Multiple sequence alignment - TraesCS7D01G454400
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 | TraesCS7D01G454400 | chr7D | 100.000 | 5155 | 0 | 0 | 1 | 5155 | 573819322 | 573824476 | 0.000000e+00 | 9520.0 |
1 | TraesCS7D01G454400 | chr7B | 94.447 | 2341 | 96 | 12 | 2826 | 5155 | 632653917 | 632656234 | 0.000000e+00 | 3572.0 |
2 | TraesCS7D01G454400 | chr7B | 91.542 | 1206 | 47 | 16 | 1 | 1188 | 632650532 | 632651700 | 0.000000e+00 | 1611.0 |
3 | TraesCS7D01G454400 | chr7B | 94.609 | 946 | 39 | 6 | 1893 | 2828 | 632651689 | 632652632 | 0.000000e+00 | 1454.0 |
4 | TraesCS7D01G454400 | chr7B | 73.595 | 1352 | 298 | 40 | 2833 | 4156 | 706085288 | 706083968 | 1.010000e-126 | 464.0 |
5 | TraesCS7D01G454400 | chr7B | 76.051 | 856 | 126 | 49 | 3858 | 4693 | 683327579 | 683326783 | 6.300000e-99 | 372.0 |
6 | TraesCS7D01G454400 | chr6A | 88.812 | 724 | 43 | 18 | 1178 | 1895 | 100364552 | 100365243 | 0.000000e+00 | 854.0 |
7 | TraesCS7D01G454400 | chr6A | 91.892 | 370 | 23 | 7 | 1534 | 1898 | 596518588 | 596518955 | 1.280000e-140 | 510.0 |
8 | TraesCS7D01G454400 | chr6A | 94.769 | 325 | 15 | 2 | 1189 | 1512 | 54483595 | 54483918 | 5.960000e-139 | 505.0 |
9 | TraesCS7D01G454400 | chr2A | 93.716 | 366 | 18 | 5 | 1534 | 1895 | 709839408 | 709839772 | 1.260000e-150 | 544.0 |
10 | TraesCS7D01G454400 | chr2A | 92.836 | 335 | 22 | 2 | 1188 | 1522 | 584069595 | 584069927 | 7.760000e-133 | 484.0 |
11 | TraesCS7D01G454400 | chr2A | 75.825 | 1030 | 154 | 53 | 3863 | 4858 | 563203 | 562235 | 7.930000e-118 | 435.0 |
12 | TraesCS7D01G454400 | chr2A | 77.582 | 397 | 79 | 10 | 2430 | 2821 | 513526 | 513917 | 1.120000e-56 | 231.0 |
13 | TraesCS7D01G454400 | chr5A | 93.407 | 364 | 18 | 6 | 1534 | 1893 | 705763224 | 705763585 | 7.600000e-148 | 534.0 |
14 | TraesCS7D01G454400 | chr5A | 92.582 | 364 | 22 | 5 | 1534 | 1893 | 448308179 | 448307817 | 7.650000e-143 | 518.0 |
15 | TraesCS7D01G454400 | chr5A | 92.836 | 335 | 21 | 3 | 1188 | 1522 | 620404133 | 620404464 | 2.790000e-132 | 483.0 |
16 | TraesCS7D01G454400 | chr4B | 92.857 | 364 | 22 | 4 | 1534 | 1893 | 665799682 | 665800045 | 4.570000e-145 | 525.0 |
17 | TraesCS7D01G454400 | chr4B | 95.745 | 47 | 1 | 1 | 5110 | 5155 | 113965670 | 113965624 | 1.990000e-09 | 75.0 |
18 | TraesCS7D01G454400 | chr5D | 92.541 | 362 | 23 | 4 | 1543 | 1900 | 130173689 | 130173328 | 2.750000e-142 | 516.0 |
19 | TraesCS7D01G454400 | chr5D | 92.899 | 338 | 20 | 4 | 1185 | 1522 | 130174392 | 130174059 | 6.000000e-134 | 488.0 |
20 | TraesCS7D01G454400 | chr5D | 79.461 | 297 | 58 | 3 | 3860 | 4155 | 404468906 | 404469200 | 1.880000e-49 | 207.0 |
21 | TraesCS7D01G454400 | chr5D | 79.464 | 112 | 17 | 4 | 16 | 126 | 385694053 | 385694159 | 1.990000e-09 | 75.0 |
22 | TraesCS7D01G454400 | chr4A | 93.660 | 347 | 19 | 3 | 1180 | 1525 | 609940412 | 609940068 | 2.750000e-142 | 516.0 |
23 | TraesCS7D01G454400 | chr4A | 76.303 | 211 | 37 | 7 | 3 | 212 | 636583137 | 636582939 | 3.280000e-17 | 100.0 |
24 | TraesCS7D01G454400 | chr3A | 91.667 | 372 | 24 | 7 | 1534 | 1899 | 715170099 | 715170469 | 4.610000e-140 | 508.0 |
25 | TraesCS7D01G454400 | chr3A | 94.242 | 330 | 17 | 2 | 1184 | 1512 | 9810503 | 9810831 | 2.140000e-138 | 503.0 |
26 | TraesCS7D01G454400 | chr3A | 91.761 | 352 | 25 | 4 | 1175 | 1525 | 67577381 | 67577033 | 2.160000e-133 | 486.0 |
27 | TraesCS7D01G454400 | chr3A | 92.353 | 340 | 22 | 4 | 1188 | 1525 | 658057577 | 658057240 | 1.000000e-131 | 481.0 |
28 | TraesCS7D01G454400 | chr1A | 91.870 | 369 | 22 | 6 | 1534 | 1895 | 535391566 | 535391933 | 4.610000e-140 | 508.0 |
29 | TraesCS7D01G454400 | chr1A | 84.375 | 128 | 13 | 5 | 4922 | 5045 | 588015292 | 588015416 | 9.070000e-23 | 119.0 |
30 | TraesCS7D01G454400 | chr1A | 81.560 | 141 | 23 | 3 | 4899 | 5037 | 552268778 | 552268639 | 4.220000e-21 | 113.0 |
31 | TraesCS7D01G454400 | chr7A | 93.510 | 339 | 20 | 2 | 1184 | 1522 | 686116265 | 686115929 | 2.140000e-138 | 503.0 |
32 | TraesCS7D01G454400 | chr2B | 82.095 | 296 | 41 | 9 | 2444 | 2733 | 10770034 | 10770323 | 5.160000e-60 | 243.0 |
33 | TraesCS7D01G454400 | chr2B | 88.393 | 112 | 11 | 2 | 4928 | 5037 | 644546677 | 644546566 | 3.240000e-27 | 134.0 |
34 | TraesCS7D01G454400 | chr2B | 84.127 | 126 | 19 | 1 | 4916 | 5040 | 380000437 | 380000312 | 2.520000e-23 | 121.0 |
35 | TraesCS7D01G454400 | chr2B | 86.486 | 74 | 7 | 2 | 5085 | 5155 | 329481041 | 329480968 | 1.540000e-10 | 78.7 |
36 | TraesCS7D01G454400 | chr2D | 79.495 | 317 | 56 | 7 | 2421 | 2734 | 634850105 | 634850415 | 3.130000e-52 | 217.0 |
37 | TraesCS7D01G454400 | chr2D | 84.103 | 195 | 27 | 4 | 215 | 408 | 634835605 | 634835796 | 8.810000e-43 | 185.0 |
