Multiple sequence alignment - TraesCS5A01G282500
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 | TraesCS5A01G282500 | chr5A | 100.000 | 2531 | 0 | 0 | 1 | 2531 | 491300909 | 491303439 | 0.000000e+00 | 4674.0 |
1 | TraesCS5A01G282500 | chr5D | 90.191 | 1417 | 80 | 19 | 200 | 1600 | 388109011 | 388110384 | 0.000000e+00 | 1792.0 |
2 | TraesCS5A01G282500 | chr5D | 85.340 | 648 | 50 | 26 | 1873 | 2497 | 388111466 | 388112091 | 1.650000e-176 | 628.0 |
3 | TraesCS5A01G282500 | chr5D | 91.667 | 60 | 4 | 1 | 1763 | 1821 | 377830429 | 377830370 | 5.800000e-12 | 82.4 |
4 | TraesCS5A01G282500 | chr5D | 88.889 | 63 | 6 | 1 | 1726 | 1787 | 388110455 | 388110517 | 2.700000e-10 | 76.8 |
5 | TraesCS5A01G282500 | chr5B | 91.045 | 938 | 41 | 16 | 870 | 1787 | 466844140 | 466845054 | 0.000000e+00 | 1227.0 |
6 | TraesCS5A01G282500 | chr5B | 90.034 | 883 | 55 | 10 | 1 | 877 | 466843084 | 466843939 | 0.000000e+00 | 1112.0 |
7 | TraesCS5A01G282500 | chr5B | 90.816 | 196 | 15 | 3 | 2009 | 2204 | 466934072 | 466934264 | 2.500000e-65 | 259.0 |
8 | TraesCS5A01G282500 | chr1A | 83.914 | 603 | 65 | 14 | 935 | 1531 | 300576953 | 300577529 | 4.760000e-152 | 547.0 |
9 | TraesCS5A01G282500 | chr1A | 81.077 | 687 | 79 | 22 | 888 | 1549 | 300672527 | 300673187 | 3.760000e-138 | 501.0 |
10 | TraesCS5A01G282500 | chr1D | 81.168 | 685 | 82 | 25 | 888 | 1549 | 246970767 | 246970107 | 8.080000e-140 | 507.0 |
11 | TraesCS5A01G282500 | chr1D | 81.607 | 560 | 82 | 12 | 992 | 1545 | 246679967 | 246679423 | 6.420000e-121 | 444.0 |
12 | TraesCS5A01G282500 | chr1D | 78.151 | 476 | 89 | 12 | 7 | 475 | 311755315 | 311755782 | 3.190000e-74 | 289.0 |
13 | TraesCS5A01G282500 | chr1D | 89.062 | 64 | 5 | 2 | 1760 | 1821 | 43341509 | 43341572 | 7.510000e-11 | 78.7 |
14 | TraesCS5A01G282500 | chr1B | 80.491 | 692 | 84 | 30 | 888 | 1549 | 331083924 | 331084594 | 1.360000e-132 | 483.0 |
15 | TraesCS5A01G282500 | chr1B | 81.410 | 624 | 71 | 22 | 930 | 1531 | 330991408 | 330992008 | 3.810000e-128 | 468.0 |
16 | TraesCS5A01G282500 | chr1B | 81.528 | 563 | 77 | 16 | 992 | 1545 | 331363495 | 331364039 | 2.990000e-119 | 438.0 |
17 | TraesCS5A01G282500 | chr1B | 75.067 | 373 | 74 | 12 | 115 | 474 | 520780508 | 520780874 | 3.370000e-34 | 156.0 |
18 | TraesCS5A01G282500 | chr1B | 94.737 | 57 | 2 | 1 | 1766 | 1821 | 104343766 | 104343822 | 1.250000e-13 | 87.9 |
19 | TraesCS5A01G282500 | chr7D | 79.332 | 479 | 84 | 11 | 6 | 477 | 509561186 | 509561656 | 3.140000e-84 | 322.0 |
20 | TraesCS5A01G282500 | chr7D | 77.802 | 455 | 81 | 14 | 8 | 450 | 72935829 | 72936275 | 1.930000e-66 | 263.0 |
21 | TraesCS5A01G282500 | chr7D | 77.404 | 416 | 72 | 18 | 10 | 414 | 635668954 | 635669358 | 7.040000e-56 | 228.0 |
22 | TraesCS5A01G282500 | chr7D | 78.495 | 372 | 62 | 15 | 50 | 414 | 636338879 | 636338519 | 7.040000e-56 | 228.0 |
23 | TraesCS5A01G282500 | chr7D | 91.803 | 61 | 4 | 1 | 1764 | 1823 | 436663764 | 436663704 | 1.610000e-12 | 84.2 |
24 | TraesCS5A01G282500 | chr4D | 80.269 | 446 | 72 | 12 | 9 | 447 | 58273870 | 58274306 | 3.140000e-84 | 322.0 |
25 | TraesCS5A01G282500 | chr7A | 77.009 | 448 | 86 | 13 | 8 | 447 | 694020258 | 694020696 | 9.050000e-60 | 241.0 |
26 | TraesCS5A01G282500 | chr3D | 77.918 | 317 | 61 | 9 | 138 | 450 | 457017247 | 457017558 | 3.320000e-44 | 189.0 |
27 | TraesCS5A01G282500 | chr3D | 90.164 | 61 | 5 | 1 | 1762 | 1821 | 16614434 | 16614494 | 7.510000e-11 | 78.7 |
28 | TraesCS5A01G282500 | chr6D | 76.510 | 298 | 58 | 12 | 183 | 475 | 12329567 | 12329277 | 4.360000e-33 | 152.0 |
29 | TraesCS5A01G282500 | chr6B | 93.103 | 58 | 3 | 1 | 1765 | 1821 | 58059103 | 58059160 | 1.610000e-12 | 84.2 |
30 | TraesCS5A01G282500 | chr4A | 92.982 | 57 | 3 | 1 | 1766 | 1821 | 621123216 | 621123160 | 5.800000e-12 | 82.4 |
31 | TraesCS5A01G282500 | chr3B | 88.235 | 68 | 7 | 1 | 1755 | 1821 | 664071838 | 664071905 | 2.090000e-11 | 80.5 |
32 | TraesCS5A01G282500 | chr2B | 91.525 | 59 | 4 | 1 | 1764 | 1821 | 76099745 | 76099687 | 2.090000e-11 | 80.5 |
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 | TraesCS5A01G282500 | chr5A | 491300909 | 491303439 | 2530 | False | 4674.000000 | 4674 | 100.0000 | 1 | 2531 | 1 | chr5A.!!$F1 | 2530 |
