Multiple sequence alignment - TraesCS7B01G485000
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 | TraesCS7B01G485000 | chr7B | 100.000 | 2906 | 0 | 0 | 1 | 2906 | 741720265 | 741717360 | 0.000000e+00 | 5367.0 |
1 | TraesCS7B01G485000 | chr7B | 92.233 | 103 | 8 | 0 | 459 | 561 | 597250718 | 597250820 | 2.330000e-31 | 147.0 |
2 | TraesCS7B01G485000 | chr7D | 90.929 | 1797 | 96 | 31 | 778 | 2535 | 634412383 | 634410615 | 0.000000e+00 | 2353.0 |
3 | TraesCS7B01G485000 | chr7D | 84.804 | 408 | 30 | 15 | 2530 | 2906 | 634410443 | 634410037 | 5.880000e-102 | 381.0 |
4 | TraesCS7B01G485000 | chr7D | 94.271 | 192 | 9 | 1 | 589 | 778 | 634412884 | 634412693 | 2.830000e-75 | 292.0 |
5 | TraesCS7B01G485000 | chr7D | 91.346 | 104 | 9 | 0 | 459 | 562 | 478795312 | 478795415 | 3.020000e-30 | 143.0 |
6 | TraesCS7B01G485000 | chr7A | 92.121 | 1523 | 82 | 11 | 623 | 2109 | 731962017 | 731963537 | 0.000000e+00 | 2113.0 |
7 | TraesCS7B01G485000 | chr7A | 93.243 | 296 | 18 | 2 | 2530 | 2824 | 731964062 | 731964356 | 4.450000e-118 | 435.0 |
8 | TraesCS7B01G485000 | chr7A | 83.732 | 418 | 33 | 10 | 588 | 973 | 731956723 | 731957137 | 2.130000e-96 | 363.0 |
9 | TraesCS7B01G485000 | chr7A | 85.886 | 333 | 39 | 6 | 11 | 336 | 731954823 | 731955154 | 5.960000e-92 | 348.0 |
10 | TraesCS7B01G485000 | chr7A | 89.130 | 46 | 3 | 2 | 2784 | 2828 | 126089686 | 126089730 | 4.050000e-04 | 56.5 |
11 | TraesCS7B01G485000 | chr5D | 90.737 | 896 | 74 | 5 | 1006 | 1898 | 412352092 | 412352981 | 0.000000e+00 | 1186.0 |
12 | TraesCS7B01G485000 | chr5D | 88.172 | 93 | 11 | 0 | 609 | 701 | 6249638 | 6249730 | 8.510000e-21 | 111.0 |
13 | TraesCS7B01G485000 | chr5A | 90.301 | 897 | 79 | 7 | 1006 | 1898 | 524217500 | 524218392 | 0.000000e+00 | 1168.0 |
14 | TraesCS7B01G485000 | chr5B | 85.101 | 1188 | 120 | 30 | 741 | 1898 | 496484854 | 496486014 | 0.000000e+00 | 1160.0 |
15 | TraesCS7B01G485000 | chr5B | 92.500 | 40 | 3 | 0 | 2787 | 2826 | 267305391 | 267305352 | 1.120000e-04 | 58.4 |
16 | TraesCS7B01G485000 | chr1D | 90.351 | 114 | 11 | 0 | 460 | 573 | 421026791 | 421026904 | 1.800000e-32 | 150.0 |
17 | TraesCS7B01G485000 | chr1D | 89.247 | 93 | 10 | 0 | 609 | 701 | 51828333 | 51828425 | 1.830000e-22 | 117.0 |
18 | TraesCS7B01G485000 | chr1D | 88.889 | 90 | 10 | 0 | 612 | 701 | 68403537 | 68403448 | 8.510000e-21 | 111.0 |
19 | TraesCS7B01G485000 | chr1D | 88.889 | 90 | 10 | 0 | 612 | 701 | 68407784 | 68407695 | 8.510000e-21 | 111.0 |
20 | TraesCS7B01G485000 | chr1D | 88.172 | 93 | 11 | 0 | 609 | 701 | 180382593 | 180382685 | 8.510000e-21 | 111.0 |
21 | TraesCS7B01G485000 | chr6B | 93.878 | 98 | 6 | 0 | 465 | 562 | 408323998 | 408324095 | 6.490000e-32 | 148.0 |
22 | TraesCS7B01G485000 | chr6B | 90.000 | 90 | 9 | 0 | 612 | 701 | 450074799 | 450074710 | 1.830000e-22 | 117.0 |
23 | TraesCS7B01G485000 | chr4B | 93.878 | 98 | 6 | 0 | 464 | 561 | 21198650 | 21198747 | 6.490000e-32 | 148.0 |
24 | TraesCS7B01G485000 | chr4B | 90.476 | 105 | 10 | 0 | 464 | 568 | 499586491 | 499586387 | 3.900000e-29 | 139.0 |
25 | TraesCS7B01G485000 | chr4B | 88.136 | 118 | 11 | 3 | 457 | 573 | 541473601 | 541473716 | 1.400000e-28 | 137.0 |
26 | TraesCS7B01G485000 | chr3D | 92.233 | 103 | 8 | 0 | 459 | 561 | 603574483 | 603574585 | 2.330000e-31 | 147.0 |
27 | TraesCS7B01G485000 | chr3B | 91.429 | 105 | 9 | 0 | 464 | 568 | 629921474 | 629921370 | 8.390000e-31 | 145.0 |
28 | TraesCS7B01G485000 | chrUn | 88.298 | 94 | 10 | 1 | 609 | 701 | 345935592 | 345935685 | 8.510000e-21 | 111.0 |
29 | TraesCS7B01G485000 | chr2D | 73.361 | 244 | 47 | 17 | 1195 | 1427 | 605910250 | 605910014 | 1.120000e-09 | 75.0 |
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 | TraesCS7B01G485000 | chr7B | 741717360 | 741720265 | 2905 | True | 5367.000000 | 5367 | 100.000000 | 1 | 2906 | 1 | chr7B.!!$R1 | 2905 |
1 | TraesCS7B01G485000 | chr7D | 634410037 | 634412884 | 2847 | True | 1008.666667 | 2353 | 90.001333 | 589 | 2906 | 3 | chr7D.!!$R1 | 2317 |
2 | TraesCS7B01G485000 | chr7A | 731962017 | 731964356 | 2339 | False | 1274.000000 | 2113 | 92.682000 | 623 | 2824 | 2 | chr7A.!!$F3 | 2201 |
3 | TraesCS7B01G485000 | chr7A | 731954823 | 731957137 | 2314 | False | 355.500000 | 363 | 84.809000 | 11 | 973 | 2 | chr7A.!!$F2 | 962 |
4 | TraesCS7B01G485000 | chr5D | 412352092 | 412352981 | 889 | False | 1186.000000 | 1186 | 90.737000 | 1006 | 1898 | 1 | chr5D.!!$F2 | 892 |
5 | TraesCS7B01G485000 | chr5A | 524217500 | 524218392 | 892 | False | 1168.000000 | 1168 | 90.301000 | 1006 | 1898 | 1 | chr5A.!!$F1 | 892 |
6 | TraesCS7B01G485000 | chr5B | 496484854 | 496486014 | 1160 | False | 1160.000000 | 1160 | 85.101000 | 741 | 1898 | 1 | chr5B.!!$F1 | 1157 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
191 | 199 | 0.106619 | AGGTATTCGAGACCGCCTCT | 60.107 | 55.0 | 11.68 | 0.0 | 42.21 | 3.69 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2137 | 3914 | 0.032217 | CAACCATGGGTGCCCCTAAT | 60.032 | 55.0 | 18.86 | 0.0 | 45.7 | 1.73 | 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 | 0.670162 | AAAAAGAGCACGTGCAGCAT | 59.330 | 45.000 | 39.21 | 21.39 | 45.16 | 3.79 |
