.033 | 39.130 | 0.00 | 0.00 | 45.86 | 3.34 |
648 | 655 | 7.012704 | CCTTCATCATTAGTGAAACGGATCAAT | 59.987 | 37.037 | 0.00 | 0.00 | 45.86 | 2.57 |
657 | 664 | 7.230747 | TGGAGTTTCCTTCATCATTAGTGAAA | 58.769 | 34.615 | 0.00 | 0.00 | 36.19 | 2.69 |
703 | 710 | 3.734231 | ACGAGACTTGTATTTGACGTGTG | 59.266 | 43.478 | 0.00 | 0.00 | 0.00 | 3.82 |
718 | 725 | 2.604132 | GGAAACGAGACGAAACGAGACT | 60.604 | 50.000 | 0.00 | 0.00 | 0.00 | 3.24 |
720 | 727 | 1.334556 | TGGAAACGAGACGAAACGAGA | 59.665 | 47.619 | 0.00 | 0.00 | 0.00 | 4.04 |
721 | 728 | 1.762419 | TGGAAACGAGACGAAACGAG | 58.238 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
722 | 729 | 2.121786 | CTTGGAAACGAGACGAAACGA | 58.878 | 47.619 | 0.00 | 0.00 | 45.46 | 3.85 |
764 | 1258 | 2.930562 | ACAGGACAGGGTGGAGGC | 60.931 | 66.667 | 0.00 | 0.00 | 0.00 | 4.70 |
860 | 1360 | 0.819666 | GGAATGGGATGCGGGTTCTC | 60.820 | 60.000 | 0.00 | 0.00 | 0.00 | 2.87 |
1193 | 1706 | 0.954449 | AGAAAGAGACGGCGTCGAGA | 60.954 | 55.000 | 31.59 | 0.00 | 37.67 | 4.04 |
1229 | 1742 | 4.252073 | CAGAGGACATTTTCAGAGGACTG | 58.748 | 47.826 | 0.00 | 0.00 | 44.66 | 3.51 |
1302 | 1817 | 4.729918 | CACCACAGGGGCTCCAGC | 62.730 | 72.222 | 4.79 | 0.00 | 42.05 | 4.85 |
1314 | 1829 | 0.611618 | TGATCATGCCAACCCACCAC | 60.612 | 55.000 | 0.00 | 0.00 | 0.00 | 4.16 |
1323 | 1838 | 1.561076 | AGCTTACTGGTGATCATGCCA | 59.439 | 47.619 | 0.00 | 1.21 | 0.00 | 4.92 |
1339 | 1854 | 3.252351 | AGGACTTGTAGAAAGGGAGCTT | 58.748 | 45.455 | 0.00 | 0.00 | 0.00 | 3.74 |
1344 | 1859 | 5.105432 | GGTACACTAGGACTTGTAGAAAGGG | 60.105 | 48.000 | 0.00 | 0.00 | 0.00 | 3.95 |
1346 | 1861 | 6.585695 | TGGTACACTAGGACTTGTAGAAAG | 57.414 | 41.667 | 0.00 | 0.00 | 0.00 | 2.62 |
1353 | 1868 | 3.985925 | GACGTTTGGTACACTAGGACTTG | 59.014 | 47.826 | 0.00 | 0.00 | 39.29 | 3.16 |
1355 | 1870 | 2.560105 | GGACGTTTGGTACACTAGGACT | 59.440 | 50.000 | 0.00 | 0.00 | 39.29 | 3.85 |
1358 | 1873 | 3.389925 | TTGGACGTTTGGTACACTAGG | 57.610 | 47.619 | 0.00 | 0.00 | 39.90 | 3.02 |
1359 | 1874 | 3.495753 | GGTTTGGACGTTTGGTACACTAG | 59.504 | 47.826 | 0.00 | 0.00 | 39.90 | 2.57 |
1362 | 1877 | 1.003652 | CGGTTTGGACGTTTGGTACAC | 60.004 | 52.381 | 0.00 | 0.00 | 39.90 | 2.90 |
1364 | 1879 | 1.528161 | CTCGGTTTGGACGTTTGGTAC | 59.472 | 52.381 | 0.00 | 0.00 | 0.00 | 3.34 |
1365 | 1880 | 1.868469 | CTCGGTTTGGACGTTTGGTA | 58.132 | 50.000 | 0.00 | 0.00 | 0.00 | 3.25 |
1366 | 1881 | 1.441732 | GCTCGGTTTGGACGTTTGGT | 61.442 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1367 | 1882 | 1.164041 | AGCTCGGTTTGGACGTTTGG | 61.164 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
