Multiple sequence alignment - TraesCS4B01G281900
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 | TraesCS4B01G281900 | chr4B | 100.000 | 5772 | 0 | 0 | 1 | 5772 | 564906247 | 564900476 | 0.000000e+00 | 10659.0 |
1 | TraesCS4B01G281900 | chr4B | 89.041 | 73 | 8 | 0 | 5700 | 5772 | 628115777 | 628115705 | 2.210000e-14 | 91.6 |
2 | TraesCS4B01G281900 | chr4B | 95.349 | 43 | 2 | 0 | 3864 | 3906 | 660491536 | 660491578 | 1.040000e-07 | 69.4 |
3 | TraesCS4B01G281900 | chr4D | 95.603 | 1774 | 66 | 8 | 2079 | 3850 | 451298578 | 451296815 | 0.000000e+00 | 2833.0 |
4 | TraesCS4B01G281900 | chr4D | 93.645 | 1306 | 46 | 12 | 794 | 2088 | 451299884 | 451298605 | 0.000000e+00 | 1917.0 |
5 | TraesCS4B01G281900 | chr4D | 95.543 | 920 | 26 | 4 | 3905 | 4818 | 451296813 | 451295903 | 0.000000e+00 | 1458.0 |
6 | TraesCS4B01G281900 | chr4D | 82.845 | 717 | 99 | 13 | 1 | 699 | 451300725 | 451300015 | 6.350000e-174 | 621.0 |
7 | TraesCS4B01G281900 | chr4D | 81.818 | 110 | 14 | 2 | 3318 | 3424 | 451297382 | 451297276 | 2.870000e-13 | 87.9 |
8 | TraesCS4B01G281900 | chr4D | 100.000 | 42 | 0 | 0 | 3865 | 3906 | 486185383 | 486185342 | 1.720000e-10 | 78.7 |
9 | TraesCS4B01G281900 | chr4D | 97.674 | 43 | 1 | 0 | 3864 | 3906 | 79706019 | 79706061 | 2.230000e-09 | 75.0 |
10 | TraesCS4B01G281900 | chr4D | 97.561 | 41 | 1 | 0 | 3866 | 3906 | 287544124 | 287544164 | 2.890000e-08 | 71.3 |
11 | TraesCS4B01G281900 | chr4D | 95.556 | 45 | 1 | 1 | 3862 | 3906 | 362116454 | 362116411 | 2.890000e-08 | 71.3 |
12 | TraesCS4B01G281900 | chr4A | 94.584 | 1791 | 71 | 9 | 2079 | 3850 | 15639535 | 15641318 | 0.000000e+00 | 2747.0 |
13 | TraesCS4B01G281900 | chr4A | 93.117 | 1293 | 62 | 10 | 808 | 2088 | 15638231 | 15639508 | 0.000000e+00 | 1869.0 |
14 | TraesCS4B01G281900 | chr4A | 92.308 | 754 | 46 | 8 | 4070 | 4818 | 15641450 | 15642196 | 0.000000e+00 | 1061.0 |
15 | TraesCS4B01G281900 | chr4A | 83.254 | 836 | 115 | 13 | 1 | 821 | 15637391 | 15638216 | 0.000000e+00 | 745.0 |
16 | TraesCS4B01G281900 | chr4A | 77.476 | 737 | 137 | 19 | 1 | 723 | 5454832 | 5455553 | 1.160000e-111 | 414.0 |
17 | TraesCS4B01G281900 | chr4A | 95.455 | 132 | 4 | 2 | 3905 | 4035 | 15641320 | 15641450 | 5.860000e-50 | 209.0 |
18 | TraesCS4B01G281900 | chr4A | 100.000 | 42 | 0 | 0 | 3865 | 3906 | 638216883 | 638216924 | 1.720000e-10 | 78.7 |
19 | TraesCS4B01G281900 | chr2D | 92.966 | 981 | 41 | 8 | 4819 | 5772 | 448661811 | 448662790 | 0.000000e+00 | 1404.0 |
20 | TraesCS4B01G281900 | chr2D | 80.813 | 787 | 128 | 12 | 1 | 774 | 50948296 | 50949072 | 3.850000e-166 | 595.0 |
21 | TraesCS4B01G281900 | chr2D | 80.207 | 677 | 114 | 13 | 1 | 661 | 642330377 | 642331049 | 1.870000e-134 | 490.0 |
22 | TraesCS4B01G281900 | chr7A | 92.770 | 982 | 43 | 10 | 4818 | 5772 | 53686310 | 53685330 | 0.000000e+00 | 1395.0 |
23 | TraesCS4B01G281900 | chr3D | 92.159 | 982 | 42 | 10 | 4825 | 5772 | 598646131 | 598645151 | 0.000000e+00 | 1354.0 |
24 | TraesCS4B01G281900 | chr3D | 97.619 | 42 | 1 | 0 | 3865 | 3906 | 548728166 | 548728207 | 8.020000e-09 | 73.1 |
25 | TraesCS4B01G281900 | chr3D | 97.561 | 41 | 1 | 0 | 3867 | 3907 | 420804319 | 420804279 | 2.890000e-08 | 71.3 |
26 | TraesCS4B01G281900 | chr1D | 93.709 | 906 | 35 | 10 | 4884 | 5772 | 7358226 | 7357326 | 0.000000e+00 | 1338.0 |
27 | TraesCS4B01G281900 | chr1D | 79.200 | 750 | 107 | 25 | 1 | 723 | 260406554 | 260405827 | 5.230000e-130 | 475.0 |
28 | TraesCS4B01G281900 | chr1D | 85.897 | 78 | 2 | 3 | 4819 | 4887 | 7358320 | 7358243 | 2.230000e-09 | 75.0 |
29 | TraesCS4B01G281900 | chr1D | 100.000 | 33 | 0 | 0 | 3874 | 3906 | 298572532 | 298572564 | 1.740000e-05 | 62.1 |
30 | TraesCS4B01G281900 | chr3B | 95.221 | 858 | 17 | 5 | 4815 | 5649 | 308394435 | 308395291 | 0.000000e+00 | 1336.0 |
31 | TraesCS4B01G281900 | chr3B | 90.031 | 983 | 60 | 13 | 4819 | 5772 | 679986916 | 679987889 | 0.000000e+00 | 1238.0 |
32 | TraesCS4B01G281900 | chr3B | 79.911 | 672 | 118 | 9 | 1 | 659 | 182421160 | 182421827 | 1.460000e-130 | 477.0 |
33 | TraesCS4B01G281900 | chr3B | 96.350 | 137 | 5 | 0 | 5636 | 5772 | 308402003 | 308402139 | 5.820000e-55 | 226.0 |
34 | TraesCS4B01G281900 | chr3B | 95.918 | 49 | 2 | 0 | 3865 | 3913 | 501117600 | 501117552 | 4.790000e-11 | 80.5 |
35 | TraesCS4B01G281900 | chr7D | 90.491 | 978 | 41 | 19 | 4825 | 5769 | 414483168 | 414484126 | 0.000000e+00 | 1243.0 |
36 | TraesCS4B01G281900 | chr7D | 79.079 | 760 | 138 | 12 | 1 | 744 | 118820387 | 118821141 | 2.400000e-138 | 503.0 |
37 | TraesCS4B01G281900 | chr7D | 77.238 | 782 | 149 | 14 | 7 | 776 | 503922974 | 503923738 | 1.150000e-116 | 431.0 |
38 | TraesCS4B01G281900 | chr7D | 81.746 | 126 | 20 | 3 | 566 | 690 | 484298663 | 484298786 | 1.020000e-17 | 102.0 |
39 | TraesCS4B01G281900 | chr7D | 97.561 | 41 | 1 | 0 | 3866 | 3906 | 312543203 | 312543243 | 2.890000e-08 | 71.3 |
40 | TraesCS4B01G281900 | chr7B | 94.345 | 672 | 25 | 9 | 5026 | 5690 | 351906997 | 351906332 | 0.000000e+00 | 1018.0 |
41 | TraesCS4B01G281900 | chr7B | 85.477 | 241 | 12 | 3 | 4819 | 5037 | 351908474 | 351908235 | 4.500000e-56 | 230.0 |
42 | TraesCS4B01G281900 | chr7B | 98.936 | 94 | 1 | 0 | 5678 | 5771 | 351900971 | 351900878 | 9.950000e-38 | 169.0 |
