Multiple sequence alignment - TraesCS7D01G294700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


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 TraesCS7D01G294700 chr7D 100.000 2855 0 0 1 2855 368808478 368811332 0.000000e+00 5273.0
1 TraesCS7D01G294700 chr7A 97.765 1387 26 1 911 2292 408688352 408689738 0.000000e+00 2385.0
2 TraesCS7D01G294700 chr7A 94.757 801 16 7 126 917 408684274 408685057 0.000000e+00 1223.0
3 TraesCS7D01G294700 chr7A 93.173 249 10 3 2613 2855 408689735 408689982 2.700000e-95 359.0
4 TraesCS7D01G294700 chr7A 90.840 131 8 3 1 128 408684042 408684171 3.780000e-39 172.0
5 TraesCS7D01G294700 chr7B 97.687 1254 23 2 656 1909 313773807 313772560 0.000000e+00 2150.0
6 TraesCS7D01G294700 chr7B 93.390 469 14 6 1 467 313776461 313776008 0.000000e+00 678.0
7 TraesCS7D01G294700 chr7B 95.467 353 12 1 1944 2292 313772556 313772204 6.910000e-156 560.0
8 TraesCS7D01G294700 chr7B 93.522 247 9 2 2613 2855 313772207 313771964 7.520000e-96 361.0
9 TraesCS7D01G294700 chr7B 97.727 132 3 0 459 590 313774322 313774191 7.960000e-56 228.0
10 TraesCS7D01G294700 chr3B 92.401 329 23 2 2289 2616 60608734 60608407 4.310000e-128 468.0
11 TraesCS7D01G294700 chr3B 92.121 330 25 1 2289 2617 450734759 450735088 5.570000e-127 464.0
12 TraesCS7D01G294700 chr3B 91.818 330 26 1 2289 2617 233442939 233442610 2.590000e-125 459.0
13 TraesCS7D01G294700 chr5D 91.843 331 25 2 2289 2617 455340245 455339915 7.210000e-126 460.0
14 TraesCS7D01G294700 chr4B 92.073 328 24 2 2289 2615 192227911 192227585 7.210000e-126 460.0
15 TraesCS7D01G294700 chr4B 80.357 112 16 5 15 125 166310164 166310270 2.360000e-11 80.5
16 TraesCS7D01G294700 chr2D 91.818 330 26 1 2289 2617 625980559 625980230 2.590000e-125 459.0
17 TraesCS7D01G294700 chr2B 91.818 330 26 1 2289 2617 568516651 568516322 2.590000e-125 459.0
18 TraesCS7D01G294700 chr1B 91.843 331 24 3 2289 2617 128454928 128455257 2.590000e-125 459.0
19 TraesCS7D01G294700 chr1B 91.818 330 26 1 2289 2617 395338066 395337737 2.590000e-125 459.0
20 TraesCS7D01G294700 chr1B 81.982 111 14 5 16 125 156058194 156058089 3.920000e-14 89.8
21 TraesCS7D01G294700 chr5B 82.143 112 14 5 15 125 18234134 18234028 1.090000e-14 91.6


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 TraesCS7D01G294700 chr7D 368808478 368811332 2854 False 5273.00 5273 100.00000 1 2855 1 chr7D.!!$F1 2854
1 TraesCS7D01G294700 chr7A 408684042 408689982 5940 False 1034.75 2385 94.13375 1 2855 4 chr7A.!!$F1 2854
2 TraesCS7D01G294700 chr7B 313771964 313776461 4497 True 795.40 2150 95.55860 1 2855 5 chr7B.!!$R1 2854

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
424 540 1.108727 TCTGTGCAAGCACCCCTTTG 61.109 55.0 21.19 6.04 45.63 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2417 7855 3.008835 ACCATTCACTACATGCATGCT 57.991 42.857 26.53 15.56 31.19 3.79 R

All possible primers

Listed 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.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
181 291 3.445857 GTCCGGCTTATATTCCTATCGC 58.554 50.000 0.00 0.00 0.00 4.58
231 341 4.599041 TGCACCATTAAACTAATGCCTCT 58.401 39.130 1.57 0.00 43.19 3.69
232 342 4.640201 TGCACCATTAAACTAATGCCTCTC 59.360 41.667 1.57 0.00 43.19 3.20
320 434 5.984725 TCACTTCCGTCCATTGTATGTATT 58.015 37.500 0.00 0.00 0.00 1.89
321 435 7.114866 TCACTTCCGTCCATTGTATGTATTA 57.885 36.000 0.00 0.00 0.00 0.98
322 436 7.732025 TCACTTCCGTCCATTGTATGTATTAT 58.268 34.615 0.00 0.00 0.00 1.28