38 | TraesCS7D01G454400 | chr2D | 79.276 | 304 | 30 | 22 | 417 | 688 | 634848849 | 634849151 | 1.140000e-41 | 182.0 |
39 | TraesCS7D01G454400 | chr2D | 81.538 | 195 | 30 | 5 | 18 | 211 | 410020580 | 410020769 | 6.910000e-34 | 156.0 |
40 | TraesCS7D01G454400 | chr2D | 84.946 | 93 | 6 | 6 | 5070 | 5155 | 622877577 | 622877668 | 2.560000e-13 | 87.9 |
41 | TraesCS7D01G454400 | chr2D | 78.992 | 119 | 23 | 2 | 94 | 211 | 651502495 | 651502612 | 4.280000e-11 | 80.5 |
42 | TraesCS7D01G454400 | chr2D | 91.111 | 45 | 4 | 0 | 215 | 259 | 511182 | 511226 | 1.550000e-05 | 62.1 |
43 | TraesCS7D01G454400 | chr5B | 79.195 | 298 | 59 | 3 | 3860 | 4155 | 485883221 | 485883517 | 2.430000e-48 | 204.0 |
44 | TraesCS7D01G454400 | chr5B | 94.118 | 51 | 3 | 0 | 16 | 66 | 34748671 | 34748721 | 1.540000e-10 | 78.7 |
45 | TraesCS7D01G454400 | chr5B | 95.745 | 47 | 1 | 1 | 5110 | 5155 | 513600431 | 513600385 | 1.990000e-09 | 75.0 |
46 | TraesCS7D01G454400 | chr1D | 82.915 | 199 | 28 | 4 | 16 | 213 | 17176284 | 17176477 | 1.910000e-39 | 174.0 |
47 | TraesCS7D01G454400 | chr1D | 83.077 | 65 | 11 | 0 | 149 | 213 | 479129563 | 479129627 | 5.570000e-05 | 60.2 |
48 | TraesCS7D01G454400 | chr3B | 72.182 | 550 | 125 | 20 | 3182 | 3726 | 733445447 | 733444921 | 5.380000e-30 | 143.0 |
49 | TraesCS7D01G454400 | chr3B | 79.558 | 181 | 30 | 4 | 35 | 213 | 662366068 | 662365893 | 7.010000e-24 | 122.0 |
50 | TraesCS7D01G454400 | chr3B | 86.486 | 74 | 7 | 2 | 5085 | 5155 | 215616055 | 215616128 | 1.540000e-10 | 78.7 |
51 | TraesCS7D01G454400 | chr3B | 86.111 | 72 | 8 | 2 | 5085 | 5155 | 366143489 | 366143419 | 5.540000e-10 | 76.8 |
52 | TraesCS7D01G454400 | chr1B | 84.848 | 132 | 19 | 1 | 4906 | 5037 | 189057554 | 189057424 | 1.160000e-26 | 132.0 |
53 | TraesCS7D01G454400 | chr1B | 78.090 | 178 | 33 | 6 | 38 | 213 | 520977756 | 520977583 | 1.960000e-19 | 108.0 |
54 | TraesCS7D01G454400 | chr1B | 83.621 | 116 | 12 | 5 | 16 | 129 | 24940076 | 24940186 | 9.130000e-18 | 102.0 |
55 | TraesCS7D01G454400 | chr1B | 76.757 | 185 | 30 | 7 | 38 | 213 | 357452903 | 357453083 | 1.980000e-14 | 91.6 |
56 | TraesCS7D01G454400 | chr4D | 88.073 | 109 | 12 | 1 | 4933 | 5040 | 289728318 | 289728426 | 1.510000e-25 | 128.0 |
57 | TraesCS7D01G454400 | chr3D | 88.073 | 109 | 12 | 1 | 4933 | 5040 | 140384831 | 140384939 | 1.510000e-25 | 128.0 |
58 | TraesCS7D01G454400 | chr3D | 79.558 | 181 | 29 | 5 | 35 | 213 | 500846562 | 500846388 | 7.010000e-24 | 122.0 |
59 | TraesCS7D01G454400 | chr6D | 87.156 | 109 | 13 | 1 | 4933 | 5040 | 141364580 | 141364688 | 7.010000e-24 | 122.0 |
60 | TraesCS7D01G454400 | chr6D | 86.667 | 75 | 7 | 2 | 5084 | 5155 | 34021256 | 34021182 | 4.280000e-11 | 80.5 |
61 | TraesCS7D01G454400 | chr6B | 83.516 | 91 | 10 | 5 | 5 | 92 | 37240778 | 37240866 | 4.280000e-11 | 80.5 |
62 | TraesCS7D01G454400 | chr6B | 94.231 | 52 | 1 | 2 | 5105 | 5155 | 408686295 | 408686245 | 1.540000e-10 | 78.7 |
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 | TraesCS7D01G454400 | chr7D | 573819322 | 573824476 | 5154 | False | 9520.000000 | 9520 | 100.000000 | 1 | 5155 | 1 | chr7D.!!$F1 | 5154 |
1 | TraesCS7D01G454400 | chr7B | 632650532 | 632656234 | 5702 | False | 2212.333333 | 3572 | 93.532667 | 1 | 5155 | 3 | chr7B.!!$F1 | 5154 |
2 | TraesCS7D01G454400 | chr7B | 706083968 | 706085288 | 1320 | True | 464.000000 | 464 | 73.595000 | 2833 | 4156 | 1 | chr7B.!!$R2 | 1323 |
3 | TraesCS7D01G454400 | chr7B | 683326783 | 683327579 | 796 | True | 372.000000 | 372 | 76.051000 | 3858 | 4693 | 1 | chr7B.!!$R1 | 835 |
4 | TraesCS7D01G454400 | chr6A | 100364552 | 100365243 | 691 | False | 854.000000 | 854 | 88.812000 | 1178 | 1895 | 1 | chr6A.!!$F2 | 717 |
5 | TraesCS7D01G454400 | chr2A | 562235 | 563203 | 968 | True | 435.000000 | 435 | 75.825000 | 3863 | 4858 | 1 | chr2A.!!$R1 | 995 |
6 | TraesCS7D01G454400 | chr5D | 130173328 | 130174392 | 1064 | True | 502.000000 | 516 | 92.720000 | 1185 | 1900 | 2 | chr5D.!!$R1 | 715 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
616 | 620 | 0.166814 | GTCGGCAACACTCTGCAATC | 59.833 | 55.0 | 0.00 | 0.00 | 44.52 | 2.67 | F |
2010 | 2389 | 0.179078 | CAAGAGCTGCTAGGAGCCTG | 60.179 | 60.0 | 30.12 | 21.03 | 41.51 | 4.85 | F |
2275 | 2655 | 0.865769 | AAGTAGAGGCGTTGTTTGCG | 59.134 | 50.0 | 0.00 | 0.00 | 0.00 | 4.85 | F |
3153 | 4827 | 0.392193 | CAGCAACGAGAAGATGGGCT | 60.392 | 55.0 | 0.00 | 0.00 | 0.00 | 5.19 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2514 | 2898 | 0.032017 | AGATACGGAGGAGGGTGCTT | 60.032 | 55.0 | 0.00 | 0.00 | 0.00 | 3.91 | R |
3153 | 4827 | 0.761187 | GGCCCTGATATGCTGTCAGA | 59.239 | 55.0 | 3.32 | 0.00 | 44.57 | 3.27 | R |
3639 | 5322 | 1.033202 | TACCTATGAGCACGTGCCGA | 61.033 | 55.0 | 35.51 | 23.13 | 43.38 | 5.54 | R |