43 | TraesCS4B01G281900 | chrUn | 83.146 | 534 | 76 | 7 | 1 | 522 | 127023330 | 127022799 | 5.230000e-130 | 475.0 |
44 | TraesCS4B01G281900 | chrUn | 95.349 | 43 | 2 | 0 | 3864 | 3906 | 110464780 | 110464822 | 1.040000e-07 | 69.4 |
45 | TraesCS4B01G281900 | chrUn | 100.000 | 34 | 0 | 0 | 3873 | 3906 | 55726298 | 55726265 | 4.830000e-06 | 63.9 |
46 | TraesCS4B01G281900 | chr1B | 77.806 | 784 | 148 | 14 | 1 | 779 | 531392555 | 531391793 | 1.470000e-125 | 460.0 |
47 | TraesCS4B01G281900 | chr1B | 81.579 | 532 | 79 | 12 | 1 | 520 | 352524409 | 352524933 | 6.920000e-114 | 422.0 |
48 | TraesCS4B01G281900 | chr1B | 100.000 | 43 | 0 | 0 | 3865 | 3907 | 386519898 | 386519940 | 4.790000e-11 | 80.5 |
49 | TraesCS4B01G281900 | chr1B | 97.674 | 43 | 1 | 0 | 3864 | 3906 | 636308020 | 636308062 | 2.230000e-09 | 75.0 |
50 | TraesCS4B01G281900 | chr5D | 78.641 | 721 | 129 | 12 | 22 | 721 | 112329981 | 112329265 | 6.820000e-124 | 455.0 |
51 | TraesCS4B01G281900 | chr5D | 78.121 | 745 | 130 | 21 | 1 | 723 | 249880381 | 249881114 | 5.310000e-120 | 442.0 |
52 | TraesCS4B01G281900 | chr5D | 100.000 | 42 | 0 | 0 | 3865 | 3906 | 533641528 | 533641487 | 1.720000e-10 | 78.7 |
53 | TraesCS4B01G281900 | chr5D | 97.561 | 41 | 1 | 0 | 3866 | 3906 | 71888893 | 71888933 | 2.890000e-08 | 71.3 |
54 | TraesCS4B01G281900 | chr6A | 94.643 | 280 | 15 | 0 | 5122 | 5401 | 580956989 | 580957268 | 8.880000e-118 | 435.0 |
55 | TraesCS4B01G281900 | chr6A | 91.197 | 284 | 19 | 5 | 5404 | 5681 | 581013045 | 581013328 | 1.170000e-101 | 381.0 |
56 | TraesCS4B01G281900 | chr6A | 91.304 | 184 | 13 | 2 | 4896 | 5076 | 580956818 | 580957001 | 1.240000e-61 | 248.0 |
57 | TraesCS4B01G281900 | chr5A | 79.233 | 443 | 72 | 17 | 289 | 723 | 596673501 | 596673071 | 2.030000e-74 | 291.0 |
58 | TraesCS4B01G281900 | chr5A | 97.619 | 42 | 1 | 0 | 3865 | 3906 | 64367709 | 64367750 | 8.020000e-09 | 73.1 |
59 | TraesCS4B01G281900 | chr6D | 82.550 | 298 | 43 | 2 | 1 | 289 | 309739573 | 309739870 | 2.670000e-63 | 254.0 |
60 | TraesCS4B01G281900 | chr6D | 97.500 | 40 | 1 | 0 | 3866 | 3905 | 31475309 | 31475348 | 1.040000e-07 | 69.4 |
61 | TraesCS4B01G281900 | chr6D | 95.238 | 42 | 2 | 0 | 3866 | 3907 | 17354737 | 17354696 | 3.730000e-07 | 67.6 |
62 | TraesCS4B01G281900 | chr5B | 100.000 | 42 | 0 | 0 | 3864 | 3905 | 82475838 | 82475879 | 1.720000e-10 | 78.7 |
63 | TraesCS4B01G281900 | chr5B | 100.000 | 41 | 0 | 0 | 3866 | 3906 | 82475807 | 82475767 | 6.200000e-10 | 76.8 |
64 | TraesCS4B01G281900 | chr5B | 97.674 | 43 | 0 | 1 | 3865 | 3907 | 673688606 | 673688565 | 8.020000e-09 | 73.1 |
65 | TraesCS4B01G281900 | chr2A | 95.652 | 46 | 2 | 0 | 3864 | 3909 | 706204947 | 706204992 | 2.230000e-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 | TraesCS4B01G281900 | chr4B | 564900476 | 564906247 | 5771 | True | 10659.00 | 10659 | 100.0000 | 1 | 5772 | 1 | chr4B.!!$R1 | 5771 |
1 | TraesCS4B01G281900 | chr4D | 451295903 | 451300725 | 4822 | True | 1383.38 | 2833 | 89.8908 | 1 | 4818 | 5 | chr4D.!!$R3 | 4817 |
2 | TraesCS4B01G281900 | chr4A | 15637391 | 15642196 | 4805 | False | 1326.20 | 2747 | 91.7436 | 1 | 4818 | 5 | chr4A.!!$F3 | 4817 |
3 | TraesCS4B01G281900 | chr4A | 5454832 | 5455553 | 721 | False | 414.00 | 414 | 77.4760 | 1 | 723 | 1 | chr4A.!!$F1 | 722 |
4 | TraesCS4B01G281900 | chr2D | 448661811 | 448662790 | 979 | False | 1404.00 | 1404 | 92.9660 | 4819 | 5772 | 1 | chr2D.!!$F2 | 953 |
5 | TraesCS4B01G281900 | chr2D | 50948296 | 50949072 | 776 | False | 595.00 | 595 | 80.8130 | 1 | 774 | 1 | chr2D.!!$F1 | 773 |
6 | TraesCS4B01G281900 | chr2D | 642330377 | 642331049 | 672 | False | 490.00 | 490 | 80.2070 | 1 | 661 | 1 | chr2D.!!$F3 | 660 |
7 | TraesCS4B01G281900 | chr7A | 53685330 | 53686310 | 980 | True | 1395.00 | 1395 | 92.7700 | 4818 | 5772 | 1 | chr7A.!!$R1 | 954 |
8 | TraesCS4B01G281900 | chr3D | 598645151 | 598646131 | 980 | True | 1354.00 | 1354 | 92.1590 | 4825 | 5772 | 1 | chr3D.!!$R2 | 947 |
9 | TraesCS4B01G281900 | chr1D | 7357326 | 7358320 | 994 | True | 706.50 | 1338 | 89.8030 | 4819 | 5772 | 2 | chr1D.!!$R2 | 953 |
10 | TraesCS4B01G281900 | chr1D | 260405827 | 260406554 | 727 | True | 475.00 | 475 | 79.2000 | 1 | 723 | 1 | chr1D.!!$R1 | 722 |
11 | TraesCS4B01G281900 | chr3B | 308394435 | 308395291 | 856 | False | 1336.00 | 1336 | 95.2210 | 4815 | 5649 | 1 | chr3B.!!$F2 | 834 |
12 | TraesCS4B01G281900 | chr3B | 679986916 | 679987889 | 973 | False | 1238.00 | 1238 | 90.0310 | 4819 | 5772 | 1 | chr3B.!!$F4 | 953 |
13 | TraesCS4B01G281900 | chr3B | 182421160 | 182421827 | 667 | False | 477.00 | 477 | 79.9110 | 1 | 659 | 1 | chr3B.!!$F1 | 658 |
14 | TraesCS4B01G281900 | chr7D | 414483168 | 414484126 | 958 | False | 1243.00 | 1243 | 90.4910 | 4825 | 5769 | 1 | chr7D.!!$F3 | 944 |
15 | TraesCS4B01G281900 | chr7D | 118820387 | 118821141 | 754 | False | 503.00 | 503 | 79.0790 | 1 | 744 | 1 | chr7D.!!$F1 | 743 |
16 | TraesCS4B01G281900 | chr7D | 503922974 | 503923738 | 764 | False | 431.00 | 431 | 77.2380 | 7 | 776 | 1 | chr7D.!!$F5 | 769 |
17 | TraesCS4B01G281900 | chr7B | 351906332 | 351908474 | 2142 | True | 624.00 | 1018 | 89.9110 | 4819 | 5690 | 2 | chr7B.!!$R2 | 871 |