1368 | 1883 | 0.234884 | GAGCTCGGTTTGGACGTTTG | 59.765 | 55.000 | 0.00 | 0.00 | 0.00 | 2.93 |
1369 | 1884 | 0.179067 | TGAGCTCGGTTTGGACGTTT | 60.179 | 50.000 | 9.64 | 0.00 | 0.00 | 3.60 |
1371 | 1886 | 0.034896 | ATTGAGCTCGGTTTGGACGT | 59.965 | 50.000 | 9.64 | 0.00 | 0.00 | 4.34 |
1372 | 1887 | 1.128692 | GAATTGAGCTCGGTTTGGACG | 59.871 | 52.381 | 9.64 | 0.00 | 0.00 | 4.79 |
1374 | 1889 | 2.859165 | AGAATTGAGCTCGGTTTGGA | 57.141 | 45.000 | 9.64 | 0.00 | 0.00 | 3.53 |
1414 | 1942 | 7.502226 | ACGATCACTGAGAAGAGAAGAAGATAT | 59.498 | 37.037 | 0.00 | 0.00 | 0.00 | 1.63 |
1480 | 2015 | 2.813908 | GGAGTAACCAGCACCGCG | 60.814 | 66.667 | 0.00 | 0.00 | 38.79 | 6.46 |
1573 | 2108 | 4.025396 | CACCTTCAGCGTCACATATGAATC | 60.025 | 45.833 | 10.38 | 0.00 | 36.31 | 2.52 |
1579 | 2114 | 1.343142 | ACACACCTTCAGCGTCACATA | 59.657 | 47.619 | 0.00 | 0.00 | 0.00 | 2.29 |
1586 | 2121 | 1.670811 | AGAACAAACACACCTTCAGCG | 59.329 | 47.619 | 0.00 | 0.00 | 0.00 | 5.18 |
1602 | 2139 | 2.262423 | AGGAAGAACACCAGCAGAAC | 57.738 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
1782 | 2319 | 4.275936 | AGTTAACAACTCTCACATGGTTGC | 59.724 | 41.667 | 8.61 | 0.00 | 42.55 | 4.17 |
1842 | 2405 | 9.638239 | GGAGCATGAAGAAAACAATACATTTTA | 57.362 | 29.630 | 0.00 | 0.00 | 29.44 | 1.52 |
1845 | 2408 | 7.395489 | AGAGGAGCATGAAGAAAACAATACATT | 59.605 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
1847 | 2410 | 6.149973 | CAGAGGAGCATGAAGAAAACAATACA | 59.850 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
1848 | 2411 | 6.549952 | CAGAGGAGCATGAAGAAAACAATAC | 58.450 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
1849 | 2412 | 5.124457 | GCAGAGGAGCATGAAGAAAACAATA | 59.876 | 40.000 | 0.00 | 0.00 | 0.00 | 1.90 |
1850 | 2413 | 4.082354 | GCAGAGGAGCATGAAGAAAACAAT | 60.082 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
1851 | 2414 | 3.254166 | GCAGAGGAGCATGAAGAAAACAA | 59.746 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
1852 | 2415 | 2.816087 | GCAGAGGAGCATGAAGAAAACA | 59.184 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
1865 | 2429 | 0.803740 | GCAAGAAAGCTGCAGAGGAG | 59.196 | 55.000 | 20.43 | 0.58 | 0.00 | 3.69 |
1937 | 2501 | 1.457643 | CGACTGCCCCCATAGAGGA | 60.458 | 63.158 | 0.00 | 0.00 | 41.22 | 3.71 |
1943 | 2507 | 3.319198 | ACGTTCGACTGCCCCCAT | 61.319 | 61.111 | 0.00 | 0.00 | 0.00 | 4.00 |