5120 | 6861 | 0.420272 | AGCTAGGGTTAGGTTCCCCA | 59.580 | 55.0 | 0.00 | 0.00 | 45.64 | 4.96 | 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 |
---|---|---|---|---|---|---|---|---|---|
52 | 53 | 5.975693 | TCCAAACTTTAATGAAATCCGCT | 57.024 | 34.783 | 0.00 | 0.00 | 0.00 | 5.52 |
73 | 74 | 7.121168 | TCCGCTGTCTTTGAATGAATTTTATCT | 59.879 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
74 | 75 | 8.397906 | CCGCTGTCTTTGAATGAATTTTATCTA | 58.602 | 33.333 | 0.00 | 0.00 | 0.00 | 1.98 |
125 | 126 | 2.796651 | CGAGCAGCTTTGGATGGC | 59.203 | 61.111 | 0.00 | 0.00 | 0.00 | 4.40 |
147 | 148 | 0.179009 | CCTCCGGCATCAATGTCCAT | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
154 | 155 | 2.646930 | GCATCAATGTCCATGGACTGA | 58.353 | 47.619 | 37.92 | 33.23 | 44.80 | 3.41 |
162 | 163 | 0.948816 | TCCATGGACTGATCCCCCTA | 59.051 | 55.000 | 11.44 | 0.00 | 45.59 | 3.53 |
213 | 214 | 3.197790 | CAGCGTTGGAGATGCCCG | 61.198 | 66.667 | 0.00 | 0.00 | 41.38 | 6.13 |
266 | 267 | 4.107622 | GCACTGTATCACATGCATTTTCC | 58.892 | 43.478 | 0.00 | 0.00 | 34.80 | 3.13 |
278 | 279 | 1.136000 | GCATTTTCCGCACAAAATGGC | 60.136 | 47.619 | 22.42 | 14.90 | 46.92 | 4.40 |
279 | 280 | 2.141517 | CATTTTCCGCACAAAATGGCA | 58.858 | 42.857 | 16.99 | 0.00 | 44.73 | 4.92 |
280 | 281 | 1.863267 | TTTTCCGCACAAAATGGCAG | 58.137 | 45.000 | 0.00 | 0.00 | 0.00 | 4.85 |
281 | 282 | 0.599728 | TTTCCGCACAAAATGGCAGC | 60.600 | 50.000 | 0.00 | 0.00 | 0.00 | 5.25 |
282 | 283 | 1.462731 | TTCCGCACAAAATGGCAGCT | 61.463 | 50.000 | 0.00 | 0.00 | 0.00 | 4.24 |
283 | 284 | 1.005867 | CCGCACAAAATGGCAGCTT | 60.006 | 52.632 | 0.00 | 0.00 | 0.00 | 3.74 |
284 | 285 | 0.600782 | CCGCACAAAATGGCAGCTTT | 60.601 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
285 | 286 | 0.509499 | CGCACAAAATGGCAGCTTTG | 59.491 | 50.000 | 18.30 | 18.30 | 38.29 | 2.77 |
286 | 287 | 0.869730 | GCACAAAATGGCAGCTTTGG | 59.130 | 50.000 | 21.84 | 14.57 | 36.94 | 3.28 |
287 | 288 | 1.515081 | CACAAAATGGCAGCTTTGGG | 58.485 | 50.000 | 21.84 | 17.05 | 36.94 | 4.12 |
288 | 289 | 0.250424 | ACAAAATGGCAGCTTTGGGC | 60.250 | 50.000 | 21.84 | 0.00 | 36.94 | 5.36 |
327 | 328 | 3.843027 | CTGGATATACTTCCTCCATGGCT | 59.157 | 47.826 | 6.96 | 0.00 | 38.36 | 4.75 |
341 | 342 | 0.401738 | ATGGCTGCTTGTGGTAGTGT | 59.598 | 50.000 | 0.00 | 0.00 | 0.00 | 3.55 |
408 | 409 | 2.598787 | CCCCTCCCGCACACCTTTA | 61.599 | 63.158 | 0.00 | 0.00 | 0.00 | 1.85 |
414 | 415 | 2.167693 | CTCCCGCACACCTTTAGATACA | 59.832 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
416 | 417 | 2.277084 | CCGCACACCTTTAGATACACC | 58.723 | 52.381 | 0.00 | 0.00 | 0.00 | 4.16 |
417 | 418 | 2.093658 | CCGCACACCTTTAGATACACCT | 60.094 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
573 | 577 | 4.271696 | GGCCAAAACTAAAGCCAAAGAT | 57.728 | 40.909 | 0.00 | 0.00 | 45.07 | 2.40 |
616 | 620 | 0.166814 | GTCGGCAACACTCTGCAATC | 59.833 | 55.000 | 0.00 | 0.00 | 44.52 | 2.67 |
709 | 713 | 2.486918 | CAACCGCATCATAGATCAGCA | 58.513 | 47.619 | 0.00 | 0.00 | 0.00 | 4.41 |
730 | 734 | 2.034879 | CAAGGTGTGCCAGCCTACG | 61.035 | 63.158 | 1.45 | 0.00 | 37.19 | 3.51 |
734 | 738 | 1.078426 | GTGTGCCAGCCTACGGATT | 60.078 | 57.895 | 0.00 | 0.00 | 0.00 | 3.01 |
747 | 751 | 4.735873 | GCCTACGGATTAAGGTGACACTAC | 60.736 | 50.000 | 5.39 | 0.00 | 35.16 | 2.73 |
763 | 767 | 6.638873 | GTGACACTACTGATATGATTCTTCCG | 59.361 | 42.308 | 0.00 | 0.00 | 0.00 | 4.30 |
805 | 809 | 8.691797 | TCAGGTTAATTACTTGCAGTTTCTTTT | 58.308 | 29.630 | 0.00 | 0.00 | 34.06 | 2.27 |
983 | 991 | 3.373565 | CCTTTGCCGGGCCTTCAC | 61.374 | 66.667 | 17.97 | 0.00 | 0.00 | 3.18 |
1004 | 1012 | 3.201290 | CTGGAACACTAGTCATCATGCC | 58.799 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
1009 | 1026 | 2.360483 | ACACTAGTCATCATGCCTCGAG | 59.640 | 50.000 | 5.13 | 5.13 | 0.00 | 4.04 |
1013 | 1030 | 2.314246 | AGTCATCATGCCTCGAGATCA | 58.686 | 47.619 | 15.71 | 11.85 | 0.00 | 2.92 |
1025 | 1042 | 5.365403 | CCTCGAGATCAAGAGGTACATAC | 57.635 | 47.826 | 21.60 | 0.00 | 46.68 | 2.39 |
1026 | 1043 | 5.067273 | CCTCGAGATCAAGAGGTACATACT | 58.933 | 45.833 | 21.60 | 0.00 | 46.68 | 2.12 |
1036 | 1053 | 6.043938 | TCAAGAGGTACATACTTTTTCCACCT | 59.956 | 38.462 | 0.00 | 0.00 | 37.62 | 4.00 |
1082 | 1101 | 6.441222 | TCTCCCAATGTAGACCAGTAATACT | 58.559 | 40.000 | 0.00 | 0.00 | 0.00 | 2.12 |
1083 | 1102 | 6.901300 | TCTCCCAATGTAGACCAGTAATACTT | 59.099 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
1084 | 1103 | 7.402071 | TCTCCCAATGTAGACCAGTAATACTTT | 59.598 | 37.037 | 0.00 | 0.00 | 0.00 | 2.66 |
1085 | 1104 | 7.562135 | TCCCAATGTAGACCAGTAATACTTTC | 58.438 | 38.462 | 0.00 | 0.00 | 0.00 | 2.62 |
