Multiple sequence alignment - TraesCS7D01G225300
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 | TraesCS7D01G225300 | chr7D | 100.000 | 7539 | 0 | 0 | 1 | 7539 | 185172080 | 185164542 | 0.000000e+00 | 13923.0 |
1 | TraesCS7D01G225300 | chr7D | 82.857 | 595 | 71 | 11 | 3431 | 4021 | 58660275 | 58659708 | 8.730000e-139 | 505.0 |
2 | TraesCS7D01G225300 | chr7A | 94.320 | 4120 | 140 | 40 | 2887 | 6981 | 192877324 | 192873274 | 0.000000e+00 | 6226.0 |
3 | TraesCS7D01G225300 | chr7A | 89.266 | 2739 | 223 | 31 | 1 | 2706 | 192880021 | 192877321 | 0.000000e+00 | 3363.0 |
4 | TraesCS7D01G225300 | chr7A | 88.889 | 450 | 18 | 12 | 7122 | 7539 | 192872819 | 192872370 | 6.700000e-145 | 525.0 |
5 | TraesCS7D01G225300 | chr7A | 99.020 | 102 | 0 | 1 | 7038 | 7138 | 192873249 | 192873148 | 1.670000e-41 | 182.0 |
6 | TraesCS7D01G225300 | chr7A | 90.789 | 76 | 3 | 2 | 7079 | 7153 | 192873277 | 192873205 | 1.730000e-16 | 99.0 |
7 | TraesCS7D01G225300 | chr7B | 97.281 | 2906 | 51 | 4 | 2628 | 5533 | 327433531 | 327430654 | 0.000000e+00 | 4903.0 |
8 | TraesCS7D01G225300 | chr7B | 93.092 | 1520 | 59 | 15 | 6064 | 7539 | 327429999 | 327428482 | 0.000000e+00 | 2183.0 |
9 | TraesCS7D01G225300 | chr7B | 92.498 | 1453 | 79 | 16 | 1034 | 2468 | 327434973 | 327433533 | 0.000000e+00 | 2052.0 |
10 | TraesCS7D01G225300 | chr7B | 97.446 | 509 | 5 | 2 | 5558 | 6065 | 327430659 | 327430158 | 0.000000e+00 | 861.0 |
11 | TraesCS7D01G225300 | chr7B | 83.086 | 674 | 94 | 8 | 3 | 656 | 327450924 | 327450251 | 5.040000e-166 | 595.0 |
12 | TraesCS7D01G225300 | chr7B | 89.532 | 363 | 23 | 6 | 640 | 992 | 327435605 | 327435248 | 5.370000e-121 | 446.0 |
13 | TraesCS7D01G225300 | chrUn | 84.820 | 751 | 105 | 4 | 3276 | 4021 | 274026454 | 274025708 | 0.000000e+00 | 747.0 |
14 | TraesCS7D01G225300 | chrUn | 79.457 | 516 | 63 | 13 | 3516 | 4023 | 314414488 | 314414968 | 7.300000e-85 | 326.0 |
15 | TraesCS7D01G225300 | chr5B | 84.843 | 574 | 79 | 6 | 3413 | 3980 | 328212909 | 328212338 | 8.490000e-159 | 571.0 |
16 | TraesCS7D01G225300 | chr3B | 85.057 | 348 | 50 | 2 | 3413 | 3759 | 43692240 | 43692586 | 3.350000e-93 | 353.0 |
17 | TraesCS7D01G225300 | chr3B | 73.740 | 377 | 81 | 14 | 47 | 405 | 747473072 | 747472696 | 1.710000e-26 | 132.0 |
18 | TraesCS7D01G225300 | chr3B | 73.186 | 317 | 67 | 12 | 80 | 378 | 744426552 | 744426868 | 1.730000e-16 | 99.0 |
19 | TraesCS7D01G225300 | chr5D | 77.091 | 275 | 54 | 6 | 48 | 317 | 109564169 | 109563899 | 4.710000e-32 | 150.0 |
20 | TraesCS7D01G225300 | chr6B | 88.462 | 52 | 5 | 1 | 600 | 650 | 638851003 | 638851054 | 2.270000e-05 | 62.1 |
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 | TraesCS7D01G225300 | chr7D | 185164542 | 185172080 | 7538 | True | 13923 | 13923 | 100.0000 | 1 | 7539 | 1 | chr7D.!!$R2 | 7538 |
1 | TraesCS7D01G225300 | chr7D | 58659708 | 58660275 | 567 | True | 505 | 505 | 82.8570 | 3431 | 4021 | 1 | chr7D.!!$R1 | 590 |
2 | TraesCS7D01G225300 | chr7A | 192872370 | 192880021 | 7651 | True | 2079 | 6226 | 92.4568 | 1 | 7539 | 5 | chr7A.!!$R1 | 7538 |
3 | TraesCS7D01G225300 | chr7B | 327428482 | 327435605 | 7123 | True | 2089 | 4903 | 93.9698 | 640 | 7539 | 5 | chr7B.!!$R2 | 6899 |
4 | TraesCS7D01G225300 | chr7B | 327450251 | 327450924 | 673 | True | 595 | 595 | 83.0860 | 3 | 656 | 1 | chr7B.!!$R1 | 653 |
5 | TraesCS7D01G225300 | chrUn | 274025708 | 274026454 | 746 | True | 747 | 747 | 84.8200 | 3276 | 4021 | 1 | chrUn.!!$R1 | 745 |
6 | TraesCS7D01G225300 | chr5B | 328212338 | 328212909 | 571 | True | 571 | 571 | 84.8430 | 3413 | 3980 | 1 | chr5B.!!$R1 | 567 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
170 | 179 | 0.032813 | CATTCCCCAGAACCAGGCAT | 60.033 | 55.000 | 0.00 | 0.00 | 33.97 | 4.40 | F |
1671 | 1954 | 0.466739 | GGATCATGGTGGCAGCATCA | 60.467 | 55.000 | 27.90 | 18.01 | 33.46 | 3.07 | F |
1944 | 2229 | 2.159382 | TGGGAGTCAAATTTCTTCCGC | 58.841 | 47.619 | 0.90 | 0.00 | 32.26 | 5.54 | F |
2228 | 2518 | 2.939298 | CCTCAACCCCAACCCCAA | 59.061 | 61.111 | 0.00 | 0.00 | 0.00 | 4.12 | F |
2798 | 3089 | 3.118592 | TGCATGTCGGTACCATGTTATCA | 60.119 | 43.478 | 13.54 | 0.00 | 41.38 | 2.15 | F |
4701 | 4998 | 1.065701 | CACTCCCCTCTTCGTATGTCG | 59.934 | 57.143 | 0.00 | 0.00 | 41.41 | 4.35 | F |
4783 | 5080 | 0.325933 | TCACTGTGGGAAGAGCATGG | 59.674 | 55.000 | 8.11 | 0.00 | 0.00 | 3.66 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2154 | 2444 | 0.181587 | TTCAGCGGTGGACTTGGAAA | 59.818 | 50.000 | 15.67 | 0.0 | 0.00 | 3.13 | R |
2516 | 2806 | 2.621070 | AGGAGCTAGACCAGGTTCAAA | 58.379 | 47.619 | 0.00 | 0.0 | 34.30 | 2.69 | R |
3126 | 3417 | 3.314635 | GCAGATTCGAAGGAATGCATCTT | 59.685 | 43.478 | 16.90 | 0.0 | 42.86 | 2.40 | R |