1961 | 2525 | 2.477863 | GCAAATGGCGGTGTAGATCAAC | 60.478 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2011 | 2575 | 2.256117 | ACTGGTGTTAAAAGCGAGCT | 57.744 | 45.000 | 0.00 | 0.00 | 0.00 | 4.09 |
2056 | 2662 | 9.338291 | GAAGGTTAAAATAAAAACTCGGTGATC | 57.662 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
2084 | 2690 | 1.111116 | ACGGGTCAGAACCTTCGACA | 61.111 | 55.000 | 2.07 | 0.00 | 45.66 | 4.35 |
2188 | 2794 | 3.678056 | AGCATAAAGAACCACGTCTCA | 57.322 | 42.857 | 0.00 | 0.00 | 0.00 | 3.27 |
2315 | 2921 | 3.184541 | GCTGTTGCTTCATGGCATTTAG | 58.815 | 45.455 | 0.00 | 0.00 | 42.09 | 1.85 |
2362 | 2968 | 3.790089 | AGTTGTAAAGAACTGGAGGGG | 57.210 | 47.619 | 0.00 | 0.00 | 34.79 | 4.79 |
2378 | 2984 | 3.624326 | TTCGATGTCCAAAGCAAGTTG | 57.376 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
2396 | 3002 | 6.414987 | CGAAATTGACTTTTGGAGACACTTTC | 59.585 | 38.462 | 9.48 | 9.48 | 41.54 | 2.62 |
2477 | 3083 | 9.184523 | TGTTTTGCAAGGTACTAGCATAATAAT | 57.815 | 29.630 | 0.00 | 0.00 | 38.49 | 1.28 |
2478 | 3084 | 8.568676 | TGTTTTGCAAGGTACTAGCATAATAA | 57.431 | 30.769 | 0.00 | 0.00 | 38.49 | 1.40 |
2517 | 3123 | 7.615039 | AATATGTTGATGGGGCATGAAAATA | 57.385 | 32.000 | 0.00 | 0.00 | 25.93 | 1.40 |
2527 | 3135 | 8.696043 | TGATCTTCTAAAATATGTTGATGGGG | 57.304 | 34.615 | 0.00 | 0.00 | 0.00 | 4.96 |
2534 | 3142 | 7.716998 | ACTGCCGATGATCTTCTAAAATATGTT | 59.283 | 33.333 | 6.99 | 0.00 | 0.00 | 2.71 |
2552 | 3160 | 3.126001 | TCTGAAACTTTGACTGCCGAT | 57.874 | 42.857 | 0.00 | 0.00 | 0.00 | 4.18 |
2612 | 3220 | 8.553696 | GCATTCAAATTTGATGTTCATATTCCC | 58.446 | 33.333 | 21.10 | 3.00 | 37.00 | 3.97 |
2616 | 3224 | 9.878667 | TCAAGCATTCAAATTTGATGTTCATAT | 57.121 | 25.926 | 21.10 | 7.49 | 37.00 | 1.78 |
2646 | 3254 | 5.279708 | CGGTTATCTCTATTGCTTCAGGGAT | 60.280 | 44.000 | 1.04 | 1.04 | 36.04 | 3.85 |
2702 | 3310 | 3.111098 | GCTGAAGAGCAACAACACTTTG | 58.889 | 45.455 | 0.00 | 0.00 | 45.46 | 2.77 |
2759 | 3477 | 7.618117 | TGAATACAGTATGAAACTCCCTAGTCA | 59.382 | 37.037 | 0.00 | 0.00 | 39.69 | 3.41 |
2789 | 3507 | 6.024552 | ACAAAATGAACATACGGAGCAATT | 57.975 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
2839 | 3683 | 7.796054 | TCATAATCCTCCGATTCTTCTCTTTT | 58.204 | 34.615 | 0.00 | 0.00 | 39.49 | 2.27 |
2871 | 3715 | 6.321181 | ACATGCACAAACAATATACCCCTAAG | 59.679 | 38.462 | 0.00 | 0.00 | 0.00 | 2.18 |
2872 | 3716 | 6.191315 | ACATGCACAAACAATATACCCCTAA | 58.809 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
2990 | 3835 | 5.280654 | AGAACTTGCAAATGAACATGGTT | 57.719 | 34.783 | 0.00 | 0.00 | 0.00 | 3.67 |