1086 | 1105 | 7.402071 | TCCCAATGTAGACCAGTAATACTTTCT | 59.598 | 37.037 | 6.56 | 6.56 | 0.00 | 2.52 |
1087 | 1106 | 8.047310 | CCCAATGTAGACCAGTAATACTTTCTT | 58.953 | 37.037 | 6.62 | 0.00 | 0.00 | 2.52 |
1088 | 1107 | 9.099454 | CCAATGTAGACCAGTAATACTTTCTTC | 57.901 | 37.037 | 6.62 | 3.60 | 0.00 | 2.87 |
1089 | 1108 | 9.877178 | CAATGTAGACCAGTAATACTTTCTTCT | 57.123 | 33.333 | 6.62 | 2.25 | 0.00 | 2.85 |
1090 | 1109 | 9.877178 | AATGTAGACCAGTAATACTTTCTTCTG | 57.123 | 33.333 | 6.62 | 0.00 | 0.00 | 3.02 |
1091 | 1110 | 7.837863 | TGTAGACCAGTAATACTTTCTTCTGG | 58.162 | 38.462 | 6.62 | 7.36 | 45.24 | 3.86 |
1094 | 1113 | 5.803020 | CCAGTAATACTTTCTTCTGGTGC | 57.197 | 43.478 | 0.00 | 0.00 | 38.01 | 5.01 |
1095 | 1114 | 5.245531 | CCAGTAATACTTTCTTCTGGTGCA | 58.754 | 41.667 | 0.00 | 0.00 | 38.01 | 4.57 |
1122 | 1141 | 8.268605 | TGGTATGCTAATCATAAAACAGGTACA | 58.731 | 33.333 | 0.00 | 0.00 | 39.22 | 2.90 |
1131 | 1150 | 9.601217 | AATCATAAAACAGGTACATACAGTCTC | 57.399 | 33.333 | 0.00 | 0.00 | 0.00 | 3.36 |
1132 | 1151 | 7.553334 | TCATAAAACAGGTACATACAGTCTCC | 58.447 | 38.462 | 0.00 | 0.00 | 0.00 | 3.71 |
1258 | 1277 | 1.133363 | TCCCTCAACTCCAAAACCGA | 58.867 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
1302 | 1321 | 3.009033 | TGAAACCGGACAAGATTCATCCT | 59.991 | 43.478 | 9.46 | 0.00 | 0.00 | 3.24 |
1312 | 1331 | 1.909302 | AGATTCATCCTTGGTCACGGT | 59.091 | 47.619 | 0.00 | 0.00 | 0.00 | 4.83 |
1319 | 1338 | 1.210967 | TCCTTGGTCACGGTTTTGACT | 59.789 | 47.619 | 4.18 | 0.00 | 44.63 | 3.41 |
1368 | 1387 | 3.207778 | TGACCGTTCCGACTCAAATTTT | 58.792 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
1411 | 1430 | 7.539366 | CCACGTAATGTTTTCAAATTCGGTTAT | 59.461 | 33.333 | 0.00 | 0.00 | 0.00 | 1.89 |
1487 | 1507 | 7.739498 | ACGTACTTTTTCCAAGTTCATGTAT | 57.261 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
1488 | 1508 | 8.161699 | ACGTACTTTTTCCAAGTTCATGTATT | 57.838 | 30.769 | 0.00 | 0.00 | 0.00 | 1.89 |
1522 | 1542 | 9.912634 | AATATGTGTACTTTTTCCAAGTTCATG | 57.087 | 29.630 | 0.00 | 0.00 | 31.83 | 3.07 |
1523 | 1543 | 6.767524 | TGTGTACTTTTTCCAAGTTCATGT | 57.232 | 33.333 | 0.00 | 0.00 | 31.83 | 3.21 |
1525 | 1545 | 7.699566 | TGTGTACTTTTTCCAAGTTCATGTAC | 58.300 | 34.615 | 0.00 | 0.00 | 31.83 | 2.90 |
1526 | 1546 | 7.136772 | GTGTACTTTTTCCAAGTTCATGTACC | 58.863 | 38.462 | 0.00 | 0.00 | 31.83 | 3.34 |
1529 | 1549 | 7.039313 | ACTTTTTCCAAGTTCATGTACCTTC | 57.961 | 36.000 | 0.00 | 0.00 | 0.00 | 3.46 |
1530 | 1550 | 5.682943 | TTTTCCAAGTTCATGTACCTTCG | 57.317 | 39.130 | 0.00 | 0.00 | 0.00 | 3.79 |
1531 | 1551 | 2.695359 | TCCAAGTTCATGTACCTTCGC | 58.305 | 47.619 | 0.00 | 0.00 | 0.00 | 4.70 |
1532 | 1552 | 1.737793 | CCAAGTTCATGTACCTTCGCC | 59.262 | 52.381 | 0.00 | 0.00 | 0.00 | 5.54 |
1537 | 1906 | 3.886505 | AGTTCATGTACCTTCGCCAAAAA | 59.113 | 39.130 | 0.00 | 0.00 | 0.00 | 1.94 |
1539 | 1908 | 3.745799 | TCATGTACCTTCGCCAAAAAGA | 58.254 | 40.909 | 0.00 | 0.00 | 0.00 | 2.52 |
1771 | 2146 | 2.761208 | ACACCAAAATCGGTCAAAACCA | 59.239 | 40.909 | 0.00 | 0.00 | 46.86 | 3.67 |
1838 | 2213 | 3.951680 | AGTTGTCCGGTTTTGAAGTTGAT | 59.048 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
1848 | 2223 | 6.054941 | GGTTTTGAAGTTGATGGACCAAATT | 58.945 | 36.000 | 0.00 | 0.00 | 37.09 | 1.82 |
1870 | 2245 | 6.479972 | TTTAGACTTCACCAAGAGTTGAGA | 57.520 | 37.500 | 0.00 | 0.00 | 33.34 | 3.27 |
1871 | 2246 | 6.479972 | TTAGACTTCACCAAGAGTTGAGAA | 57.520 | 37.500 | 0.00 | 0.00 | 33.34 | 2.87 |
2010 | 2389 | 0.179078 | CAAGAGCTGCTAGGAGCCTG | 60.179 | 60.000 | 30.12 | 21.03 | 41.51 | 4.85 |
2045 | 2425 | 1.277580 | CCCTCCTCCAACTGCCATCT | 61.278 | 60.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2099 | 2479 | 1.520666 | CTGCAGTACCCCTAACCGG | 59.479 | 63.158 | 5.25 | 0.00 | 0.00 | 5.28 |
2126 | 2506 | 2.352388 | GCGTACATCTTTGCCCTAACA | 58.648 | 47.619 | 0.00 | 0.00 | 0.00 | 2.41 |
2179 | 2559 | 2.158928 | TCTCTAGCTAGGTCCGTCTGAC | 60.159 | 54.545 | 20.58 | 0.00 | 43.67 | 3.51 |
2232 | 2612 | 5.707411 | ACATACCGTCGCAGTTTAATTAC | 57.293 | 39.130 | 0.00 | 0.00 | 0.00 | 1.89 |
2235 | 2615 | 3.656559 | ACCGTCGCAGTTTAATTACTGT | 58.343 | 40.909 | 9.54 | 0.00 | 45.76 | 3.55 |
2267 | 2647 | 4.004196 | AGCAAAAACTAAGTAGAGGCGT | 57.996 | 40.909 | 0.00 | 0.00 | 0.00 | 5.68 |
2275 | 2655 | 0.865769 | AAGTAGAGGCGTTGTTTGCG | 59.134 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
2284 | 2668 | 1.997606 | GCGTTGTTTGCGTAGGAGTAT | 59.002 | 47.619 | 0.00 | 0.00 | 0.00 | 2.12 |
2322 | 2706 | 8.516811 | ACTACTACTACACTTGACAAAAATCG | 57.483 | 34.615 | 0.00 | 0.00 | 0.00 | 3.34 |
2324 | 2708 | 5.756347 | ACTACTACACTTGACAAAAATCGCA | 59.244 | 36.000 | 0.00 | 0.00 | 0.00 | 5.10 |
2328 | 2712 | 6.978080 | ACTACACTTGACAAAAATCGCAAAAT | 59.022 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