323 437 7.655732 TCACTTCCGTCCATTGTATGTATTATG 59.344 37.037 0.00 0.00 0.00 1.90
324 438 7.441157 CACTTCCGTCCATTGTATGTATTATGT 59.559 37.037 0.00 0.00 0.00 2.29
325 439 8.644216 ACTTCCGTCCATTGTATGTATTATGTA 58.356 33.333 0.00 0.00 0.00 2.29
326 440 9.653287 CTTCCGTCCATTGTATGTATTATGTAT 57.347 33.333 0.00 0.00 0.00 2.29
424 540 1.108727 TCTGTGCAAGCACCCCTTTG 61.109 55.000 21.19 6.04 45.63 2.77
437 553 4.522789 GCACCCCTTTGTCTTTCTTATTGA 59.477 41.667 0.00 0.00 0.00 2.57
438 554 5.010617 GCACCCCTTTGTCTTTCTTATTGAA 59.989 40.000 0.00 0.00 0.00 2.69
439 555 6.462347 GCACCCCTTTGTCTTTCTTATTGAAA 60.462 38.462 0.00 0.00 41.85 2.69
440 556 7.496747 CACCCCTTTGTCTTTCTTATTGAAAA 58.503 34.615 0.00 0.00 43.25 2.29
441 557 7.984617 CACCCCTTTGTCTTTCTTATTGAAAAA 59.015 33.333 0.00 0.00 43.25 1.94
490 2300 3.165875 TCTTCGACCATCTCCAAAGACT 58.834 45.455 0.00 0.00 33.32 3.24
517 2327 3.511477 CCTGCTAGCCTATCCCTTTCTA 58.489 50.000 13.29 0.00 0.00 2.10
569 2379 2.313041 TCCATCTCCTCTCTCCTCAACA 59.687 50.000 0.00 0.00 0.00 3.33
682 2810 8.138712 TCAACAAGGATAAACAACCACAAATAC 58.861 33.333 0.00 0.00 0.00 1.89
1398 6827 4.767255 CTCCGGCAGCCACAGTCC 62.767 72.222 13.30 0.00 0.00 3.85
1722 7151 1.497278 CATGCCGTTCGGTGTTGAG 59.503 57.895 12.81 0.00 0.00 3.02
1809 7238 4.612412 GTGGACGGGCACAACGGA 62.612 66.667 0.00 0.00 35.23 4.69
1953 7382 6.250344 TCTTATCACGGTCGATCGATTATT 57.750 37.500 27.34 7.02 0.00 1.40
2183 7616 5.660460 ACACATGATCGTTCTTATAGTGCA 58.340 37.500 0.00 0.00 0.00 4.57
2190 7623 2.671396 CGTTCTTATAGTGCAAACGGCT 59.329 45.455 9.19 0.00 45.15 5.52
2209 7642 4.670221 CGGCTAGCTCAACATTCTTGTTTC 60.670 45.833 15.72 0.00 43.57 2.78
2290 7728 3.798337 CGATTGGATGCCATTTTTGCTAC 59.202 43.478 0.00 0.00 31.53 3.58
2291 7729 4.440525 CGATTGGATGCCATTTTTGCTACT 60.441 41.667 0.00 0.00 31.53 2.57
2292 7730 4.454728 TTGGATGCCATTTTTGCTACTC 57.545 40.909 0.00 0.00 31.53 2.59
2293 7731 2.760092 TGGATGCCATTTTTGCTACTCC 59.240 45.455 0.00 0.00 0.00 3.85
2294 7732 2.101415 GGATGCCATTTTTGCTACTCCC 59.899 50.000 0.00 0.00 0.00 4.30
2295 7733 2.603075 TGCCATTTTTGCTACTCCCT 57.397 45.000 0.00 0.00 0.00 4.20
2296 7734 2.446435 TGCCATTTTTGCTACTCCCTC 58.554 47.619 0.00 0.00 0.00 4.30
2297 7735 1.751351 GCCATTTTTGCTACTCCCTCC 59.249 52.381 0.00 0.00 0.00 4.30
2298 7736 2.883888 GCCATTTTTGCTACTCCCTCCA 60.884 50.000 0.00 0.00 0.00 3.86
2299 7737 3.635591 CCATTTTTGCTACTCCCTCCAT 58.364 45.455 0.00 0.00 0.00 3.41
2300 7738 4.026052 CCATTTTTGCTACTCCCTCCATT 58.974 43.478 0.00 0.00 0.00 3.16
2301 7739 4.467438 CCATTTTTGCTACTCCCTCCATTT 59.533 41.667 0.00 0.00 0.00 2.32
2302 7740 5.046376 CCATTTTTGCTACTCCCTCCATTTT 60.046 40.000 0.00 0.00 0.00 1.82
2303 7741 6.466812 CATTTTTGCTACTCCCTCCATTTTT 58.533 36.000 0.00 0.00 0.00 1.94
2304 7742 7.310361 CCATTTTTGCTACTCCCTCCATTTTTA 60.310 37.037 0.00 0.00 0.00 1.52
2305 7743 7.790782 TTTTTGCTACTCCCTCCATTTTTAT 57.209 32.000 0.00 0.00 0.00 1.40
2306 7744 6.773976 TTTGCTACTCCCTCCATTTTTATG 57.226 37.500 0.00 0.00 0.00 1.90
2307 7745 5.450818 TGCTACTCCCTCCATTTTTATGT 57.549 39.130 0.00 0.00 0.00 2.29
2308 7746 6.569127 TGCTACTCCCTCCATTTTTATGTA 57.431 37.500 0.00 0.00 0.00 2.29
2309 7747 6.354130 TGCTACTCCCTCCATTTTTATGTAC 58.646 40.000 0.00 0.00 0.00 2.90
2310 7748 6.069905 TGCTACTCCCTCCATTTTTATGTACA 60.070 38.462 0.00 0.00 0.00 2.90
2311 7749 6.826741 GCTACTCCCTCCATTTTTATGTACAA 59.173 38.462 0.00 0.00 0.00 2.41