18 | TraesCS4B01G281900 | chrUn | 127022799 | 127023330 | 531 | True | 475.00 | 475 | 83.1460 | 1 | 522 | 1 | chrUn.!!$R2 | 521 |
19 | TraesCS4B01G281900 | chr1B | 531391793 | 531392555 | 762 | True | 460.00 | 460 | 77.8060 | 1 | 779 | 1 | chr1B.!!$R1 | 778 |
20 | TraesCS4B01G281900 | chr1B | 352524409 | 352524933 | 524 | False | 422.00 | 422 | 81.5790 | 1 | 520 | 1 | chr1B.!!$F1 | 519 |
21 | TraesCS4B01G281900 | chr5D | 112329265 | 112329981 | 716 | True | 455.00 | 455 | 78.6410 | 22 | 721 | 1 | chr5D.!!$R1 | 699 |
22 | TraesCS4B01G281900 | chr5D | 249880381 | 249881114 | 733 | False | 442.00 | 442 | 78.1210 | 1 | 723 | 1 | chr5D.!!$F2 | 722 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
763 | 896 | 0.474273 | AGGTTTGAGGGTCCGGGTTA | 60.474 | 55.0 | 0.00 | 0.0 | 0.00 | 2.85 | F |
1342 | 1508 | 0.249955 | AATGGCAAATTTGGGCGGAG | 59.750 | 50.0 | 19.47 | 0.0 | 0.00 | 4.63 | F |
2416 | 2648 | 0.673437 | GTGGTGCCAGCTTTGCTTAA | 59.327 | 50.0 | 6.55 | 0.0 | 36.40 | 1.85 | F |
3521 | 3753 | 0.178967 | TTCAAGGTTGCCCATCAGCA | 60.179 | 50.0 | 0.00 | 0.0 | 42.17 | 4.41 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2429 | 2661 | 0.177836 | TACATGTGATGCGGGTGAGG | 59.822 | 55.0 | 9.11 | 0.0 | 0.0 | 3.86 | R |
2642 | 2874 | 0.332972 | ACCCAGGGATCCTTTTCTGC | 59.667 | 55.0 | 14.54 | 0.0 | 0.0 | 4.26 | R |
3853 | 4106 | 0.031917 | TTACACTATGGGCGGAGGGA | 60.032 | 55.0 | 0.00 | 0.0 | 0.0 | 4.20 | R |
5463 | 7010 | 0.871722 | CTTGCGATGTTCCCACGAAA | 59.128 | 50.0 | 0.00 | 0.0 | 0.0 | 3.46 | 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 |
---|---|---|---|---|---|---|---|---|---|
214 | 238 | 2.123251 | GAGGAGATGGGGGAGCGA | 60.123 | 66.667 | 0.00 | 0.00 | 0.00 | 4.93 |
351 | 384 | 2.769095 | GAGTAGGGTTCTCAGCTTCCAT | 59.231 | 50.000 | 0.00 | 0.00 | 32.79 | 3.41 |
385 | 418 | 0.529773 | GGTGTATGAATGCGGCGAGA | 60.530 | 55.000 | 12.98 | 0.00 | 0.00 | 4.04 |
397 | 430 | 2.298593 | GGCGAGAAGGCGTATTCAC | 58.701 | 57.895 | 4.86 | 0.00 | 35.04 | 3.18 |
463 | 513 | 1.676746 | CAGATGCAATGGGAGGTCAG | 58.323 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
531 | 583 | 2.079158 | CATGAATGCGGACAACTGACT | 58.921 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
532 | 584 | 3.261580 | CATGAATGCGGACAACTGACTA | 58.738 | 45.455 | 0.00 | 0.00 | 0.00 | 2.59 |
533 | 585 | 2.959516 | TGAATGCGGACAACTGACTAG | 58.040 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
543 | 595 | 2.158726 | ACAACTGACTAGGGGCGAAAAA | 60.159 | 45.455 | 0.00 | 0.00 | 0.00 | 1.94 |
629 | 691 | 2.852075 | ACCCCCGCAAACCTCTCA | 60.852 | 61.111 | 0.00 | 0.00 | 0.00 | 3.27 |
763 | 896 | 0.474273 | AGGTTTGAGGGTCCGGGTTA | 60.474 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
786 | 919 | 5.799213 | AGAGATGCCCTTAATATTTCGAGG | 58.201 | 41.667 | 0.00 | 0.00 | 0.00 | 4.63 |
787 | 920 | 4.327680 | AGATGCCCTTAATATTTCGAGGC | 58.672 | 43.478 | 10.10 | 10.10 | 39.41 | 4.70 |
791 | 929 | 3.473625 | CCCTTAATATTTCGAGGCGGTT | 58.526 | 45.455 | 0.00 | 0.00 | 0.00 | 4.44 |
830 | 996 | 2.148768 | TCGCTCATACGGATCGTACAT | 58.851 | 47.619 | 2.17 | 0.00 | 45.07 | 2.29 |
856 | 1022 | 5.601662 | TCTTAGCAATATTCGGAAGTCAGG | 58.398 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
963 | 1129 | 4.324022 | CCGTTAAACCCTAACTCCCATCTT | 60.324 | 45.833 | 0.00 | 0.00 | 0.00 | 2.40 |
1003 | 1169 | 4.996434 | ACTGCCAGCACGCCACTC | 62.996 | 66.667 | 0.00 | 0.00 | 0.00 | 3.51 |
1342 | 1508 | 0.249955 | AATGGCAAATTTGGGCGGAG | 59.750 | 50.000 | 19.47 | 0.00 | 0.00 | 4.63 |
1438 | 1605 | 9.525409 | AATGATATCTAGTTTTGCTTGCATTTC | 57.475 | 29.630 | 3.98 | 0.00 | 0.00 | 2.17 |
1454 | 1621 | 7.359014 | GCTTGCATTTCTTTTCTGTGAGATTTC | 60.359 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
1464 | 1631 | 1.270252 | TGTGAGATTTCGTGCTGCAGA | 60.270 | 47.619 | 20.43 | 0.00 | 0.00 | 4.26 |
1478 | 1648 | 3.691118 | TGCTGCAGAGTGATATTTTCCAC | 59.309 | 43.478 | 20.43 | 0.00 | 0.00 | 4.02 |
1571 | 1742 | 6.605471 | ACGGAATGAGGACATAGCATTATA | 57.395 | 37.500 | 0.00 | 0.00 | 35.50 | 0.98 |
1601 | 1772 | 1.341156 | GGGGTGAGTGATCAGGGAGG | 61.341 | 65.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1644 | 1820 | 0.958822 | GGCAGGTGGTAGTTTTGGTG | 59.041 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1647 | 1823 | 2.650322 | CAGGTGGTAGTTTTGGTGTGT | 58.350 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
1703 | 1880 | 3.189606 | TCTGAAGATTAAGGGCCTTCCA | 58.810 | 45.455 | 24.77 | 11.58 | 36.41 | 3.53 |
1721 | 1898 | 4.524802 | TCCATGGGCTCTTTGATGTTAT | 57.475 | 40.909 | 13.02 | 0.00 | 0.00 | 1.89 |
1722 | 1899 | 4.870636 | TCCATGGGCTCTTTGATGTTATT | 58.129 | 39.130 | 13.02 | 0.00 | 0.00 | 1.40 |
1723 | 1900 | 6.012337 | TCCATGGGCTCTTTGATGTTATTA | 57.988 | 37.500 | 13.02 | 0.00 | 0.00 | 0.98 |
1774 | 1953 | 6.019075 | TCTGAAATACAATAATTCAGCGTCCG | 60.019 | 38.462 | 9.31 | 0.00 | 46.06 | 4.79 |
1781 | 1960 | 5.583061 | ACAATAATTCAGCGTCCGTTTATCA | 59.417 | 36.000 | 0.00 | 0.00 | 0.00 | 2.15 |
1835 | 2025 | 4.155462 | TGAATGCACTGAAATCTTGAGCTC | 59.845 | 41.667 | 6.82 | 6.82 | 0.00 | 4.09 |
1836 | 2026 | 3.130280 | TGCACTGAAATCTTGAGCTCA | 57.870 | 42.857 | 13.74 | 13.74 | 0.00 | 4.26 |
1837 | 2027 | 2.810274 | TGCACTGAAATCTTGAGCTCAC | 59.190 | 45.455 | 18.03 | 4.16 | 0.00 | 3.51 |