2382 | 2766 | 6.821160 | TCAAATAATGTAGGTCATCTTTGCGA | 59.179 | 34.615 | 0.00 | 0.00 | 38.07 | 5.10 |
2439 | 2823 | 9.363763 | CTCGTTATTATCTAGTGGATACGAGTA | 57.636 | 37.037 | 21.92 | 0.81 | 45.27 | 2.59 |
2442 | 2826 | 8.891720 | GTTATTATCTAGTGGATACGAGTAGGG | 58.108 | 40.741 | 0.00 | 0.00 | 36.72 | 3.53 |
2528 | 2912 | 0.970937 | TAGACAAGCACCCTCCTCCG | 60.971 | 60.000 | 0.00 | 0.00 | 0.00 | 4.63 |
2615 | 2999 | 1.879380 | CTCCAAAGGACAATCGCACAA | 59.121 | 47.619 | 0.00 | 0.00 | 0.00 | 3.33 |
2617 | 3001 | 2.890311 | TCCAAAGGACAATCGCACAAAT | 59.110 | 40.909 | 0.00 | 0.00 | 0.00 | 2.32 |
2635 | 3019 | 3.742433 | AATACTGGAGCTTCCTCATCG | 57.258 | 47.619 | 0.00 | 0.00 | 39.96 | 3.84 |
2648 | 3032 | 2.903855 | CATCGGGTGATGGCTGCC | 60.904 | 66.667 | 12.87 | 12.87 | 46.76 | 4.85 |
2685 | 3069 | 3.192944 | AGGGAAGATGATTTCACTGGGA | 58.807 | 45.455 | 0.00 | 0.00 | 39.30 | 4.37 |
2713 | 3097 | 6.053632 | TGAAGCATCAAGAGGTGAGATTAA | 57.946 | 37.500 | 0.00 | 0.00 | 40.43 | 1.40 |
2735 | 3119 | 1.611491 | GATGTCGGGAGAGAGATCCAC | 59.389 | 57.143 | 0.00 | 0.00 | 41.52 | 4.02 |
2823 | 3207 | 2.214376 | TGATTTTGGCATTCCTCGGT | 57.786 | 45.000 | 0.00 | 0.00 | 0.00 | 4.69 |
2836 | 4507 | 3.302347 | CTCGGTCTGAGGTGGTGCC | 62.302 | 68.421 | 0.11 | 0.00 | 41.29 | 5.01 |
3052 | 4726 | 4.428209 | AGATTCATTCAGTCACTAGTGCG | 58.572 | 43.478 | 18.45 | 9.00 | 0.00 | 5.34 |
3081 | 4755 | 6.741724 | AGTTACAATATCTTTTGGTCCCCAT | 58.258 | 36.000 | 0.00 | 0.00 | 31.53 | 4.00 |
3153 | 4827 | 0.392193 | CAGCAACGAGAAGATGGGCT | 60.392 | 55.000 | 0.00 | 0.00 | 0.00 | 5.19 |
3244 | 4924 | 8.592155 | CAATGATTTTGCTGTTGATGACATAAG | 58.408 | 33.333 | 0.00 | 0.00 | 37.69 | 1.73 |
3335 | 5015 | 2.823924 | TTAGCAACACTAGCGTGGAA | 57.176 | 45.000 | 0.00 | 0.00 | 45.50 | 3.53 |
3561 | 5241 | 6.074088 | TGCTAACCACGTTTATTGCAATTTTG | 60.074 | 34.615 | 18.75 | 8.06 | 0.00 | 2.44 |
3639 | 5322 | 2.400467 | AGGATCGGCCAGGTATTACT | 57.600 | 50.000 | 2.24 | 0.00 | 40.02 | 2.24 |
3641 | 5324 | 1.067776 | GGATCGGCCAGGTATTACTCG | 60.068 | 57.143 | 2.24 | 0.00 | 36.34 | 4.18 |
3661 | 5344 | 0.861837 | GCACGTGCTCATAGGTATGC | 59.138 | 55.000 | 32.55 | 1.13 | 38.21 | 3.14 |
3722 | 5405 | 3.118775 | TCACATTTATCCTCCCACTGTCG | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 4.35 |
3794 | 5477 | 2.549992 | CGATCTGAAAGTGGTGTTCCCA | 60.550 | 50.000 | 0.00 | 0.00 | 42.51 | 4.37 |
3832 | 5515 | 4.333649 | CGACCTGAGCATTTCAACATACAT | 59.666 | 41.667 | 0.00 | 0.00 | 34.81 | 2.29 |
3914 | 5603 | 2.333417 | CCTCCACAAGCTGCAGCAG | 61.333 | 63.158 | 38.24 | 30.65 | 45.16 | 4.24 |
4169 | 5861 | 2.968156 | TGAAACCGTCGCAACCCG | 60.968 | 61.111 | 0.00 | 0.00 | 38.61 | 5.28 |
4212 | 5904 | 2.287849 | GCTTTCTCCAGTGGTTTCTTGC | 60.288 | 50.000 | 9.54 | 4.71 | 0.00 | 4.01 |
4396 | 6094 | 6.370166 | GCATTCTACTCTCAACTATAATGCCC | 59.630 | 42.308 | 0.00 | 0.00 | 41.13 | 5.36 |
4398 | 6096 | 8.807118 | CATTCTACTCTCAACTATAATGCCCTA | 58.193 | 37.037 | 0.00 | 0.00 | 0.00 | 3.53 |
4410 | 6127 | 7.106239 | ACTATAATGCCCTATGCTATGTTGTC | 58.894 | 38.462 | 0.00 | 0.00 | 42.00 | 3.18 |
4585 | 6318 | 8.352942 | AGTACATCTTCTTGATTTGTTTCCAAC | 58.647 | 33.333 | 0.00 | 0.00 | 32.05 | 3.77 |
4630 | 6369 | 4.073293 | TGTTTGTGTGTGGTTTGGTTTT | 57.927 | 36.364 | 0.00 | 0.00 | 0.00 | 2.43 |
4693 | 6434 | 0.818852 | CATGTGGCTGTGGTGTGTCA | 60.819 | 55.000 | 0.00 | 0.00 | 0.00 | 3.58 |
4767 | 6508 | 5.451908 | CAAAGACTACGCATGAAACAATGT | 58.548 | 37.500 | 0.00 | 0.00 | 0.00 | 2.71 |
4782 | 6523 | 3.027412 | ACAATGTTAAGTGTGTGCCCAA | 58.973 | 40.909 | 0.00 | 0.00 | 32.30 | 4.12 |
4796 | 6537 | 0.743345 | GCCCAAGTATCGGTGTGGTC | 60.743 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
4832 | 6573 | 1.299541 | CTGGGAATGTATCGGTGTGC | 58.700 | 55.000 | 0.00 | 0.00 | 0.00 | 4.57 |
4884 | 6625 | 6.007703 | TCTCCGTTCCATAATTTTTGTCCTT | 58.992 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
4886 | 6627 | 5.536916 | TCCGTTCCATAATTTTTGTCCTTGT | 59.463 | 36.000 | 0.00 | 0.00 | 0.00 | 3.16 |
4895 | 6636 | 4.912528 | TTTTTGTCCTTGTTTTTGTCGC | 57.087 | 36.364 | 0.00 | 0.00 | 0.00 | 5.19 |
4970 | 6711 | 7.526142 | TCTAGATGCGGATGTATCTAACTTT | 57.474 | 36.000 | 0.00 | 0.00 | 45.39 | 2.66 |
4987 | 6728 | 9.733219 | ATCTAACTTTAAAGCGTGACTAGATAC | 57.267 | 33.333 | 15.24 | 0.00 | 0.00 | 2.24 |
5041 | 6782 | 4.682778 | TTAGGACGGATGGAGTATTTGG | 57.317 | 45.455 | 0.00 | 0.00 | 0.00 | 3.28 |
5067 | 6808 | 5.061920 | GGTTATTCACCGTTAATTTGGCA | 57.938 | 39.130 | 0.00 | 0.00 | 35.12 | 4.92 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
40 | 41 | 5.183713 | TCATTCAAAGACAGCGGATTTCATT | 59.816 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