4071 | 4368 | 4.456911 | ACAGCACATGGAAGTAACTCAATG | 59.543 | 41.667 | 0.00 | 0.0 | 0.00 | 2.82 | R |
4783 | 5080 | 0.182299 | AGCCAGCTTAGATTGGGAGC | 59.818 | 55.000 | 5.58 | 0.0 | 34.96 | 4.70 | R |
6203 | 6673 | 1.177401 | GTAAAAAGGCCCAGGCTCAG | 58.823 | 55.000 | 8.89 | 0.0 | 37.50 | 3.35 | R |
6721 | 7191 | 4.213564 | ACTCCACAGGAAATAGCTCAAG | 57.786 | 45.455 | 0.00 | 0.0 | 0.00 | 3.02 | 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 |
---|---|---|---|---|---|---|---|---|---|
25 | 26 | 5.520376 | AAGACCTCCAAATTGTCAGTTTG | 57.480 | 39.130 | 12.58 | 12.58 | 36.55 | 2.93 |
29 | 30 | 6.263168 | AGACCTCCAAATTGTCAGTTTGTAAG | 59.737 | 38.462 | 16.79 | 13.52 | 35.35 | 2.34 |
31 | 32 | 5.301805 | CCTCCAAATTGTCAGTTTGTAAGGT | 59.698 | 40.000 | 20.35 | 0.00 | 35.27 | 3.50 |
32 | 33 | 6.385649 | TCCAAATTGTCAGTTTGTAAGGTC | 57.614 | 37.500 | 16.79 | 0.00 | 35.35 | 3.85 |
56 | 57 | 0.108709 | TTGAATCATGCCCTTTGCGC | 60.109 | 50.000 | 0.00 | 0.00 | 45.60 | 6.09 |
68 | 69 | 3.109847 | TTTGCGCAAGGGAAAGACT | 57.890 | 47.368 | 23.68 | 0.00 | 31.78 | 3.24 |
70 | 71 | 1.172180 | TTGCGCAAGGGAAAGACTGG | 61.172 | 55.000 | 21.02 | 0.00 | 38.28 | 4.00 |
122 | 123 | 5.233050 | CGACATTCACACACCAATCTATCTC | 59.767 | 44.000 | 0.00 | 0.00 | 0.00 | 2.75 |
123 | 124 | 5.431765 | ACATTCACACACCAATCTATCTCC | 58.568 | 41.667 | 0.00 | 0.00 | 0.00 | 3.71 |
127 | 128 | 2.505819 | ACACACCAATCTATCTCCCCAC | 59.494 | 50.000 | 0.00 | 0.00 | 0.00 | 4.61 |
128 | 129 | 2.127708 | ACACCAATCTATCTCCCCACC | 58.872 | 52.381 | 0.00 | 0.00 | 0.00 | 4.61 |
146 | 151 | 3.880040 | CCCCCAAATGAATTTGCCC | 57.120 | 52.632 | 9.77 | 0.00 | 44.32 | 5.36 |
154 | 159 | 5.005094 | CCAAATGAATTTGCCCTTGTCATT | 58.995 | 37.500 | 9.77 | 0.00 | 44.32 | 2.57 |
157 | 162 | 2.566724 | TGAATTTGCCCTTGTCATTCCC | 59.433 | 45.455 | 0.00 | 0.00 | 0.00 | 3.97 |
165 | 170 | 1.075374 | CCTTGTCATTCCCCAGAACCA | 59.925 | 52.381 | 0.00 | 0.00 | 33.97 | 3.67 |
166 | 171 | 2.440409 | CTTGTCATTCCCCAGAACCAG | 58.560 | 52.381 | 0.00 | 0.00 | 33.97 | 4.00 |
167 | 172 | 0.698238 | TGTCATTCCCCAGAACCAGG | 59.302 | 55.000 | 0.00 | 0.00 | 33.97 | 4.45 |
170 | 179 | 0.032813 | CATTCCCCAGAACCAGGCAT | 60.033 | 55.000 | 0.00 | 0.00 | 33.97 | 4.40 |
186 | 195 | 1.406903 | GCATTGCCCCTAAGCAGATT | 58.593 | 50.000 | 0.00 | 0.00 | 45.13 | 2.40 |
225 | 234 | 8.419076 | ACATCAACATTAAGTTTGACAAAACC | 57.581 | 30.769 | 1.27 | 0.00 | 45.75 | 3.27 |
309 | 318 | 8.440833 | ACAAAATTAGTTGTAAGCGTACAGATC | 58.559 | 33.333 | 12.27 | 7.80 | 41.25 | 2.75 |
324 | 334 | 3.736094 | ACAGATCCCCATAGAAACCTGA | 58.264 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
335 | 345 | 6.014242 | CCCATAGAAACCTGATATGCACTCTA | 60.014 | 42.308 | 0.00 | 0.00 | 0.00 | 2.43 |
372 | 385 | 2.525368 | AGTTTATGCCTTTCCCACCAC | 58.475 | 47.619 | 0.00 | 0.00 | 0.00 | 4.16 |
378 | 391 | 3.182887 | TGCCTTTCCCACCACAAATAT | 57.817 | 42.857 | 0.00 | 0.00 | 0.00 | 1.28 |
389 | 402 | 4.096382 | CCACCACAAATATCAGGCAGTAAC | 59.904 | 45.833 | 0.00 | 0.00 | 0.00 | 2.50 |
391 | 404 | 4.188462 | CCACAAATATCAGGCAGTAACGA | 58.812 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
404 | 417 | 4.424626 | GCAGTAACGACAATCATCTCTCA | 58.575 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
417 | 430 | 7.597743 | ACAATCATCTCTCAAGCATTTGAAAAC | 59.402 | 33.333 | 0.00 | 0.00 | 42.48 | 2.43 |
425 | 438 | 3.192541 | AGCATTTGAAAACCCCAACAC | 57.807 | 42.857 | 0.00 | 0.00 | 0.00 | 3.32 |
427 | 440 | 2.740256 | GCATTTGAAAACCCCAACACGT | 60.740 | 45.455 | 0.00 | 0.00 | 0.00 | 4.49 |
452 | 465 | 7.862512 | ACAAAATTTGATCTGGCAAAAGAAA | 57.137 | 28.000 | 13.19 | 0.00 | 40.72 | 2.52 |
463 | 476 | 4.086457 | TGGCAAAAGAAATAGGAACTCCC | 58.914 | 43.478 | 0.00 | 0.00 | 41.75 | 4.30 |
465 | 478 | 4.711846 | GGCAAAAGAAATAGGAACTCCCAT | 59.288 | 41.667 | 0.00 | 0.00 | 41.75 | 4.00 |
467 | 480 | 6.551227 | GGCAAAAGAAATAGGAACTCCCATAT | 59.449 | 38.462 | 0.00 | 0.00 | 41.75 | 1.78 |
468 | 481 | 7.724061 | GGCAAAAGAAATAGGAACTCCCATATA | 59.276 | 37.037 | 0.00 | 0.00 | 41.75 | 0.86 |
472 | 485 | 7.469537 | AGAAATAGGAACTCCCATATAGTCG | 57.530 | 40.000 | 0.00 | 0.00 | 41.75 | 4.18 |
476 | 490 | 3.568853 | AGGAACTCCCATATAGTCGTTCG | 59.431 | 47.826 | 0.00 | 0.00 | 37.41 | 3.95 |
478 | 492 | 4.037208 | GGAACTCCCATATAGTCGTTCGAA | 59.963 | 45.833 | 0.00 | 0.00 | 33.47 | 3.71 |
483 | 497 | 3.987868 | CCCATATAGTCGTTCGAACATGG | 59.012 | 47.826 | 25.29 | 25.29 | 33.08 | 3.66 |
491 | 505 | 3.001939 | GTCGTTCGAACATGGTCAACTTT | 59.998 | 43.478 | 26.71 | 0.00 | 0.00 | 2.66 |
647 | 669 | 7.840931 | TGTCTCACATGTGTTAGATGTAGATT | 58.159 | 34.615 | 24.63 | 0.00 | 31.78 | 2.40 |
682 | 705 | 3.708403 | ATCGGATGACATGCATACCAT | 57.292 | 42.857 | 11.43 | 11.43 | 37.34 | 3.55 |
694 | 717 | 2.025510 | TGCATACCATCATCACCAACCA | 60.026 | 45.455 | 0.00 | 0.00 | 0.00 | 3.67 |