27 | 28 | 0.886043 | AAAGAGCACGTGCAGCATGA | 60.886 | 50.000 | 39.21 | 0.00 | 45.16 | 3.07 |
31 | 32 | 1.008652 | GCACGTGCAGCATGACAAA | 60.009 | 52.632 | 34.52 | 0.00 | 39.69 | 2.83 |
52 | 53 | 1.675310 | CTTGAGGGTTGGCATCGCA | 60.675 | 57.895 | 14.09 | 1.09 | 0.00 | 5.10 |
69 | 70 | 5.121454 | GCATCGCAAAATCTAAGATCTAGGG | 59.879 | 44.000 | 0.00 | 0.00 | 0.00 | 3.53 |
75 | 76 | 7.001073 | GCAAAATCTAAGATCTAGGGGTGATT | 58.999 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
80 | 88 | 6.393897 | TCTAAGATCTAGGGGTGATTGGATT | 58.606 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
90 | 98 | 3.467803 | GGTGATTGGATTAACGAGGGAG | 58.532 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
97 | 105 | 6.591750 | TTGGATTAACGAGGGAGATAGATC | 57.408 | 41.667 | 0.00 | 0.00 | 0.00 | 2.75 |
99 | 107 | 7.029053 | TGGATTAACGAGGGAGATAGATCTA | 57.971 | 40.000 | 4.57 | 4.57 | 37.25 | 1.98 |
108 | 116 | 6.288096 | AGGGAGATAGATCTAAGTGAGGTT | 57.712 | 41.667 | 6.52 | 0.00 | 37.25 | 3.50 |
111 | 119 | 9.129870 | AGGGAGATAGATCTAAGTGAGGTTATA | 57.870 | 37.037 | 6.52 | 0.00 | 37.25 | 0.98 |
144 | 152 | 4.498323 | GTCGGTTATAGCTACAAAGTCACG | 59.502 | 45.833 | 0.00 | 0.00 | 0.00 | 4.35 |
156 | 164 | 6.021626 | GCTACAAAGTCACGTCTAATACTTCG | 60.022 | 42.308 | 0.00 | 0.00 | 31.15 | 3.79 |
167 | 175 | 5.757320 | CGTCTAATACTTCGGAACTAGAGGA | 59.243 | 44.000 | 0.00 | 0.00 | 0.00 | 3.71 |
180 | 188 | 5.241285 | GGAACTAGAGGAGGTTAGGTATTCG | 59.759 | 48.000 | 0.00 | 0.00 | 0.00 | 3.34 |
182 | 190 | 5.623169 | ACTAGAGGAGGTTAGGTATTCGAG | 58.377 | 45.833 | 0.00 | 0.00 | 0.00 | 4.04 |
186 | 194 | 2.292845 | GGAGGTTAGGTATTCGAGACCG | 59.707 | 54.545 | 11.68 | 0.00 | 42.21 | 4.79 |
191 | 199 | 0.106619 | AGGTATTCGAGACCGCCTCT | 60.107 | 55.000 | 11.68 | 0.00 | 42.21 | 3.69 |
196 | 204 | 4.135153 | CGAGACCGCCTCTGTGGG | 62.135 | 72.222 | 0.00 | 0.00 | 46.96 | 4.61 |
205 | 213 | 1.805120 | CGCCTCTGTGGGTTATTACGG | 60.805 | 57.143 | 0.00 | 0.00 | 36.00 | 4.02 |
207 | 215 | 2.104281 | GCCTCTGTGGGTTATTACGGAT | 59.896 | 50.000 | 0.00 | 0.00 | 36.00 | 4.18 |
223 | 231 | 2.560981 | ACGGATGGTTTCATTTCCAACC | 59.439 | 45.455 | 0.00 | 0.00 | 42.61 | 3.77 |
224 | 232 | 3.230743 | GGATGGTTTCATTTCCAACCG | 57.769 | 47.619 | 0.00 | 0.00 | 44.88 | 4.44 |
232 | 240 | 1.562008 | TCATTTCCAACCGCCTCCATA | 59.438 | 47.619 | 0.00 | 0.00 | 0.00 | 2.74 |
234 | 242 | 0.393808 | TTTCCAACCGCCTCCATAGC | 60.394 | 55.000 | 0.00 | 0.00 | 0.00 | 2.97 |
240 | 248 | 3.149196 | CAACCGCCTCCATAGCAAATAT | 58.851 | 45.455 | 0.00 | 0.00 | 0.00 | 1.28 |
244 | 252 | 3.689649 | CCGCCTCCATAGCAAATATAACC | 59.310 | 47.826 | 0.00 | 0.00 | 0.00 | 2.85 |
249 | 257 | 4.575885 | TCCATAGCAAATATAACCGCCTC | 58.424 | 43.478 | 0.00 | 0.00 | 0.00 | 4.70 |
251 | 259 | 4.759693 | CCATAGCAAATATAACCGCCTCAA | 59.240 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
252 | 260 | 5.240623 | CCATAGCAAATATAACCGCCTCAAA | 59.759 | 40.000 | 0.00 | 0.00 | 0.00 | 2.69 |
268 | 276 | 5.869753 | CCTCAAATGGAATATTAGAGGCG | 57.130 | 43.478 | 0.00 | 0.00 | 35.30 | 5.52 |
300 | 308 | 2.029964 | GGTCACAACCGCTTCCGA | 59.970 | 61.111 | 0.00 | 0.00 | 35.36 | 4.55 |
315 | 323 | 0.251916 | TCCGAGGGCCAGTGTTAATG | 59.748 | 55.000 | 6.18 | 0.00 | 0.00 | 1.90 |
318 | 326 | 1.134521 | CGAGGGCCAGTGTTAATGCTA | 60.135 | 52.381 | 6.18 | 0.00 | 0.00 | 3.49 |
340 | 359 | 9.555727 | TGCTAGTTTTTCTACTAGTGAATGTTT | 57.444 | 29.630 | 5.39 | 0.00 | 46.05 | 2.83 |
349 | 368 | 8.534333 | TCTACTAGTGAATGTTTGACATCAAC | 57.466 | 34.615 | 5.39 | 0.00 | 37.97 | 3.18 |
352 | 371 | 8.169977 | ACTAGTGAATGTTTGACATCAACAAT | 57.830 | 30.769 | 0.00 | 0.00 | 37.97 | 2.71 |
473 | 1891 | 9.643693 | CAATAATGCCAATTAAATACTCCATCC | 57.356 | 33.333 | 0.00 | 0.00 | 32.06 | 3.51 |
474 | 1892 | 5.964958 | ATGCCAATTAAATACTCCATCCG | 57.035 | 39.130 | 0.00 | 0.00 | 0.00 | 4.18 |
475 | 1893 | 4.787551 | TGCCAATTAAATACTCCATCCGT | 58.212 | 39.130 | 0.00 | 0.00 | 0.00 | 4.69 |
476 | 1894 | 4.819630 | TGCCAATTAAATACTCCATCCGTC | 59.180 | 41.667 | 0.00 | 0.00 | 0.00 | 4.79 |
477 | 1895 | 4.215613 | GCCAATTAAATACTCCATCCGTCC | 59.784 | 45.833 | 0.00 | 0.00 | 0.00 | 4.79 |
478 | 1896 | 4.760204 | CCAATTAAATACTCCATCCGTCCC | 59.240 | 45.833 | 0.00 | 0.00 | 0.00 | 4.46 |
479 | 1897 | 5.373222 | CAATTAAATACTCCATCCGTCCCA | 58.627 | 41.667 | 0.00 | 0.00 | 0.00 | 4.37 |
480 | 1898 | 5.640158 | ATTAAATACTCCATCCGTCCCAA | 57.360 | 39.130 | 0.00 | 0.00 | 0.00 | 4.12 |
481 | 1899 | 5.438698 | TTAAATACTCCATCCGTCCCAAA | 57.561 | 39.130 | 0.00 | 0.00 | 0.00 | 3.28 |
482 | 1900 | 4.310022 | AAATACTCCATCCGTCCCAAAA | 57.690 | 40.909 | 0.00 | 0.00 | 0.00 | 2.44 |
483 | 1901 | 4.519906 | AATACTCCATCCGTCCCAAAAT | 57.480 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