41 | 42 | 4.701651 | TCATTCAAAGACAGCGGATTTCAT | 59.298 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
42 | 43 | 4.071423 | TCATTCAAAGACAGCGGATTTCA | 58.929 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
49 | 50 | 9.430838 | CTAGATAAAATTCATTCAAAGACAGCG | 57.569 | 33.333 | 0.00 | 0.00 | 0.00 | 5.18 |
73 | 74 | 8.450964 | GCAAGCATCAACTATTTGAACTAACTA | 58.549 | 33.333 | 0.00 | 0.00 | 45.01 | 2.24 |
74 | 75 | 7.040478 | TGCAAGCATCAACTATTTGAACTAACT | 60.040 | 33.333 | 0.00 | 0.00 | 45.01 | 2.24 |
194 | 195 | 2.109126 | GGGCATCTCCAACGCTGAC | 61.109 | 63.158 | 0.00 | 0.00 | 36.21 | 3.51 |
196 | 197 | 3.197790 | CGGGCATCTCCAACGCTG | 61.198 | 66.667 | 0.00 | 0.00 | 36.21 | 5.18 |
199 | 200 | 0.174845 | TAGTTCGGGCATCTCCAACG | 59.825 | 55.000 | 0.00 | 0.00 | 36.21 | 4.10 |
213 | 214 | 4.666237 | GAAGAATGCAAGCACCATAGTTC | 58.334 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
266 | 267 | 0.509499 | CAAAGCTGCCATTTTGTGCG | 59.491 | 50.000 | 0.00 | 0.00 | 31.36 | 5.34 |
280 | 281 | 1.105457 | TGCATACATGAGCCCAAAGC | 58.895 | 50.000 | 0.00 | 0.00 | 44.25 | 3.51 |
281 | 282 | 3.194116 | AGTTTGCATACATGAGCCCAAAG | 59.806 | 43.478 | 10.02 | 0.00 | 0.00 | 2.77 |
282 | 283 | 3.056678 | CAGTTTGCATACATGAGCCCAAA | 60.057 | 43.478 | 10.02 | 1.13 | 0.00 | 3.28 |
283 | 284 | 2.492881 | CAGTTTGCATACATGAGCCCAA | 59.507 | 45.455 | 10.02 | 0.00 | 0.00 | 4.12 |
284 | 285 | 2.093890 | CAGTTTGCATACATGAGCCCA | 58.906 | 47.619 | 10.02 | 0.00 | 0.00 | 5.36 |
285 | 286 | 1.202336 | GCAGTTTGCATACATGAGCCC | 60.202 | 52.381 | 10.02 | 0.00 | 44.26 | 5.19 |
286 | 287 | 2.199291 | GCAGTTTGCATACATGAGCC | 57.801 | 50.000 | 10.02 | 0.00 | 44.26 | 4.70 |
293 | 294 | 8.171373 | AGGAAGTATATCCAGCAGTTTGCATAC | 61.171 | 40.741 | 3.67 | 0.00 | 41.77 | 2.39 |
327 | 328 | 8.172352 | ACATAAAAATAACACTACCACAAGCA | 57.828 | 30.769 | 0.00 | 0.00 | 0.00 | 3.91 |
377 | 378 | 1.632589 | GGAGGGGCACACAGATTTTT | 58.367 | 50.000 | 0.00 | 0.00 | 0.00 | 1.94 |
408 | 409 | 2.846206 | TGGAATCCAAGCAGGTGTATCT | 59.154 | 45.455 | 0.00 | 0.00 | 39.02 | 1.98 |
573 | 577 | 0.178995 | TGGGATGCAGCAGTGTTTGA | 60.179 | 50.000 | 3.51 | 0.00 | 0.00 | 2.69 |
616 | 620 | 1.001406 | GAATGGGGATAGTGGAGAGCG | 59.999 | 57.143 | 0.00 | 0.00 | 0.00 | 5.03 |
730 | 734 | 7.952671 | TCATATCAGTAGTGTCACCTTAATCC | 58.047 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
734 | 738 | 8.768501 | AGAATCATATCAGTAGTGTCACCTTA | 57.231 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
790 | 794 | 7.118245 | CTTTTGGAAAGAAAAGAAACTGCAAGT | 59.882 | 33.333 | 0.00 | 0.00 | 46.23 | 3.16 |
791 | 795 | 6.966435 | TTTGGAAAGAAAAGAAACTGCAAG | 57.034 | 33.333 | 0.00 | 0.00 | 42.29 | 4.01 |
843 | 851 | 4.305989 | TCTTGCCTGAACAAACATTGTC | 57.694 | 40.909 | 0.00 | 0.00 | 44.59 | 3.18 |
983 | 991 | 3.118482 | AGGCATGATGACTAGTGTTCCAG | 60.118 | 47.826 | 0.00 | 0.00 | 30.85 | 3.86 |
1004 | 1012 | 6.627395 | AAGTATGTACCTCTTGATCTCGAG | 57.373 | 41.667 | 5.93 | 5.93 | 0.00 | 4.04 |
1009 | 1026 | 7.065923 | GGTGGAAAAAGTATGTACCTCTTGATC | 59.934 | 40.741 | 0.00 | 0.00 | 0.00 | 2.92 |
1013 | 1030 | 6.449830 | AGGTGGAAAAAGTATGTACCTCTT | 57.550 | 37.500 | 0.00 | 0.00 | 31.83 | 2.85 |
1025 | 1042 | 2.415512 | GCGTGTAGCTAGGTGGAAAAAG | 59.584 | 50.000 | 4.27 | 0.00 | 44.04 | 2.27 |
1026 | 1043 | 2.419667 | GCGTGTAGCTAGGTGGAAAAA | 58.580 | 47.619 | 4.27 | 0.00 | 44.04 | 1.94 |
1062 | 1081 | 9.099454 | GAAGAAAGTATTACTGGTCTACATTGG | 57.901 | 37.037 | 9.56 | 0.00 | 0.00 | 3.16 |
1094 | 1113 | 8.169977 | ACCTGTTTTATGATTAGCATACCATG | 57.830 | 34.615 | 0.00 | 0.00 | 39.14 | 3.66 |
1095 | 1114 | 9.284968 | GTACCTGTTTTATGATTAGCATACCAT | 57.715 | 33.333 | 0.00 | 0.00 | 39.14 | 3.55 |
1112 | 1131 | 6.668283 | ACTATGGAGACTGTATGTACCTGTTT | 59.332 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
1113 | 1132 | 6.195700 | ACTATGGAGACTGTATGTACCTGTT | 58.804 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
1258 | 1277 | 4.097892 | CAGAAGTTAAGGGTGCAAGTTGTT | 59.902 | 41.667 | 4.48 | 0.00 | 0.00 | 2.83 |
1312 | 1331 | 2.564947 | ACAGCACCAAAACCAGTCAAAA | 59.435 | 40.909 | 0.00 | 0.00 | 0.00 | 2.44 |
1319 | 1338 | 1.040339 | GTGGGACAGCACCAAAACCA | 61.040 | 55.000 | 0.00 | 0.00 | 41.80 | 3.67 |
1368 | 1387 | 2.038033 | CGTGGACTTGGAAAAGGTAGGA | 59.962 | 50.000 | 0.00 | 0.00 | 0.00 | 2.94 |
1463 | 1482 | 7.739498 | ATACATGAACTTGGAAAAAGTACGT | 57.261 | 32.000 | 0.00 | 0.00 | 0.00 | 3.57 |
1502 | 1522 | 7.057894 | AGGTACATGAACTTGGAAAAAGTACA | 58.942 | 34.615 | 0.00 | 0.00 | 33.03 | 2.90 |
1506 | 1526 | 6.142817 | CGAAGGTACATGAACTTGGAAAAAG | 58.857 | 40.000 | 0.00 | 0.00 | 0.00 | 2.27 |
1512 | 1532 | 1.737793 | GGCGAAGGTACATGAACTTGG | 59.262 | 52.381 | 0.00 | 3.27 | 0.00 | 3.61 |