704 | 727 | 5.290493 | TCATCACCAACCACATCTATACC | 57.710 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
705 | 728 | 4.968719 | TCATCACCAACCACATCTATACCT | 59.031 | 41.667 | 0.00 | 0.00 | 0.00 | 3.08 |
706 | 729 | 5.428457 | TCATCACCAACCACATCTATACCTT | 59.572 | 40.000 | 0.00 | 0.00 | 0.00 | 3.50 |
707 | 730 | 5.353394 | TCACCAACCACATCTATACCTTC | 57.647 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
708 | 731 | 4.163458 | TCACCAACCACATCTATACCTTCC | 59.837 | 45.833 | 0.00 | 0.00 | 0.00 | 3.46 |
755 | 779 | 4.794648 | GCTGCCACGCCCATACCA | 62.795 | 66.667 | 0.00 | 0.00 | 0.00 | 3.25 |
815 | 839 | 4.487019 | GCTGTCCGATCTATTTAGTAGCC | 58.513 | 47.826 | 0.00 | 0.00 | 0.00 | 3.93 |
856 | 887 | 3.784338 | CAGAACCTTCTCTGATCTCTGC | 58.216 | 50.000 | 0.00 | 0.00 | 44.82 | 4.26 |
989 | 1029 | 2.066999 | CCTTCTAGAAGCGCCCCCT | 61.067 | 63.158 | 24.58 | 0.66 | 37.11 | 4.79 |
990 | 1030 | 1.443828 | CTTCTAGAAGCGCCCCCTC | 59.556 | 63.158 | 19.23 | 0.00 | 0.00 | 4.30 |
992 | 1032 | 2.764128 | CTAGAAGCGCCCCCTCCA | 60.764 | 66.667 | 2.29 | 0.00 | 0.00 | 3.86 |
993 | 1033 | 3.081409 | TAGAAGCGCCCCCTCCAC | 61.081 | 66.667 | 2.29 | 0.00 | 0.00 | 4.02 |
1346 | 1620 | 0.613260 | TGACACCCTCCCTTGATTCG | 59.387 | 55.000 | 0.00 | 0.00 | 0.00 | 3.34 |
1387 | 1661 | 1.568504 | TAAGCCTGTTCGGTGGATCT | 58.431 | 50.000 | 0.00 | 0.00 | 34.25 | 2.75 |
1390 | 1664 | 0.535335 | GCCTGTTCGGTGGATCTACA | 59.465 | 55.000 | 11.67 | 0.00 | 34.25 | 2.74 |
1391 | 1665 | 1.139058 | GCCTGTTCGGTGGATCTACAT | 59.861 | 52.381 | 11.67 | 0.00 | 34.25 | 2.29 |
1478 | 1752 | 5.039480 | GCAGCAAGCCACACATAATATAG | 57.961 | 43.478 | 0.00 | 0.00 | 37.23 | 1.31 |
1479 | 1753 | 4.516698 | GCAGCAAGCCACACATAATATAGT | 59.483 | 41.667 | 0.00 | 0.00 | 37.23 | 2.12 |
1624 | 1906 | 1.377333 | GGGTGAAGGAAGAAGGCGG | 60.377 | 63.158 | 0.00 | 0.00 | 0.00 | 6.13 |
1648 | 1930 | 0.676151 | CAGCACAGAAGGAGAAGGCC | 60.676 | 60.000 | 0.00 | 0.00 | 0.00 | 5.19 |
1654 | 1936 | 1.686110 | GAAGGAGAAGGCCGAGGGA | 60.686 | 63.158 | 0.00 | 0.00 | 0.00 | 4.20 |
1655 | 1937 | 1.003573 | AAGGAGAAGGCCGAGGGAT | 59.996 | 57.895 | 0.00 | 0.00 | 0.00 | 3.85 |
1656 | 1938 | 1.051556 | AAGGAGAAGGCCGAGGGATC | 61.052 | 60.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1657 | 1939 | 1.762460 | GGAGAAGGCCGAGGGATCA | 60.762 | 63.158 | 0.00 | 0.00 | 0.00 | 2.92 |
1667 | 1950 | 1.527844 | GAGGGATCATGGTGGCAGC | 60.528 | 63.158 | 10.30 | 10.30 | 0.00 | 5.25 |
1671 | 1954 | 0.466739 | GGATCATGGTGGCAGCATCA | 60.467 | 55.000 | 27.90 | 18.01 | 33.46 | 3.07 |
1762 | 2045 | 4.519730 | GGTACTTGAGGATACAGCGTATCT | 59.480 | 45.833 | 20.37 | 11.50 | 41.41 | 1.98 |
1787 | 2070 | 7.976712 | TCCATATCCAATGACAGATGTGAATA | 58.023 | 34.615 | 0.00 | 0.00 | 34.55 | 1.75 |
1789 | 2072 | 8.727910 | CCATATCCAATGACAGATGTGAATAAG | 58.272 | 37.037 | 0.00 | 0.00 | 34.55 | 1.73 |
1795 | 2078 | 7.912250 | CCAATGACAGATGTGAATAAGTTTAGC | 59.088 | 37.037 | 0.00 | 0.00 | 0.00 | 3.09 |
1822 | 2105 | 3.646611 | TGTGTTGCATCAACCATCAAG | 57.353 | 42.857 | 0.00 | 0.00 | 42.96 | 3.02 |
1833 | 2116 | 6.128742 | GCATCAACCATCAAGTGACAAAAATC | 60.129 | 38.462 | 0.00 | 0.00 | 0.00 | 2.17 |
1898 | 2183 | 6.164876 | CACAATATGGCCAGTTCAATTTTCA | 58.835 | 36.000 | 13.05 | 0.00 | 0.00 | 2.69 |
1914 | 2199 | 8.681486 | TCAATTTTCATAGTGGTCATGATAGG | 57.319 | 34.615 | 0.00 | 0.00 | 32.63 | 2.57 |
1928 | 2213 | 5.885912 | GTCATGATAGGTTTTAGCTTTGGGA | 59.114 | 40.000 | 0.00 | 0.00 | 0.00 | 4.37 |
1942 | 2227 | 4.281941 | AGCTTTGGGAGTCAAATTTCTTCC | 59.718 | 41.667 | 0.00 | 0.00 | 43.57 | 3.46 |
1944 | 2229 | 2.159382 | TGGGAGTCAAATTTCTTCCGC | 58.841 | 47.619 | 0.90 | 0.00 | 32.26 | 5.54 |
1949 | 2234 | 4.156739 | GGAGTCAAATTTCTTCCGCTTCAT | 59.843 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
1997 | 2287 | 7.891183 | AATCTAGTTCGATATATTGGTGCAC | 57.109 | 36.000 | 8.80 | 8.80 | 0.00 | 4.57 |
2100 | 2390 | 4.036498 | CGAATCTCTAGTACGTCCAACCAT | 59.964 | 45.833 | 0.00 | 0.00 | 0.00 | 3.55 |
2105 | 2395 | 8.701908 | ATCTCTAGTACGTCCAACCATTAATA | 57.298 | 34.615 | 0.00 | 0.00 | 0.00 | 0.98 |
2110 | 2400 | 6.293698 | AGTACGTCCAACCATTAATATTCCC | 58.706 | 40.000 | 0.00 | 0.00 | 0.00 | 3.97 |
2120 | 2410 | 6.498538 | ACCATTAATATTCCCCAGACAACAA | 58.501 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
2133 | 2423 | 3.088532 | AGACAACAACCTCAAGTGCAAA | 58.911 | 40.909 | 0.00 | 0.00 | 0.00 | 3.68 |
2134 | 2424 | 3.701040 | AGACAACAACCTCAAGTGCAAAT | 59.299 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
2228 | 2518 | 2.939298 | CCTCAACCCCAACCCCAA | 59.061 | 61.111 | 0.00 | 0.00 | 0.00 | 4.12 |
2390 | 2680 | 8.635765 | AGCTGTTAATTGTCCTAATTTCAGAA | 57.364 | 30.769 | 14.89 | 0.00 | 0.00 | 3.02 |
2495 | 2785 | 6.627087 | AATGTTCCTCCTATTCTCAAGACA | 57.373 | 37.500 | 0.00 | 0.00 | 0.00 | 3.41 |