1 | TraesCS5A01G282500 | chr5D | 388109011 | 388112091 | 3080 | False | 832.266667 | 1792 | 88.1400 | 200 | 2497 | 3 | chr5D.!!$F1 | 2297 |
2 | TraesCS5A01G282500 | chr5B | 466843084 | 466845054 | 1970 | False | 1169.500000 | 1227 | 90.5395 | 1 | 1787 | 2 | chr5B.!!$F2 | 1786 |
3 | TraesCS5A01G282500 | chr1A | 300576953 | 300577529 | 576 | False | 547.000000 | 547 | 83.9140 | 935 | 1531 | 1 | chr1A.!!$F1 | 596 |
4 | TraesCS5A01G282500 | chr1A | 300672527 | 300673187 | 660 | False | 501.000000 | 501 | 81.0770 | 888 | 1549 | 1 | chr1A.!!$F2 | 661 |
5 | TraesCS5A01G282500 | chr1D | 246970107 | 246970767 | 660 | True | 507.000000 | 507 | 81.1680 | 888 | 1549 | 1 | chr1D.!!$R2 | 661 |
6 | TraesCS5A01G282500 | chr1D | 246679423 | 246679967 | 544 | True | 444.000000 | 444 | 81.6070 | 992 | 1545 | 1 | chr1D.!!$R1 | 553 |
7 | TraesCS5A01G282500 | chr1B | 331083924 | 331084594 | 670 | False | 483.000000 | 483 | 80.4910 | 888 | 1549 | 1 | chr1B.!!$F3 | 661 |
8 | TraesCS5A01G282500 | chr1B | 330991408 | 330992008 | 600 | False | 468.000000 | 468 | 81.4100 | 930 | 1531 | 1 | chr1B.!!$F2 | 601 |
9 | TraesCS5A01G282500 | chr1B | 331363495 | 331364039 | 544 | False | 438.000000 | 438 | 81.5280 | 992 | 1545 | 1 | chr1B.!!$F4 | 553 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
297 | 302 | 0.246635 | CTTCCCGGGATTCGCGATAT | 59.753 | 55.0 | 27.48 | 6.56 | 42.31 | 1.63 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2131 | 3354 | 0.109458 | TGAAGCGTCGTCGTTGCTAT | 60.109 | 50.0 | 12.9 | 5.53 | 38.17 | 2.97 | 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 | 0.948623 | TCGGACGGATGCAACACTTG | 60.949 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
63 | 67 | 4.250116 | TGCAACACTTGTTTGAGTTTGT | 57.750 | 36.364 | 0.00 | 0.00 | 35.83 | 2.83 |
76 | 80 | 3.038280 | TGAGTTTGTCTTCTGGTCTCCA | 58.962 | 45.455 | 0.00 | 0.00 | 0.00 | 3.86 |
91 | 96 | 3.516615 | GTCTCCAATCCTCTTGAGTTCG | 58.483 | 50.000 | 0.00 | 0.00 | 0.00 | 3.95 |
115 | 120 | 3.181490 | CCAATTGGACATAGTCGACTCGA | 60.181 | 47.826 | 23.89 | 5.80 | 37.39 | 4.04 |
135 | 140 | 3.523806 | GGAGCTCCGGCATAGATTC | 57.476 | 57.895 | 19.06 | 0.00 | 41.70 | 2.52 |
164 | 169 | 2.568509 | CTCCTTGGGACGGTAAGGTTAA | 59.431 | 50.000 | 7.79 | 0.00 | 43.14 | 2.01 |
169 | 174 | 2.710471 | TGGGACGGTAAGGTTAAGGTTT | 59.290 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
194 | 199 | 0.589729 | CGTGTGGCGATATTTGCTGC | 60.590 | 55.000 | 0.00 | 0.00 | 44.77 | 5.25 |
237 | 242 | 1.604693 | GGGTTCAATGACGACGAGTGT | 60.605 | 52.381 | 0.00 | 0.00 | 0.00 | 3.55 |
243 | 248 | 1.244697 | ATGACGACGAGTGTGGCTCT | 61.245 | 55.000 | 0.00 | 0.00 | 41.98 | 4.09 |
286 | 291 | 2.434359 | GCACGAAGACTTCCCGGG | 60.434 | 66.667 | 16.85 | 16.85 | 0.00 | 5.73 |
287 | 292 | 2.939261 | GCACGAAGACTTCCCGGGA | 61.939 | 63.158 | 22.63 | 22.63 | 0.00 | 5.14 |
288 | 293 | 1.898154 | CACGAAGACTTCCCGGGAT | 59.102 | 57.895 | 27.48 | 11.07 | 0.00 | 3.85 |
291 | 296 | 0.527817 | CGAAGACTTCCCGGGATTCG | 60.528 | 60.000 | 31.62 | 31.62 | 38.88 | 3.34 |
292 | 297 | 0.810426 | GAAGACTTCCCGGGATTCGC | 60.810 | 60.000 | 27.48 | 16.59 | 37.59 | 4.70 |
293 | 298 | 2.573609 | AAGACTTCCCGGGATTCGCG | 62.574 | 60.000 | 27.48 | 15.46 | 39.48 | 5.87 |
294 | 299 | 3.072468 | ACTTCCCGGGATTCGCGA | 61.072 | 61.111 | 27.48 | 3.71 | 42.31 | 5.87 |
295 | 300 | 2.365095 | GACTTCCCGGGATTCGCGAT | 62.365 | 60.000 | 27.48 | 4.56 | 42.31 | 4.58 |
297 | 302 | 0.246635 | CTTCCCGGGATTCGCGATAT | 59.753 | 55.000 | 27.48 | 6.56 | 42.31 | 1.63 |
298 | 303 | 1.475280 | CTTCCCGGGATTCGCGATATA | 59.525 | 52.381 | 27.48 | 3.61 | 42.31 | 0.86 |
299 | 304 | 1.548081 | TCCCGGGATTCGCGATATAA | 58.452 | 50.000 | 22.63 | 0.00 | 42.31 | 0.98 |
300 | 305 | 2.104967 | TCCCGGGATTCGCGATATAAT | 58.895 | 47.619 | 22.63 | 0.00 | 42.31 | 1.28 |
301 | 306 | 2.498481 | TCCCGGGATTCGCGATATAATT | 59.502 | 45.455 | 22.63 | 0.00 | 42.31 | 1.40 |
302 | 307 | 3.055675 | TCCCGGGATTCGCGATATAATTT | 60.056 | 43.478 | 22.63 | 0.00 | 42.31 | 1.82 |
331 | 336 | 1.518774 | GATAGGGGAACGGCGACAA | 59.481 | 57.895 | 16.62 | 0.00 | 0.00 | 3.18 |
361 | 366 | 3.123620 | GGCTCGTTCTGGCAGCAG | 61.124 | 66.667 | 10.34 | 3.44 | 34.62 | 4.24 |