484 | 1902 | 5.640158 | AATACTCCATCCGTCCCAAAATA | 57.360 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
485 | 1903 | 5.640158 | ATACTCCATCCGTCCCAAAATAA | 57.360 | 39.130 | 0.00 | 0.00 | 0.00 | 1.40 |
486 | 1904 | 3.886123 | ACTCCATCCGTCCCAAAATAAG | 58.114 | 45.455 | 0.00 | 0.00 | 0.00 | 1.73 |
487 | 1905 | 3.265995 | ACTCCATCCGTCCCAAAATAAGT | 59.734 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
488 | 1906 | 3.616219 | TCCATCCGTCCCAAAATAAGTG | 58.384 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
489 | 1907 | 3.009695 | TCCATCCGTCCCAAAATAAGTGT | 59.990 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
490 | 1908 | 3.377172 | CCATCCGTCCCAAAATAAGTGTC | 59.623 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
491 | 1909 | 4.261801 | CATCCGTCCCAAAATAAGTGTCT | 58.738 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
492 | 1910 | 3.934068 | TCCGTCCCAAAATAAGTGTCTC | 58.066 | 45.455 | 0.00 | 0.00 | 0.00 | 3.36 |
493 | 1911 | 2.671396 | CCGTCCCAAAATAAGTGTCTCG | 59.329 | 50.000 | 0.00 | 0.00 | 0.00 | 4.04 |
494 | 1912 | 3.581755 | CGTCCCAAAATAAGTGTCTCGA | 58.418 | 45.455 | 0.00 | 0.00 | 0.00 | 4.04 |
495 | 1913 | 3.367025 | CGTCCCAAAATAAGTGTCTCGAC | 59.633 | 47.826 | 0.00 | 0.00 | 0.00 | 4.20 |
496 | 1914 | 3.683340 | GTCCCAAAATAAGTGTCTCGACC | 59.317 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
497 | 1915 | 3.581332 | TCCCAAAATAAGTGTCTCGACCT | 59.419 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
498 | 1916 | 4.041198 | TCCCAAAATAAGTGTCTCGACCTT | 59.959 | 41.667 | 0.00 | 1.29 | 0.00 | 3.50 |
499 | 1917 | 5.246656 | TCCCAAAATAAGTGTCTCGACCTTA | 59.753 | 40.000 | 9.08 | 9.08 | 32.63 | 2.69 |
500 | 1918 | 5.581085 | CCCAAAATAAGTGTCTCGACCTTAG | 59.419 | 44.000 | 11.12 | 0.00 | 32.07 | 2.18 |
501 | 1919 | 6.164176 | CCAAAATAAGTGTCTCGACCTTAGT | 58.836 | 40.000 | 11.12 | 7.66 | 32.07 | 2.24 |
502 | 1920 | 7.318141 | CCAAAATAAGTGTCTCGACCTTAGTA | 58.682 | 38.462 | 11.12 | 0.00 | 32.07 | 1.82 |
503 | 1921 | 7.275123 | CCAAAATAAGTGTCTCGACCTTAGTAC | 59.725 | 40.741 | 11.12 | 0.00 | 32.07 | 2.73 |
504 | 1922 | 7.458409 | AAATAAGTGTCTCGACCTTAGTACA | 57.542 | 36.000 | 0.00 | 0.00 | 32.07 | 2.90 |
505 | 1923 | 7.458409 | AATAAGTGTCTCGACCTTAGTACAA | 57.542 | 36.000 | 0.00 | 0.00 | 32.07 | 2.41 |
506 | 1924 | 4.762956 | AGTGTCTCGACCTTAGTACAAC | 57.237 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
507 | 1925 | 4.396522 | AGTGTCTCGACCTTAGTACAACT | 58.603 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
508 | 1926 | 4.826183 | AGTGTCTCGACCTTAGTACAACTT | 59.174 | 41.667 | 0.00 | 0.00 | 0.00 | 2.66 |
509 | 1927 | 5.301298 | AGTGTCTCGACCTTAGTACAACTTT | 59.699 | 40.000 | 0.00 | 0.00 | 0.00 | 2.66 |
510 | 1928 | 5.401674 | GTGTCTCGACCTTAGTACAACTTTG | 59.598 | 44.000 | 0.00 | 0.00 | 0.00 | 2.77 |
511 | 1929 | 5.068198 | TGTCTCGACCTTAGTACAACTTTGT | 59.932 | 40.000 | 0.00 | 0.00 | 44.86 | 2.83 |
512 | 1930 | 6.262944 | TGTCTCGACCTTAGTACAACTTTGTA | 59.737 | 38.462 | 0.00 | 0.00 | 42.35 | 2.41 |
520 | 1938 | 2.536761 | TACAACTTTGTACTGGCGCT | 57.463 | 45.000 | 7.64 | 0.00 | 42.35 | 5.92 |
521 | 1939 | 2.536761 | ACAACTTTGTACTGGCGCTA | 57.463 | 45.000 | 7.64 | 0.00 | 40.16 | 4.26 |
522 | 1940 | 2.413837 | ACAACTTTGTACTGGCGCTAG | 58.586 | 47.619 | 20.26 | 20.26 | 40.16 | 3.42 |
523 | 1941 | 2.224209 | ACAACTTTGTACTGGCGCTAGT | 60.224 | 45.455 | 29.68 | 29.68 | 40.16 | 2.57 |
524 | 1942 | 3.006110 | ACAACTTTGTACTGGCGCTAGTA | 59.994 | 43.478 | 27.41 | 27.41 | 40.16 | 1.82 |
531 | 1949 | 2.833631 | ACTGGCGCTAGTACAAAGTT | 57.166 | 45.000 | 26.13 | 0.00 | 0.00 | 2.66 |
532 | 1950 | 3.947910 | ACTGGCGCTAGTACAAAGTTA | 57.052 | 42.857 | 26.13 | 0.00 | 0.00 | 2.24 |
533 | 1951 | 4.261578 | ACTGGCGCTAGTACAAAGTTAA | 57.738 | 40.909 | 26.13 | 0.00 | 0.00 | 2.01 |
534 | 1952 | 4.243270 | ACTGGCGCTAGTACAAAGTTAAG | 58.757 | 43.478 | 26.13 | 0.00 | 0.00 | 1.85 |
535 | 1953 | 4.021719 | ACTGGCGCTAGTACAAAGTTAAGA | 60.022 | 41.667 | 26.13 | 0.00 | 0.00 | 2.10 |
536 | 1954 | 4.240096 | TGGCGCTAGTACAAAGTTAAGAC | 58.760 | 43.478 | 7.64 | 0.00 | 0.00 | 3.01 |
537 | 1955 | 4.240096 | GGCGCTAGTACAAAGTTAAGACA | 58.760 | 43.478 | 7.64 | 0.00 | 0.00 | 3.41 |
538 | 1956 | 4.091075 | GGCGCTAGTACAAAGTTAAGACAC | 59.909 | 45.833 | 7.64 | 0.00 | 0.00 | 3.67 |
539 | 1957 | 4.922103 | GCGCTAGTACAAAGTTAAGACACT | 59.078 | 41.667 | 0.00 | 0.00 | 0.00 | 3.55 |
540 | 1958 | 5.404667 | GCGCTAGTACAAAGTTAAGACACTT | 59.595 | 40.000 | 0.00 | 0.00 | 38.74 | 3.16 |
541 | 1959 | 6.583806 | GCGCTAGTACAAAGTTAAGACACTTA | 59.416 | 38.462 | 0.00 | 0.00 | 35.87 | 2.24 |
542 | 1960 | 7.275123 | GCGCTAGTACAAAGTTAAGACACTTAT | 59.725 | 37.037 | 0.00 | 0.00 | 35.87 | 1.73 |
543 | 1961 | 9.136952 | CGCTAGTACAAAGTTAAGACACTTATT | 57.863 | 33.333 | 0.00 | 0.00 | 35.87 | 1.40 |
551 | 1969 | 9.370126 | CAAAGTTAAGACACTTATTTTGAGACG | 57.630 | 33.333 | 15.60 | 0.00 | 35.87 | 4.18 |
552 | 1970 | 7.653767 | AGTTAAGACACTTATTTTGAGACGG | 57.346 | 36.000 | 0.00 | 0.00 | 0.00 | 4.79 |