2516 | 2806 | 3.824414 | GCTGGTGCTTATGTTTAACGT | 57.176 | 42.857 | 0.00 | 0.00 | 36.03 | 3.99 |
2539 | 2829 | 3.995636 | TGAACCTGGTCTAGCTCCTAAT | 58.004 | 45.455 | 0.00 | 0.00 | 0.00 | 1.73 |
2544 | 2834 | 4.971924 | ACCTGGTCTAGCTCCTAATTTCAT | 59.028 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
2551 | 2841 | 8.348507 | GGTCTAGCTCCTAATTTCATTCAAATG | 58.651 | 37.037 | 0.00 | 0.00 | 34.69 | 2.32 |
2616 | 2906 | 6.875972 | TCCTTAAGAAGCTCATCCTTTACT | 57.124 | 37.500 | 3.36 | 0.00 | 0.00 | 2.24 |
2798 | 3089 | 3.118592 | TGCATGTCGGTACCATGTTATCA | 60.119 | 43.478 | 13.54 | 0.00 | 41.38 | 2.15 |
2799 | 3090 | 3.247648 | GCATGTCGGTACCATGTTATCAC | 59.752 | 47.826 | 13.54 | 0.00 | 41.38 | 3.06 |
2800 | 3091 | 4.438148 | CATGTCGGTACCATGTTATCACA | 58.562 | 43.478 | 13.54 | 1.51 | 35.94 | 3.58 |
2801 | 3092 | 4.538746 | TGTCGGTACCATGTTATCACAA | 57.461 | 40.909 | 13.54 | 0.00 | 36.16 | 3.33 |
2802 | 3093 | 5.092554 | TGTCGGTACCATGTTATCACAAT | 57.907 | 39.130 | 13.54 | 0.00 | 36.16 | 2.71 |
2803 | 3094 | 5.492895 | TGTCGGTACCATGTTATCACAATT | 58.507 | 37.500 | 13.54 | 0.00 | 36.16 | 2.32 |
2804 | 3095 | 5.352846 | TGTCGGTACCATGTTATCACAATTG | 59.647 | 40.000 | 13.54 | 3.24 | 36.16 | 2.32 |
2805 | 3096 | 5.353123 | GTCGGTACCATGTTATCACAATTGT | 59.647 | 40.000 | 13.54 | 4.92 | 36.16 | 2.71 |
2806 | 3097 | 5.352846 | TCGGTACCATGTTATCACAATTGTG | 59.647 | 40.000 | 29.01 | 29.01 | 46.91 | 3.33 |
2807 | 3098 | 5.123186 | CGGTACCATGTTATCACAATTGTGT | 59.877 | 40.000 | 31.99 | 22.83 | 45.76 | 3.72 |
2808 | 3099 | 6.551736 | GGTACCATGTTATCACAATTGTGTC | 58.448 | 40.000 | 31.99 | 21.71 | 45.76 | 3.67 |
2809 | 3100 | 6.150307 | GGTACCATGTTATCACAATTGTGTCA | 59.850 | 38.462 | 31.99 | 25.29 | 45.76 | 3.58 |
2810 | 3101 | 6.839124 | ACCATGTTATCACAATTGTGTCAT | 57.161 | 33.333 | 31.99 | 26.06 | 45.76 | 3.06 |
2811 | 3102 | 6.623486 | ACCATGTTATCACAATTGTGTCATG | 58.377 | 36.000 | 31.35 | 31.35 | 45.76 | 3.07 |
2812 | 3103 | 6.209192 | ACCATGTTATCACAATTGTGTCATGT | 59.791 | 34.615 | 32.84 | 26.32 | 45.76 | 3.21 |
2813 | 3104 | 7.092079 | CCATGTTATCACAATTGTGTCATGTT | 58.908 | 34.615 | 32.84 | 20.81 | 45.76 | 2.71 |
2814 | 3105 | 7.599621 | CCATGTTATCACAATTGTGTCATGTTT | 59.400 | 33.333 | 32.84 | 19.90 | 45.76 | 2.83 |
2815 | 3106 | 7.927305 | TGTTATCACAATTGTGTCATGTTTG | 57.073 | 32.000 | 31.99 | 9.18 | 45.76 | 2.93 |
2816 | 3107 | 7.710896 | TGTTATCACAATTGTGTCATGTTTGA | 58.289 | 30.769 | 31.99 | 14.42 | 45.76 | 2.69 |
2817 | 3108 | 8.193438 | TGTTATCACAATTGTGTCATGTTTGAA | 58.807 | 29.630 | 31.99 | 13.76 | 45.76 | 2.69 |
2818 | 3109 | 8.479280 | GTTATCACAATTGTGTCATGTTTGAAC | 58.521 | 33.333 | 31.99 | 17.84 | 45.76 | 3.18 |
2819 | 3110 | 5.958955 | TCACAATTGTGTCATGTTTGAACA | 58.041 | 33.333 | 31.99 | 10.46 | 45.76 | 3.18 |
2820 | 3111 | 6.393171 | TCACAATTGTGTCATGTTTGAACAA | 58.607 | 32.000 | 31.99 | 10.05 | 45.76 | 2.83 |
2841 | 3132 | 7.716799 | ACAAAAGTATCAATTGGAATGCCTA | 57.283 | 32.000 | 5.42 | 0.00 | 34.31 | 3.93 |
3073 | 3364 | 4.881157 | AAATGGCAGGGGTAGATAAACT | 57.119 | 40.909 | 0.00 | 0.00 | 0.00 | 2.66 |
3111 | 3402 | 4.137116 | TCACACCATGCTATTCTGGTAC | 57.863 | 45.455 | 0.00 | 0.00 | 43.91 | 3.34 |
3126 | 3417 | 7.972832 | ATTCTGGTACGTTTGATTTTGAGTA | 57.027 | 32.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3157 | 3448 | 3.196469 | TCCTTCGAATCTGCTGACTCAAT | 59.804 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
3159 | 3450 | 4.744137 | CCTTCGAATCTGCTGACTCAATAG | 59.256 | 45.833 | 0.00 | 0.00 | 0.00 | 1.73 |
3163 | 3454 | 5.536538 | TCGAATCTGCTGACTCAATAGGTAT | 59.463 | 40.000 | 2.96 | 0.00 | 0.00 | 2.73 |
4119 | 4416 | 8.946085 | GTGAATTCAGTAAATGATTCCACACTA | 58.054 | 33.333 | 8.80 | 0.00 | 37.89 | 2.74 |
4701 | 4998 | 1.065701 | CACTCCCCTCTTCGTATGTCG | 59.934 | 57.143 | 0.00 | 0.00 | 41.41 | 4.35 |
4783 | 5080 | 0.325933 | TCACTGTGGGAAGAGCATGG | 59.674 | 55.000 | 8.11 | 0.00 | 0.00 | 3.66 |
5155 | 5452 | 3.511540 | TCAGGTGGTCAGTTCAGATAGTG | 59.488 | 47.826 | 0.00 | 0.00 | 0.00 | 2.74 |
5393 | 5690 | 1.126948 | TGAGTGGCATCTGTGGGACA | 61.127 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
5409 | 5706 | 3.026694 | GGGACAAATCATTAAGCCAGCT | 58.973 | 45.455 | 0.00 | 0.00 | 0.00 | 4.24 |
5450 | 5751 | 7.657354 | GCTGATTTTGGTTTGTTTCTCCTTATT | 59.343 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
5451 | 5752 | 9.196552 | CTGATTTTGGTTTGTTTCTCCTTATTC | 57.803 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
5452 | 5753 | 8.147704 | TGATTTTGGTTTGTTTCTCCTTATTCC | 58.852 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
5453 | 5754 | 7.669089 | TTTTGGTTTGTTTCTCCTTATTCCT | 57.331 | 32.000 | 0.00 | 0.00 | 0.00 | 3.36 |