3015 | 3860 | 1.091771 | CACTGGAGGCTGCCAATACG | 61.092 | 60.000 | 22.65 | 7.42 | 37.52 | 3.06 |
3032 | 3877 | 7.589954 | CCTGCAAACAAGTAACAATTACTACAC | 59.410 | 37.037 | 1.79 | 0.00 | 45.33 | 2.90 |
3046 | 3891 | 1.473258 | TCAAGTGCCTGCAAACAAGT | 58.527 | 45.000 | 0.00 | 0.00 | 0.00 | 3.16 |
3050 | 3895 | 3.855689 | ATGTATCAAGTGCCTGCAAAC | 57.144 | 42.857 | 0.00 | 0.00 | 0.00 | 2.93 |
3164 | 4010 | 0.327924 | TGGGATGAACGGCAGAACAT | 59.672 | 50.000 | 0.00 | 0.00 | 0.00 | 2.71 |
3306 | 4153 | 2.671888 | GAGCTACGGAGTAAGCCAAAAC | 59.328 | 50.000 | 0.00 | 0.00 | 45.13 | 2.43 |
3353 | 4202 | 3.316308 | ACATTGTGTTGAAGGTTGCTCTC | 59.684 | 43.478 | 0.00 | 0.00 | 0.00 | 3.20 |
3426 | 4275 | 3.550437 | AAGAAGTTCGGCTCATATGCT | 57.450 | 42.857 | 0.00 | 0.00 | 0.00 | 3.79 |
3427 | 4276 | 4.210120 | CAGTAAGAAGTTCGGCTCATATGC | 59.790 | 45.833 | 0.00 | 0.00 | 0.00 | 3.14 |
3428 | 4277 | 5.352284 | ACAGTAAGAAGTTCGGCTCATATG | 58.648 | 41.667 | 0.00 | 0.00 | 0.00 | 1.78 |
3429 | 4278 | 5.599999 | ACAGTAAGAAGTTCGGCTCATAT | 57.400 | 39.130 | 0.00 | 0.00 | 0.00 | 1.78 |
3430 | 4279 | 6.320418 | TGATACAGTAAGAAGTTCGGCTCATA | 59.680 | 38.462 | 0.00 | 0.00 | 0.00 | 2.15 |
3431 | 4280 | 3.963428 | ACAGTAAGAAGTTCGGCTCAT | 57.037 | 42.857 | 0.00 | 0.00 | 0.00 | 2.90 |
3432 | 4281 | 4.461431 | TGATACAGTAAGAAGTTCGGCTCA | 59.539 | 41.667 | 0.00 | 0.00 | 0.00 | 4.26 |
3433 | 4282 | 4.995124 | TGATACAGTAAGAAGTTCGGCTC | 58.005 | 43.478 | 0.00 | 0.00 | 0.00 | 4.70 |
3434 | 4283 | 5.599999 | ATGATACAGTAAGAAGTTCGGCT | 57.400 | 39.130 | 0.00 | 0.00 | 0.00 | 5.52 |
3435 | 4284 | 7.652105 | TCATTATGATACAGTAAGAAGTTCGGC | 59.348 | 37.037 | 0.00 | 0.00 | 0.00 | 5.54 |
3466 | 4318 | 0.994247 | TGACCAGACCAATCCTGCAT | 59.006 | 50.000 | 0.00 | 0.00 | 0.00 | 3.96 |
3467 | 4319 | 0.325933 | CTGACCAGACCAATCCTGCA | 59.674 | 55.000 | 0.00 | 0.00 | 0.00 | 4.41 |
3582 | 4434 | 5.655090 | TCAGGGTTACATACTTCTCGATTGA | 59.345 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3614 | 4466 | 5.669904 | TGAATATATGACTGGAAAGGGTGGA | 59.330 | 40.000 | 0.00 | 0.00 | 0.00 | 4.02 |
3624 | 4476 | 8.843262 | TCAAAGCAAATCTGAATATATGACTGG | 58.157 | 33.333 | 0.00 | 0.00 | 0.00 | 4.00 |
3627 | 4479 | 9.837525 | GGATCAAAGCAAATCTGAATATATGAC | 57.162 | 33.333 | 0.00 | 0.00 | 0.00 | 3.06 |
3649 | 4501 | 8.618702 | AAACAATAGAGTCATGATCATGGATC | 57.381 | 34.615 | 30.54 | 26.29 | 39.24 | 3.36 |
3650 | 4502 | 8.215736 | TGAAACAATAGAGTCATGATCATGGAT | 58.784 | 33.333 | 30.54 | 20.97 | 39.24 | 3.41 |