553 | 1971 | 7.439381 | AGTTAAGACACTTATTTTGAGACGGA | 58.561 | 34.615 | 0.00 | 0.00 | 0.00 | 4.69 |
554 | 1972 | 7.599245 | AGTTAAGACACTTATTTTGAGACGGAG | 59.401 | 37.037 | 0.00 | 0.00 | 0.00 | 4.63 |
555 | 1973 | 4.822026 | AGACACTTATTTTGAGACGGAGG | 58.178 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
556 | 1974 | 3.933332 | GACACTTATTTTGAGACGGAGGG | 59.067 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
557 | 1975 | 3.581332 | ACACTTATTTTGAGACGGAGGGA | 59.419 | 43.478 | 0.00 | 0.00 | 0.00 | 4.20 |
558 | 1976 | 4.184629 | CACTTATTTTGAGACGGAGGGAG | 58.815 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
559 | 1977 | 3.838903 | ACTTATTTTGAGACGGAGGGAGT | 59.161 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
560 | 1978 | 5.021458 | ACTTATTTTGAGACGGAGGGAGTA | 58.979 | 41.667 | 0.00 | 0.00 | 0.00 | 2.59 |
561 | 1979 | 3.889520 | ATTTTGAGACGGAGGGAGTAC | 57.110 | 47.619 | 0.00 | 0.00 | 0.00 | 2.73 |
562 | 1980 | 1.171308 | TTTGAGACGGAGGGAGTACG | 58.829 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
563 | 1981 | 0.325933 | TTGAGACGGAGGGAGTACGA | 59.674 | 55.000 | 0.00 | 0.00 | 0.00 | 3.43 |
564 | 1982 | 0.392193 | TGAGACGGAGGGAGTACGAC | 60.392 | 60.000 | 0.00 | 0.00 | 0.00 | 4.34 |
573 | 1991 | 5.114081 | CGGAGGGAGTACGACATAAAAATT | 58.886 | 41.667 | 0.00 | 0.00 | 0.00 | 1.82 |
576 | 1994 | 6.183360 | GGAGGGAGTACGACATAAAAATTTGG | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 3.28 |
578 | 1996 | 6.150474 | AGGGAGTACGACATAAAAATTTGGTG | 59.850 | 38.462 | 0.00 | 0.00 | 0.00 | 4.17 |
579 | 1997 | 6.072342 | GGGAGTACGACATAAAAATTTGGTGT | 60.072 | 38.462 | 0.00 | 0.00 | 0.00 | 4.16 |
580 | 1998 | 7.364970 | GGAGTACGACATAAAAATTTGGTGTT | 58.635 | 34.615 | 0.00 | 0.00 | 0.00 | 3.32 |
581 | 1999 | 8.505625 | GGAGTACGACATAAAAATTTGGTGTTA | 58.494 | 33.333 | 0.00 | 0.00 | 0.00 | 2.41 |
732 | 2157 | 0.329931 | ACACCACATTCGGCCCATTA | 59.670 | 50.000 | 0.00 | 0.00 | 0.00 | 1.90 |
806 | 2539 | 2.041081 | CTCCATCCACCCTACACCAAAA | 59.959 | 50.000 | 0.00 | 0.00 | 0.00 | 2.44 |
810 | 2543 | 5.020132 | CCATCCACCCTACACCAAAATTTA | 58.980 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
819 | 2552 | 5.414765 | CCTACACCAAAATTTACAGGTCTCC | 59.585 | 44.000 | 6.85 | 0.00 | 30.44 | 3.71 |
889 | 2635 | 0.320374 | AATCTTTCGACGCCACTCCA | 59.680 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
988 | 2743 | 1.668151 | GGCTTTCTTGGTCGCTCGT | 60.668 | 57.895 | 0.00 | 0.00 | 0.00 | 4.18 |
1098 | 2853 | 2.439701 | CTCCGCCTCCTCGTGGTA | 60.440 | 66.667 | 2.99 | 0.00 | 34.83 | 3.25 |
1339 | 3112 | 3.044305 | GCTCGCCGTGCAACTTCT | 61.044 | 61.111 | 6.24 | 0.00 | 31.75 | 2.85 |
1500 | 3273 | 4.736896 | GACACCCGCCTCACCGAC | 62.737 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
1515 | 3288 | 2.951745 | GACGCCGACGAGCTCATG | 60.952 | 66.667 | 15.40 | 0.13 | 43.93 | 3.07 |
1516 | 3289 | 3.685214 | GACGCCGACGAGCTCATGT | 62.685 | 63.158 | 15.40 | 3.98 | 43.93 | 3.21 |
1638 | 3411 | 2.657237 | GTGGAGTGGGACCTCGTG | 59.343 | 66.667 | 0.00 | 0.00 | 31.98 | 4.35 |
1907 | 3680 | 3.244911 | CCCTTCTGCCCTCTGAGTTAAAA | 60.245 | 47.826 | 3.66 | 0.00 | 0.00 | 1.52 |
1908 | 3681 | 4.398319 | CCTTCTGCCCTCTGAGTTAAAAA | 58.602 | 43.478 | 3.66 | 0.00 | 0.00 | 1.94 |
1979 | 3755 | 2.005451 | GCATACCTCAAGACACAGCAG | 58.995 | 52.381 | 0.00 | 0.00 | 0.00 | 4.24 |
1980 | 3756 | 2.005451 | CATACCTCAAGACACAGCAGC | 58.995 | 52.381 | 0.00 | 0.00 | 0.00 | 5.25 |
1995 | 3771 | 3.118482 | ACAGCAGCATATACACTGAAGCT | 60.118 | 43.478 | 7.80 | 0.00 | 35.90 | 3.74 |
2046 | 3822 | 8.106462 | TGGAGGTAATTATTTCACACTTGATCA | 58.894 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
2054 | 3830 | 1.691976 | TCACACTTGATCAGGTCCGTT | 59.308 | 47.619 | 7.63 | 0.00 | 0.00 | 4.44 |
2142 | 3919 | 3.952535 | GCGGATGCAACTGTTAATTAGG | 58.047 | 45.455 | 4.58 | 0.00 | 42.15 | 2.69 |
2146 | 3923 | 3.162147 | TGCAACTGTTAATTAGGGGCA | 57.838 | 42.857 | 0.00 | 0.00 | 0.00 | 5.36 |
2161 | 3938 | 2.601367 | GCACCCATGGTTGCTGGT | 60.601 | 61.111 | 25.76 | 5.09 | 31.02 | 4.00 |
2162 | 3939 | 2.639327 | GCACCCATGGTTGCTGGTC | 61.639 | 63.158 | 25.76 | 0.00 | 31.02 | 4.02 |
2163 | 3940 | 2.034066 | ACCCATGGTTGCTGGTCG | 59.966 | 61.111 | 11.73 | 0.00 | 27.29 | 4.79 |
2164 | 3941 | 2.350895 | CCCATGGTTGCTGGTCGA | 59.649 | 61.111 | 11.73 | 0.00 | 31.44 | 4.20 |
2191 | 3968 | 7.504574 | TCGTTGATCAAGAGTGGAACCTATATA | 59.495 | 37.037 | 8.80 | 0.00 | 37.80 | 0.86 |
2192 | 3969 | 8.307483 | CGTTGATCAAGAGTGGAACCTATATAT | 58.693 | 37.037 | 8.80 | 0.00 | 37.80 | 0.86 |
2204 | 3981 | 7.553044 | GTGGAACCTATATATATCAGGCAAACC | 59.447 | 40.741 | 11.53 | 10.24 | 32.31 | 3.27 |
2223 | 4000 | 6.689669 | GCAAACCATACGTTGTAATTATCCAC | 59.310 | 38.462 | 0.00 | 0.00 | 33.93 | 4.02 |
2292 | 4071 | 7.516198 | AAGTGGTTCATAATAATGGAGATGC | 57.484 | 36.000 | 0.00 | 0.00 | 33.61 | 3.91 |
2295 | 4074 | 7.176165 | AGTGGTTCATAATAATGGAGATGCATG | 59.824 | 37.037 | 2.46 | 0.00 | 33.61 | 4.06 |