5454 | 5755 | 7.669089 | TTTGGTTTGTTTCTCCTTATTCCTT | 57.331 | 32.000 | 0.00 | 0.00 | 0.00 | 3.36 |
5455 | 5756 | 8.770010 | TTTGGTTTGTTTCTCCTTATTCCTTA | 57.230 | 30.769 | 0.00 | 0.00 | 0.00 | 2.69 |
5456 | 5757 | 8.950007 | TTGGTTTGTTTCTCCTTATTCCTTAT | 57.050 | 30.769 | 0.00 | 0.00 | 0.00 | 1.73 |
5515 | 5816 | 6.998074 | TCAGCTAATTGGAGAAGAAAGTTTCA | 59.002 | 34.615 | 17.65 | 0.00 | 0.00 | 2.69 |
6155 | 6620 | 1.178534 | CCATCGCCACCAACACCTTT | 61.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.11 |
6203 | 6673 | 6.576662 | TCCTCGATCCATTGAGTATCTTAC | 57.423 | 41.667 | 3.56 | 0.00 | 36.72 | 2.34 |
6243 | 6713 | 1.227205 | CCCTGCTCAGAGATGCGAC | 60.227 | 63.158 | 0.00 | 0.00 | 0.00 | 5.19 |
6251 | 6721 | 1.102154 | CAGAGATGCGACTGGAGTCT | 58.898 | 55.000 | 5.30 | 0.00 | 42.66 | 3.24 |
6322 | 6792 | 5.612725 | TGAAGCCATTTTCTGAAACCTTT | 57.387 | 34.783 | 1.58 | 0.00 | 0.00 | 3.11 |
6377 | 6847 | 6.773976 | ACTGGTTATTAATGATGGGTGTTG | 57.226 | 37.500 | 0.00 | 0.00 | 0.00 | 3.33 |
6531 | 7001 | 6.032956 | TGTTAGTGTTGATAGTTCGATGGT | 57.967 | 37.500 | 0.00 | 0.00 | 0.00 | 3.55 |
6587 | 7057 | 0.317160 | ACATTGCCGTTCGTCTCTCA | 59.683 | 50.000 | 0.00 | 0.00 | 0.00 | 3.27 |
6649 | 7119 | 4.337555 | GCTGAAGTGAGGTTCATATGCATT | 59.662 | 41.667 | 3.54 | 0.00 | 35.88 | 3.56 |
6721 | 7191 | 2.293170 | GCCTCCTTGCTTCCTATCAAC | 58.707 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
6738 | 7209 | 6.259608 | CCTATCAACTTGAGCTATTTCCTGTG | 59.740 | 42.308 | 0.00 | 0.00 | 0.00 | 3.66 |
6739 | 7210 | 4.326826 | TCAACTTGAGCTATTTCCTGTGG | 58.673 | 43.478 | 0.00 | 0.00 | 0.00 | 4.17 |
6740 | 7211 | 4.041567 | TCAACTTGAGCTATTTCCTGTGGA | 59.958 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
6771 | 7245 | 7.382898 | TGCAAAATTTAGACCCTTGATTTACC | 58.617 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
6886 | 7374 | 6.575572 | CGTTATGAGCAACTCTAGAATAGTCG | 59.424 | 42.308 | 0.00 | 0.00 | 40.38 | 4.18 |
7181 | 8044 | 5.067413 | ACATGCAAAGAATCATCCATGAGAC | 59.933 | 40.000 | 0.00 | 0.00 | 40.64 | 3.36 |
7250 | 8113 | 4.535526 | AAATGGCTGGTAATCAAACCAC | 57.464 | 40.909 | 0.00 | 0.00 | 44.68 | 4.16 |
7292 | 8164 | 4.724399 | TGTATCAACAACCATCACCACTT | 58.276 | 39.130 | 0.00 | 0.00 | 30.91 | 3.16 |
7494 | 8377 | 7.982371 | ACAGTATAGCGTATTTACACAAGAC | 57.018 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
7502 | 8385 | 5.118203 | GCGTATTTACACAAGACGTCTTCTT | 59.882 | 40.000 | 27.54 | 14.88 | 46.29 | 2.52 |
7503 | 8386 | 6.346359 | GCGTATTTACACAAGACGTCTTCTTT | 60.346 | 38.462 | 27.54 | 15.98 | 42.37 | 2.52 |
7513 | 8396 | 2.296471 | GACGTCTTCTTTGAGGACCAGA | 59.704 | 50.000 | 8.70 | 0.00 | 35.64 | 3.86 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
25 | 26 | 4.260784 | GGCATGATTCAATCGTGACCTTAC | 60.261 | 45.833 | 21.78 | 4.29 | 46.43 | 2.34 |
29 | 30 | 2.763249 | GGCATGATTCAATCGTGACC | 57.237 | 50.000 | 21.78 | 17.29 | 46.43 | 4.02 |
31 | 32 | 2.715749 | AGGGCATGATTCAATCGTGA | 57.284 | 45.000 | 21.78 | 0.00 | 46.73 | 4.35 |
32 | 33 | 3.441163 | CAAAGGGCATGATTCAATCGTG | 58.559 | 45.455 | 14.45 | 14.45 | 46.55 | 4.35 |
56 | 57 | 4.033709 | TCCTAGATCCAGTCTTTCCCTTG | 58.966 | 47.826 | 0.00 | 0.00 | 38.42 | 3.61 |
68 | 69 | 3.139810 | GCTCTGGCTCCTAGATCCA | 57.860 | 57.895 | 0.00 | 0.00 | 35.22 | 3.41 |
91 | 92 | 0.103390 | TGTGTGAATGTCGTGACGGT | 59.897 | 50.000 | 4.70 | 0.00 | 0.00 | 4.83 |
128 | 129 | 1.288188 | AGGGCAAATTCATTTGGGGG | 58.712 | 50.000 | 13.01 | 0.00 | 45.44 | 5.40 |
133 | 134 | 5.247862 | GGAATGACAAGGGCAAATTCATTT | 58.752 | 37.500 | 5.47 | 0.00 | 37.10 | 2.32 |
146 | 151 | 2.440409 | CTGGTTCTGGGGAATGACAAG | 58.560 | 52.381 | 0.00 | 0.00 | 33.71 | 3.16 |
154 | 159 | 1.383799 | CAATGCCTGGTTCTGGGGA | 59.616 | 57.895 | 0.00 | 0.00 | 0.00 | 4.81 |
157 | 162 | 3.291611 | GGCAATGCCTGGTTCTGG | 58.708 | 61.111 | 18.47 | 0.00 | 46.69 | 3.86 |
167 | 172 | 1.406903 | AATCTGCTTAGGGGCAATGC | 58.593 | 50.000 | 0.00 | 0.00 | 41.94 | 3.56 |
170 | 179 | 3.168035 | TCAAAATCTGCTTAGGGGCAA | 57.832 | 42.857 | 0.00 | 0.00 | 41.94 | 4.52 |
224 | 233 | 2.056906 | CTGGATAAGGCCTTCGGGGG | 62.057 | 65.000 | 24.49 | 7.28 | 35.16 | 5.40 |
225 | 234 | 1.451936 | CTGGATAAGGCCTTCGGGG | 59.548 | 63.158 | 24.49 | 6.14 | 35.16 | 5.73 |
306 | 315 | 5.189180 | GCATATCAGGTTTCTATGGGGATC | 58.811 | 45.833 | 0.00 | 0.00 | 0.00 | 3.36 |
309 | 318 | 4.074970 | GTGCATATCAGGTTTCTATGGGG | 58.925 | 47.826 | 0.00 | 0.00 | 0.00 | 4.96 |
335 | 345 | 9.765795 | GGCATAAACTAGTACATGAGATAGTTT | 57.234 | 33.333 | 23.80 | 23.80 | 45.55 | 2.66 |
372 | 385 | 5.794687 | TTGTCGTTACTGCCTGATATTTG | 57.205 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
378 | 391 | 3.195610 | AGATGATTGTCGTTACTGCCTGA | 59.804 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