3657 | 4509 | 8.797350 | TCACAATGAAACAATAGAGTCATGAT | 57.203 | 30.769 | 0.00 | 0.00 | 31.20 | 2.45 |
3662 | 4521 | 8.660373 | CCTACTTCACAATGAAACAATAGAGTC | 58.340 | 37.037 | 0.00 | 0.00 | 35.73 | 3.36 |
3665 | 4524 | 6.374333 | GGCCTACTTCACAATGAAACAATAGA | 59.626 | 38.462 | 0.00 | 0.00 | 35.73 | 1.98 |
3667 | 4526 | 6.245408 | AGGCCTACTTCACAATGAAACAATA | 58.755 | 36.000 | 1.29 | 0.00 | 35.73 | 1.90 |
3676 | 4537 | 3.007635 | GCGTAAAGGCCTACTTCACAAT | 58.992 | 45.455 | 5.16 | 0.00 | 38.85 | 2.71 |
3678 | 4539 | 1.345089 | TGCGTAAAGGCCTACTTCACA | 59.655 | 47.619 | 5.16 | 0.00 | 38.85 | 3.58 |
3710 | 4571 | 2.442212 | TCAATCTTGTTGCCGACGTA | 57.558 | 45.000 | 0.00 | 0.00 | 0.00 | 3.57 |
3731 | 4592 | 0.888619 | CGTGCCTCAGTAGTTCTCCA | 59.111 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3752 | 4613 | 2.461695 | GTTCTCCTCACATCCTCCTCA | 58.538 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
3776 | 4637 | 4.554919 | CGTCTCAAGACTTTCTCTTCGTCA | 60.555 | 45.833 | 8.43 | 0.00 | 42.66 | 4.35 |
3826 | 4687 | 2.528743 | CGTCATCCATCGCTGCCAC | 61.529 | 63.158 | 0.00 | 0.00 | 0.00 | 5.01 |
3895 | 4756 | 9.734620 | GCTTCTGCAATATCAAATTATGTACAA | 57.265 | 29.630 | 0.00 | 0.00 | 39.41 | 2.41 |
3998 | 4859 | 1.885887 | CCAAAAGTTGCCGATGAGGAA | 59.114 | 47.619 | 0.00 | 0.00 | 45.00 | 3.36 |
4032 | 4893 | 2.793278 | AAATGCCGTGGACAAAACTC | 57.207 | 45.000 | 0.00 | 0.00 | 0.00 | 3.01 |
4045 | 4906 | 4.339748 | AGAAGAAGAGGAGGAAAAATGCC | 58.660 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
4054 | 4915 | 5.476091 | AACAGTACAAGAAGAAGAGGAGG | 57.524 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
4073 | 4934 | 5.694006 | CCAAACAAGTCAACAAACTCAAACA | 59.306 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
4095 | 4956 | 3.086391 | GCTCTGCCTGATCGCTCCA | 62.086 | 63.158 | 0.00 | 0.00 | 0.00 | 3.86 |
4109 | 4970 | 5.873712 | CACAGTTCAGATACATGAAAGCTCT | 59.126 | 40.000 | 0.00 | 0.00 | 40.72 | 4.09 |
4360 | 5224 | 2.106683 | CGAGGCGGCGGATCTTTTT | 61.107 | 57.895 | 9.78 | 0.00 | 0.00 | 1.94 |
4533 | 5414 | 3.861840 | TGCAGAAAATTAGAGACGAGGG | 58.138 | 45.455 | 0.00 | 0.00 | 0.00 | 4.30 |
4534 | 5415 | 4.690748 | TGTTGCAGAAAATTAGAGACGAGG | 59.309 | 41.667 | 0.00 | 0.00 | 0.00 | 4.63 |
4610 | 5504 | 3.769300 | GAGGAGGTTTTGCAATATGGGTT | 59.231 | 43.478 | 0.00 | 0.00 | 0.00 | 4.11 |
4617 | 5511 | 8.978874 | AAATTAAAAAGAGGAGGTTTTGCAAT | 57.021 | 26.923 | 0.00 | 0.00 | 0.00 | 3.56 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.