2296 | 4075 | 6.071784 | TGGTTCATAATAATGGAGATGCATGC | 60.072 | 38.462 | 11.82 | 11.82 | 33.61 | 4.06 |
2297 | 4076 | 6.071784 | GGTTCATAATAATGGAGATGCATGCA | 60.072 | 38.462 | 25.04 | 25.04 | 33.61 | 3.96 |
2299 | 4078 | 7.095695 | TCATAATAATGGAGATGCATGCATG | 57.904 | 36.000 | 36.73 | 22.70 | 33.68 | 4.06 |
2302 | 4081 | 1.328279 | ATGGAGATGCATGCATGTGG | 58.672 | 50.000 | 36.73 | 3.17 | 36.70 | 4.17 |
2303 | 4082 | 0.256464 | TGGAGATGCATGCATGTGGA | 59.744 | 50.000 | 36.73 | 18.20 | 36.70 | 4.02 |
2304 | 4083 | 0.952280 | GGAGATGCATGCATGTGGAG | 59.048 | 55.000 | 36.73 | 2.38 | 36.70 | 3.86 |
2305 | 4084 | 1.676746 | GAGATGCATGCATGTGGAGT | 58.323 | 50.000 | 36.73 | 13.12 | 36.70 | 3.85 |
2317 | 4096 | 4.080413 | TGCATGTGGAGTGAGGATAATGAA | 60.080 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
2412 | 4198 | 7.837202 | TTATACAAGTTCGTAATCTGTTGGG | 57.163 | 36.000 | 0.00 | 0.00 | 0.00 | 4.12 |
2435 | 4221 | 1.819928 | TGCAGGATAATTGCACGTGT | 58.180 | 45.000 | 18.38 | 0.00 | 45.89 | 4.49 |
2438 | 4224 | 2.095263 | GCAGGATAATTGCACGTGTGTT | 60.095 | 45.455 | 18.38 | 11.78 | 41.17 | 3.32 |
2443 | 4229 | 6.468956 | CAGGATAATTGCACGTGTGTTTAATC | 59.531 | 38.462 | 18.38 | 12.65 | 0.00 | 1.75 |
2445 | 4231 | 6.468956 | GGATAATTGCACGTGTGTTTAATCTG | 59.531 | 38.462 | 18.38 | 0.00 | 0.00 | 2.90 |
2549 | 4580 | 4.202070 | ACTCGGTAAGATCTTTCTGCTAGC | 60.202 | 45.833 | 14.36 | 8.10 | 30.72 | 3.42 |
2607 | 4638 | 2.020926 | CGTGGTGCATGTGTTCACA | 58.979 | 52.632 | 8.09 | 8.09 | 35.04 | 3.58 |
2699 | 4739 | 2.282745 | GCAGCAGCAAGGGAGGTT | 60.283 | 61.111 | 0.00 | 0.00 | 41.58 | 3.50 |
2711 | 4751 | 1.371558 | GGAGGTTGAGCTTCGTGGT | 59.628 | 57.895 | 0.00 | 0.00 | 0.00 | 4.16 |
2757 | 4797 | 2.983136 | GACGCGATCTCACATGGATTAG | 59.017 | 50.000 | 15.93 | 0.00 | 0.00 | 1.73 |
2775 | 4815 | 2.423446 | CGTGAGCTAGCCATCCCC | 59.577 | 66.667 | 12.13 | 0.00 | 0.00 | 4.81 |
2782 | 4822 | 2.106511 | GAGCTAGCCATCCCCATGTTAA | 59.893 | 50.000 | 12.13 | 0.00 | 0.00 | 2.01 |
2783 | 4823 | 2.718609 | AGCTAGCCATCCCCATGTTAAT | 59.281 | 45.455 | 12.13 | 0.00 | 0.00 | 1.40 |
2784 | 4824 | 3.916349 | AGCTAGCCATCCCCATGTTAATA | 59.084 | 43.478 | 12.13 | 0.00 | 0.00 | 0.98 |
2786 | 4826 | 5.015603 | AGCTAGCCATCCCCATGTTAATATT | 59.984 | 40.000 | 12.13 | 0.00 | 0.00 | 1.28 |
2787 | 4827 | 6.217487 | AGCTAGCCATCCCCATGTTAATATTA | 59.783 | 38.462 | 12.13 | 0.00 | 0.00 | 0.98 |
2788 | 4828 | 6.318900 | GCTAGCCATCCCCATGTTAATATTAC | 59.681 | 42.308 | 2.29 | 0.00 | 0.00 | 1.89 |
2814 | 4859 | 9.230122 | CTCTCTCAGTCTCATAATATAAGAGCA | 57.770 | 37.037 | 0.00 | 0.00 | 0.00 | 4.26 |
2831 | 4876 | 4.537015 | AGAGCATTTTTCGCACTAAACAC | 58.463 | 39.130 | 0.00 | 0.00 | 0.00 | 3.32 |
2833 | 4878 | 4.932146 | AGCATTTTTCGCACTAAACACTT | 58.068 | 34.783 | 0.00 | 0.00 | 0.00 | 3.16 |
2834 | 4879 | 4.976116 | AGCATTTTTCGCACTAAACACTTC | 59.024 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
2892 | 4954 | 4.015084 | GGCTGTGAACAGTAGTCTAGGTA | 58.985 | 47.826 | 11.87 | 0.00 | 45.45 | 3.08 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 0.304705 | CACGTGCTCTTTTTCGTGCT | 59.695 | 50.000 | 0.82 | 0.00 | 44.71 | 4.40 |
1 | 2 | 2.770818 | CACGTGCTCTTTTTCGTGC | 58.229 | 52.632 | 0.82 | 0.00 | 44.71 | 5.34 |
3 | 4 | 0.304705 | CTGCACGTGCTCTTTTTCGT | 59.695 | 50.000 | 37.59 | 0.00 | 42.66 | 3.85 |
4 | 5 | 0.993746 | GCTGCACGTGCTCTTTTTCG | 60.994 | 55.000 | 37.59 | 17.46 | 42.66 | 3.46 |
5 | 6 | 0.029300 | TGCTGCACGTGCTCTTTTTC | 59.971 | 50.000 | 37.59 | 19.35 | 42.66 | 2.29 |
6 | 7 | 0.670162 | ATGCTGCACGTGCTCTTTTT | 59.330 | 45.000 | 37.59 | 17.00 | 42.66 | 1.94 |
7 | 8 | 0.039798 | CATGCTGCACGTGCTCTTTT | 60.040 | 50.000 | 37.59 | 18.02 | 42.66 | 2.27 |
8 | 9 | 0.886043 | TCATGCTGCACGTGCTCTTT | 60.886 | 50.000 | 37.59 | 19.38 | 42.66 | 2.52 |
9 | 10 | 1.301953 | TCATGCTGCACGTGCTCTT | 60.302 | 52.632 | 37.59 | 23.99 | 42.66 | 2.85 |
25 | 26 | 1.962807 | CCAACCCTCAAGCATTTGTCA | 59.037 | 47.619 | 0.00 | 0.00 | 35.73 | 3.58 |
27 | 28 | 0.681175 | GCCAACCCTCAAGCATTTGT | 59.319 | 50.000 | 0.00 | 0.00 | 35.73 | 2.83 |
36 | 37 | 0.825425 | TTTTGCGATGCCAACCCTCA | 60.825 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
52 | 53 | 7.350921 | TCCAATCACCCCTAGATCTTAGATTTT | 59.649 | 37.037 | 0.00 | 0.00 | 0.00 | 1.82 |
69 | 70 | 3.134081 | TCTCCCTCGTTAATCCAATCACC | 59.866 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
75 | 76 | 5.893500 | AGATCTATCTCCCTCGTTAATCCA | 58.106 | 41.667 | 0.00 | 0.00 | 29.30 | 3.41 |
80 | 88 | 7.075851 | TCACTTAGATCTATCTCCCTCGTTA | 57.924 | 40.000 | 2.58 | 0.00 | 38.32 | 3.18 |
97 | 105 | 6.260493 | ACTGCGTAGTCTATAACCTCACTTAG | 59.740 | 42.308 | 0.00 | 0.00 | 28.79 | 2.18 |
99 | 107 | 4.948621 | ACTGCGTAGTCTATAACCTCACTT | 59.051 | 41.667 | 0.00 | 0.00 | 28.79 | 3.16 |
113 | 121 | 2.295885 | AGCTATAACCGACTGCGTAGT | 58.704 | 47.619 | 5.62 | 5.62 | 40.66 | 2.73 |
117 | 125 | 2.768833 | TGTAGCTATAACCGACTGCG | 57.231 | 50.000 | 0.00 | 0.00 | 37.24 | 5.18 |