389 | 402 | 5.064325 | TCAAATGCTTGAGAGATGATTGTCG | 59.936 | 40.000 | 0.00 | 0.00 | 36.62 | 4.35 |
391 | 404 | 6.829229 | TTCAAATGCTTGAGAGATGATTGT | 57.171 | 33.333 | 0.00 | 0.00 | 42.48 | 2.71 |
404 | 417 | 3.540617 | GTGTTGGGGTTTTCAAATGCTT | 58.459 | 40.909 | 0.00 | 0.00 | 0.00 | 3.91 |
417 | 430 | 4.308899 | TCAAATTTTGTACGTGTTGGGG | 57.691 | 40.909 | 8.89 | 0.00 | 0.00 | 4.96 |
425 | 438 | 6.640499 | TCTTTTGCCAGATCAAATTTTGTACG | 59.360 | 34.615 | 8.89 | 0.00 | 36.04 | 3.67 |
427 | 440 | 8.954950 | TTTCTTTTGCCAGATCAAATTTTGTA | 57.045 | 26.923 | 8.89 | 0.00 | 36.04 | 2.41 |
452 | 465 | 5.415077 | CGAACGACTATATGGGAGTTCCTAT | 59.585 | 44.000 | 16.97 | 2.46 | 40.54 | 2.57 |
463 | 476 | 5.278604 | TGACCATGTTCGAACGACTATATG | 58.721 | 41.667 | 22.48 | 17.72 | 0.00 | 1.78 |
465 | 478 | 4.968812 | TGACCATGTTCGAACGACTATA | 57.031 | 40.909 | 22.48 | 5.02 | 0.00 | 1.31 |
467 | 480 | 3.005050 | AGTTGACCATGTTCGAACGACTA | 59.995 | 43.478 | 22.48 | 6.16 | 0.00 | 2.59 |
468 | 481 | 2.132762 | GTTGACCATGTTCGAACGACT | 58.867 | 47.619 | 22.48 | 7.82 | 0.00 | 4.18 |
472 | 485 | 3.042887 | GCAAAGTTGACCATGTTCGAAC | 58.957 | 45.455 | 21.42 | 21.42 | 0.00 | 3.95 |
476 | 490 | 2.863704 | GCCTGCAAAGTTGACCATGTTC | 60.864 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
478 | 492 | 0.675633 | GCCTGCAAAGTTGACCATGT | 59.324 | 50.000 | 0.00 | 0.00 | 0.00 | 3.21 |
483 | 497 | 5.880054 | TTAATAGAGCCTGCAAAGTTGAC | 57.120 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
491 | 505 | 5.932303 | GGACGAATTATTAATAGAGCCTGCA | 59.068 | 40.000 | 0.00 | 0.00 | 0.00 | 4.41 |
620 | 642 | 7.666623 | TCTACATCTAACACATGTGAGACAAA | 58.333 | 34.615 | 31.94 | 12.03 | 38.30 | 2.83 |
623 | 645 | 7.976175 | TCAATCTACATCTAACACATGTGAGAC | 59.024 | 37.037 | 31.94 | 0.00 | 38.30 | 3.36 |
647 | 669 | 6.152154 | TGTCATCCGATACTTCTAACTGTTCA | 59.848 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
662 | 684 | 3.008266 | TGATGGTATGCATGTCATCCGAT | 59.992 | 43.478 | 26.77 | 12.35 | 36.21 | 4.18 |
682 | 705 | 4.968719 | AGGTATAGATGTGGTTGGTGATGA | 59.031 | 41.667 | 0.00 | 0.00 | 0.00 | 2.92 |
694 | 717 | 6.064717 | GCATTTGGAAGGAAGGTATAGATGT | 58.935 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
704 | 727 | 2.757314 | GAGGGAAGCATTTGGAAGGAAG | 59.243 | 50.000 | 0.00 | 0.00 | 0.00 | 3.46 |
705 | 728 | 2.557452 | GGAGGGAAGCATTTGGAAGGAA | 60.557 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
706 | 729 | 1.005924 | GGAGGGAAGCATTTGGAAGGA | 59.994 | 52.381 | 0.00 | 0.00 | 0.00 | 3.36 |
707 | 730 | 1.478631 | GGAGGGAAGCATTTGGAAGG | 58.521 | 55.000 | 0.00 | 0.00 | 0.00 | 3.46 |
708 | 731 | 1.272648 | TGGGAGGGAAGCATTTGGAAG | 60.273 | 52.381 | 0.00 | 0.00 | 0.00 | 3.46 |
786 | 810 | 1.403814 | TAGATCGGACAGCCAGGAAG | 58.596 | 55.000 | 0.00 | 0.00 | 0.00 | 3.46 |
789 | 813 | 2.918712 | AAATAGATCGGACAGCCAGG | 57.081 | 50.000 | 0.00 | 0.00 | 0.00 | 4.45 |
815 | 839 | 1.546476 | GCATCTAGACCTACGGATGGG | 59.454 | 57.143 | 0.00 | 0.00 | 35.73 | 4.00 |
969 | 1009 | 1.144276 | GGGGCGCTTCTAGAAGGTC | 59.856 | 63.158 | 29.22 | 21.05 | 38.80 | 3.85 |
1173 | 1447 | 4.161295 | TCCTTGGGCCGCATCTCG | 62.161 | 66.667 | 0.00 | 0.00 | 38.08 | 4.04 |
1177 | 1451 | 4.809496 | CAGCTCCTTGGGCCGCAT | 62.809 | 66.667 | 0.00 | 0.00 | 0.00 | 4.73 |
1303 | 1577 | 0.863144 | TTGCGCTTGGTAAGAACGAC | 59.137 | 50.000 | 9.73 | 0.00 | 0.00 | 4.34 |
1306 | 1580 | 1.235724 | ACCTTGCGCTTGGTAAGAAC | 58.764 | 50.000 | 20.18 | 0.00 | 40.41 | 3.01 |
1346 | 1620 | 1.917872 | TAGGACACAACAAATGGGCC | 58.082 | 50.000 | 0.00 | 0.00 | 35.04 | 5.80 |
1387 | 1661 | 4.597404 | CAGAGAGCAATGCCTCTATGTA | 57.403 | 45.455 | 20.28 | 0.00 | 43.00 | 2.29 |
1390 | 1664 | 2.547299 | GCAGAGAGCAATGCCTCTAT | 57.453 | 50.000 | 20.28 | 9.93 | 42.06 | 1.98 |
1445 | 1719 | 1.066908 | GGCTTGCTGCTGTTGTTTACA | 59.933 | 47.619 | 0.00 | 0.00 | 42.39 | 2.41 |
1446 | 1720 | 1.066908 | TGGCTTGCTGCTGTTGTTTAC | 59.933 | 47.619 | 0.00 | 0.00 | 42.39 | 2.01 |
1447 | 1721 | 1.066908 | GTGGCTTGCTGCTGTTGTTTA | 59.933 | 47.619 | 0.00 | 0.00 | 42.39 | 2.01 |
1449 | 1723 | 1.321805 | TGTGGCTTGCTGCTGTTGTT | 61.322 | 50.000 | 0.00 | 0.00 | 42.39 | 2.83 |
1450 | 1724 | 1.753848 | TGTGGCTTGCTGCTGTTGT | 60.754 | 52.632 | 0.00 | 0.00 | 42.39 | 3.32 |
1451 | 1725 | 1.299620 | GTGTGGCTTGCTGCTGTTG | 60.300 | 57.895 | 0.00 | 0.00 | 42.39 | 3.33 |
1500 | 1780 | 6.830912 | TGGCTACTAGTTCGTACTCCTAATA | 58.169 | 40.000 | 0.00 | 0.00 | 35.78 | 0.98 |
1506 | 1786 | 5.451039 | GCTAATGGCTACTAGTTCGTACTC | 58.549 | 45.833 | 0.00 | 0.00 | 35.46 | 2.59 |
1514 | 1794 | 2.771943 | TGCTTGGCTAATGGCTACTAGT | 59.228 | 45.455 | 0.00 | 0.00 | 41.46 | 2.57 |
1554 | 1836 | 4.261363 | CCCTTCTCTGTTTTCTGCACTTTC | 60.261 | 45.833 | 0.00 | 0.00 | 0.00 | 2.62 |
1624 | 1906 | 2.033141 | TCCTTCTGTGCTGGCAGC | 59.967 | 61.111 | 31.91 | 31.91 | 42.82 | 5.25 |