2312 7750 7.012421 GCTACTCCCTCCATTTTTATGTACAAG 59.988 40.741 0.00 0.00 0.00 3.16
2313 7751 6.187682 ACTCCCTCCATTTTTATGTACAAGG 58.812 40.000 0.00 0.00 0.00 3.61
2314 7752 4.953579 TCCCTCCATTTTTATGTACAAGGC 59.046 41.667 0.00 0.00 0.00 4.35
2315 7753 4.099419 CCCTCCATTTTTATGTACAAGGCC 59.901 45.833 0.00 0.00 0.00 5.19
2316 7754 4.709397 CCTCCATTTTTATGTACAAGGCCA 59.291 41.667 5.01 0.00 0.00 5.36
2317 7755 5.394115 CCTCCATTTTTATGTACAAGGCCAC 60.394 44.000 5.01 0.00 0.00 5.01
2318 7756 5.329399 TCCATTTTTATGTACAAGGCCACT 58.671 37.500 5.01 0.00 0.00 4.00
2319 7757 6.486056 TCCATTTTTATGTACAAGGCCACTA 58.514 36.000 5.01 0.00 0.00 2.74
2320 7758 7.122715 TCCATTTTTATGTACAAGGCCACTAT 58.877 34.615 5.01 0.00 0.00 2.12
2321 7759 7.617723 TCCATTTTTATGTACAAGGCCACTATT 59.382 33.333 5.01 0.00 0.00 1.73
2322 7760 8.908903 CCATTTTTATGTACAAGGCCACTATTA 58.091 33.333 5.01 0.00 0.00 0.98
2354 7792 9.797642 ATATTTTGCATCTATACAAGATCACCA 57.202 29.630 0.00 0.00 43.42 4.17
2355 7793 7.936496 TTTTGCATCTATACAAGATCACCAA 57.064 32.000 0.00 0.00 43.42 3.67
2356 7794 7.936496 TTTGCATCTATACAAGATCACCAAA 57.064 32.000 0.00 0.00 43.42 3.28
2357 7795 7.936496 TTGCATCTATACAAGATCACCAAAA 57.064 32.000 0.00 0.00 43.42 2.44
2358 7796 7.558161 TGCATCTATACAAGATCACCAAAAG 57.442 36.000 0.00 0.00 43.42 2.27
2359 7797 7.112122 TGCATCTATACAAGATCACCAAAAGT 58.888 34.615 0.00 0.00 43.42 2.66
2360 7798 8.264347 TGCATCTATACAAGATCACCAAAAGTA 58.736 33.333 0.00 0.00 43.42 2.24
2361 7799 9.109393 GCATCTATACAAGATCACCAAAAGTAA 57.891 33.333 0.00 0.00 43.42 2.24
2364 7802 9.529325 TCTATACAAGATCACCAAAAGTAATCG 57.471 33.333 0.00 0.00 0.00 3.34
2365 7803 9.529325 CTATACAAGATCACCAAAAGTAATCGA 57.471 33.333 0.00 0.00 0.00 3.59
2366 7804 6.727824 ACAAGATCACCAAAAGTAATCGAG 57.272 37.500 0.00 0.00 0.00 4.04
2367 7805 5.643777 ACAAGATCACCAAAAGTAATCGAGG 59.356 40.000 0.00 0.00 0.00 4.63
2368 7806 4.192317 AGATCACCAAAAGTAATCGAGGC 58.808 43.478 0.00 0.00 0.00 4.70
2369 7807 3.410631 TCACCAAAAGTAATCGAGGCA 57.589 42.857 0.00 0.00 0.00 4.75
2370 7808 3.745799 TCACCAAAAGTAATCGAGGCAA 58.254 40.909 0.00 0.00 0.00 4.52
2371 7809 4.138290 TCACCAAAAGTAATCGAGGCAAA 58.862 39.130 0.00 0.00 0.00 3.68
2372 7810 4.764823 TCACCAAAAGTAATCGAGGCAAAT 59.235 37.500 0.00 0.00 0.00 2.32
2373 7811 5.941058 TCACCAAAAGTAATCGAGGCAAATA 59.059 36.000 0.00 0.00 0.00 1.40
2374 7812 6.601613 TCACCAAAAGTAATCGAGGCAAATAT 59.398 34.615 0.00 0.00 0.00 1.28
2375 7813 7.122055 TCACCAAAAGTAATCGAGGCAAATATT 59.878 33.333 0.00 0.00 0.00 1.28
2376 7814 8.402472 CACCAAAAGTAATCGAGGCAAATATTA 58.598 33.333 0.00 0.00 0.00 0.98
2377 7815 8.962679 ACCAAAAGTAATCGAGGCAAATATTAA 58.037 29.630 0.00 0.00 0.00 1.40
2378 7816 9.965824 CCAAAAGTAATCGAGGCAAATATTAAT 57.034 29.630 0.00 0.00 0.00 1.40
2402 7840 9.591792 AATAATGTTTCTTCGTACTAGTAACCC 57.408 33.333 3.61 0.00 0.00 4.11
2403 7841 6.594788 ATGTTTCTTCGTACTAGTAACCCA 57.405 37.500 3.61 0.00 0.00 4.51
2404 7842 6.594788 TGTTTCTTCGTACTAGTAACCCAT 57.405 37.500 3.61 0.00 0.00 4.00
2405 7843 6.392354 TGTTTCTTCGTACTAGTAACCCATG 58.608 40.000 3.61 0.00 0.00 3.66
2406 7844 5.587388 TTCTTCGTACTAGTAACCCATGG 57.413 43.478 4.14 4.14 0.00 3.66
2407 7845 3.382546 TCTTCGTACTAGTAACCCATGGC 59.617 47.826 6.09 0.00 0.00 4.40
2408 7846 3.022557 TCGTACTAGTAACCCATGGCT 57.977 47.619 6.09 0.00 0.00 4.75
2409 7847 3.368248 TCGTACTAGTAACCCATGGCTT 58.632 45.455 6.09 0.90 0.00 4.35
2410 7848 4.535781 TCGTACTAGTAACCCATGGCTTA 58.464 43.478 6.09 0.00 0.00 3.09