363 | 368 | 2.675056 | GCTCGTTCTGGCAGCAGTG | 61.675 | 63.158 | 10.34 | 5.61 | 33.06 | 3.66 |
374 | 379 | 1.724582 | GCAGCAGTGGTGGTCGTTTT | 61.725 | 55.000 | 22.98 | 0.00 | 29.64 | 2.43 |
376 | 381 | 1.101049 | AGCAGTGGTGGTCGTTTTGG | 61.101 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
455 | 460 | 9.967346 | TCGATAAACTTTGATAATAGACCTGAG | 57.033 | 33.333 | 0.00 | 0.00 | 0.00 | 3.35 |
466 | 471 | 7.769044 | TGATAATAGACCTGAGTTACTTTTGCC | 59.231 | 37.037 | 0.00 | 0.00 | 0.00 | 4.52 |
559 | 566 | 3.642377 | TGATGCCCAAACCCATTCATATG | 59.358 | 43.478 | 0.00 | 0.00 | 0.00 | 1.78 |
590 | 597 | 2.677836 | GCCGATCAATCAGCTTTGTGTA | 59.322 | 45.455 | 0.00 | 0.00 | 0.00 | 2.90 |
591 | 598 | 3.485877 | GCCGATCAATCAGCTTTGTGTAC | 60.486 | 47.826 | 0.00 | 0.00 | 0.00 | 2.90 |
592 | 599 | 3.935203 | CCGATCAATCAGCTTTGTGTACT | 59.065 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
721 | 728 | 3.001406 | AGGTACACTCGGGGCCAC | 61.001 | 66.667 | 4.39 | 0.00 | 0.00 | 5.01 |
782 | 789 | 4.701651 | TCTTACTCGTCAAATTCCCTCGTA | 59.298 | 41.667 | 0.00 | 0.00 | 0.00 | 3.43 |
783 | 790 | 3.227810 | ACTCGTCAAATTCCCTCGTAC | 57.772 | 47.619 | 0.00 | 0.00 | 0.00 | 3.67 |
784 | 791 | 2.824341 | ACTCGTCAAATTCCCTCGTACT | 59.176 | 45.455 | 0.00 | 0.00 | 0.00 | 2.73 |
914 | 1139 | 6.380190 | CCTATATAAACTCGTCACCAGTAGC | 58.620 | 44.000 | 0.00 | 0.00 | 0.00 | 3.58 |
988 | 1228 | 2.186384 | CAGGCAGGAGGAGCTTCG | 59.814 | 66.667 | 0.00 | 0.00 | 0.00 | 3.79 |
1654 | 1942 | 2.490328 | ATGCACGTTTGAAGTGTTGG | 57.510 | 45.000 | 0.00 | 0.00 | 41.36 | 3.77 |
1678 | 1966 | 1.532090 | CGTTGCTAATCTCTCGAGCGT | 60.532 | 52.381 | 7.81 | 0.00 | 39.14 | 5.07 |
1682 | 1970 | 3.203716 | TGCTAATCTCTCGAGCGTTAGA | 58.796 | 45.455 | 23.55 | 16.01 | 39.14 | 2.10 |
1692 | 1980 | 8.242085 | TCTCTCGAGCGTTAGATACTTAATAG | 57.758 | 38.462 | 7.81 | 0.00 | 0.00 | 1.73 |
1693 | 1981 | 7.871973 | TCTCTCGAGCGTTAGATACTTAATAGT | 59.128 | 37.037 | 7.81 | 0.00 | 38.44 | 2.12 |
1694 | 1982 | 9.138062 | CTCTCGAGCGTTAGATACTTAATAGTA | 57.862 | 37.037 | 7.81 | 0.00 | 40.96 | 1.82 |
1701 | 1989 | 9.817365 | GCGTTAGATACTTAATAGTATGTCGAA | 57.183 | 33.333 | 2.74 | 0.00 | 45.43 | 3.71 |
1714 | 2002 | 8.713737 | ATAGTATGTCGAATACGTATAGCAGA | 57.286 | 34.615 | 8.83 | 3.56 | 40.69 | 4.26 |
1715 | 2003 | 7.430992 | AGTATGTCGAATACGTATAGCAGAA | 57.569 | 36.000 | 8.83 | 0.00 | 40.69 | 3.02 |
1716 | 2004 | 8.041829 | AGTATGTCGAATACGTATAGCAGAAT | 57.958 | 34.615 | 8.83 | 2.20 | 40.69 | 2.40 |
1717 | 2005 | 9.159364 | AGTATGTCGAATACGTATAGCAGAATA | 57.841 | 33.333 | 8.83 | 1.30 | 40.69 | 1.75 |
1718 | 2006 | 9.764870 | GTATGTCGAATACGTATAGCAGAATAA | 57.235 | 33.333 | 8.83 | 0.00 | 40.69 | 1.40 |
1720 | 2008 | 9.856488 | ATGTCGAATACGTATAGCAGAATAAAT | 57.144 | 29.630 | 8.83 | 0.00 | 40.69 | 1.40 |
1721 | 2009 | 9.687210 | TGTCGAATACGTATAGCAGAATAAATT | 57.313 | 29.630 | 8.83 | 0.00 | 40.69 | 1.82 |
1722 | 2010 | 9.939047 | GTCGAATACGTATAGCAGAATAAATTG | 57.061 | 33.333 | 8.83 | 0.00 | 40.69 | 2.32 |
1723 | 2011 | 9.135843 | TCGAATACGTATAGCAGAATAAATTGG | 57.864 | 33.333 | 8.83 | 0.00 | 40.69 | 3.16 |
1724 | 2012 | 8.380644 | CGAATACGTATAGCAGAATAAATTGGG | 58.619 | 37.037 | 8.83 | 0.00 | 34.56 | 4.12 |
1754 | 2042 | 6.824958 | ATTTACCTGTATGGATGGTAGTGT | 57.175 | 37.500 | 0.00 | 0.00 | 37.59 | 3.55 |
1766 | 2054 | 4.821805 | GGATGGTAGTGTGGGTTTATCATG | 59.178 | 45.833 | 0.00 | 0.00 | 0.00 | 3.07 |
1767 | 2055 | 4.919774 | TGGTAGTGTGGGTTTATCATGT | 57.080 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
1768 | 2056 | 6.408776 | GGATGGTAGTGTGGGTTTATCATGTA | 60.409 | 42.308 | 0.00 | 0.00 | 0.00 | 2.29 |
1769 | 2057 | 5.736813 | TGGTAGTGTGGGTTTATCATGTAC | 58.263 | 41.667 | 0.00 | 0.00 | 0.00 | 2.90 |
1770 | 2058 | 5.486063 | TGGTAGTGTGGGTTTATCATGTACT | 59.514 | 40.000 | 0.00 | 0.00 | 0.00 | 2.73 |
1771 | 2059 | 6.047231 | GGTAGTGTGGGTTTATCATGTACTC | 58.953 | 44.000 | 0.00 | 0.00 | 0.00 | 2.59 |
1772 | 2060 | 5.099042 | AGTGTGGGTTTATCATGTACTCC | 57.901 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
1773 | 2061 | 4.534500 | AGTGTGGGTTTATCATGTACTCCA | 59.466 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