123 | 131 | 4.418392 | ACGTGACTTTGTAGCTATAACCG | 58.582 | 43.478 | 1.92 | 3.79 | 0.00 | 4.44 |
144 | 152 | 6.205270 | CCTCCTCTAGTTCCGAAGTATTAGAC | 59.795 | 46.154 | 0.00 | 0.00 | 0.00 | 2.59 |
156 | 164 | 5.241285 | CGAATACCTAACCTCCTCTAGTTCC | 59.759 | 48.000 | 0.00 | 0.00 | 0.00 | 3.62 |
167 | 175 | 1.680207 | GCGGTCTCGAATACCTAACCT | 59.320 | 52.381 | 13.22 | 0.00 | 39.00 | 3.50 |
180 | 188 | 1.255667 | TAACCCACAGAGGCGGTCTC | 61.256 | 60.000 | 0.18 | 0.18 | 42.75 | 3.36 |
182 | 190 | 0.252197 | AATAACCCACAGAGGCGGTC | 59.748 | 55.000 | 0.00 | 0.00 | 35.39 | 4.79 |
186 | 194 | 1.483415 | TCCGTAATAACCCACAGAGGC | 59.517 | 52.381 | 0.00 | 0.00 | 35.39 | 4.70 |
191 | 199 | 4.263374 | TGAAACCATCCGTAATAACCCACA | 60.263 | 41.667 | 0.00 | 0.00 | 0.00 | 4.17 |
196 | 204 | 7.090953 | TGGAAATGAAACCATCCGTAATAAC | 57.909 | 36.000 | 0.00 | 0.00 | 34.60 | 1.89 |
205 | 213 | 2.606108 | GCGGTTGGAAATGAAACCATC | 58.394 | 47.619 | 5.51 | 0.00 | 45.13 | 3.51 |
207 | 215 | 0.676736 | GGCGGTTGGAAATGAAACCA | 59.323 | 50.000 | 5.51 | 0.00 | 45.13 | 3.67 |
223 | 231 | 3.370978 | CGGTTATATTTGCTATGGAGGCG | 59.629 | 47.826 | 0.00 | 0.00 | 0.00 | 5.52 |
224 | 232 | 3.127030 | GCGGTTATATTTGCTATGGAGGC | 59.873 | 47.826 | 0.00 | 0.00 | 0.00 | 4.70 |
232 | 240 | 4.037923 | CCATTTGAGGCGGTTATATTTGCT | 59.962 | 41.667 | 0.00 | 0.00 | 0.00 | 3.91 |
234 | 242 | 5.766150 | TCCATTTGAGGCGGTTATATTTG | 57.234 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
240 | 248 | 6.833041 | TCTAATATTCCATTTGAGGCGGTTA | 58.167 | 36.000 | 0.00 | 0.00 | 0.00 | 2.85 |
244 | 252 | 5.869753 | CCTCTAATATTCCATTTGAGGCG | 57.130 | 43.478 | 12.38 | 0.00 | 41.49 | 5.52 |
249 | 257 | 4.074970 | AGCCGCCTCTAATATTCCATTTG | 58.925 | 43.478 | 0.00 | 0.00 | 0.00 | 2.32 |
251 | 259 | 4.373156 | AAGCCGCCTCTAATATTCCATT | 57.627 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
252 | 260 | 4.074970 | CAAAGCCGCCTCTAATATTCCAT | 58.925 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
268 | 276 | 0.823356 | TGACCAAGCAGGACAAAGCC | 60.823 | 55.000 | 1.83 | 0.00 | 39.13 | 4.35 |
298 | 306 | 0.392998 | AGCATTAACACTGGCCCTCG | 60.393 | 55.000 | 0.00 | 0.00 | 0.00 | 4.63 |
300 | 308 | 1.916181 | ACTAGCATTAACACTGGCCCT | 59.084 | 47.619 | 0.00 | 0.00 | 0.00 | 5.19 |
318 | 326 | 9.391006 | TGTCAAACATTCACTAGTAGAAAAACT | 57.609 | 29.630 | 3.59 | 0.00 | 0.00 | 2.66 |
340 | 359 | 8.152309 | TCGATATTGCATAATTGTTGATGTCA | 57.848 | 30.769 | 0.00 | 0.00 | 0.00 | 3.58 |
450 | 1868 | 7.001674 | ACGGATGGAGTATTTAATTGGCATTA | 58.998 | 34.615 | 0.00 | 0.00 | 0.00 | 1.90 |
454 | 1872 | 4.215613 | GGACGGATGGAGTATTTAATTGGC | 59.784 | 45.833 | 0.00 | 0.00 | 0.00 | 4.52 |
461 | 1879 | 4.310022 | TTTTGGGACGGATGGAGTATTT | 57.690 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
467 | 1885 | 3.009695 | ACACTTATTTTGGGACGGATGGA | 59.990 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
468 | 1886 | 3.352648 | ACACTTATTTTGGGACGGATGG | 58.647 | 45.455 | 0.00 | 0.00 | 0.00 | 3.51 |
469 | 1887 | 4.261801 | AGACACTTATTTTGGGACGGATG | 58.738 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
470 | 1888 | 4.514401 | GAGACACTTATTTTGGGACGGAT | 58.486 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
471 | 1889 | 3.615592 | CGAGACACTTATTTTGGGACGGA | 60.616 | 47.826 | 0.00 | 0.00 | 0.00 | 4.69 |
472 | 1890 | 2.671396 | CGAGACACTTATTTTGGGACGG | 59.329 | 50.000 | 0.00 | 0.00 | 0.00 | 4.79 |
473 | 1891 | 3.367025 | GTCGAGACACTTATTTTGGGACG | 59.633 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
474 | 1892 | 3.683340 | GGTCGAGACACTTATTTTGGGAC | 59.317 | 47.826 | 5.55 | 0.00 | 0.00 | 4.46 |
475 | 1893 | 3.581332 | AGGTCGAGACACTTATTTTGGGA | 59.419 | 43.478 | 5.55 | 0.00 | 0.00 | 4.37 |
476 | 1894 | 3.939066 | AGGTCGAGACACTTATTTTGGG | 58.061 | 45.455 | 5.55 | 0.00 | 0.00 | 4.12 |
477 | 1895 | 6.164176 | ACTAAGGTCGAGACACTTATTTTGG | 58.836 | 40.000 | 5.55 | 2.44 | 0.00 | 3.28 |
478 | 1896 | 7.811236 | TGTACTAAGGTCGAGACACTTATTTTG | 59.189 | 37.037 | 5.55 | 2.72 | 0.00 | 2.44 |
479 | 1897 | 7.889469 | TGTACTAAGGTCGAGACACTTATTTT | 58.111 | 34.615 | 5.55 | 2.43 | 0.00 | 1.82 |
480 | 1898 | 7.458409 | TGTACTAAGGTCGAGACACTTATTT | 57.542 | 36.000 | 5.55 | 4.28 | 0.00 | 1.40 |
481 | 1899 | 7.176340 | AGTTGTACTAAGGTCGAGACACTTATT | 59.824 | 37.037 | 5.55 | 7.31 | 0.00 | 1.40 |
482 | 1900 | 6.658391 | AGTTGTACTAAGGTCGAGACACTTAT | 59.342 | 38.462 | 5.55 | 4.60 | 0.00 | 1.73 |
483 | 1901 | 6.000219 | AGTTGTACTAAGGTCGAGACACTTA | 59.000 | 40.000 | 5.55 | 9.03 | 0.00 | 2.24 |
484 | 1902 | 4.826183 | AGTTGTACTAAGGTCGAGACACTT | 59.174 | 41.667 | 5.55 | 8.43 | 0.00 | 3.16 |
485 | 1903 | 4.396522 | AGTTGTACTAAGGTCGAGACACT | 58.603 | 43.478 | 5.55 | 0.00 | 0.00 | 3.55 |
486 | 1904 | 4.762956 | AGTTGTACTAAGGTCGAGACAC | 57.237 | 45.455 | 5.55 | 0.00 | 0.00 | 3.67 |
487 | 1905 | 5.068198 | ACAAAGTTGTACTAAGGTCGAGACA | 59.932 | 40.000 | 5.55 | 0.00 | 40.16 | 3.41 |
488 | 1906 | 5.527033 | ACAAAGTTGTACTAAGGTCGAGAC | 58.473 | 41.667 | 0.00 | 0.00 | 40.16 | 3.36 |