1838 | 2028 | 2.161211 | GCACTGAAATCTTGAGCTCACC | 59.839 | 50.000 | 18.03 | 2.39 | 0.00 | 4.02 |
1839 | 2029 | 3.672808 | CACTGAAATCTTGAGCTCACCT | 58.327 | 45.455 | 18.03 | 0.37 | 0.00 | 4.00 |
1840 | 2030 | 4.070716 | CACTGAAATCTTGAGCTCACCTT | 58.929 | 43.478 | 18.03 | 7.35 | 0.00 | 3.50 |
1841 | 2031 | 4.518211 | CACTGAAATCTTGAGCTCACCTTT | 59.482 | 41.667 | 18.03 | 15.55 | 0.00 | 3.11 |
1842 | 2032 | 5.009410 | CACTGAAATCTTGAGCTCACCTTTT | 59.991 | 40.000 | 18.03 | 15.36 | 0.00 | 2.27 |
1843 | 2033 | 6.205464 | CACTGAAATCTTGAGCTCACCTTTTA | 59.795 | 38.462 | 18.03 | 11.60 | 0.00 | 1.52 |
1844 | 2034 | 6.772716 | ACTGAAATCTTGAGCTCACCTTTTAA | 59.227 | 34.615 | 18.03 | 8.40 | 0.00 | 1.52 |
1845 | 2035 | 7.449704 | ACTGAAATCTTGAGCTCACCTTTTAAT | 59.550 | 33.333 | 18.03 | 0.63 | 0.00 | 1.40 |
1846 | 2036 | 8.862325 | TGAAATCTTGAGCTCACCTTTTAATA | 57.138 | 30.769 | 18.03 | 0.00 | 0.00 | 0.98 |
1847 | 2037 | 9.295825 | TGAAATCTTGAGCTCACCTTTTAATAA | 57.704 | 29.630 | 18.03 | 0.00 | 0.00 | 1.40 |
1850 | 2040 | 9.692325 | AATCTTGAGCTCACCTTTTAATAATCT | 57.308 | 29.630 | 18.03 | 0.00 | 0.00 | 2.40 |
1851 | 2041 | 9.692325 | ATCTTGAGCTCACCTTTTAATAATCTT | 57.308 | 29.630 | 18.03 | 0.00 | 0.00 | 2.40 |
1852 | 2042 | 8.950210 | TCTTGAGCTCACCTTTTAATAATCTTG | 58.050 | 33.333 | 18.03 | 0.00 | 0.00 | 3.02 |
1853 | 2043 | 8.862325 | TTGAGCTCACCTTTTAATAATCTTGA | 57.138 | 30.769 | 18.03 | 0.00 | 0.00 | 3.02 |
1854 | 2044 | 8.498054 | TGAGCTCACCTTTTAATAATCTTGAG | 57.502 | 34.615 | 13.74 | 0.00 | 33.78 | 3.02 |
1923 | 2113 | 9.778741 | ATATATAACAGATTCAATCGTGTTGGT | 57.221 | 29.630 | 18.19 | 12.31 | 34.67 | 3.67 |
1942 | 2135 | 7.389607 | GTGTTGGTAAAGGCTTGTATTCTCTTA | 59.610 | 37.037 | 0.00 | 0.00 | 0.00 | 2.10 |
1960 | 2153 | 1.847328 | TAGTGTGAGCCCTTCATCGA | 58.153 | 50.000 | 0.00 | 0.00 | 38.29 | 3.59 |
2072 | 2269 | 2.267006 | CTGCTGGTCCTCGCATGT | 59.733 | 61.111 | 6.84 | 0.00 | 35.32 | 3.21 |
2115 | 2347 | 7.695480 | TTTCATGGTTGCTACTTGCTATTAA | 57.305 | 32.000 | 0.00 | 0.00 | 43.37 | 1.40 |
2150 | 2382 | 6.308015 | TCAGCAAGTTATAGCCCTCTTTTA | 57.692 | 37.500 | 0.00 | 0.00 | 0.00 | 1.52 |
2160 | 2392 | 4.929146 | AGCCCTCTTTTATTGTAGGTGT | 57.071 | 40.909 | 0.00 | 0.00 | 0.00 | 4.16 |
2167 | 2399 | 8.210946 | CCCTCTTTTATTGTAGGTGTGATATCA | 58.789 | 37.037 | 0.00 | 0.00 | 0.00 | 2.15 |
2219 | 2451 | 3.103742 | ACAATTGTGTCAAAGTTGGGGT | 58.896 | 40.909 | 11.07 | 0.00 | 29.49 | 4.95 |
2245 | 2477 | 5.221722 | TGCCACTCAGTCTAAAGTTCTCAAT | 60.222 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2257 | 2489 | 9.958180 | TCTAAAGTTCTCAATGTTGATCCATAA | 57.042 | 29.630 | 0.00 | 0.00 | 36.46 | 1.90 |
2265 | 2497 | 2.374184 | TGTTGATCCATAAAAGGGCCG | 58.626 | 47.619 | 0.00 | 0.00 | 0.00 | 6.13 |
2271 | 2503 | 1.213182 | TCCATAAAAGGGCCGCACATA | 59.787 | 47.619 | 0.00 | 0.00 | 0.00 | 2.29 |
2288 | 2520 | 6.183360 | CCGCACATACATGTAATCCTTCTTTT | 60.183 | 38.462 | 10.14 | 0.00 | 39.39 | 2.27 |
2319 | 2551 | 5.764686 | GGAGGATGCATCATGTAACAATGTA | 59.235 | 40.000 | 27.25 | 0.00 | 0.00 | 2.29 |
2392 | 2624 | 7.513560 | TGGGGGTATAGTTTATTACTGTGTT | 57.486 | 36.000 | 0.00 | 0.00 | 37.73 | 3.32 |
2406 | 2638 | 3.609853 | ACTGTGTTATATGTGGTGCCAG | 58.390 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
2409 | 2641 | 3.016736 | GTGTTATATGTGGTGCCAGCTT | 58.983 | 45.455 | 0.00 | 0.00 | 0.00 | 3.74 |
2411 | 2643 | 3.443329 | TGTTATATGTGGTGCCAGCTTTG | 59.557 | 43.478 | 0.00 | 0.00 | 0.00 | 2.77 |
2416 | 2648 | 0.673437 | GTGGTGCCAGCTTTGCTTAA | 59.327 | 50.000 | 6.55 | 0.00 | 36.40 | 1.85 |
2429 | 2661 | 8.175716 | CCAGCTTTGCTTAACTAACTATTACAC | 58.824 | 37.037 | 0.00 | 0.00 | 36.40 | 2.90 |
2438 | 2670 | 2.685850 | AACTATTACACCTCACCCGC | 57.314 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
2642 | 2874 | 7.721286 | AAAATTGACTAGCTCCATCTAATCG | 57.279 | 36.000 | 0.00 | 0.00 | 0.00 | 3.34 |
2753 | 2985 | 7.261829 | TGTACCGTTAAGTATTGCAAAACTT | 57.738 | 32.000 | 1.71 | 3.24 | 39.25 | 2.66 |
2775 | 3007 | 1.259609 | TTGCTTGCTGATTCCTTGGG | 58.740 | 50.000 | 0.00 | 0.00 | 0.00 | 4.12 |
2885 | 3117 | 1.546476 | ACCTAAGGAGCTCGACACAAG | 59.454 | 52.381 | 7.83 | 0.00 | 0.00 | 3.16 |
2944 | 3176 | 7.719483 | TCCCATGATTTATTTTGAAGCATCTC | 58.281 | 34.615 | 0.00 | 0.00 | 31.34 | 2.75 |
3111 | 3343 | 3.013921 | TCAAGGTCAAACAGGTGAACAC | 58.986 | 45.455 | 0.00 | 0.00 | 37.72 | 3.32 |
3147 | 3379 | 8.251721 | AGATGTAGTTTGTCTATGTTACTGACC | 58.748 | 37.037 | 0.00 | 0.00 | 0.00 | 4.02 |
3232 | 3464 | 2.877383 | TGGGGTGGTAGGGGAGGA | 60.877 | 66.667 | 0.00 | 0.00 | 0.00 | 3.71 |
3304 | 3536 | 4.971924 | GGATATAGCAACCAGGGAGGATAT | 59.028 | 45.833 | 0.00 | 0.00 | 41.22 | 1.63 |
3418 | 3650 | 1.830408 | CGGCCAAAACCAAGGTGGA | 60.830 | 57.895 | 2.24 | 0.00 | 40.96 | 4.02 |
3481 | 3713 | 7.419172 | GGGGGATATGGTAAGTTCTATCATAGC | 60.419 | 44.444 | 0.00 | 0.00 | 0.00 | 2.97 |
3492 | 3724 | 8.748380 | AAGTTCTATCATAGCTTTGTTTTTGC | 57.252 | 30.769 | 4.00 | 0.00 | 0.00 | 3.68 |
3521 | 3753 | 0.178967 | TTCAAGGTTGCCCATCAGCA | 60.179 | 50.000 | 0.00 | 0.00 | 42.17 | 4.41 |
3585 | 3818 | 4.641989 | AGTGTTGACTGCTTCAGTTGATTT | 59.358 | 37.500 | 0.66 | 0.00 | 45.44 | 2.17 |