1774 | 2062 | 4.634443 | GTGTGGGTTTATCATGTACTCCAC | 59.366 | 45.833 | 14.11 | 14.11 | 42.49 | 4.02 |
1775 | 2063 | 4.196971 | GTGGGTTTATCATGTACTCCACC | 58.803 | 47.826 | 0.00 | 4.57 | 37.89 | 4.61 |
1776 | 2064 | 3.201266 | TGGGTTTATCATGTACTCCACCC | 59.799 | 47.826 | 11.38 | 11.38 | 42.73 | 4.61 |
1777 | 2065 | 3.463944 | GGTTTATCATGTACTCCACCCG | 58.536 | 50.000 | 0.00 | 0.00 | 0.00 | 5.28 |
1778 | 2066 | 3.118519 | GGTTTATCATGTACTCCACCCGT | 60.119 | 47.826 | 0.00 | 0.00 | 0.00 | 5.28 |
1779 | 2067 | 4.117685 | GTTTATCATGTACTCCACCCGTC | 58.882 | 47.826 | 0.00 | 0.00 | 0.00 | 4.79 |
1780 | 2068 | 2.160721 | ATCATGTACTCCACCCGTCT | 57.839 | 50.000 | 0.00 | 0.00 | 0.00 | 4.18 |
1781 | 2069 | 1.471119 | TCATGTACTCCACCCGTCTC | 58.529 | 55.000 | 0.00 | 0.00 | 0.00 | 3.36 |
1782 | 2070 | 1.182667 | CATGTACTCCACCCGTCTCA | 58.817 | 55.000 | 0.00 | 0.00 | 0.00 | 3.27 |
1783 | 2071 | 1.548719 | CATGTACTCCACCCGTCTCAA | 59.451 | 52.381 | 0.00 | 0.00 | 0.00 | 3.02 |
1784 | 2072 | 1.707106 | TGTACTCCACCCGTCTCAAA | 58.293 | 50.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1785 | 2073 | 2.040939 | TGTACTCCACCCGTCTCAAAA | 58.959 | 47.619 | 0.00 | 0.00 | 0.00 | 2.44 |
1786 | 2074 | 2.635915 | TGTACTCCACCCGTCTCAAAAT | 59.364 | 45.455 | 0.00 | 0.00 | 0.00 | 1.82 |
1787 | 2075 | 2.951229 | ACTCCACCCGTCTCAAAATT | 57.049 | 45.000 | 0.00 | 0.00 | 0.00 | 1.82 |
1788 | 2076 | 2.779506 | ACTCCACCCGTCTCAAAATTC | 58.220 | 47.619 | 0.00 | 0.00 | 0.00 | 2.17 |
1789 | 2077 | 2.372172 | ACTCCACCCGTCTCAAAATTCT | 59.628 | 45.455 | 0.00 | 0.00 | 0.00 | 2.40 |
1790 | 2078 | 2.744202 | CTCCACCCGTCTCAAAATTCTG | 59.256 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
1791 | 2079 | 2.105821 | TCCACCCGTCTCAAAATTCTGT | 59.894 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
1792 | 2080 | 2.884639 | CCACCCGTCTCAAAATTCTGTT | 59.115 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
1793 | 2081 | 3.317993 | CCACCCGTCTCAAAATTCTGTTT | 59.682 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
1794 | 2082 | 4.202111 | CCACCCGTCTCAAAATTCTGTTTT | 60.202 | 41.667 | 0.00 | 0.00 | 0.00 | 2.43 |
1795 | 2083 | 5.009210 | CCACCCGTCTCAAAATTCTGTTTTA | 59.991 | 40.000 | 0.00 | 0.00 | 0.00 | 1.52 |
1796 | 2084 | 6.460399 | CCACCCGTCTCAAAATTCTGTTTTAA | 60.460 | 38.462 | 0.00 | 0.00 | 0.00 | 1.52 |
1797 | 2085 | 6.975772 | CACCCGTCTCAAAATTCTGTTTTAAA | 59.024 | 34.615 | 0.00 | 0.00 | 0.00 | 1.52 |
1798 | 2086 | 7.651704 | CACCCGTCTCAAAATTCTGTTTTAAAT | 59.348 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
1799 | 2087 | 8.201464 | ACCCGTCTCAAAATTCTGTTTTAAATT | 58.799 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
1800 | 2088 | 9.040939 | CCCGTCTCAAAATTCTGTTTTAAATTT | 57.959 | 29.630 | 0.00 | 0.00 | 36.81 | 1.82 |
1801 | 2089 | 9.848172 | CCGTCTCAAAATTCTGTTTTAAATTTG | 57.152 | 29.630 | 0.00 | 0.00 | 35.74 | 2.32 |
1823 | 2111 | 8.601845 | TTTGTCTAAATACGGATGTATCATGG | 57.398 | 34.615 | 0.00 | 0.00 | 40.42 | 3.66 |
1824 | 2112 | 7.533289 | TGTCTAAATACGGATGTATCATGGA | 57.467 | 36.000 | 0.00 | 0.00 | 40.42 | 3.41 |
1825 | 2113 | 7.602753 | TGTCTAAATACGGATGTATCATGGAG | 58.397 | 38.462 | 0.00 | 0.00 | 40.42 | 3.86 |
1826 | 2114 | 7.036220 | GTCTAAATACGGATGTATCATGGAGG | 58.964 | 42.308 | 0.00 | 0.00 | 40.42 | 4.30 |
1827 | 2115 | 6.951778 | TCTAAATACGGATGTATCATGGAGGA | 59.048 | 38.462 | 0.00 | 0.00 | 40.42 | 3.71 |
1828 | 2116 | 6.433847 | AAATACGGATGTATCATGGAGGAA | 57.566 | 37.500 | 0.00 | 0.00 | 40.42 | 3.36 |
1851 | 2139 | 5.243207 | AGTATTCGTCTCCGTTCCAAAATT | 58.757 | 37.500 | 0.00 | 0.00 | 35.01 | 1.82 |
1855 | 2143 | 5.789710 | TCGTCTCCGTTCCAAAATTAATC | 57.210 | 39.130 | 0.00 | 0.00 | 35.01 | 1.75 |
1861 | 2149 | 7.865889 | GTCTCCGTTCCAAAATTAATCAAAGTT | 59.134 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
1971 | 3189 | 3.323751 | AAAATGCCTCATGTTTGCTCC | 57.676 | 42.857 | 0.00 | 0.00 | 0.00 | 4.70 |
1976 | 3194 | 0.967380 | CCTCATGTTTGCTCCACCCC | 60.967 | 60.000 | 0.00 | 0.00 | 0.00 | 4.95 |
1978 | 3196 | 1.303236 | CATGTTTGCTCCACCCCGA | 60.303 | 57.895 | 0.00 | 0.00 | 0.00 | 5.14 |
1988 | 3206 | 1.182385 | TCCACCCCGACAAAATTGCC | 61.182 | 55.000 | 0.00 | 0.00 | 0.00 | 4.52 |