1513 | 1533 | 2.422597 | TGGCGAAGGTACATGAACTTG | 58.577 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
1516 | 1536 | 3.907894 | TTTTGGCGAAGGTACATGAAC | 57.092 | 42.857 | 0.00 | 0.00 | 0.00 | 3.18 |
1522 | 1542 | 2.288729 | ACGTTCTTTTTGGCGAAGGTAC | 59.711 | 45.455 | 0.00 | 0.00 | 36.73 | 3.34 |
1523 | 1543 | 2.563702 | ACGTTCTTTTTGGCGAAGGTA | 58.436 | 42.857 | 0.00 | 0.00 | 36.73 | 3.08 |
1525 | 1545 | 3.612472 | TTACGTTCTTTTTGGCGAAGG | 57.388 | 42.857 | 0.00 | 0.00 | 0.00 | 3.46 |
1526 | 1546 | 4.973663 | ACATTTACGTTCTTTTTGGCGAAG | 59.026 | 37.500 | 0.00 | 0.00 | 0.00 | 3.79 |
1529 | 1549 | 6.735263 | TTAACATTTACGTTCTTTTTGGCG | 57.265 | 33.333 | 0.00 | 0.00 | 0.00 | 5.69 |
1558 | 1927 | 2.227149 | GCGTACCTTTTCCAAATCCGTT | 59.773 | 45.455 | 0.00 | 0.00 | 0.00 | 4.44 |
1568 | 1937 | 4.657075 | TCTGAAATTCGCGTACCTTTTC | 57.343 | 40.909 | 5.77 | 4.68 | 0.00 | 2.29 |
1573 | 1942 | 5.363517 | CGAATATTCTGAAATTCGCGTACC | 58.636 | 41.667 | 22.19 | 0.00 | 45.33 | 3.34 |
1646 | 2018 | 4.810491 | ACTTTTCAACTCCGCGTAGTTTTA | 59.190 | 37.500 | 14.93 | 3.33 | 37.61 | 1.52 |
1759 | 2134 | 1.476110 | CCTGGACTTGGTTTTGACCGA | 60.476 | 52.381 | 0.00 | 0.00 | 0.00 | 4.69 |
1771 | 2146 | 0.396811 | CAAGGTTCGTCCCTGGACTT | 59.603 | 55.000 | 14.10 | 0.00 | 42.54 | 3.01 |
1804 | 2179 | 1.463553 | GGACAACTTGCACCCCCAAG | 61.464 | 60.000 | 0.00 | 0.72 | 45.90 | 3.61 |
1838 | 2213 | 5.055265 | TGGTGAAGTCTAAATTTGGTCCA | 57.945 | 39.130 | 0.00 | 0.00 | 0.00 | 4.02 |
1848 | 2223 | 6.479972 | TTCTCAACTCTTGGTGAAGTCTAA | 57.520 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
2045 | 2425 | 8.807948 | AGGCAGAGAAATTAGTTAATTAAGCA | 57.192 | 30.769 | 0.00 | 0.00 | 35.00 | 3.91 |
2099 | 2479 | 1.786928 | GCAAAGATGTACGCGTTGCTC | 60.787 | 52.381 | 20.78 | 11.83 | 41.04 | 4.26 |
2126 | 2506 | 1.564348 | AGGAGGATTTAATGGCGGTGT | 59.436 | 47.619 | 0.00 | 0.00 | 0.00 | 4.16 |
2179 | 2559 | 6.194463 | CACAACTTGAGTATGTCTGTGTTTG | 58.806 | 40.000 | 0.00 | 0.00 | 0.00 | 2.93 |
2262 | 2642 | 0.949105 | CTCCTACGCAAACAACGCCT | 60.949 | 55.000 | 0.00 | 0.00 | 0.00 | 5.52 |
2267 | 2647 | 6.707161 | AGTAACAAATACTCCTACGCAAACAA | 59.293 | 34.615 | 0.00 | 0.00 | 41.04 | 2.83 |
2303 | 2687 | 5.493133 | TTGCGATTTTTGTCAAGTGTAGT | 57.507 | 34.783 | 0.00 | 0.00 | 0.00 | 2.73 |
2306 | 2690 | 5.006552 | CCATTTTGCGATTTTTGTCAAGTGT | 59.993 | 36.000 | 0.00 | 0.00 | 0.00 | 3.55 |
2322 | 2706 | 5.170021 | TGATGTTGCTGATTACCATTTTGC | 58.830 | 37.500 | 0.00 | 0.00 | 0.00 | 3.68 |
2324 | 2708 | 9.941325 | TTAAATGATGTTGCTGATTACCATTTT | 57.059 | 25.926 | 0.00 | 0.00 | 35.46 | 1.82 |
2328 | 2712 | 7.492020 | GCAATTAAATGATGTTGCTGATTACCA | 59.508 | 33.333 | 0.00 | 0.00 | 42.61 | 3.25 |
2382 | 2766 | 1.868997 | CCGCTTGTTCGACATTGCT | 59.131 | 52.632 | 0.00 | 0.00 | 0.00 | 3.91 |
2420 | 2804 | 5.013913 | AGCCCTACTCGTATCCACTAGATAA | 59.986 | 44.000 | 0.00 | 0.00 | 39.21 | 1.75 |
2421 | 2805 | 4.535294 | AGCCCTACTCGTATCCACTAGATA | 59.465 | 45.833 | 0.00 | 0.00 | 36.33 | 1.98 |
2422 | 2806 | 3.331294 | AGCCCTACTCGTATCCACTAGAT | 59.669 | 47.826 | 0.00 | 0.00 | 39.15 | 1.98 |
2423 | 2807 | 2.709934 | AGCCCTACTCGTATCCACTAGA | 59.290 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2426 | 2810 | 1.693627 | CAGCCCTACTCGTATCCACT | 58.306 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2427 | 2811 | 0.032267 | GCAGCCCTACTCGTATCCAC | 59.968 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
2442 | 2826 | 2.260844 | TAGATGGGCTTATGTGCAGC | 57.739 | 50.000 | 0.00 | 0.00 | 36.45 | 5.25 |
2470 | 2854 | 0.110104 | AGCAGCCAGGCCTTGATATC | 59.890 | 55.000 | 8.22 | 0.00 | 0.00 | 1.63 |
2472 | 2856 | 0.107017 | GAAGCAGCCAGGCCTTGATA | 60.107 | 55.000 | 8.22 | 0.00 | 0.00 | 2.15 |
2475 | 2859 | 2.035312 | AGAAGCAGCCAGGCCTTG | 59.965 | 61.111 | 8.22 | 0.00 | 0.00 | 3.61 |
2477 | 2861 | 4.737177 | GCAGAAGCAGCCAGGCCT | 62.737 | 66.667 | 8.22 | 0.00 | 41.58 | 5.19 |
2512 | 2896 | 0.617820 | ATACGGAGGAGGGTGCTTGT | 60.618 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
2514 | 2898 | 0.032017 | AGATACGGAGGAGGGTGCTT | 60.032 | 55.000 | 0.00 | 0.00 | 0.00 | 3.91 |
2528 | 2912 | 6.590292 | TCTTGTCGAATCTTTCCAACAGATAC | 59.410 | 38.462 | 0.00 | 0.00 | 30.35 | 2.24 |
2615 | 2999 | 2.366916 | CCGATGAGGAAGCTCCAGTATT | 59.633 | 50.000 | 5.21 | 0.00 | 45.00 | 1.89 |
2617 | 3001 | 1.403814 | CCGATGAGGAAGCTCCAGTA | 58.596 | 55.000 | 5.21 | 0.00 | 45.00 | 2.74 |
2635 | 3019 | 0.757935 | ATCAATGGCAGCCATCACCC | 60.758 | 55.000 | 27.82 | 0.00 | 44.40 | 4.61 |
2647 | 3031 | 2.173356 | TCCCTGTCTTGCCTATCAATGG | 59.827 | 50.000 | 0.00 | 0.00 | 33.57 | 3.16 |
2648 | 3032 | 3.565764 | TCCCTGTCTTGCCTATCAATG | 57.434 | 47.619 | 0.00 | 0.00 | 33.57 | 2.82 |