2411 7849 4.955450 TCGTACTAGTAACCCATGGCTTAA 59.045 41.667 6.09 0.00 0.00 1.85
2412 7850 5.599656 TCGTACTAGTAACCCATGGCTTAAT 59.400 40.000 6.09 5.55 0.00 1.40
2413 7851 6.098695 TCGTACTAGTAACCCATGGCTTAATT 59.901 38.462 6.09 0.00 0.00 1.40
2414 7852 7.287466 TCGTACTAGTAACCCATGGCTTAATTA 59.713 37.037 6.09 0.00 0.00 1.40
2415 7853 7.383300 CGTACTAGTAACCCATGGCTTAATTAC 59.617 40.741 6.09 9.18 0.00 1.89
2416 7854 7.447510 ACTAGTAACCCATGGCTTAATTACT 57.552 36.000 6.09 15.22 36.90 2.24
2417 7855 8.557304 ACTAGTAACCCATGGCTTAATTACTA 57.443 34.615 6.09 15.49 35.21 1.82
2419 7857 6.296803 AGTAACCCATGGCTTAATTACTAGC 58.703 40.000 6.09 1.17 32.51 3.42
2420 7858 4.788925 ACCCATGGCTTAATTACTAGCA 57.211 40.909 6.09 0.00 39.15 3.49
2421 7859 5.324832 ACCCATGGCTTAATTACTAGCAT 57.675 39.130 6.09 1.58 39.15 3.79
2422 7860 5.072741 ACCCATGGCTTAATTACTAGCATG 58.927 41.667 6.09 10.84 39.15 4.06
2423 7861 4.082571 CCCATGGCTTAATTACTAGCATGC 60.083 45.833 10.51 10.51 39.15 4.06
2424 7862 4.520111 CCATGGCTTAATTACTAGCATGCA 59.480 41.667 21.98 5.01 39.15 3.96
2425 7863 5.184479 CCATGGCTTAATTACTAGCATGCAT 59.816 40.000 21.98 7.44 39.15 3.96
2426 7864 5.694231 TGGCTTAATTACTAGCATGCATG 57.306 39.130 22.70 22.70 39.15 4.06
2427 7865 5.132502 TGGCTTAATTACTAGCATGCATGT 58.867 37.500 26.79 19.24 39.15 3.21
2428 7866 6.295249 TGGCTTAATTACTAGCATGCATGTA 58.705 36.000 26.79 18.20 39.15 2.29
2429 7867 6.427853 TGGCTTAATTACTAGCATGCATGTAG 59.572 38.462 26.79 24.73 39.15 2.74
2430 7868 6.428159 GGCTTAATTACTAGCATGCATGTAGT 59.572 38.462 28.67 28.67 39.15 2.73
2431 7869 7.293745 GCTTAATTACTAGCATGCATGTAGTG 58.706 38.462 31.00 21.73 37.35 2.74
2432 7870 7.171508 GCTTAATTACTAGCATGCATGTAGTGA 59.828 37.037 31.00 27.16 37.35 3.41
2433 7871 8.956533 TTAATTACTAGCATGCATGTAGTGAA 57.043 30.769 31.00 24.40 31.73 3.18
2434 7872 9.559732 TTAATTACTAGCATGCATGTAGTGAAT 57.440 29.630 31.00 24.21 31.73 2.57
2435 7873 6.849588 TTACTAGCATGCATGTAGTGAATG 57.150 37.500 31.00 17.40 45.38 2.67
2436 7874 4.132336 ACTAGCATGCATGTAGTGAATGG 58.868 43.478 26.93 12.96 43.18 3.16
2439 7877 4.898829 GCATGCATGTAGTGAATGGTAA 57.101 40.909 26.79 0.00 43.18 2.85
2440 7878 5.443185 GCATGCATGTAGTGAATGGTAAT 57.557 39.130 26.79 0.00 43.18 1.89
2441 7879 5.217393 GCATGCATGTAGTGAATGGTAATG 58.783 41.667 26.79 0.00 43.18 1.90
2442 7880 5.008911 GCATGCATGTAGTGAATGGTAATGA 59.991 40.000 26.79 0.00 43.18 2.57
2443 7881 6.432936 CATGCATGTAGTGAATGGTAATGAC 58.567 40.000 18.91 0.00 39.81 3.06
2444 7882 5.495640 TGCATGTAGTGAATGGTAATGACA 58.504 37.500 0.00 0.00 0.00 3.58
2445 7883 5.353956 TGCATGTAGTGAATGGTAATGACAC 59.646 40.000 0.00 0.00 0.00 3.67
2446 7884 5.353956 GCATGTAGTGAATGGTAATGACACA 59.646 40.000 0.00 0.00 34.47 3.72
2447 7885 6.675486 GCATGTAGTGAATGGTAATGACACAC 60.675 42.308 0.00 0.00 34.47 3.82
2448 7886 6.109156 TGTAGTGAATGGTAATGACACACT 57.891 37.500 0.00 0.00 39.74 3.55
2449 7887 6.163476 TGTAGTGAATGGTAATGACACACTC 58.837 40.000 0.00 0.00 38.01 3.51
2450 7888 5.227569 AGTGAATGGTAATGACACACTCA 57.772 39.130 0.00 0.00 32.84 3.41
2451 7889 4.997395 AGTGAATGGTAATGACACACTCAC 59.003 41.667 5.57 5.57 32.84 3.51
2452 7890 4.154195 GTGAATGGTAATGACACACTCACC 59.846 45.833 0.00 0.00 0.00 4.02
2453 7891 4.041567 TGAATGGTAATGACACACTCACCT 59.958 41.667 0.00 0.00 0.00 4.00
2454 7892 5.247337 TGAATGGTAATGACACACTCACCTA 59.753 40.000 0.00 0.00 0.00 3.08
2455 7893 4.530710 TGGTAATGACACACTCACCTAC 57.469 45.455 0.00 0.00 0.00 3.18