3598 | 3831 | 5.055812 | TCAGTTGATTTGTTTTTGGATGCC | 58.944 | 37.500 | 0.00 | 0.00 | 0.00 | 4.40 |
3769 | 4022 | 2.285220 | GTGGTATGTACAATCGCAGCAG | 59.715 | 50.000 | 0.00 | 0.00 | 0.00 | 4.24 |
3811 | 4064 | 7.092716 | GCATGAATTGAACTTTCTGTTGGTAT | 58.907 | 34.615 | 0.00 | 0.00 | 39.30 | 2.73 |
3850 | 4103 | 7.120579 | TGCATTTACTCCATCTCGTTACAAATT | 59.879 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
3851 | 4104 | 8.609176 | GCATTTACTCCATCTCGTTACAAATTA | 58.391 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
3852 | 4105 | 9.916397 | CATTTACTCCATCTCGTTACAAATTAC | 57.084 | 33.333 | 0.00 | 0.00 | 0.00 | 1.89 |
3853 | 4106 | 9.886132 | ATTTACTCCATCTCGTTACAAATTACT | 57.114 | 29.630 | 0.00 | 0.00 | 0.00 | 2.24 |
3854 | 4107 | 8.922058 | TTACTCCATCTCGTTACAAATTACTC | 57.078 | 34.615 | 0.00 | 0.00 | 0.00 | 2.59 |
3855 | 4108 | 6.338937 | ACTCCATCTCGTTACAAATTACTCC | 58.661 | 40.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3856 | 4109 | 5.667466 | TCCATCTCGTTACAAATTACTCCC | 58.333 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
3857 | 4110 | 5.424252 | TCCATCTCGTTACAAATTACTCCCT | 59.576 | 40.000 | 0.00 | 0.00 | 0.00 | 4.20 |
3858 | 4111 | 5.753921 | CCATCTCGTTACAAATTACTCCCTC | 59.246 | 44.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3859 | 4112 | 5.334724 | TCTCGTTACAAATTACTCCCTCC | 57.665 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
3860 | 4113 | 4.110482 | CTCGTTACAAATTACTCCCTCCG | 58.890 | 47.826 | 0.00 | 0.00 | 0.00 | 4.63 |
3861 | 4114 | 2.606272 | CGTTACAAATTACTCCCTCCGC | 59.394 | 50.000 | 0.00 | 0.00 | 0.00 | 5.54 |
3862 | 4115 | 2.941064 | GTTACAAATTACTCCCTCCGCC | 59.059 | 50.000 | 0.00 | 0.00 | 0.00 | 6.13 |
3863 | 4116 | 0.255033 | ACAAATTACTCCCTCCGCCC | 59.745 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
3864 | 4117 | 0.254747 | CAAATTACTCCCTCCGCCCA | 59.745 | 55.000 | 0.00 | 0.00 | 0.00 | 5.36 |
3865 | 4118 | 1.133792 | CAAATTACTCCCTCCGCCCAT | 60.134 | 52.381 | 0.00 | 0.00 | 0.00 | 4.00 |
3866 | 4119 | 2.105821 | CAAATTACTCCCTCCGCCCATA | 59.894 | 50.000 | 0.00 | 0.00 | 0.00 | 2.74 |
3867 | 4120 | 1.645710 | ATTACTCCCTCCGCCCATAG | 58.354 | 55.000 | 0.00 | 0.00 | 0.00 | 2.23 |
3868 | 4121 | 0.263765 | TTACTCCCTCCGCCCATAGT | 59.736 | 55.000 | 0.00 | 0.00 | 0.00 | 2.12 |
3869 | 4122 | 0.469331 | TACTCCCTCCGCCCATAGTG | 60.469 | 60.000 | 0.00 | 0.00 | 0.00 | 2.74 |
3870 | 4123 | 1.762460 | CTCCCTCCGCCCATAGTGT | 60.762 | 63.158 | 0.00 | 0.00 | 0.00 | 3.55 |
3871 | 4124 | 0.469331 | CTCCCTCCGCCCATAGTGTA | 60.469 | 60.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3872 | 4125 | 0.031917 | TCCCTCCGCCCATAGTGTAA | 60.032 | 55.000 | 0.00 | 0.00 | 0.00 | 2.41 |
3873 | 4126 | 0.834612 | CCCTCCGCCCATAGTGTAAA | 59.165 | 55.000 | 0.00 | 0.00 | 0.00 | 2.01 |
3874 | 4127 | 1.210967 | CCCTCCGCCCATAGTGTAAAA | 59.789 | 52.381 | 0.00 | 0.00 | 0.00 | 1.52 |
3875 | 4128 | 2.356330 | CCCTCCGCCCATAGTGTAAAAA | 60.356 | 50.000 | 0.00 | 0.00 | 0.00 | 1.94 |
3898 | 4151 | 8.760980 | AAAATGATCTTATATTTTGGGACGGA | 57.239 | 30.769 | 0.00 | 0.00 | 35.73 | 4.69 |
3899 | 4152 | 7.986085 | AATGATCTTATATTTTGGGACGGAG | 57.014 | 36.000 | 0.00 | 0.00 | 0.00 | 4.63 |
3900 | 4153 | 5.865085 | TGATCTTATATTTTGGGACGGAGG | 58.135 | 41.667 | 0.00 | 0.00 | 0.00 | 4.30 |
3901 | 4154 | 4.699925 | TCTTATATTTTGGGACGGAGGG | 57.300 | 45.455 | 0.00 | 0.00 | 0.00 | 4.30 |
3902 | 4155 | 4.300345 | TCTTATATTTTGGGACGGAGGGA | 58.700 | 43.478 | 0.00 | 0.00 | 0.00 | 4.20 |
3903 | 4156 | 4.347000 | TCTTATATTTTGGGACGGAGGGAG | 59.653 | 45.833 | 0.00 | 0.00 | 0.00 | 4.30 |
3970 | 4223 | 7.847096 | TGGCAGAACTTCAGTGAATAGTATTA | 58.153 | 34.615 | 5.91 | 0.00 | 0.00 | 0.98 |
3994 | 4248 | 9.715121 | TTAGTGACGATAGAACAGGTTTTAATT | 57.285 | 29.630 | 0.00 | 0.00 | 41.38 | 1.40 |
4031 | 4285 | 4.156455 | TCAGTGCTAATCTGATTTCCCC | 57.844 | 45.455 | 8.38 | 0.00 | 37.07 | 4.81 |
4040 | 4294 | 7.093771 | TGCTAATCTGATTTCCCCTTTTCTTTC | 60.094 | 37.037 | 8.38 | 0.00 | 0.00 | 2.62 |
4057 | 4311 | 2.189594 | TTCCTTGCTCAGTCACATGG | 57.810 | 50.000 | 0.00 | 0.00 | 33.52 | 3.66 |
4067 | 4321 | 0.112995 | AGTCACATGGGCATTGTGGT | 59.887 | 50.000 | 16.06 | 4.74 | 34.60 | 4.16 |
4071 | 4325 | 4.141181 | AGTCACATGGGCATTGTGGTATAT | 60.141 | 41.667 | 16.06 | 0.00 | 34.60 | 0.86 |
4080 | 4334 | 5.767665 | GGGCATTGTGGTATATACACATTCA | 59.232 | 40.000 | 14.70 | 0.34 | 46.98 | 2.57 |
4169 | 4423 | 8.662781 | TCTCAAGTTGTATATTTAGACCATGC | 57.337 | 34.615 | 2.11 | 0.00 | 0.00 | 4.06 |
4179 | 4433 | 9.219603 | GTATATTTAGACCATGCACATGTGTAT | 57.780 | 33.333 | 26.01 | 24.00 | 37.11 | 2.29 |
4235 | 4490 | 8.948853 | TGAAACAATGATTGAAACGATAACTC | 57.051 | 30.769 | 12.80 | 0.00 | 0.00 | 3.01 |
4310 | 4565 | 5.612725 | AATTCAAAAGGTTTGGAGCTTGA | 57.387 | 34.783 | 0.00 | 0.00 | 42.47 | 3.02 |
4363 | 4620 | 2.279741 | CACCATGTATCAGGTTCGGTG | 58.720 | 52.381 | 0.00 | 0.00 | 35.52 | 4.94 |
4668 | 4930 | 7.126061 | AGGCTTCCCAGTTTTTAGCTATAATT | 58.874 | 34.615 | 0.00 | 0.00 | 32.58 | 1.40 |
4909 | 5201 | 0.036732 | CTAACAGGTTGGCTGCTGGA | 59.963 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
4931 | 5223 | 4.028852 | ACGTTTTGCAAAAGAGACCTTC | 57.971 | 40.909 | 24.46 | 9.50 | 0.00 | 3.46 |