1994 | 3212 | 1.184970 | CCGACAAAATTGCCCCACCT | 61.185 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
2001 | 3219 | 4.597075 | ACAAAATTGCCCCACCTTTATTCT | 59.403 | 37.500 | 0.00 | 0.00 | 0.00 | 2.40 |
2036 | 3254 | 7.961326 | AATACCTACATTTCTCTTGCCAATT | 57.039 | 32.000 | 0.00 | 0.00 | 0.00 | 2.32 |
2043 | 3261 | 7.008021 | ACATTTCTCTTGCCAATTGGTAAAT | 57.992 | 32.000 | 25.47 | 14.67 | 39.29 | 1.40 |
2090 | 3313 | 3.790089 | AGTGAAAGGGTTCTAGGGTTG | 57.210 | 47.619 | 0.00 | 0.00 | 34.60 | 3.77 |
2092 | 3315 | 3.720002 | AGTGAAAGGGTTCTAGGGTTGAA | 59.280 | 43.478 | 0.00 | 0.00 | 34.60 | 2.69 |
2131 | 3354 | 2.159156 | ACATGGCGATGTTAGCTCGTAA | 60.159 | 45.455 | 8.73 | 0.00 | 40.05 | 3.18 |
2132 | 3355 | 2.882927 | TGGCGATGTTAGCTCGTAAT | 57.117 | 45.000 | 0.00 | 0.00 | 38.37 | 1.89 |
2133 | 3356 | 3.994204 | TGGCGATGTTAGCTCGTAATA | 57.006 | 42.857 | 0.00 | 0.00 | 38.37 | 0.98 |
2134 | 3357 | 3.897325 | TGGCGATGTTAGCTCGTAATAG | 58.103 | 45.455 | 0.00 | 0.00 | 38.37 | 1.73 |
2135 | 3358 | 2.662156 | GGCGATGTTAGCTCGTAATAGC | 59.338 | 50.000 | 0.00 | 0.00 | 43.11 | 2.97 |
2188 | 3413 | 1.678360 | CAATCGCACAAGCTCACAAC | 58.322 | 50.000 | 0.00 | 0.00 | 39.10 | 3.32 |
2190 | 3415 | 0.599991 | ATCGCACAAGCTCACAACGA | 60.600 | 50.000 | 0.00 | 0.00 | 39.10 | 3.85 |
2195 | 3420 | 1.603802 | CACAAGCTCACAACGATGGTT | 59.396 | 47.619 | 0.00 | 0.00 | 36.63 | 3.67 |
2232 | 3458 | 0.603065 | GCAAGAAATTTGAGCGGGGT | 59.397 | 50.000 | 0.00 | 0.00 | 0.00 | 4.95 |
2233 | 3459 | 1.669795 | GCAAGAAATTTGAGCGGGGTG | 60.670 | 52.381 | 0.00 | 0.00 | 0.00 | 4.61 |
2245 | 3471 | 2.763215 | GGGGTGGCAAGGATGTGA | 59.237 | 61.111 | 0.00 | 0.00 | 0.00 | 3.58 |
2251 | 3477 | 0.622136 | TGGCAAGGATGTGAGATGCT | 59.378 | 50.000 | 0.00 | 0.00 | 37.20 | 3.79 |
2262 | 3488 | 1.266867 | TGAGATGCTGCCTGGTGCTA | 61.267 | 55.000 | 13.23 | 3.15 | 42.00 | 3.49 |
2269 | 3495 | 1.123077 | CTGCCTGGTGCTATAGGACA | 58.877 | 55.000 | 23.76 | 10.60 | 42.00 | 4.02 |
2270 | 3496 | 1.486310 | CTGCCTGGTGCTATAGGACAA | 59.514 | 52.381 | 23.76 | 13.57 | 42.00 | 3.18 |
2286 | 3512 | 1.985895 | GACAAAGGGAGGGAGGAGAAA | 59.014 | 52.381 | 0.00 | 0.00 | 0.00 | 2.52 |
2295 | 3521 | 3.264450 | GGAGGGAGGAGAAAACAAGATCA | 59.736 | 47.826 | 0.00 | 0.00 | 0.00 | 2.92 |
2311 | 3537 | 2.828520 | AGATCACACGACCTCTGTTGAT | 59.171 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
2312 | 3538 | 3.259374 | AGATCACACGACCTCTGTTGATT | 59.741 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
2313 | 3539 | 3.469008 | TCACACGACCTCTGTTGATTT | 57.531 | 42.857 | 0.00 | 0.00 | 0.00 | 2.17 |
2314 | 3540 | 3.804036 | TCACACGACCTCTGTTGATTTT | 58.196 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
2447 | 3683 | 9.885934 | GAGAGAAAGAAAGAACTTATGGTTTTC | 57.114 | 33.333 | 0.00 | 0.00 | 38.41 | 2.29 |
2462 | 3698 | 6.605471 | ATGGTTTTCTATTTTGAGGGGAAC | 57.395 | 37.500 | 0.00 | 0.00 | 0.00 | 3.62 |
2463 | 3699 | 5.711698 | TGGTTTTCTATTTTGAGGGGAACT | 58.288 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
2465 | 3701 | 6.041523 | TGGTTTTCTATTTTGAGGGGAACTTG | 59.958 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
2466 | 3702 | 6.041637 | GGTTTTCTATTTTGAGGGGAACTTGT | 59.958 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
2467 | 3703 | 7.418597 | GGTTTTCTATTTTGAGGGGAACTTGTT | 60.419 | 37.037 | 0.00 | 0.00 | 0.00 | 2.83 |
2469 | 3705 | 7.669089 | TTCTATTTTGAGGGGAACTTGTTTT | 57.331 | 32.000 | 0.00 | 0.00 | 0.00 | 2.43 |
2523 | 3759 | 9.676861 | AAAAGGTTTATTTAGGCTATACTCGTT | 57.323 | 29.630 | 0.00 | 0.00 | 0.00 | 3.85 |
2525 | 3761 | 9.978044 | AAGGTTTATTTAGGCTATACTCGTTAG | 57.022 | 33.333 | 0.00 | 0.00 | 0.00 | 2.34 |
2526 | 3762 | 8.583296 | AGGTTTATTTAGGCTATACTCGTTAGG | 58.417 | 37.037 | 0.00 | 0.00 | 0.00 | 2.69 |
2527 | 3763 | 7.816513 | GGTTTATTTAGGCTATACTCGTTAGGG | 59.183 | 40.741 | 0.00 | 0.00 | 0.00 | 3.53 |
2528 | 3764 | 8.363390 | GTTTATTTAGGCTATACTCGTTAGGGT | 58.637 | 37.037 | 0.00 | 0.00 | 34.06 | 4.34 |
2529 | 3765 | 6.990908 | ATTTAGGCTATACTCGTTAGGGTT | 57.009 | 37.500 | 0.00 | 0.00 | 30.72 | 4.11 |
2530 | 3766 | 6.796785 | TTTAGGCTATACTCGTTAGGGTTT | 57.203 | 37.500 | 0.00 | 0.00 | 30.72 | 3.27 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