1634 | 1916 | 1.519719 | CCTCGGCCTTCTCCTTCTG | 59.480 | 63.158 | 0.00 | 0.00 | 0.00 | 3.02 |
1635 | 1917 | 1.687493 | CCCTCGGCCTTCTCCTTCT | 60.687 | 63.158 | 0.00 | 0.00 | 0.00 | 2.85 |
1638 | 1920 | 1.458588 | GATCCCTCGGCCTTCTCCT | 60.459 | 63.158 | 0.00 | 0.00 | 0.00 | 3.69 |
1648 | 1930 | 1.227764 | CTGCCACCATGATCCCTCG | 60.228 | 63.158 | 0.00 | 0.00 | 0.00 | 4.63 |
1654 | 1936 | 1.099295 | CGTGATGCTGCCACCATGAT | 61.099 | 55.000 | 0.00 | 0.00 | 0.00 | 2.45 |
1655 | 1937 | 1.746239 | CGTGATGCTGCCACCATGA | 60.746 | 57.895 | 0.00 | 0.00 | 0.00 | 3.07 |
1656 | 1938 | 2.042259 | ACGTGATGCTGCCACCATG | 61.042 | 57.895 | 0.00 | 0.61 | 0.00 | 3.66 |
1657 | 1939 | 2.042259 | CACGTGATGCTGCCACCAT | 61.042 | 57.895 | 10.90 | 0.00 | 0.00 | 3.55 |
1667 | 1950 | 1.473965 | CCCATCTTCCTCCACGTGATG | 60.474 | 57.143 | 19.30 | 10.55 | 35.59 | 3.07 |
1671 | 1954 | 0.326618 | ATCCCCATCTTCCTCCACGT | 60.327 | 55.000 | 0.00 | 0.00 | 0.00 | 4.49 |
1735 | 2018 | 0.742505 | TGTATCCTCAAGTACCGCCG | 59.257 | 55.000 | 0.00 | 0.00 | 0.00 | 6.46 |
1762 | 2045 | 5.892524 | TCACATCTGTCATTGGATATGGA | 57.107 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
1787 | 2070 | 9.559732 | TGATGCAACACATATATAGCTAAACTT | 57.440 | 29.630 | 0.00 | 0.00 | 39.84 | 2.66 |
1789 | 2072 | 9.599322 | GTTGATGCAACACATATATAGCTAAAC | 57.401 | 33.333 | 0.00 | 0.00 | 43.09 | 2.01 |
1795 | 2078 | 8.326680 | TGATGGTTGATGCAACACATATATAG | 57.673 | 34.615 | 11.83 | 0.00 | 45.11 | 1.31 |
1801 | 2084 | 3.575256 | ACTTGATGGTTGATGCAACACAT | 59.425 | 39.130 | 11.83 | 11.58 | 45.11 | 3.21 |
1898 | 2183 | 7.380423 | AGCTAAAACCTATCATGACCACTAT | 57.620 | 36.000 | 0.00 | 0.00 | 0.00 | 2.12 |
1914 | 2199 | 7.210174 | AGAAATTTGACTCCCAAAGCTAAAAC | 58.790 | 34.615 | 0.00 | 0.00 | 46.72 | 2.43 |
1928 | 2213 | 5.712152 | AATGAAGCGGAAGAAATTTGACT | 57.288 | 34.783 | 0.00 | 0.00 | 0.00 | 3.41 |
1971 | 2256 | 9.587772 | GTGCACCAATATATCGAACTAGATTAT | 57.412 | 33.333 | 5.22 | 0.00 | 32.39 | 1.28 |
2016 | 2306 | 9.649167 | CCAAAGAGAAATCATTAAAGATGCTTT | 57.351 | 29.630 | 0.00 | 0.00 | 0.00 | 3.51 |
2041 | 2331 | 7.176690 | TCCATCTATTTCACAAAAGGAAAGACC | 59.823 | 37.037 | 0.00 | 0.00 | 37.64 | 3.85 |
2077 | 2367 | 3.376234 | TGGTTGGACGTACTAGAGATTCG | 59.624 | 47.826 | 0.00 | 0.00 | 0.00 | 3.34 |
2100 | 2390 | 6.147437 | AGGTTGTTGTCTGGGGAATATTAA | 57.853 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
2105 | 2395 | 1.780309 | TGAGGTTGTTGTCTGGGGAAT | 59.220 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
2110 | 2400 | 1.334869 | GCACTTGAGGTTGTTGTCTGG | 59.665 | 52.381 | 0.00 | 0.00 | 0.00 | 3.86 |
2120 | 2410 | 5.300286 | GGAATATAGCATTTGCACTTGAGGT | 59.700 | 40.000 | 5.20 | 0.00 | 45.16 | 3.85 |
2154 | 2444 | 0.181587 | TTCAGCGGTGGACTTGGAAA | 59.818 | 50.000 | 15.67 | 0.00 | 0.00 | 3.13 |
2347 | 2637 | 9.691362 | TTAACAGCTTTTTCCACTTCAATATTC | 57.309 | 29.630 | 0.00 | 0.00 | 0.00 | 1.75 |
2390 | 2680 | 4.081322 | ACGACACATTACCTCCACTTTT | 57.919 | 40.909 | 0.00 | 0.00 | 0.00 | 2.27 |
2479 | 2769 | 3.450457 | ACCAGCTGTCTTGAGAATAGGAG | 59.550 | 47.826 | 13.81 | 0.00 | 0.00 | 3.69 |
2516 | 2806 | 2.621070 | AGGAGCTAGACCAGGTTCAAA | 58.379 | 47.619 | 0.00 | 0.00 | 34.30 | 2.69 |
2654 | 2944 | 7.972277 | AGCTAAAATTTAGATTGATGCACACAG | 59.028 | 33.333 | 16.22 | 0.00 | 0.00 | 3.66 |
2798 | 3089 | 7.387397 | ACTTTTGTTCAAACATGACACAATTGT | 59.613 | 29.630 | 4.92 | 4.92 | 38.95 | 2.71 |
2799 | 3090 | 7.741198 | ACTTTTGTTCAAACATGACACAATTG | 58.259 | 30.769 | 3.24 | 3.24 | 38.95 | 2.32 |
2800 | 3091 | 7.903995 | ACTTTTGTTCAAACATGACACAATT | 57.096 | 28.000 | 0.00 | 0.00 | 38.95 | 2.32 |
2801 | 3092 | 9.248291 | GATACTTTTGTTCAAACATGACACAAT | 57.752 | 29.630 | 0.00 | 0.00 | 38.95 | 2.71 |
2802 | 3093 | 8.246871 | TGATACTTTTGTTCAAACATGACACAA | 58.753 | 29.630 | 0.00 | 0.00 | 38.95 | 3.33 |
2803 | 3094 | 7.766283 | TGATACTTTTGTTCAAACATGACACA | 58.234 | 30.769 | 0.00 | 0.00 | 38.95 | 3.72 |
2804 | 3095 | 8.627487 | TTGATACTTTTGTTCAAACATGACAC | 57.373 | 30.769 | 0.00 | 0.00 | 38.95 | 3.67 |
2805 | 3096 | 9.814899 | AATTGATACTTTTGTTCAAACATGACA | 57.185 | 25.926 | 0.00 | 0.00 | 38.95 | 3.58 |
2807 | 3098 | 9.258826 | CCAATTGATACTTTTGTTCAAACATGA | 57.741 | 29.630 | 7.12 | 0.00 | 38.95 | 3.07 |
2808 | 3099 | 9.258826 | TCCAATTGATACTTTTGTTCAAACATG | 57.741 | 29.630 | 7.12 | 0.00 | 38.95 | 3.21 |
2809 | 3100 | 9.829507 | TTCCAATTGATACTTTTGTTCAAACAT | 57.170 | 25.926 | 7.12 | 0.00 | 38.95 | 2.71 |
2810 | 3101 | 9.829507 | ATTCCAATTGATACTTTTGTTCAAACA | 57.170 | 25.926 | 7.12 | 0.00 | 35.13 | 2.83 |
2812 | 3103 | 8.772705 | GCATTCCAATTGATACTTTTGTTCAAA | 58.227 | 29.630 | 7.12 | 0.00 | 35.13 | 2.69 |
2813 | 3104 | 7.387397 | GGCATTCCAATTGATACTTTTGTTCAA | 59.613 | 33.333 | 7.12 | 0.00 | 35.56 | 2.69 |