4954 | 5246 | 5.351465 | TCAAGCCTAGCTAAATCAACGAAAG | 59.649 | 40.000 | 0.00 | 0.00 | 38.25 | 2.62 |
5231 | 6778 | 8.956426 | GTACTCCAATGGAAATGTAAAATCTGA | 58.044 | 33.333 | 2.61 | 0.00 | 0.00 | 3.27 |
5457 | 7004 | 7.493743 | TTAGCTGTTTCCATGTAAAAACGTA | 57.506 | 32.000 | 0.00 | 2.12 | 38.03 | 3.57 |
5458 | 7005 | 5.997385 | AGCTGTTTCCATGTAAAAACGTAG | 58.003 | 37.500 | 0.00 | 5.48 | 38.03 | 3.51 |
5460 | 7007 | 6.707161 | AGCTGTTTCCATGTAAAAACGTAGTA | 59.293 | 34.615 | 0.00 | 0.00 | 45.00 | 1.82 |
5461 | 7008 | 7.389607 | AGCTGTTTCCATGTAAAAACGTAGTAT | 59.610 | 33.333 | 0.00 | 0.00 | 45.00 | 2.12 |
5463 | 7010 | 9.887406 | CTGTTTCCATGTAAAAACGTAGTATTT | 57.113 | 29.630 | 0.00 | 0.00 | 45.00 | 1.40 |
5645 | 7213 | 1.599419 | GCCGACGCACAAGAAAACATT | 60.599 | 47.619 | 0.00 | 0.00 | 34.03 | 2.71 |
5669 | 7237 | 7.185318 | TGGTTAATCCTCAATTGCATCAAAT | 57.815 | 32.000 | 0.00 | 0.00 | 37.07 | 2.32 |
5706 | 7274 | 2.162408 | GTCAGGAACAATAGCTGGTTGC | 59.838 | 50.000 | 12.08 | 11.01 | 43.29 | 4.17 |
5743 | 7311 | 8.147058 | TCTAATAGTGAGAATTCTGGCAAGATC | 58.853 | 37.037 | 14.00 | 0.00 | 30.72 | 2.75 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
28 | 29 | 1.063488 | GCGCGTGGTTCAACAACTT | 59.937 | 52.632 | 8.43 | 0.00 | 32.50 | 2.66 |
85 | 86 | 3.385384 | CTCGCTGCTCCACCTCCA | 61.385 | 66.667 | 0.00 | 0.00 | 0.00 | 3.86 |
138 | 144 | 0.521735 | GCAGTTCTTTACAAGCCGGG | 59.478 | 55.000 | 2.18 | 0.00 | 0.00 | 5.73 |
214 | 238 | 1.341383 | GCAAGAATCACACCCCTCCAT | 60.341 | 52.381 | 0.00 | 0.00 | 0.00 | 3.41 |
351 | 384 | 0.402504 | ACACCTCCATTAAACCCGCA | 59.597 | 50.000 | 0.00 | 0.00 | 0.00 | 5.69 |
385 | 418 | 2.587889 | CCCCGGTGAATACGCCTT | 59.412 | 61.111 | 0.00 | 0.00 | 43.77 | 4.35 |
531 | 583 | 1.928706 | GCGCACATTTTTCGCCCCTA | 61.929 | 55.000 | 0.30 | 0.00 | 42.71 | 3.53 |
532 | 584 | 2.961768 | CGCACATTTTTCGCCCCT | 59.038 | 55.556 | 0.00 | 0.00 | 0.00 | 4.79 |
533 | 585 | 2.809174 | GCGCACATTTTTCGCCCC | 60.809 | 61.111 | 0.30 | 0.00 | 42.71 | 5.80 |
614 | 671 | 1.966451 | GTGTGAGAGGTTTGCGGGG | 60.966 | 63.158 | 0.00 | 0.00 | 0.00 | 5.73 |
629 | 691 | 1.404035 | GCAAACCGGAGACAAAAGTGT | 59.596 | 47.619 | 9.46 | 0.00 | 42.10 | 3.55 |
662 | 725 | 4.354155 | CTGCGGGACAGTTCGAAA | 57.646 | 55.556 | 0.00 | 0.00 | 41.86 | 3.46 |
763 | 896 | 5.799213 | CCTCGAAATATTAAGGGCATCTCT | 58.201 | 41.667 | 0.00 | 0.00 | 0.00 | 3.10 |
786 | 919 | 0.178068 | TCAAGGGCATCTCTAACCGC | 59.822 | 55.000 | 0.00 | 0.00 | 0.00 | 5.68 |
787 | 920 | 2.918712 | ATCAAGGGCATCTCTAACCG | 57.081 | 50.000 | 0.00 | 0.00 | 0.00 | 4.44 |
791 | 929 | 4.284490 | AGCGAAATATCAAGGGCATCTCTA | 59.716 | 41.667 | 0.00 | 0.00 | 0.00 | 2.43 |
830 | 996 | 7.872993 | CCTGACTTCCGAATATTGCTAAGATAA | 59.127 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
1342 | 1508 | 4.262506 | GCTGTATGGGGTCAGGAAGTATAC | 60.263 | 50.000 | 0.00 | 0.00 | 32.94 | 1.47 |
1422 | 1588 | 5.876460 | ACAGAAAAGAAATGCAAGCAAAACT | 59.124 | 32.000 | 0.00 | 0.00 | 0.00 | 2.66 |
1438 | 1605 | 4.461405 | CAGCACGAAATCTCACAGAAAAG | 58.539 | 43.478 | 0.00 | 0.00 | 0.00 | 2.27 |
1454 | 1621 | 3.242543 | GGAAAATATCACTCTGCAGCACG | 60.243 | 47.826 | 9.47 | 2.20 | 0.00 | 5.34 |
1464 | 1631 | 2.093658 | AGACGGCGTGGAAAATATCACT | 60.094 | 45.455 | 21.19 | 0.00 | 0.00 | 3.41 |
1478 | 1648 | 2.515912 | GCATTCCTTTTTAAGACGGCG | 58.484 | 47.619 | 4.80 | 4.80 | 0.00 | 6.46 |
1571 | 1742 | 0.252558 | ACTCACCCCGGTAGGACAAT | 60.253 | 55.000 | 0.00 | 0.00 | 41.02 | 2.71 |
1619 | 1795 | 2.200373 | AACTACCACCTGCCATCAAC | 57.800 | 50.000 | 0.00 | 0.00 | 0.00 | 3.18 |
1621 | 1797 | 2.513753 | CAAAACTACCACCTGCCATCA | 58.486 | 47.619 | 0.00 | 0.00 | 0.00 | 3.07 |
1644 | 1820 | 1.544246 | GTGGCCCTGTCCAATTAACAC | 59.456 | 52.381 | 0.00 | 0.00 | 37.96 | 3.32 |
1647 | 1823 | 2.042297 | TGATGTGGCCCTGTCCAATTAA | 59.958 | 45.455 | 0.00 | 0.00 | 37.96 | 1.40 |
1703 | 1880 | 5.829924 | CCTGTAATAACATCAAAGAGCCCAT | 59.170 | 40.000 | 0.00 | 0.00 | 34.37 | 4.00 |
1721 | 1898 | 8.478775 | ACAAGAGTATATCATACAGCCTGTAA | 57.521 | 34.615 | 8.93 | 0.00 | 36.31 | 2.41 |
1722 | 1899 | 8.478775 | AACAAGAGTATATCATACAGCCTGTA | 57.521 | 34.615 | 7.09 | 7.09 | 37.24 | 2.74 |
1723 | 1900 | 6.985653 | ACAAGAGTATATCATACAGCCTGT | 57.014 | 37.500 | 1.54 | 1.54 | 0.00 | 4.00 |
1774 | 1953 | 6.073112 | ACAATGCCAATTTGCACTTGATAAAC | 60.073 | 34.615 | 21.94 | 0.00 | 45.48 | 2.01 |
1781 | 1960 | 3.543665 | ACAACAATGCCAATTTGCACTT | 58.456 | 36.364 | 6.32 | 0.51 | 45.48 | 3.16 |
1835 | 2025 | 9.869844 | CGATAAGCTCAAGATTATTAAAAGGTG | 57.130 | 33.333 | 2.35 | 0.00 | 36.83 | 4.00 |
1836 | 2026 | 9.832445 | TCGATAAGCTCAAGATTATTAAAAGGT | 57.168 | 29.630 | 2.35 | 0.00 | 36.83 | 3.50 |
1846 | 2036 | 8.616076 | CCAACTAAATTCGATAAGCTCAAGATT | 58.384 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
1847 | 2037 | 7.770897 | ACCAACTAAATTCGATAAGCTCAAGAT | 59.229 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
1848 | 2038 | 7.103641 | ACCAACTAAATTCGATAAGCTCAAGA | 58.896 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
1849 | 2039 | 7.308782 | ACCAACTAAATTCGATAAGCTCAAG | 57.691 | 36.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1850 | 2040 | 7.361713 | CCAACCAACTAAATTCGATAAGCTCAA | 60.362 | 37.037 | 0.00 | 0.00 | 0.00 | 3.02 |