11 | 12 | 1.200716 | CACCGCACTTACGAGGACTAA | 59.799 | 52.381 | 0.00 | 0.00 | 34.06 | 2.24 |
52 | 53 | 4.273724 | GGAGACCAGAAGACAAACTCAAAC | 59.726 | 45.833 | 0.00 | 0.00 | 0.00 | 2.93 |
63 | 67 | 3.481559 | AGAGGATTGGAGACCAGAAGA | 57.518 | 47.619 | 0.00 | 0.00 | 33.81 | 2.87 |
76 | 80 | 4.559862 | ATTGGACGAACTCAAGAGGATT | 57.440 | 40.909 | 1.73 | 0.00 | 0.00 | 3.01 |
135 | 140 | 1.225704 | GTCCCAAGGAGATGGCAGG | 59.774 | 63.158 | 0.00 | 0.00 | 39.26 | 4.85 |
164 | 169 | 1.300697 | GCCACACGACGAGAAACCT | 60.301 | 57.895 | 0.00 | 0.00 | 0.00 | 3.50 |
194 | 199 | 3.877559 | TGAATACATCTGAAGCACCTGG | 58.122 | 45.455 | 0.00 | 0.00 | 0.00 | 4.45 |
254 | 259 | 2.033448 | TGCACGTGCCCCTAAAGG | 59.967 | 61.111 | 35.72 | 0.00 | 41.18 | 3.11 |
286 | 291 | 4.550255 | GCCGGCTAAATTATATCGCGAATC | 60.550 | 45.833 | 22.15 | 0.00 | 0.00 | 2.52 |
287 | 292 | 3.308866 | GCCGGCTAAATTATATCGCGAAT | 59.691 | 43.478 | 22.15 | 10.88 | 0.00 | 3.34 |
288 | 293 | 2.669434 | GCCGGCTAAATTATATCGCGAA | 59.331 | 45.455 | 22.15 | 2.68 | 0.00 | 4.70 |
291 | 296 | 2.608090 | GGAGCCGGCTAAATTATATCGC | 59.392 | 50.000 | 32.97 | 12.23 | 0.00 | 4.58 |
292 | 297 | 2.858344 | CGGAGCCGGCTAAATTATATCG | 59.142 | 50.000 | 32.97 | 16.90 | 35.56 | 2.92 |
293 | 298 | 4.119442 | TCGGAGCCGGCTAAATTATATC | 57.881 | 45.455 | 32.97 | 13.92 | 40.25 | 1.63 |
294 | 299 | 4.755266 | ATCGGAGCCGGCTAAATTATAT | 57.245 | 40.909 | 32.97 | 13.18 | 40.25 | 0.86 |
295 | 300 | 4.098960 | CCTATCGGAGCCGGCTAAATTATA | 59.901 | 45.833 | 32.97 | 20.08 | 40.25 | 0.98 |
297 | 302 | 2.232941 | CCTATCGGAGCCGGCTAAATTA | 59.767 | 50.000 | 32.97 | 17.70 | 40.25 | 1.40 |
298 | 303 | 1.002087 | CCTATCGGAGCCGGCTAAATT | 59.998 | 52.381 | 32.97 | 17.50 | 40.25 | 1.82 |
299 | 304 | 0.608640 | CCTATCGGAGCCGGCTAAAT | 59.391 | 55.000 | 32.97 | 23.98 | 40.25 | 1.40 |
300 | 305 | 1.469335 | CCCTATCGGAGCCGGCTAAA | 61.469 | 60.000 | 32.97 | 18.50 | 40.25 | 1.85 |
301 | 306 | 1.906824 | CCCTATCGGAGCCGGCTAA | 60.907 | 63.158 | 32.97 | 18.91 | 40.25 | 3.09 |
302 | 307 | 2.282958 | CCCTATCGGAGCCGGCTA | 60.283 | 66.667 | 32.97 | 15.82 | 40.25 | 3.93 |
360 | 365 | 0.034863 | ACACCAAAACGACCACCACT | 60.035 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
361 | 366 | 0.379316 | GACACCAAAACGACCACCAC | 59.621 | 55.000 | 0.00 | 0.00 | 0.00 | 4.16 |
363 | 368 | 1.064952 | CAAGACACCAAAACGACCACC | 59.935 | 52.381 | 0.00 | 0.00 | 0.00 | 4.61 |
374 | 379 | 1.924731 | ATCGAGACTCCAAGACACCA | 58.075 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
376 | 381 | 9.915629 | ATAAATTATATCGAGACTCCAAGACAC | 57.084 | 33.333 | 0.00 | 0.00 | 0.00 | 3.67 |
559 | 566 | 1.064654 | GATTGATCGGCAAGTGCTTCC | 59.935 | 52.381 | 2.85 | 0.00 | 40.42 | 3.46 |
607 | 614 | 1.638133 | CTCTTCGCACAGAGATGGTG | 58.362 | 55.000 | 3.44 | 0.00 | 42.81 | 4.17 |
608 | 615 | 0.108424 | GCTCTTCGCACAGAGATGGT | 60.108 | 55.000 | 12.40 | 0.00 | 42.81 | 3.55 |
714 | 721 | 2.504920 | GCCTGATTAAAGTGGCCCC | 58.495 | 57.895 | 0.00 | 0.00 | 39.49 | 5.80 |
721 | 728 | 2.168521 | TCGAGACAGGGCCTGATTAAAG | 59.831 | 50.000 | 38.99 | 22.48 | 35.18 | 1.85 |
782 | 789 | 5.808366 | TGTCCTTTTCAGATGAGTGTAGT | 57.192 | 39.130 | 0.00 | 0.00 | 0.00 | 2.73 |
783 | 790 | 6.875726 | TCAATGTCCTTTTCAGATGAGTGTAG | 59.124 | 38.462 | 0.00 | 0.00 | 0.00 | 2.74 |
784 | 791 | 6.768483 | TCAATGTCCTTTTCAGATGAGTGTA | 58.232 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
914 | 1139 | 2.264794 | GTGGCCGTGGGTACTGAG | 59.735 | 66.667 | 0.00 | 0.00 | 0.00 | 3.35 |
1203 | 1482 | 4.218686 | ATAATGCCCGGGGTGCCC | 62.219 | 66.667 | 25.28 | 5.15 | 41.09 | 5.36 |
1569 | 1851 | 0.750911 | ATACCCTCCAGTCGTCGTCC | 60.751 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
1615 | 1899 | 4.698276 | CATACGCACACAGAAACAACTAC | 58.302 | 43.478 | 0.00 | 0.00 | 0.00 | 2.73 |
1654 | 1942 | 3.102276 | CTCGAGAGATTAGCAACGACAC | 58.898 | 50.000 | 6.58 | 0.00 | 40.84 | 3.67 |
1692 | 1980 | 9.764870 | TTATTCTGCTATACGTATTCGACATAC | 57.235 | 33.333 | 14.33 | 0.00 | 40.62 | 2.39 |
1694 | 1982 | 9.856488 | ATTTATTCTGCTATACGTATTCGACAT | 57.144 | 29.630 | 14.33 | 2.73 | 40.62 | 3.06 |
1701 | 1989 | 7.913789 | TCCCCAATTTATTCTGCTATACGTAT | 58.086 | 34.615 | 13.54 | 13.54 | 0.00 | 3.06 |