489 | 1907 | 5.779529 | ACAAAGTTGTACTAAGGTCGAGA | 57.220 | 39.130 | 0.00 | 0.00 | 40.16 | 4.04 |
501 | 1919 | 2.536761 | AGCGCCAGTACAAAGTTGTA | 57.463 | 45.000 | 2.29 | 0.00 | 42.35 | 2.41 |
502 | 1920 | 2.224209 | ACTAGCGCCAGTACAAAGTTGT | 60.224 | 45.455 | 6.73 | 1.75 | 44.86 | 3.32 |
503 | 1921 | 2.413837 | ACTAGCGCCAGTACAAAGTTG | 58.586 | 47.619 | 6.73 | 0.00 | 0.00 | 3.16 |
504 | 1922 | 2.833631 | ACTAGCGCCAGTACAAAGTT | 57.166 | 45.000 | 6.73 | 0.00 | 0.00 | 2.66 |
505 | 1923 | 3.227810 | GTACTAGCGCCAGTACAAAGT | 57.772 | 47.619 | 32.26 | 13.98 | 46.72 | 2.66 |
511 | 1929 | 3.947910 | AACTTTGTACTAGCGCCAGTA | 57.052 | 42.857 | 11.83 | 11.83 | 0.00 | 2.74 |
512 | 1930 | 2.833631 | AACTTTGTACTAGCGCCAGT | 57.166 | 45.000 | 14.17 | 14.17 | 0.00 | 4.00 |
513 | 1931 | 4.326548 | GTCTTAACTTTGTACTAGCGCCAG | 59.673 | 45.833 | 2.29 | 0.94 | 0.00 | 4.85 |
514 | 1932 | 4.240096 | GTCTTAACTTTGTACTAGCGCCA | 58.760 | 43.478 | 2.29 | 0.00 | 0.00 | 5.69 |
515 | 1933 | 4.091075 | GTGTCTTAACTTTGTACTAGCGCC | 59.909 | 45.833 | 2.29 | 0.00 | 0.00 | 6.53 |
516 | 1934 | 4.922103 | AGTGTCTTAACTTTGTACTAGCGC | 59.078 | 41.667 | 0.00 | 0.00 | 0.00 | 5.92 |
517 | 1935 | 8.684973 | ATAAGTGTCTTAACTTTGTACTAGCG | 57.315 | 34.615 | 0.00 | 0.00 | 40.77 | 4.26 |
525 | 1943 | 9.370126 | CGTCTCAAAATAAGTGTCTTAACTTTG | 57.630 | 33.333 | 14.40 | 14.40 | 40.77 | 2.77 |
526 | 1944 | 8.557029 | CCGTCTCAAAATAAGTGTCTTAACTTT | 58.443 | 33.333 | 0.00 | 0.00 | 40.77 | 2.66 |
527 | 1945 | 7.929785 | TCCGTCTCAAAATAAGTGTCTTAACTT | 59.070 | 33.333 | 0.00 | 0.00 | 42.89 | 2.66 |
528 | 1946 | 7.439381 | TCCGTCTCAAAATAAGTGTCTTAACT | 58.561 | 34.615 | 0.00 | 0.00 | 0.00 | 2.24 |
529 | 1947 | 7.148623 | CCTCCGTCTCAAAATAAGTGTCTTAAC | 60.149 | 40.741 | 0.00 | 0.00 | 0.00 | 2.01 |
530 | 1948 | 6.872020 | CCTCCGTCTCAAAATAAGTGTCTTAA | 59.128 | 38.462 | 0.00 | 0.00 | 0.00 | 1.85 |
531 | 1949 | 6.395629 | CCTCCGTCTCAAAATAAGTGTCTTA | 58.604 | 40.000 | 0.00 | 0.00 | 0.00 | 2.10 |
532 | 1950 | 5.238583 | CCTCCGTCTCAAAATAAGTGTCTT | 58.761 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
533 | 1951 | 4.322801 | CCCTCCGTCTCAAAATAAGTGTCT | 60.323 | 45.833 | 0.00 | 0.00 | 0.00 | 3.41 |
534 | 1952 | 3.933332 | CCCTCCGTCTCAAAATAAGTGTC | 59.067 | 47.826 | 0.00 | 0.00 | 0.00 | 3.67 |
535 | 1953 | 3.581332 | TCCCTCCGTCTCAAAATAAGTGT | 59.419 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
536 | 1954 | 4.184629 | CTCCCTCCGTCTCAAAATAAGTG | 58.815 | 47.826 | 0.00 | 0.00 | 0.00 | 3.16 |
537 | 1955 | 3.838903 | ACTCCCTCCGTCTCAAAATAAGT | 59.161 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
538 | 1956 | 4.473477 | ACTCCCTCCGTCTCAAAATAAG | 57.527 | 45.455 | 0.00 | 0.00 | 0.00 | 1.73 |
539 | 1957 | 4.142315 | CGTACTCCCTCCGTCTCAAAATAA | 60.142 | 45.833 | 0.00 | 0.00 | 0.00 | 1.40 |
540 | 1958 | 3.379372 | CGTACTCCCTCCGTCTCAAAATA | 59.621 | 47.826 | 0.00 | 0.00 | 0.00 | 1.40 |
541 | 1959 | 2.165845 | CGTACTCCCTCCGTCTCAAAAT | 59.834 | 50.000 | 0.00 | 0.00 | 0.00 | 1.82 |
542 | 1960 | 1.542915 | CGTACTCCCTCCGTCTCAAAA | 59.457 | 52.381 | 0.00 | 0.00 | 0.00 | 2.44 |
543 | 1961 | 1.171308 | CGTACTCCCTCCGTCTCAAA | 58.829 | 55.000 | 0.00 | 0.00 | 0.00 | 2.69 |
544 | 1962 | 0.325933 | TCGTACTCCCTCCGTCTCAA | 59.674 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
545 | 1963 | 0.392193 | GTCGTACTCCCTCCGTCTCA | 60.392 | 60.000 | 0.00 | 0.00 | 0.00 | 3.27 |
546 | 1964 | 0.392193 | TGTCGTACTCCCTCCGTCTC | 60.392 | 60.000 | 0.00 | 0.00 | 0.00 | 3.36 |
547 | 1965 | 0.255318 | ATGTCGTACTCCCTCCGTCT | 59.745 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
548 | 1966 | 1.959042 | TATGTCGTACTCCCTCCGTC | 58.041 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
549 | 1967 | 2.425143 | TTATGTCGTACTCCCTCCGT | 57.575 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
550 | 1968 | 3.788333 | TTTTATGTCGTACTCCCTCCG | 57.212 | 47.619 | 0.00 | 0.00 | 0.00 | 4.63 |
551 | 1969 | 6.183360 | CCAAATTTTTATGTCGTACTCCCTCC | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 4.30 |
552 | 1970 | 6.373495 | ACCAAATTTTTATGTCGTACTCCCTC | 59.627 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
553 | 1971 | 6.150474 | CACCAAATTTTTATGTCGTACTCCCT | 59.850 | 38.462 | 0.00 | 0.00 | 0.00 | 4.20 |
554 | 1972 | 6.072342 | ACACCAAATTTTTATGTCGTACTCCC | 60.072 | 38.462 | 0.00 | 0.00 | 0.00 | 4.30 |
555 | 1973 | 6.905578 | ACACCAAATTTTTATGTCGTACTCC | 58.094 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
628 | 2052 | 8.237949 | GCTAGACCAAAACTTCTTTAGGAAATC | 58.762 | 37.037 | 0.00 | 0.00 | 33.07 | 2.17 |
697 | 2122 | 2.163613 | TGGTGTCTGCGTCTACAGTATG | 59.836 | 50.000 | 0.00 | 0.00 | 46.00 | 2.39 |
732 | 2157 | 0.981183 | TGTTTCGGTAGATGGCCTGT | 59.019 | 50.000 | 3.32 | 0.00 | 0.00 | 4.00 |
783 | 2208 | 1.009552 | TGGTGTAGGGTGGATGGAGAT | 59.990 | 52.381 | 0.00 | 0.00 | 0.00 | 2.75 |
819 | 2552 | 1.614317 | GGGGTTTGGTGATGAGGACAG | 60.614 | 57.143 | 0.00 | 0.00 | 0.00 | 3.51 |