1851 | 2041 | 6.093495 | CCAACCAACTAAATTCGATAAGCTCA | 59.907 | 38.462 | 0.00 | 0.00 | 0.00 | 4.26 |
1852 | 2042 | 6.093633 | ACCAACCAACTAAATTCGATAAGCTC | 59.906 | 38.462 | 0.00 | 0.00 | 0.00 | 4.09 |
1853 | 2043 | 5.944007 | ACCAACCAACTAAATTCGATAAGCT | 59.056 | 36.000 | 0.00 | 0.00 | 0.00 | 3.74 |
1854 | 2044 | 6.190954 | ACCAACCAACTAAATTCGATAAGC | 57.809 | 37.500 | 0.00 | 0.00 | 0.00 | 3.09 |
1855 | 2045 | 8.259049 | TGTACCAACCAACTAAATTCGATAAG | 57.741 | 34.615 | 0.00 | 0.00 | 0.00 | 1.73 |
1856 | 2046 | 8.670135 | CATGTACCAACCAACTAAATTCGATAA | 58.330 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
1916 | 2106 | 5.705905 | AGAGAATACAAGCCTTTACCAACAC | 59.294 | 40.000 | 0.00 | 0.00 | 0.00 | 3.32 |
1923 | 2113 | 7.903145 | TCACACTAAGAGAATACAAGCCTTTA | 58.097 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
1942 | 2135 | 0.534412 | CTCGATGAAGGGCTCACACT | 59.466 | 55.000 | 0.00 | 0.00 | 36.69 | 3.55 |
1960 | 2153 | 3.198417 | CCTTTTAATGGCAATTGGCTCCT | 59.802 | 43.478 | 29.53 | 17.18 | 44.01 | 3.69 |
2048 | 2245 | 1.831652 | CGAGGACCAGCAGGGAAACT | 61.832 | 60.000 | 0.00 | 0.00 | 41.15 | 2.66 |
2072 | 2269 | 7.175467 | CCATGAAAATGCAATATCAGCTAGGTA | 59.825 | 37.037 | 0.00 | 0.00 | 0.00 | 3.08 |
2115 | 2347 | 2.372264 | ACTTGCTGAAATGGCGATGAT | 58.628 | 42.857 | 0.00 | 0.00 | 0.00 | 2.45 |
2160 | 2392 | 3.912496 | CCAGGAAGTGGTGTGATATCA | 57.088 | 47.619 | 0.00 | 0.00 | 42.17 | 2.15 |
2206 | 2438 | 1.040339 | TGGCACACCCCAACTTTGAC | 61.040 | 55.000 | 0.00 | 0.00 | 33.59 | 3.18 |
2219 | 2451 | 3.388024 | AGAACTTTAGACTGAGTGGCACA | 59.612 | 43.478 | 21.41 | 0.00 | 0.00 | 4.57 |
2245 | 2477 | 2.374184 | CGGCCCTTTTATGGATCAACA | 58.626 | 47.619 | 0.00 | 0.00 | 0.00 | 3.33 |
2257 | 2489 | 0.323360 | ACATGTATGTGCGGCCCTTT | 60.323 | 50.000 | 0.00 | 0.00 | 40.03 | 3.11 |
2271 | 2503 | 9.753674 | TCCTTGATAAAAAGAAGGATTACATGT | 57.246 | 29.630 | 2.69 | 2.69 | 40.30 | 3.21 |
2288 | 2520 | 5.314718 | ACATGATGCATCCTCCTTGATAA | 57.685 | 39.130 | 23.67 | 1.25 | 0.00 | 1.75 |
2319 | 2551 | 5.733620 | TGTAGAAGAACGGTGGAATTACT | 57.266 | 39.130 | 0.00 | 0.00 | 0.00 | 2.24 |
2392 | 2624 | 2.023673 | GCAAAGCTGGCACCACATATA | 58.976 | 47.619 | 5.80 | 0.00 | 0.00 | 0.86 |
2406 | 2638 | 8.265165 | AGGTGTAATAGTTAGTTAAGCAAAGC | 57.735 | 34.615 | 0.00 | 0.00 | 0.00 | 3.51 |
2409 | 2641 | 7.820872 | GGTGAGGTGTAATAGTTAGTTAAGCAA | 59.179 | 37.037 | 0.00 | 0.00 | 0.00 | 3.91 |
2411 | 2643 | 6.760298 | GGGTGAGGTGTAATAGTTAGTTAAGC | 59.240 | 42.308 | 0.00 | 0.00 | 0.00 | 3.09 |
2416 | 2648 | 3.131755 | GCGGGTGAGGTGTAATAGTTAGT | 59.868 | 47.826 | 0.00 | 0.00 | 0.00 | 2.24 |
2429 | 2661 | 0.177836 | TACATGTGATGCGGGTGAGG | 59.822 | 55.000 | 9.11 | 0.00 | 0.00 | 3.86 |
2438 | 2670 | 7.481275 | TGTATGCATACAAGTACATGTGATG | 57.519 | 36.000 | 32.21 | 12.93 | 40.08 | 3.07 |
2642 | 2874 | 0.332972 | ACCCAGGGATCCTTTTCTGC | 59.667 | 55.000 | 14.54 | 0.00 | 0.00 | 4.26 |
2753 | 2985 | 3.448301 | CCCAAGGAATCAGCAAGCAATAA | 59.552 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
2885 | 3117 | 4.095334 | GTCAAACATAATACCCGGGTGAAC | 59.905 | 45.833 | 36.97 | 13.79 | 0.00 | 3.18 |
2944 | 3176 | 3.797039 | TGAAATCAAGGTAGAGCATCCG | 58.203 | 45.455 | 0.00 | 0.00 | 33.66 | 4.18 |
3111 | 3343 | 9.809096 | ATAGACAAACTACATCTAGTGATTGTG | 57.191 | 33.333 | 3.74 | 0.00 | 35.45 | 3.33 |
3232 | 3464 | 2.716424 | CCCACCATAACCTCCACCATAT | 59.284 | 50.000 | 0.00 | 0.00 | 0.00 | 1.78 |
3304 | 3536 | 2.123511 | CCACCTTGGTTGTGGCCA | 60.124 | 61.111 | 0.00 | 0.00 | 46.13 | 5.36 |
3418 | 3650 | 5.253096 | GTCATAACCATAACCCCCTCCATAT | 59.747 | 44.000 | 0.00 | 0.00 | 0.00 | 1.78 |
3485 | 3717 | 8.539674 | CAACCTTGAATAACAGTAAGCAAAAAC | 58.460 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
3585 | 3818 | 3.054065 | ACCCAAAAAGGCATCCAAAAACA | 60.054 | 39.130 | 0.00 | 0.00 | 35.39 | 2.83 |
3722 | 3974 | 1.674057 | CCAGTTGCCTCTTCCTCGT | 59.326 | 57.895 | 0.00 | 0.00 | 0.00 | 4.18 |
3769 | 4022 | 7.678947 | ATTCATGCCTAAATAGACTGTATGC | 57.321 | 36.000 | 0.00 | 0.00 | 0.00 | 3.14 |
3811 | 4064 | 5.428253 | GAGTAAATGCACAAGATAGGTGGA | 58.572 | 41.667 | 0.00 | 0.00 | 40.90 | 4.02 |
3850 | 4103 | 0.469331 | CACTATGGGCGGAGGGAGTA | 60.469 | 60.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3851 | 4104 | 1.762460 | CACTATGGGCGGAGGGAGT | 60.762 | 63.158 | 0.00 | 0.00 | 0.00 | 3.85 |
3852 | 4105 | 0.469331 | TACACTATGGGCGGAGGGAG | 60.469 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3853 | 4106 | 0.031917 | TTACACTATGGGCGGAGGGA | 60.032 | 55.000 | 0.00 | 0.00 | 0.00 | 4.20 |
3854 | 4107 | 0.834612 | TTTACACTATGGGCGGAGGG | 59.165 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3855 | 4108 | 2.702592 | TTTTACACTATGGGCGGAGG | 57.297 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3872 | 4125 | 9.196139 | TCCGTCCCAAAATATAAGATCATTTTT | 57.804 | 29.630 | 0.00 | 0.00 | 33.23 | 1.94 |
3873 | 4126 | 8.760980 | TCCGTCCCAAAATATAAGATCATTTT | 57.239 | 30.769 | 0.00 | 0.00 | 35.30 | 1.82 |
3874 | 4127 | 7.448469 | CCTCCGTCCCAAAATATAAGATCATTT | 59.552 | 37.037 | 0.00 | 0.00 | 0.00 | 2.32 |
3875 | 4128 | 6.942576 | CCTCCGTCCCAAAATATAAGATCATT | 59.057 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