1718 | 2006 | 8.933653 | CCATACAGGTAAATTTATTCCCCAATT | 58.066 | 33.333 | 0.31 | 0.00 | 0.00 | 2.32 |
1719 | 2007 | 8.293216 | TCCATACAGGTAAATTTATTCCCCAAT | 58.707 | 33.333 | 0.31 | 0.00 | 39.02 | 3.16 |
1720 | 2008 | 7.653503 | TCCATACAGGTAAATTTATTCCCCAA | 58.346 | 34.615 | 0.31 | 0.00 | 39.02 | 4.12 |
1721 | 2009 | 7.227355 | TCCATACAGGTAAATTTATTCCCCA | 57.773 | 36.000 | 0.31 | 0.00 | 39.02 | 4.96 |
1722 | 2010 | 7.178451 | CCATCCATACAGGTAAATTTATTCCCC | 59.822 | 40.741 | 0.31 | 0.00 | 39.02 | 4.81 |
1723 | 2011 | 7.728532 | ACCATCCATACAGGTAAATTTATTCCC | 59.271 | 37.037 | 0.31 | 0.00 | 39.02 | 3.97 |
1724 | 2012 | 8.706322 | ACCATCCATACAGGTAAATTTATTCC | 57.294 | 34.615 | 0.31 | 0.00 | 39.02 | 3.01 |
1754 | 2042 | 3.201266 | GGGTGGAGTACATGATAAACCCA | 59.799 | 47.826 | 16.07 | 6.68 | 44.52 | 4.51 |
1766 | 2054 | 2.825861 | TTTTGAGACGGGTGGAGTAC | 57.174 | 50.000 | 0.00 | 0.00 | 0.00 | 2.73 |
1767 | 2055 | 3.581332 | AGAATTTTGAGACGGGTGGAGTA | 59.419 | 43.478 | 0.00 | 0.00 | 0.00 | 2.59 |
1768 | 2056 | 2.372172 | AGAATTTTGAGACGGGTGGAGT | 59.628 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
1769 | 2057 | 2.744202 | CAGAATTTTGAGACGGGTGGAG | 59.256 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1770 | 2058 | 2.105821 | ACAGAATTTTGAGACGGGTGGA | 59.894 | 45.455 | 2.48 | 0.00 | 0.00 | 4.02 |
1771 | 2059 | 2.504367 | ACAGAATTTTGAGACGGGTGG | 58.496 | 47.619 | 2.48 | 0.00 | 0.00 | 4.61 |
1772 | 2060 | 4.568152 | AAACAGAATTTTGAGACGGGTG | 57.432 | 40.909 | 2.48 | 0.00 | 0.00 | 4.61 |
1773 | 2061 | 6.702716 | TTAAAACAGAATTTTGAGACGGGT | 57.297 | 33.333 | 2.48 | 0.00 | 0.00 | 5.28 |
1774 | 2062 | 8.587952 | AATTTAAAACAGAATTTTGAGACGGG | 57.412 | 30.769 | 2.48 | 0.00 | 0.00 | 5.28 |
1775 | 2063 | 9.848172 | CAAATTTAAAACAGAATTTTGAGACGG | 57.152 | 29.630 | 2.48 | 0.00 | 34.25 | 4.79 |
1797 | 2085 | 9.219603 | CCATGATACATCCGTATTTAGACAAAT | 57.780 | 33.333 | 0.00 | 0.00 | 38.48 | 2.32 |
1798 | 2086 | 8.425703 | TCCATGATACATCCGTATTTAGACAAA | 58.574 | 33.333 | 0.00 | 0.00 | 38.48 | 2.83 |
1799 | 2087 | 7.958088 | TCCATGATACATCCGTATTTAGACAA | 58.042 | 34.615 | 0.00 | 0.00 | 38.48 | 3.18 |
1800 | 2088 | 7.309805 | CCTCCATGATACATCCGTATTTAGACA | 60.310 | 40.741 | 0.00 | 0.00 | 38.48 | 3.41 |
1801 | 2089 | 7.036220 | CCTCCATGATACATCCGTATTTAGAC | 58.964 | 42.308 | 0.00 | 0.00 | 38.48 | 2.59 |
1802 | 2090 | 6.951778 | TCCTCCATGATACATCCGTATTTAGA | 59.048 | 38.462 | 0.00 | 0.00 | 38.48 | 2.10 |
1803 | 2091 | 7.170393 | TCCTCCATGATACATCCGTATTTAG | 57.830 | 40.000 | 0.00 | 0.00 | 38.48 | 1.85 |
1804 | 2092 | 7.234782 | ACTTCCTCCATGATACATCCGTATTTA | 59.765 | 37.037 | 0.00 | 0.00 | 38.48 | 1.40 |
1805 | 2093 | 6.043243 | ACTTCCTCCATGATACATCCGTATTT | 59.957 | 38.462 | 0.00 | 0.00 | 38.48 | 1.40 |
1806 | 2094 | 5.544176 | ACTTCCTCCATGATACATCCGTATT | 59.456 | 40.000 | 0.00 | 0.00 | 38.48 | 1.89 |
1807 | 2095 | 5.087323 | ACTTCCTCCATGATACATCCGTAT | 58.913 | 41.667 | 0.00 | 0.00 | 41.16 | 3.06 |
1808 | 2096 | 4.480115 | ACTTCCTCCATGATACATCCGTA | 58.520 | 43.478 | 0.00 | 0.00 | 0.00 | 4.02 |
1809 | 2097 | 3.309296 | ACTTCCTCCATGATACATCCGT | 58.691 | 45.455 | 0.00 | 0.00 | 0.00 | 4.69 |
1810 | 2098 | 5.667539 | ATACTTCCTCCATGATACATCCG | 57.332 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
1811 | 2099 | 6.102663 | CGAATACTTCCTCCATGATACATCC | 58.897 | 44.000 | 0.00 | 0.00 | 0.00 | 3.51 |
1812 | 2100 | 6.692486 | ACGAATACTTCCTCCATGATACATC | 58.308 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1813 | 2101 | 6.495181 | AGACGAATACTTCCTCCATGATACAT | 59.505 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
1814 | 2102 | 5.833667 | AGACGAATACTTCCTCCATGATACA | 59.166 | 40.000 | 0.00 | 0.00 | 0.00 | 2.29 |
1815 | 2103 | 6.334102 | AGACGAATACTTCCTCCATGATAC | 57.666 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
1816 | 2104 | 5.477291 | GGAGACGAATACTTCCTCCATGATA | 59.523 | 44.000 | 0.00 | 0.00 | 0.00 | 2.15 |
1817 | 2105 | 4.282195 | GGAGACGAATACTTCCTCCATGAT | 59.718 | 45.833 | 0.00 | 0.00 | 0.00 | 2.45 |
1818 | 2106 | 3.637229 | GGAGACGAATACTTCCTCCATGA | 59.363 | 47.826 | 0.00 | 0.00 | 0.00 | 3.07 |
1819 | 2107 | 3.983741 | GGAGACGAATACTTCCTCCATG | 58.016 | 50.000 | 0.00 | 0.00 | 0.00 | 3.66 |