2456 7894 4.157246 TGGTAATGACACACTCACCTACT 58.843 43.478 0.00 0.00 0.00 2.57
2457 7895 4.591498 TGGTAATGACACACTCACCTACTT 59.409 41.667 0.00 0.00 0.00 2.24
2458 7896 5.071250 TGGTAATGACACACTCACCTACTTT 59.929 40.000 0.00 0.00 0.00 2.66
2459 7897 5.638234 GGTAATGACACACTCACCTACTTTC 59.362 44.000 0.00 0.00 0.00 2.62
2460 7898 5.552870 AATGACACACTCACCTACTTTCT 57.447 39.130 0.00 0.00 0.00 2.52
2461 7899 4.585955 TGACACACTCACCTACTTTCTC 57.414 45.455 0.00 0.00 0.00 2.87
2462 7900 4.215908 TGACACACTCACCTACTTTCTCT 58.784 43.478 0.00 0.00 0.00 3.10
2463 7901 4.278669 TGACACACTCACCTACTTTCTCTC 59.721 45.833 0.00 0.00 0.00 3.20
2464 7902 4.475345 ACACACTCACCTACTTTCTCTCT 58.525 43.478 0.00 0.00 0.00 3.10
2465 7903 4.521256 ACACACTCACCTACTTTCTCTCTC 59.479 45.833 0.00 0.00 0.00 3.20
2466 7904 4.520874 CACACTCACCTACTTTCTCTCTCA 59.479 45.833 0.00 0.00 0.00 3.27
2467 7905 4.521256 ACACTCACCTACTTTCTCTCTCAC 59.479 45.833 0.00 0.00 0.00 3.51
2468 7906 3.754323 ACTCACCTACTTTCTCTCTCACG 59.246 47.826 0.00 0.00 0.00 4.35
2469 7907 3.082548 TCACCTACTTTCTCTCTCACGG 58.917 50.000 0.00 0.00 0.00 4.94
2470 7908 1.819903 ACCTACTTTCTCTCTCACGGC 59.180 52.381 0.00 0.00 0.00 5.68
2471 7909 1.135333 CCTACTTTCTCTCTCACGGCC 59.865 57.143 0.00 0.00 0.00 6.13
2472 7910 1.819288 CTACTTTCTCTCTCACGGCCA 59.181 52.381 2.24 0.00 0.00 5.36
2473 7911 0.318762 ACTTTCTCTCTCACGGCCAC 59.681 55.000 2.24 0.00 0.00 5.01
2474 7912 0.605589 CTTTCTCTCTCACGGCCACT 59.394 55.000 2.24 0.00 0.00 4.00
2475 7913 0.603569 TTTCTCTCTCACGGCCACTC 59.396 55.000 2.24 0.00 0.00 3.51
2476 7914 0.539669 TTCTCTCTCACGGCCACTCA 60.540 55.000 2.24 0.00 0.00 3.41
2477 7915 0.962855 TCTCTCTCACGGCCACTCAG 60.963 60.000 2.24 0.00 0.00 3.35
2478 7916 1.228583 TCTCTCACGGCCACTCAGT 60.229 57.895 2.24 0.00 0.00 3.41
2479 7917 0.827925 TCTCTCACGGCCACTCAGTT 60.828 55.000 2.24 0.00 0.00 3.16
2480 7918 0.034059 CTCTCACGGCCACTCAGTTT 59.966 55.000 2.24 0.00 0.00 2.66
2481 7919 0.033504 TCTCACGGCCACTCAGTTTC 59.966 55.000 2.24 0.00 0.00 2.78
2482 7920 0.951040 CTCACGGCCACTCAGTTTCC 60.951 60.000 2.24 0.00 0.00 3.13
2483 7921 1.071471 CACGGCCACTCAGTTTCCT 59.929 57.895 2.24 0.00 0.00 3.36
2484 7922 0.951040 CACGGCCACTCAGTTTCCTC 60.951 60.000 2.24 0.00 0.00 3.71
2485 7923 1.122019 ACGGCCACTCAGTTTCCTCT 61.122 55.000 2.24 0.00 0.00 3.69
2486 7924 0.895530 CGGCCACTCAGTTTCCTCTA 59.104 55.000 2.24 0.00 0.00 2.43
2487 7925 1.275291 CGGCCACTCAGTTTCCTCTAA 59.725 52.381 2.24 0.00 0.00 2.10
2488 7926 2.093447 CGGCCACTCAGTTTCCTCTAAT 60.093 50.000 2.24 0.00 0.00 1.73
2489 7927 3.274288 GGCCACTCAGTTTCCTCTAATG 58.726 50.000 0.00 0.00 0.00 1.90
2490 7928 3.307762 GGCCACTCAGTTTCCTCTAATGT 60.308 47.826 0.00 0.00 0.00 2.71
2491 7929 3.686726 GCCACTCAGTTTCCTCTAATGTG 59.313 47.826 0.00 0.00 0.00 3.21
2492 7930 3.686726 CCACTCAGTTTCCTCTAATGTGC 59.313 47.826 0.00 0.00 0.00 4.57
2493 7931 4.318332 CACTCAGTTTCCTCTAATGTGCA 58.682 43.478 0.00 0.00 0.00 4.57
2494 7932 4.940046 CACTCAGTTTCCTCTAATGTGCAT 59.060 41.667 0.00 0.00 0.00 3.96
2495 7933 4.940046 ACTCAGTTTCCTCTAATGTGCATG 59.060 41.667 0.00 0.00 0.00 4.06
2496 7934 3.691118 TCAGTTTCCTCTAATGTGCATGC 59.309 43.478 11.82 11.82 0.00 4.06
2497 7935 3.441222 CAGTTTCCTCTAATGTGCATGCA 59.559 43.478 18.46 18.46 0.00 3.96
2498 7936 3.441572 AGTTTCCTCTAATGTGCATGCAC 59.558 43.478 38.00 38.00 46.33 4.57
2499 7937 2.042686 TCCTCTAATGTGCATGCACC 57.957 50.000 40.01 25.64 45.63 5.01