2665 | 3049 | 3.282885 | GTCCCAGTGAAATCATCTTCCC | 58.717 | 50.000 | 0.00 | 0.00 | 0.00 | 3.97 |
2685 | 3069 | 3.262660 | TCACCTCTTGATGCTTCATCTGT | 59.737 | 43.478 | 2.75 | 0.00 | 41.06 | 3.41 |
2713 | 3097 | 2.158400 | TGGATCTCTCTCCCGACATCAT | 60.158 | 50.000 | 0.00 | 0.00 | 34.12 | 2.45 |
2735 | 3119 | 2.036733 | TCTGTGTTCTTGTAGGGTTCGG | 59.963 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
2916 | 4587 | 6.647067 | GTGTCAATGACTAGCAAAGTTAGTCT | 59.353 | 38.462 | 14.97 | 5.40 | 44.64 | 3.24 |
3007 | 4681 | 6.707608 | TCTCATGTCCATTGTAGCAACATATC | 59.292 | 38.462 | 0.00 | 0.00 | 34.97 | 1.63 |
3052 | 4726 | 8.459635 | GGGACCAAAAGATATTGTAACTTCTTC | 58.540 | 37.037 | 0.00 | 0.00 | 0.00 | 2.87 |
3081 | 4755 | 5.336690 | GGTTTAGACTACATCCAACGGTGTA | 60.337 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3153 | 4827 | 0.761187 | GGCCCTGATATGCTGTCAGA | 59.239 | 55.000 | 3.32 | 0.00 | 44.57 | 3.27 |
3244 | 4924 | 4.149571 | CGCTGCTGTAGTCATGATCAATAC | 59.850 | 45.833 | 0.00 | 0.60 | 0.00 | 1.89 |
3335 | 5015 | 2.043526 | AGCTTTCATTCCTGGGATGGTT | 59.956 | 45.455 | 15.01 | 0.00 | 0.00 | 3.67 |
3343 | 5023 | 7.930325 | TCACTAAGATGATAGCTTTCATTCCTG | 59.070 | 37.037 | 18.99 | 12.80 | 36.48 | 3.86 |
3401 | 5081 | 4.264253 | TGGCAGTAGTGATGGAAGAATTG | 58.736 | 43.478 | 0.42 | 0.00 | 0.00 | 2.32 |
3561 | 5241 | 3.625313 | GCCCAAATGCTCTCTAGTTCTTC | 59.375 | 47.826 | 0.00 | 0.00 | 0.00 | 2.87 |
3629 | 5312 | 1.556564 | CACGTGCCGAGTAATACCTG | 58.443 | 55.000 | 0.82 | 0.00 | 0.00 | 4.00 |
3639 | 5322 | 1.033202 | TACCTATGAGCACGTGCCGA | 61.033 | 55.000 | 35.51 | 23.13 | 43.38 | 5.54 |
3641 | 5324 | 1.502231 | CATACCTATGAGCACGTGCC | 58.498 | 55.000 | 35.51 | 26.08 | 43.38 | 5.01 |
3648 | 5331 | 2.221981 | GCAGTTTCGCATACCTATGAGC | 59.778 | 50.000 | 0.00 | 0.00 | 35.75 | 4.26 |
3649 | 5332 | 3.457234 | TGCAGTTTCGCATACCTATGAG | 58.543 | 45.455 | 0.00 | 0.00 | 36.86 | 2.90 |
3661 | 5344 | 1.394917 | GGTGTATGCTCTGCAGTTTCG | 59.605 | 52.381 | 14.67 | 2.29 | 43.65 | 3.46 |
3832 | 5515 | 3.707611 | ACCACTTATGAACGCCATAGGTA | 59.292 | 43.478 | 11.11 | 0.00 | 43.53 | 3.08 |
3914 | 5603 | 4.285292 | CAAACATCTTGGCTTCGCATATC | 58.715 | 43.478 | 0.00 | 0.00 | 0.00 | 1.63 |
4169 | 5861 | 4.621034 | GCATTGTGCATGTGTACCTAAAAC | 59.379 | 41.667 | 0.00 | 0.00 | 44.26 | 2.43 |
4334 | 6026 | 9.071276 | GGATGATAGGAATTGAACACAATACAT | 57.929 | 33.333 | 0.00 | 0.00 | 34.38 | 2.29 |
4396 | 6094 | 7.172190 | CCACCAAATCTAGACAACATAGCATAG | 59.828 | 40.741 | 0.00 | 0.00 | 0.00 | 2.23 |
4398 | 6096 | 5.824624 | CCACCAAATCTAGACAACATAGCAT | 59.175 | 40.000 | 0.00 | 0.00 | 0.00 | 3.79 |
4410 | 6127 | 4.264253 | TCATCTTGCACCACCAAATCTAG | 58.736 | 43.478 | 0.00 | 0.00 | 0.00 | 2.43 |
4585 | 6318 | 1.267932 | GGTACGTTCGTCTCCATCTCG | 60.268 | 57.143 | 0.00 | 0.00 | 0.00 | 4.04 |
4630 | 6369 | 1.774110 | ACATGACCACAAGCCAAACA | 58.226 | 45.000 | 0.00 | 0.00 | 0.00 | 2.83 |
4693 | 6434 | 4.011698 | GGGTTTTATGACGGTACATGGTT | 58.988 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
4767 | 6508 | 3.331150 | CGATACTTGGGCACACACTTAA | 58.669 | 45.455 | 0.00 | 0.00 | 0.00 | 1.85 |
4782 | 6523 | 3.767673 | ACATGTAAGACCACACCGATACT | 59.232 | 43.478 | 0.00 | 0.00 | 0.00 | 2.12 |
4796 | 6537 | 2.620115 | CCCAGGCAAGCATACATGTAAG | 59.380 | 50.000 | 10.14 | 6.70 | 0.00 | 2.34 |
4860 | 6601 | 5.566469 | AGGACAAAAATTATGGAACGGAGA | 58.434 | 37.500 | 0.00 | 0.00 | 0.00 | 3.71 |
4884 | 6625 | 3.371591 | ACTTTGTACTCGCGACAAAAACA | 59.628 | 39.130 | 20.56 | 11.50 | 44.05 | 2.83 |
4886 | 6627 | 4.603231 | AACTTTGTACTCGCGACAAAAA | 57.397 | 36.364 | 20.56 | 11.85 | 44.05 | 1.94 |
4895 | 6636 | 6.034256 | CGGAGGTAATGTAAACTTTGTACTCG | 59.966 | 42.308 | 0.00 | 0.00 | 0.00 | 4.18 |
4931 | 6672 | 8.788806 | TCCGCATCTAGAAAAATTTAAGACAAA | 58.211 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
4932 | 6673 | 8.330466 | TCCGCATCTAGAAAAATTTAAGACAA | 57.670 | 30.769 | 0.00 | 0.00 | 0.00 | 3.18 |
4934 | 6675 | 8.398665 | ACATCCGCATCTAGAAAAATTTAAGAC | 58.601 | 33.333 | 0.00 | 0.00 | 0.00 | 3.01 |
4970 | 6711 | 6.710597 | AAGGATGTATCTAGTCACGCTTTA | 57.289 | 37.500 | 0.00 | 0.00 | 0.00 | 1.85 |
5018 | 6759 | 5.132144 | ACCAAATACTCCATCCGTCCTAAAT | 59.868 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
5027 | 6768 | 7.123547 | TGAATAACCAAACCAAATACTCCATCC | 59.876 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
5066 | 6807 | 2.281070 | CATCCTTCCCGGCCGATG | 60.281 | 66.667 | 30.73 | 17.58 | 0.00 | 3.84 |
5067 | 6808 | 3.560251 | CCATCCTTCCCGGCCGAT | 61.560 | 66.667 | 30.73 | 8.05 | 0.00 | 4.18 |
5120 | 6861 | 0.420272 | AGCTAGGGTTAGGTTCCCCA | 59.580 | 55.000 | 0.00 | 0.00 | 45.64 | 4.96 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.