1935 | 3150 | 9.445878 | TGAGGCATTTTATCAATTATGCAAAAA | 57.554 | 25.926 | 10.04 | 0.00 | 43.89 | 1.94 |
1940 | 3155 | 8.597662 | AACATGAGGCATTTTATCAATTATGC | 57.402 | 30.769 | 0.00 | 0.00 | 41.94 | 3.14 |
1957 | 3175 | 0.967380 | GGGGTGGAGCAAACATGAGG | 60.967 | 60.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1971 | 3189 | 1.291906 | GGGCAATTTTGTCGGGGTG | 59.708 | 57.895 | 0.00 | 0.00 | 32.44 | 4.61 |
1976 | 3194 | 0.678950 | AAGGTGGGGCAATTTTGTCG | 59.321 | 50.000 | 0.00 | 0.00 | 32.44 | 4.35 |
1978 | 3196 | 4.597075 | AGAATAAAGGTGGGGCAATTTTGT | 59.403 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
1988 | 3206 | 4.510167 | ATCCACAGAGAATAAAGGTGGG | 57.490 | 45.455 | 9.04 | 0.00 | 46.93 | 4.61 |
2001 | 3219 | 9.832445 | GAGAAATGTAGGTATTTTATCCACAGA | 57.168 | 33.333 | 0.00 | 0.00 | 30.78 | 3.41 |
2014 | 3232 | 5.652014 | CCAATTGGCAAGAGAAATGTAGGTA | 59.348 | 40.000 | 12.53 | 0.00 | 0.00 | 3.08 |
2090 | 3313 | 2.860136 | GTTGAAAGTGTGCAAGCCTTTC | 59.140 | 45.455 | 19.47 | 19.47 | 42.69 | 2.62 |
2092 | 3315 | 1.824230 | TGTTGAAAGTGTGCAAGCCTT | 59.176 | 42.857 | 0.00 | 0.00 | 0.00 | 4.35 |
2126 | 3349 | 1.801618 | CGTCGTCGTTGCTATTACGA | 58.198 | 50.000 | 0.00 | 4.38 | 44.88 | 3.43 |
2131 | 3354 | 0.109458 | TGAAGCGTCGTCGTTGCTAT | 60.109 | 50.000 | 12.90 | 5.53 | 38.17 | 2.97 |
2132 | 3355 | 1.000233 | GTGAAGCGTCGTCGTTGCTA | 61.000 | 55.000 | 12.90 | 0.00 | 38.17 | 3.49 |
2133 | 3356 | 2.027024 | TGAAGCGTCGTCGTTGCT | 59.973 | 55.556 | 3.66 | 7.91 | 41.60 | 3.91 |
2134 | 3357 | 2.084763 | TTGTGAAGCGTCGTCGTTGC | 62.085 | 55.000 | 3.66 | 0.00 | 39.49 | 4.17 |
2135 | 3358 | 0.381428 | GTTGTGAAGCGTCGTCGTTG | 60.381 | 55.000 | 3.66 | 0.00 | 39.49 | 4.10 |
2176 | 3401 | 1.603802 | CAACCATCGTTGTGAGCTTGT | 59.396 | 47.619 | 0.00 | 0.00 | 43.73 | 3.16 |
2188 | 3413 | 1.626654 | GCGTGTGAGGACAACCATCG | 61.627 | 60.000 | 0.00 | 0.00 | 38.94 | 3.84 |
2190 | 3415 | 0.603707 | CAGCGTGTGAGGACAACCAT | 60.604 | 55.000 | 0.00 | 0.00 | 38.94 | 3.55 |
2195 | 3420 | 1.668793 | CATGCAGCGTGTGAGGACA | 60.669 | 57.895 | 6.43 | 0.00 | 0.00 | 4.02 |
2232 | 3458 | 0.622136 | AGCATCTCACATCCTTGCCA | 59.378 | 50.000 | 0.00 | 0.00 | 33.85 | 4.92 |
2233 | 3459 | 1.022735 | CAGCATCTCACATCCTTGCC | 58.977 | 55.000 | 0.00 | 0.00 | 33.85 | 4.52 |
2262 | 3488 | 1.657162 | TCCTCCCTCCCTTTGTCCTAT | 59.343 | 52.381 | 0.00 | 0.00 | 0.00 | 2.57 |
2269 | 3495 | 2.428901 | TGTTTTCTCCTCCCTCCCTTT | 58.571 | 47.619 | 0.00 | 0.00 | 0.00 | 3.11 |
2270 | 3496 | 2.133858 | TGTTTTCTCCTCCCTCCCTT | 57.866 | 50.000 | 0.00 | 0.00 | 0.00 | 3.95 |
2286 | 3512 | 2.365617 | ACAGAGGTCGTGTGATCTTGTT | 59.634 | 45.455 | 0.00 | 0.00 | 35.06 | 2.83 |
2321 | 3547 | 0.616964 | AACCTCTACGGGTCCCTTCC | 60.617 | 60.000 | 6.29 | 0.00 | 38.87 | 3.46 |
2322 | 3548 | 1.273759 | AAACCTCTACGGGTCCCTTC | 58.726 | 55.000 | 6.29 | 0.00 | 38.87 | 3.46 |
2324 | 3550 | 1.738474 | AAAAACCTCTACGGGTCCCT | 58.262 | 50.000 | 6.29 | 0.00 | 38.87 | 4.20 |
2440 | 3676 | 5.711698 | AGTTCCCCTCAAAATAGAAAACCA | 58.288 | 37.500 | 0.00 | 0.00 | 0.00 | 3.67 |
2497 | 3733 | 9.676861 | AACGAGTATAGCCTAAATAAACCTTTT | 57.323 | 29.630 | 0.00 | 0.00 | 0.00 | 2.27 |
2499 | 3735 | 9.978044 | CTAACGAGTATAGCCTAAATAAACCTT | 57.022 | 33.333 | 0.00 | 0.00 | 0.00 | 3.50 |
2500 | 3736 | 8.583296 | CCTAACGAGTATAGCCTAAATAAACCT | 58.417 | 37.037 | 0.00 | 0.00 | 0.00 | 3.50 |
2501 | 3737 | 7.816513 | CCCTAACGAGTATAGCCTAAATAAACC | 59.183 | 40.741 | 0.00 | 0.00 | 0.00 | 3.27 |
2502 | 3738 | 8.363390 | ACCCTAACGAGTATAGCCTAAATAAAC | 58.637 | 37.037 | 0.00 | 0.00 | 0.00 | 2.01 |
2503 | 3739 | 8.482852 | ACCCTAACGAGTATAGCCTAAATAAA | 57.517 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
2504 | 3740 | 8.482852 | AACCCTAACGAGTATAGCCTAAATAA | 57.517 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
2505 | 3741 | 8.482852 | AAACCCTAACGAGTATAGCCTAAATA | 57.517 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
2506 | 3742 | 6.990908 | AACCCTAACGAGTATAGCCTAAAT | 57.009 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
2507 | 3743 | 6.796785 | AAACCCTAACGAGTATAGCCTAAA | 57.203 | 37.500 | 0.00 | 0.00 | 0.00 | 1.85 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.