2500 7938 1.027357 CCTCTAATGTGCATGCACCC 58.973 55.000 40.01 22.70 45.63 4.61
2501 7939 1.409241 CCTCTAATGTGCATGCACCCT 60.409 52.381 40.01 30.17 45.63 4.34
2502 7940 2.158769 CCTCTAATGTGCATGCACCCTA 60.159 50.000 40.01 29.75 45.63 3.53
2503 7941 3.497405 CCTCTAATGTGCATGCACCCTAT 60.497 47.826 40.01 27.42 45.63 2.57
2504 7942 4.139786 CTCTAATGTGCATGCACCCTATT 58.860 43.478 40.01 33.15 45.63 1.73
2505 7943 5.303259 TCTAATGTGCATGCACCCTATTA 57.697 39.130 40.01 32.62 45.63 0.98
2506 7944 5.689835 TCTAATGTGCATGCACCCTATTAA 58.310 37.500 40.01 24.45 45.63 1.40
2507 7945 6.306199 TCTAATGTGCATGCACCCTATTAAT 58.694 36.000 40.01 25.45 45.63 1.40
2508 7946 5.874897 AATGTGCATGCACCCTATTAATT 57.125 34.783 40.01 28.84 45.63 1.40
2509 7947 6.975196 AATGTGCATGCACCCTATTAATTA 57.025 33.333 40.01 22.41 45.63 1.40
2510 7948 6.975196 ATGTGCATGCACCCTATTAATTAA 57.025 33.333 40.01 21.93 45.63 1.40
2511 7949 6.142818 TGTGCATGCACCCTATTAATTAAC 57.857 37.500 40.01 16.70 45.63 2.01
2512 7950 5.068460 TGTGCATGCACCCTATTAATTAACC 59.932 40.000 40.01 16.09 45.63 2.85
2513 7951 4.586841 TGCATGCACCCTATTAATTAACCC 59.413 41.667 18.46 0.00 0.00 4.11
2514 7952 4.320935 GCATGCACCCTATTAATTAACCCG 60.321 45.833 14.21 0.00 0.00 5.28
2515 7953 3.822940 TGCACCCTATTAATTAACCCGG 58.177 45.455 0.00 0.00 0.00 5.73
2516 7954 3.202595 TGCACCCTATTAATTAACCCGGT 59.797 43.478 0.00 3.35 0.00 5.28
2517 7955 4.411540 TGCACCCTATTAATTAACCCGGTA 59.588 41.667 0.00 0.00 0.00 4.02
2518 7956 5.104193 TGCACCCTATTAATTAACCCGGTAA 60.104 40.000 0.00 0.00 0.00 2.85
2519 7957 5.827267 GCACCCTATTAATTAACCCGGTAAA 59.173 40.000 0.00 0.00 0.00 2.01
2520 7958 6.238731 GCACCCTATTAATTAACCCGGTAAAC 60.239 42.308 0.00 0.00 0.00 2.01
2521 7959 6.018016 CACCCTATTAATTAACCCGGTAAACG 60.018 42.308 0.00 0.00 43.80 3.60
2567 8005 9.979578 AAGCACACATTAATTTTTATCTTGACA 57.020 25.926 0.00 0.00 0.00 3.58
2568 8006 9.410556 AGCACACATTAATTTTTATCTTGACAC 57.589 29.630 0.00 0.00 0.00 3.67
2569 8007 8.647226 GCACACATTAATTTTTATCTTGACACC 58.353 33.333 0.00 0.00 0.00 4.16
2570 8008 9.912634 CACACATTAATTTTTATCTTGACACCT 57.087 29.630 0.00 0.00 0.00 4.00
2571 8009 9.912634 ACACATTAATTTTTATCTTGACACCTG 57.087 29.630 0.00 0.00 0.00 4.00
2572 8010 9.912634 CACATTAATTTTTATCTTGACACCTGT 57.087 29.630 0.00 0.00 0.00 4.00
2581 8019 8.918202 TTTATCTTGACACCTGTAATTTGAGT 57.082 30.769 0.00 0.00 0.00 3.41
2582 8020 8.918202 TTATCTTGACACCTGTAATTTGAGTT 57.082 30.769 0.00 0.00 0.00 3.01
2583 8021 7.823745 ATCTTGACACCTGTAATTTGAGTTT 57.176 32.000 0.00 0.00 0.00 2.66
2584 8022 7.639113 TCTTGACACCTGTAATTTGAGTTTT 57.361 32.000 0.00 0.00 0.00 2.43
2585 8023 8.062065 TCTTGACACCTGTAATTTGAGTTTTT 57.938 30.769 0.00 0.00 0.00 1.94
2586 8024 7.973388 TCTTGACACCTGTAATTTGAGTTTTTG 59.027 33.333 0.00 0.00 0.00 2.44
2587 8025 6.568869 TGACACCTGTAATTTGAGTTTTTGG 58.431 36.000 0.00 0.00 0.00 3.28
2588 8026 5.356426 ACACCTGTAATTTGAGTTTTTGGC 58.644 37.500 0.00 0.00 0.00 4.52
2589 8027 4.749598 CACCTGTAATTTGAGTTTTTGGCC 59.250 41.667 0.00 0.00 0.00 5.36
2590 8028 4.653801 ACCTGTAATTTGAGTTTTTGGCCT 59.346 37.500 3.32 0.00 0.00 5.19
2591 8029 5.130311 ACCTGTAATTTGAGTTTTTGGCCTT 59.870 36.000 3.32 0.00 0.00 4.35
2592 8030 5.466393 CCTGTAATTTGAGTTTTTGGCCTTG 59.534 40.000 3.32 0.00 0.00 3.61
2593 8031 5.983540 TGTAATTTGAGTTTTTGGCCTTGT 58.016 33.333 3.32 0.00 0.00 3.16
2594 8032 7.113658 TGTAATTTGAGTTTTTGGCCTTGTA 57.886 32.000 3.32 0.00 0.00 2.41
2595 8033 7.731054 TGTAATTTGAGTTTTTGGCCTTGTAT 58.269 30.769 3.32 0.00 0.00 2.29