3876 | 4129 | 6.476378 | CCTCCGTCCCAAAATATAAGATCAT | 58.524 | 40.000 | 0.00 | 0.00 | 0.00 | 2.45 |
3877 | 4130 | 5.221843 | CCCTCCGTCCCAAAATATAAGATCA | 60.222 | 44.000 | 0.00 | 0.00 | 0.00 | 2.92 |
3878 | 4131 | 5.012768 | TCCCTCCGTCCCAAAATATAAGATC | 59.987 | 44.000 | 0.00 | 0.00 | 0.00 | 2.75 |
3879 | 4132 | 4.911522 | TCCCTCCGTCCCAAAATATAAGAT | 59.088 | 41.667 | 0.00 | 0.00 | 0.00 | 2.40 |
3880 | 4133 | 4.300345 | TCCCTCCGTCCCAAAATATAAGA | 58.700 | 43.478 | 0.00 | 0.00 | 0.00 | 2.10 |
3881 | 4134 | 4.102681 | ACTCCCTCCGTCCCAAAATATAAG | 59.897 | 45.833 | 0.00 | 0.00 | 0.00 | 1.73 |
3882 | 4135 | 4.042174 | ACTCCCTCCGTCCCAAAATATAA | 58.958 | 43.478 | 0.00 | 0.00 | 0.00 | 0.98 |
3883 | 4136 | 3.660959 | ACTCCCTCCGTCCCAAAATATA | 58.339 | 45.455 | 0.00 | 0.00 | 0.00 | 0.86 |
3884 | 4137 | 2.488836 | ACTCCCTCCGTCCCAAAATAT | 58.511 | 47.619 | 0.00 | 0.00 | 0.00 | 1.28 |
3885 | 4138 | 1.961133 | ACTCCCTCCGTCCCAAAATA | 58.039 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3886 | 4139 | 1.961133 | TACTCCCTCCGTCCCAAAAT | 58.039 | 50.000 | 0.00 | 0.00 | 0.00 | 1.82 |
3887 | 4140 | 1.626825 | CTTACTCCCTCCGTCCCAAAA | 59.373 | 52.381 | 0.00 | 0.00 | 0.00 | 2.44 |
3888 | 4141 | 1.272807 | CTTACTCCCTCCGTCCCAAA | 58.727 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
3889 | 4142 | 0.115745 | ACTTACTCCCTCCGTCCCAA | 59.884 | 55.000 | 0.00 | 0.00 | 0.00 | 4.12 |
3890 | 4143 | 1.002069 | TACTTACTCCCTCCGTCCCA | 58.998 | 55.000 | 0.00 | 0.00 | 0.00 | 4.37 |
3891 | 4144 | 1.753649 | GTTACTTACTCCCTCCGTCCC | 59.246 | 57.143 | 0.00 | 0.00 | 0.00 | 4.46 |
3892 | 4145 | 2.450476 | TGTTACTTACTCCCTCCGTCC | 58.550 | 52.381 | 0.00 | 0.00 | 0.00 | 4.79 |
3893 | 4146 | 4.732672 | ATTGTTACTTACTCCCTCCGTC | 57.267 | 45.455 | 0.00 | 0.00 | 0.00 | 4.79 |
3894 | 4147 | 6.803366 | ATTATTGTTACTTACTCCCTCCGT | 57.197 | 37.500 | 0.00 | 0.00 | 0.00 | 4.69 |
3895 | 4148 | 7.985752 | AGAAATTATTGTTACTTACTCCCTCCG | 59.014 | 37.037 | 0.00 | 0.00 | 0.00 | 4.63 |
3896 | 4149 | 9.110502 | CAGAAATTATTGTTACTTACTCCCTCC | 57.889 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
3897 | 4150 | 8.613482 | GCAGAAATTATTGTTACTTACTCCCTC | 58.387 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
3898 | 4151 | 8.329502 | AGCAGAAATTATTGTTACTTACTCCCT | 58.670 | 33.333 | 0.00 | 0.00 | 0.00 | 4.20 |
3899 | 4152 | 8.398665 | CAGCAGAAATTATTGTTACTTACTCCC | 58.601 | 37.037 | 0.00 | 0.00 | 0.00 | 4.30 |
3900 | 4153 | 7.910683 | GCAGCAGAAATTATTGTTACTTACTCC | 59.089 | 37.037 | 0.00 | 0.00 | 0.00 | 3.85 |
3901 | 4154 | 8.669243 | AGCAGCAGAAATTATTGTTACTTACTC | 58.331 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
3902 | 4155 | 8.454106 | CAGCAGCAGAAATTATTGTTACTTACT | 58.546 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
3903 | 4156 | 8.450964 | TCAGCAGCAGAAATTATTGTTACTTAC | 58.549 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
3970 | 4223 | 9.148104 | GTAATTAAAACCTGTTCTATCGTCACT | 57.852 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
4031 | 4285 | 4.336433 | TGTGACTGAGCAAGGAAAGAAAAG | 59.664 | 41.667 | 0.00 | 0.00 | 0.00 | 2.27 |
4040 | 4294 | 1.310933 | GCCCATGTGACTGAGCAAGG | 61.311 | 60.000 | 0.00 | 0.00 | 0.00 | 3.61 |
4057 | 4311 | 6.710295 | TCTGAATGTGTATATACCACAATGCC | 59.290 | 38.462 | 16.72 | 9.97 | 32.25 | 4.40 |
4153 | 4407 | 7.496529 | ACACATGTGCATGGTCTAAATATAC | 57.503 | 36.000 | 25.68 | 0.00 | 42.91 | 1.47 |
4169 | 4423 | 9.292846 | CTTGGAAATGATTACAATACACATGTG | 57.707 | 33.333 | 24.25 | 24.25 | 38.67 | 3.21 |
4179 | 4433 | 5.774690 | AGTTCAGGCTTGGAAATGATTACAA | 59.225 | 36.000 | 0.00 | 0.00 | 37.02 | 2.41 |
4235 | 4490 | 5.819379 | TGCATCCTTTCTCTAAAGCACATAG | 59.181 | 40.000 | 0.00 | 0.00 | 40.73 | 2.23 |
4909 | 5201 | 4.082463 | TGAAGGTCTCTTTTGCAAAACGTT | 60.082 | 37.500 | 20.46 | 17.68 | 32.52 | 3.99 |
4931 | 5223 | 5.447818 | CCTTTCGTTGATTTAGCTAGGCTTG | 60.448 | 44.000 | 0.00 | 0.00 | 40.44 | 4.01 |
4954 | 5246 | 1.450025 | GAACTGGGTTTCGGATGTCC | 58.550 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
5231 | 6778 | 9.802039 | TTTCCAAATAAGGTTGTACAGTATTCT | 57.198 | 29.630 | 0.00 | 0.00 | 0.00 | 2.40 |
5331 | 6878 | 5.464965 | GCATCTTTTGCCAGAATCATTTG | 57.535 | 39.130 | 0.00 | 0.00 | 46.15 | 2.32 |
5457 | 7004 | 3.126343 | GCGATGTTCCCACGAAAAATACT | 59.874 | 43.478 | 0.00 | 0.00 | 0.00 | 2.12 |
5458 | 7005 | 3.120130 | TGCGATGTTCCCACGAAAAATAC | 60.120 | 43.478 | 0.00 | 0.00 | 0.00 | 1.89 |
5459 | 7006 | 3.075148 | TGCGATGTTCCCACGAAAAATA | 58.925 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
5460 | 7007 | 1.883275 | TGCGATGTTCCCACGAAAAAT | 59.117 | 42.857 | 0.00 | 0.00 | 0.00 | 1.82 |
5461 | 7008 | 1.309950 | TGCGATGTTCCCACGAAAAA | 58.690 | 45.000 | 0.00 | 0.00 | 0.00 | 1.94 |
5463 | 7010 | 0.871722 | CTTGCGATGTTCCCACGAAA | 59.128 | 50.000 | 0.00 | 0.00 | 0.00 | 3.46 |
5645 | 7213 | 6.602410 | TTTGATGCAATTGAGGATTAACCA | 57.398 | 33.333 | 10.34 | 0.00 | 42.04 | 3.67 |
5669 | 7237 | 4.206375 | TCCTGACTTCATTTTTGTGCAGA | 58.794 | 39.130 | 0.00 | 0.00 | 0.00 | 4.26 |
5706 | 7274 | 9.877178 | AATTCTCACTATTAGAACCTGTACTTG | 57.123 | 33.333 | 0.00 | 0.00 | 35.87 | 3.16 |
5743 | 7311 | 9.350357 | CTCACTAATTTTCATGTTCCAGATTTG | 57.650 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.