889 | 2635 | 1.531423 | GGGCGATGATGATGCTTGAT | 58.469 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
1242 | 3015 | 2.427905 | GACGTCGCGTAGTGCACA | 60.428 | 61.111 | 21.04 | 1.84 | 46.97 | 4.57 |
1287 | 3060 | 3.518998 | AGCGACACCCCGATCTCG | 61.519 | 66.667 | 0.00 | 0.00 | 39.44 | 4.04 |
1329 | 3102 | 1.268539 | CCGAACACCAAGAAGTTGCAC | 60.269 | 52.381 | 0.00 | 0.00 | 31.64 | 4.57 |
1339 | 3112 | 4.278513 | CCCCAGCCCGAACACCAA | 62.279 | 66.667 | 0.00 | 0.00 | 0.00 | 3.67 |
1500 | 3273 | 2.951745 | GACATGAGCTCGTCGGCG | 60.952 | 66.667 | 1.15 | 1.15 | 37.29 | 6.46 |
1907 | 3680 | 8.023021 | TGCTAGTACACTGGATGATAATCTTT | 57.977 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
1908 | 3681 | 7.256119 | CCTGCTAGTACACTGGATGATAATCTT | 60.256 | 40.741 | 0.00 | 0.00 | 0.00 | 2.40 |
1909 | 3682 | 6.210385 | CCTGCTAGTACACTGGATGATAATCT | 59.790 | 42.308 | 0.00 | 0.00 | 0.00 | 2.40 |
1910 | 3683 | 6.209589 | TCCTGCTAGTACACTGGATGATAATC | 59.790 | 42.308 | 0.00 | 0.00 | 0.00 | 1.75 |
2035 | 3811 | 1.800586 | CAACGGACCTGATCAAGTGTG | 59.199 | 52.381 | 0.55 | 0.00 | 0.00 | 3.82 |
2036 | 3812 | 1.270839 | CCAACGGACCTGATCAAGTGT | 60.271 | 52.381 | 0.55 | 0.00 | 0.00 | 3.55 |
2046 | 3822 | 1.067071 | GTTTCTCGATCCAACGGACCT | 60.067 | 52.381 | 0.00 | 0.00 | 32.98 | 3.85 |
2125 | 3902 | 3.447229 | GTGCCCCTAATTAACAGTTGCAT | 59.553 | 43.478 | 0.00 | 0.00 | 0.00 | 3.96 |
2134 | 3911 | 1.933765 | ACCATGGGTGCCCCTAATTAA | 59.066 | 47.619 | 18.09 | 0.00 | 45.70 | 1.40 |
2135 | 3912 | 1.614449 | ACCATGGGTGCCCCTAATTA | 58.386 | 50.000 | 18.09 | 0.00 | 45.70 | 1.40 |
2136 | 3913 | 0.715987 | AACCATGGGTGCCCCTAATT | 59.284 | 50.000 | 18.09 | 0.00 | 45.70 | 1.40 |
2137 | 3914 | 0.032217 | CAACCATGGGTGCCCCTAAT | 60.032 | 55.000 | 18.86 | 0.00 | 45.70 | 1.73 |
2142 | 3919 | 3.384532 | CAGCAACCATGGGTGCCC | 61.385 | 66.667 | 43.89 | 23.54 | 35.34 | 5.36 |
2146 | 3923 | 1.852157 | ATCGACCAGCAACCATGGGT | 61.852 | 55.000 | 18.09 | 6.57 | 42.48 | 4.51 |
2161 | 3938 | 2.752903 | TCCACTCTTGATCAACGATCGA | 59.247 | 45.455 | 24.34 | 0.00 | 41.51 | 3.59 |
2162 | 3939 | 3.150848 | TCCACTCTTGATCAACGATCG | 57.849 | 47.619 | 14.88 | 14.88 | 41.51 | 3.69 |
2163 | 3940 | 3.619038 | GGTTCCACTCTTGATCAACGATC | 59.381 | 47.826 | 3.38 | 0.00 | 39.31 | 3.69 |
2164 | 3941 | 3.261897 | AGGTTCCACTCTTGATCAACGAT | 59.738 | 43.478 | 3.38 | 0.00 | 0.00 | 3.73 |
2191 | 3968 | 4.523083 | ACAACGTATGGTTTGCCTGATAT | 58.477 | 39.130 | 0.00 | 0.00 | 36.49 | 1.63 |
2192 | 3969 | 3.945346 | ACAACGTATGGTTTGCCTGATA | 58.055 | 40.909 | 0.00 | 0.00 | 36.49 | 2.15 |
2193 | 3970 | 2.790433 | ACAACGTATGGTTTGCCTGAT | 58.210 | 42.857 | 0.00 | 0.00 | 36.49 | 2.90 |
2194 | 3971 | 2.264005 | ACAACGTATGGTTTGCCTGA | 57.736 | 45.000 | 0.00 | 0.00 | 36.49 | 3.86 |
2269 | 4048 | 6.604171 | TGCATCTCCATTATTATGAACCACT | 58.396 | 36.000 | 0.00 | 0.00 | 33.37 | 4.00 |
2270 | 4049 | 6.882610 | TGCATCTCCATTATTATGAACCAC | 57.117 | 37.500 | 0.00 | 0.00 | 33.37 | 4.16 |
2274 | 4053 | 7.177744 | ACATGCATGCATCTCCATTATTATGAA | 59.822 | 33.333 | 30.07 | 0.00 | 33.90 | 2.57 |
2288 | 4067 | 1.333931 | CTCACTCCACATGCATGCATC | 59.666 | 52.381 | 30.07 | 0.00 | 33.90 | 3.91 |
2291 | 4070 | 0.393402 | TCCTCACTCCACATGCATGC | 60.393 | 55.000 | 26.53 | 11.82 | 0.00 | 4.06 |
2292 | 4071 | 2.343484 | ATCCTCACTCCACATGCATG | 57.657 | 50.000 | 25.09 | 25.09 | 0.00 | 4.06 |
2295 | 4074 | 4.077300 | TCATTATCCTCACTCCACATGC | 57.923 | 45.455 | 0.00 | 0.00 | 0.00 | 4.06 |
2296 | 4075 | 7.578310 | AATTTCATTATCCTCACTCCACATG | 57.422 | 36.000 | 0.00 | 0.00 | 0.00 | 3.21 |
2297 | 4076 | 9.872684 | ATAAATTTCATTATCCTCACTCCACAT | 57.127 | 29.630 | 0.00 | 0.00 | 0.00 | 3.21 |
2338 | 4117 | 9.311916 | GTATTCATATTCATCAGAGCTGGTATC | 57.688 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
2387 | 4173 | 8.262227 | TCCCAACAGATTACGAACTTGTATAAT | 58.738 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
2399 | 4185 | 3.181497 | CCTGCATTTCCCAACAGATTACG | 60.181 | 47.826 | 0.00 | 0.00 | 31.67 | 3.18 |
2472 | 4258 | 3.762288 | AGTAGTGTGCGATCTTAACCTCA | 59.238 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
2699 | 4739 | 1.215382 | CGGATCACCACGAAGCTCA | 59.785 | 57.895 | 0.00 | 0.00 | 35.59 | 4.26 |
2740 | 4780 | 2.728318 | CACGCTAATCCATGTGAGATCG | 59.272 | 50.000 | 0.00 | 0.00 | 34.29 | 3.69 |
2757 | 4797 | 2.280457 | GGGATGGCTAGCTCACGC | 60.280 | 66.667 | 15.72 | 10.24 | 0.00 | 5.34 |
2787 | 4827 | 9.231297 | GCTCTTATATTATGAGACTGAGAGAGT | 57.769 | 37.037 | 0.00 | 0.00 | 37.76 | 3.24 |
2788 | 4828 | 9.230122 | TGCTCTTATATTATGAGACTGAGAGAG | 57.770 | 37.037 | 0.00 | 0.00 | 33.20 | 3.20 |
2812 | 4857 | 4.976116 | AGAAGTGTTTAGTGCGAAAAATGC | 59.024 | 37.500 | 0.00 | 0.00 | 0.00 | 3.56 |
2847 | 4909 | 9.839185 | AGCCTATATTAATTACTACTTCCTCCA | 57.161 | 33.333 | 0.00 | 0.00 | 0.00 | 3.86 |
2878 | 4940 | 3.447944 | GCCAAAGCTACCTAGACTACTGT | 59.552 | 47.826 | 0.00 | 0.00 | 35.50 | 3.55 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.