2596 8034 8.861086 TGTAATTTGAGTTTTTGGCCTTGTATA 58.139 29.630 3.32 0.00 0.00 1.47
2597 8035 9.869757 GTAATTTGAGTTTTTGGCCTTGTATAT 57.130 29.630 3.32 0.00 0.00 0.86
2605 8043 9.665719 AGTTTTTGGCCTTGTATATAAAAATGG 57.334 29.630 3.32 0.00 32.03 3.16
2606 8044 9.660180 GTTTTTGGCCTTGTATATAAAAATGGA 57.340 29.630 3.32 0.00 32.03 3.41
2608 8046 9.883142 TTTTGGCCTTGTATATAAAAATGGAAG 57.117 29.630 3.32 0.00 0.00 3.46
2609 8047 7.595819 TGGCCTTGTATATAAAAATGGAAGG 57.404 36.000 3.32 0.00 33.29 3.46
2610 8048 7.358263 TGGCCTTGTATATAAAAATGGAAGGA 58.642 34.615 3.32 0.00 32.06 3.36
2611 8049 7.505585 TGGCCTTGTATATAAAAATGGAAGGAG 59.494 37.037 3.32 0.00 32.06 3.69
2612 8050 7.505923 GGCCTTGTATATAAAAATGGAAGGAGT 59.494 37.037 0.00 0.00 32.06 3.85
2613 8051 9.569122 GCCTTGTATATAAAAATGGAAGGAGTA 57.431 33.333 0.00 0.00 32.06 2.59
2742 8186 9.253832 TGGATGTTTACAATGAATAATGGTCTT 57.746 29.630 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.810400 CGACGGCCTAAATTCCCATGAT 60.810 50.000 0.00 0.00 0.00 2.45
181 291 3.119566 GGGCTTATTATACTCCTCCGTCG 60.120 52.174 0.00 0.00 0.00 5.12
286 400 0.101399 CGGAAGTGATGCTAGAGCGT 59.899 55.000 0.00 0.00 45.83 5.07
320 434 4.821260 GTCCACATGTCCATTGCATACATA 59.179 41.667 0.00 0.00 32.70 2.29
321 435 3.633525 GTCCACATGTCCATTGCATACAT 59.366 43.478 0.00 0.00 34.22 2.29
322 436 3.016031 GTCCACATGTCCATTGCATACA 58.984 45.455 0.00 0.00 0.00 2.29
323 437 2.358898 GGTCCACATGTCCATTGCATAC 59.641 50.000 0.00 0.00 0.00 2.39
324 438 2.653726 GGTCCACATGTCCATTGCATA 58.346 47.619 0.00 0.00 0.00 3.14
325 439 1.477553 GGTCCACATGTCCATTGCAT 58.522 50.000 0.00 0.00 0.00 3.96
326 440 0.611618 GGGTCCACATGTCCATTGCA 60.612 55.000 0.00 0.00 0.00 4.08
517 2327 2.554032 CAAGTGACGGCAAAGGAAGATT 59.446 45.455 0.00 0.00 0.00 2.40
569 2379 2.922283 AGGAGAAGATGGAACCCAATGT 59.078 45.455 0.00 0.00 36.95 2.71
630 2443 4.088634 TGCTTTCTCATGTGGGCTAAAAT 58.911 39.130 0.00 0.00 0.00 1.82
631 2444 3.495331 TGCTTTCTCATGTGGGCTAAAA 58.505 40.909 0.00 0.00 0.00 1.52
632 2445 3.153369 TGCTTTCTCATGTGGGCTAAA 57.847 42.857 0.00 0.00 0.00 1.85
682 2810 5.325239 AGGTGTTCTTTTCCTTCCTTATGG 58.675 41.667 0.00 0.00 0.00 2.74
1831 7260 4.208686 GAACGGCGGCCTCTCGAT 62.209 66.667 18.34 0.00 0.00 3.59
1993 7422 5.319140 ACCAAATTTATCAGGTTAACGCC 57.681 39.130 0.00 0.00 0.00 5.68
2183 7616 3.059352 AGAATGTTGAGCTAGCCGTTT 57.941 42.857 12.13 0.00 0.00 3.60
2240 7673 6.367422 GGATCTAGCTGCTTGTATATGTTCAC 59.633 42.308 7.79 0.00 0.00 3.18
2290 7728 5.067805 GCCTTGTACATAAAAATGGAGGGAG 59.932 44.000 0.00 0.00 0.00 4.30
2291 7729 4.953579 GCCTTGTACATAAAAATGGAGGGA 59.046 41.667 0.00 0.00 0.00 4.20
2292 7730 4.099419 GGCCTTGTACATAAAAATGGAGGG 59.901 45.833 0.00 0.00 0.00 4.30
2293 7731 4.709397 TGGCCTTGTACATAAAAATGGAGG 59.291 41.667 3.32 0.00 0.00 4.30
2294 7732 5.418840 AGTGGCCTTGTACATAAAAATGGAG 59.581 40.000 3.32 0.00 0.00 3.86
2295 7733 5.329399 AGTGGCCTTGTACATAAAAATGGA 58.671 37.500 3.32 0.00 0.00 3.41
2296 7734 5.659440 AGTGGCCTTGTACATAAAAATGG 57.341 39.130 3.32 0.00 0.00 3.16
2328 7766 9.797642 TGGTGATCTTGTATAGATGCAAAATAT 57.202 29.630 0.00 0.00 43.75 1.28
2329 7767 9.625747 TTGGTGATCTTGTATAGATGCAAAATA 57.374 29.630 0.00 0.00 43.75 1.40
2330 7768 8.523915 TTGGTGATCTTGTATAGATGCAAAAT 57.476 30.769 0.00 0.00 43.75 1.82
2331 7769 7.936496 TTGGTGATCTTGTATAGATGCAAAA 57.064 32.000 0.00 0.00 43.75 2.44
2332 7770 7.936496 TTTGGTGATCTTGTATAGATGCAAA 57.064 32.000 0.00 0.00 43.75 3.68