2814 | 3105 | 6.873076 | GGCATTCCAATTGATACTTTTGTTCA | 59.127 | 34.615 | 7.12 | 0.00 | 0.00 | 3.18 |
2815 | 3106 | 7.099120 | AGGCATTCCAATTGATACTTTTGTTC | 58.901 | 34.615 | 7.12 | 0.00 | 33.74 | 3.18 |
2816 | 3107 | 7.008021 | AGGCATTCCAATTGATACTTTTGTT | 57.992 | 32.000 | 7.12 | 0.00 | 33.74 | 2.83 |
2817 | 3108 | 6.610075 | AGGCATTCCAATTGATACTTTTGT | 57.390 | 33.333 | 7.12 | 0.00 | 33.74 | 2.83 |
2818 | 3109 | 7.775120 | AGTAGGCATTCCAATTGATACTTTTG | 58.225 | 34.615 | 7.12 | 0.00 | 33.74 | 2.44 |
2819 | 3110 | 7.961326 | AGTAGGCATTCCAATTGATACTTTT | 57.039 | 32.000 | 7.12 | 0.00 | 33.74 | 2.27 |
2820 | 3111 | 8.275040 | AGTAGTAGGCATTCCAATTGATACTTT | 58.725 | 33.333 | 7.12 | 0.00 | 33.74 | 2.66 |
2841 | 3132 | 9.073475 | TGGAAAATATTTTGCACTTACAGTAGT | 57.927 | 29.630 | 25.71 | 0.00 | 42.35 | 2.73 |
2873 | 3164 | 7.799081 | ACCAGGGTATACATCTTTAGGTTAAC | 58.201 | 38.462 | 5.01 | 0.00 | 0.00 | 2.01 |
3111 | 3402 | 7.008628 | GGAATGCATCTTACTCAAAATCAAACG | 59.991 | 37.037 | 0.00 | 0.00 | 0.00 | 3.60 |
3126 | 3417 | 3.314635 | GCAGATTCGAAGGAATGCATCTT | 59.685 | 43.478 | 16.90 | 0.00 | 42.86 | 2.40 |
4071 | 4368 | 4.456911 | ACAGCACATGGAAGTAACTCAATG | 59.543 | 41.667 | 0.00 | 0.00 | 0.00 | 2.82 |
4138 | 4435 | 5.045869 | AGGAATGTTCAGAATTTCCTCCGTA | 60.046 | 40.000 | 18.35 | 0.00 | 43.45 | 4.02 |
4152 | 4449 | 6.373495 | CAGATGAGTCAATGAAGGAATGTTCA | 59.627 | 38.462 | 0.00 | 0.00 | 40.68 | 3.18 |
4635 | 4932 | 4.745620 | TGCAAACAGGTTTAAATTTACGCC | 59.254 | 37.500 | 0.00 | 3.50 | 0.00 | 5.68 |
4701 | 4998 | 5.919141 | ACACACTCTACGATAAACAGTGTTC | 59.081 | 40.000 | 9.40 | 0.00 | 44.14 | 3.18 |
4783 | 5080 | 0.182299 | AGCCAGCTTAGATTGGGAGC | 59.818 | 55.000 | 5.58 | 0.00 | 34.96 | 4.70 |
4948 | 5245 | 1.003108 | GTTGGTTGTGGTTTTTGGCG | 58.997 | 50.000 | 0.00 | 0.00 | 0.00 | 5.69 |
5062 | 5359 | 4.041938 | ACATGGGCCACAAATTGAAGAAAT | 59.958 | 37.500 | 9.28 | 0.00 | 0.00 | 2.17 |
5393 | 5690 | 5.990120 | AAACTGAGCTGGCTTAATGATTT | 57.010 | 34.783 | 0.00 | 0.00 | 0.00 | 2.17 |
5409 | 5706 | 7.087639 | CCAAAATCAGCCGTTTATAAAACTGA | 58.912 | 34.615 | 20.45 | 20.45 | 38.42 | 3.41 |
5450 | 5751 | 8.798975 | AGTAGGAATCAAGGAATGTATAAGGA | 57.201 | 34.615 | 0.00 | 0.00 | 0.00 | 3.36 |
5451 | 5752 | 8.651389 | TGAGTAGGAATCAAGGAATGTATAAGG | 58.349 | 37.037 | 0.00 | 0.00 | 0.00 | 2.69 |
5455 | 5756 | 9.927081 | AAAATGAGTAGGAATCAAGGAATGTAT | 57.073 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
5456 | 5757 | 9.177608 | CAAAATGAGTAGGAATCAAGGAATGTA | 57.822 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
6117 | 6582 | 1.408422 | GCCACGAAAACAGTGATTGC | 58.592 | 50.000 | 0.00 | 0.00 | 41.83 | 3.56 |
6155 | 6620 | 2.281484 | GTCAGGGAGTTTGCGCCA | 60.281 | 61.111 | 4.18 | 0.00 | 36.19 | 5.69 |
6203 | 6673 | 1.177401 | GTAAAAAGGCCCAGGCTCAG | 58.823 | 55.000 | 8.89 | 0.00 | 37.50 | 3.35 |
6243 | 6713 | 4.837896 | TCACGCATAAGATAGACTCCAG | 57.162 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
6251 | 6721 | 9.875691 | AGCATAGAATATTTCACGCATAAGATA | 57.124 | 29.630 | 0.00 | 0.00 | 0.00 | 1.98 |
6377 | 6847 | 4.386049 | CGAGACAATACTGGAAACTGTGTC | 59.614 | 45.833 | 0.00 | 0.00 | 42.98 | 3.67 |
6531 | 7001 | 8.469200 | ACTGTGATTCAAAAGAATGTCAGAAAA | 58.531 | 29.630 | 17.71 | 0.00 | 32.03 | 2.29 |
6721 | 7191 | 4.213564 | ACTCCACAGGAAATAGCTCAAG | 57.786 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
6738 | 7209 | 4.988540 | GGGTCTAAATTTTGCAACAACTCC | 59.011 | 41.667 | 0.00 | 0.00 | 0.00 | 3.85 |
6739 | 7210 | 5.842907 | AGGGTCTAAATTTTGCAACAACTC | 58.157 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
6740 | 7211 | 5.869649 | AGGGTCTAAATTTTGCAACAACT | 57.130 | 34.783 | 0.00 | 0.00 | 0.00 | 3.16 |
6886 | 7374 | 3.557595 | GCACGCTTCATATCCTATATGGC | 59.442 | 47.826 | 6.98 | 3.57 | 35.26 | 4.40 |
7181 | 8044 | 4.487714 | TCCCACTCTGCAAGGTAATAAG | 57.512 | 45.455 | 0.00 | 0.00 | 0.00 | 1.73 |
7250 | 8113 | 7.648908 | TGATACAGTTTGCTTCATTCAAGTTTG | 59.351 | 33.333 | 0.00 | 0.00 | 34.13 | 2.93 |
7292 | 8164 | 3.581265 | TGCTTGGAATGCATATCCTCA | 57.419 | 42.857 | 21.12 | 15.44 | 42.52 | 3.86 |
7318 | 8190 | 8.593679 | TCTGTTTCCAGAGTTCTGTGATATTTA | 58.406 | 33.333 | 8.23 | 0.00 | 42.80 | 1.40 |
7343 | 8223 | 5.929697 | TTCTTGTGTCACATTGAGTCATC | 57.070 | 39.130 | 6.48 | 0.00 | 0.00 | 2.92 |
7494 | 8377 | 2.035961 | TGTCTGGTCCTCAAAGAAGACG | 59.964 | 50.000 | 0.00 | 0.00 | 37.46 | 4.18 |
7502 | 8385 | 1.895798 | CACTAGCTGTCTGGTCCTCAA | 59.104 | 52.381 | 0.00 | 0.00 | 31.11 | 3.02 |
7503 | 8386 | 1.075536 | TCACTAGCTGTCTGGTCCTCA | 59.924 | 52.381 | 0.00 | 0.00 | 31.11 | 3.86 |
7513 | 8396 | 2.630098 | TCTGCAGAAACTCACTAGCTGT | 59.370 | 45.455 | 15.67 | 0.00 | 0.00 | 4.40 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.