2333 7771 7.611467 ACTTTTGGTGATCTTGTATAGATGCAA 59.389 33.333 0.00 0.00 43.75 4.08
2334 7772 7.112122 ACTTTTGGTGATCTTGTATAGATGCA 58.888 34.615 0.00 0.00 43.75 3.96
2335 7773 7.559590 ACTTTTGGTGATCTTGTATAGATGC 57.440 36.000 0.00 0.00 43.75 3.91
2338 7776 9.529325 CGATTACTTTTGGTGATCTTGTATAGA 57.471 33.333 0.00 0.00 38.36 1.98
2339 7777 9.529325 TCGATTACTTTTGGTGATCTTGTATAG 57.471 33.333 0.00 0.00 38.36 1.31
2340 7778 9.529325 CTCGATTACTTTTGGTGATCTTGTATA 57.471 33.333 0.00 0.00 38.36 1.47
2341 7779 7.495934 CCTCGATTACTTTTGGTGATCTTGTAT 59.504 37.037 0.00 0.00 38.36 2.29
2342 7780 6.816640 CCTCGATTACTTTTGGTGATCTTGTA 59.183 38.462 0.00 0.00 38.36 2.41
2343 7781 5.643777 CCTCGATTACTTTTGGTGATCTTGT 59.356 40.000 0.00 0.00 38.36 3.16
2344 7782 5.447818 GCCTCGATTACTTTTGGTGATCTTG 60.448 44.000 0.00 0.00 38.36 3.02
2345 7783 4.636206 GCCTCGATTACTTTTGGTGATCTT 59.364 41.667 0.00 0.00 38.36 2.40
2346 7784 4.192317 GCCTCGATTACTTTTGGTGATCT 58.808 43.478 0.00 0.00 38.36 2.75
2347 7785 3.938963 TGCCTCGATTACTTTTGGTGATC 59.061 43.478 0.00 0.00 37.51 2.92
2348 7786 3.950397 TGCCTCGATTACTTTTGGTGAT 58.050 40.909 0.00 0.00 0.00 3.06
2349 7787 3.410631 TGCCTCGATTACTTTTGGTGA 57.589 42.857 0.00 0.00 0.00 4.02
2350 7788 4.497473 TTTGCCTCGATTACTTTTGGTG 57.503 40.909 0.00 0.00 0.00 4.17
2351 7789 7.404671 AATATTTGCCTCGATTACTTTTGGT 57.595 32.000 0.00 0.00 0.00 3.67
2352 7790 9.965824 ATTAATATTTGCCTCGATTACTTTTGG 57.034 29.630 0.00 0.00 0.00 3.28
2376 7814 9.591792 GGGTTACTAGTACGAAGAAACATTATT 57.408 33.333 0.91 0.00 0.00 1.40
2377 7815 8.752187 TGGGTTACTAGTACGAAGAAACATTAT 58.248 33.333 0.91 0.00 0.00 1.28
2378 7816 8.121305 TGGGTTACTAGTACGAAGAAACATTA 57.879 34.615 0.91 0.00 0.00 1.90
2379 7817 6.996509 TGGGTTACTAGTACGAAGAAACATT 58.003 36.000 0.91 0.00 0.00 2.71
2380 7818 6.594788 TGGGTTACTAGTACGAAGAAACAT 57.405 37.500 0.91 0.00 0.00 2.71
2381 7819 6.392354 CATGGGTTACTAGTACGAAGAAACA 58.608 40.000 0.91 0.00 0.00 2.83
2382 7820 5.809051 CCATGGGTTACTAGTACGAAGAAAC 59.191 44.000 2.85 0.00 0.00 2.78
2383 7821 5.625197 GCCATGGGTTACTAGTACGAAGAAA 60.625 44.000 15.13 0.00 0.00 2.52
2384 7822 4.142093 GCCATGGGTTACTAGTACGAAGAA 60.142 45.833 15.13 0.00 0.00 2.52
2385 7823 3.382546 GCCATGGGTTACTAGTACGAAGA 59.617 47.826 15.13 0.00 0.00 2.87
2386 7824 3.383825 AGCCATGGGTTACTAGTACGAAG 59.616 47.826 11.62 0.00 0.00 3.79
2387 7825 3.368248 AGCCATGGGTTACTAGTACGAA 58.632 45.455 11.62 0.00 0.00 3.85
2388 7826 3.022557 AGCCATGGGTTACTAGTACGA 57.977 47.619 11.62 0.00 0.00 3.43
2389 7827 3.814005 AAGCCATGGGTTACTAGTACG 57.186 47.619 27.38 0.00 33.76 3.67
2390 7828 8.427276 AGTAATTAAGCCATGGGTTACTAGTAC 58.573 37.037 31.12 27.41 37.74 2.73
2391 7829 8.557304 AGTAATTAAGCCATGGGTTACTAGTA 57.443 34.615 31.12 19.87 37.74 1.82
2392 7830 7.447510 AGTAATTAAGCCATGGGTTACTAGT 57.552 36.000 31.12 23.71 37.74 2.57
2393 7831 7.603024 GCTAGTAATTAAGCCATGGGTTACTAG 59.397 40.741 34.76 34.76 45.95 2.57
2394 7832 7.071447 TGCTAGTAATTAAGCCATGGGTTACTA 59.929 37.037 31.12 27.57 37.74 1.82
2395 7833 6.126594 TGCTAGTAATTAAGCCATGGGTTACT 60.127 38.462 31.12 27.89 37.74 2.24
2396 7834 6.059484 TGCTAGTAATTAAGCCATGGGTTAC 58.941 40.000 31.12 23.34 37.74 2.50
2397 7835 6.255294 TGCTAGTAATTAAGCCATGGGTTA 57.745 37.500 28.37 28.37 37.97 2.85
2398 7836 5.124036 TGCTAGTAATTAAGCCATGGGTT 57.876 39.130 30.51 30.51 37.97 4.11
2399 7837 4.788925 TGCTAGTAATTAAGCCATGGGT 57.211 40.909 11.62 11.62 37.97 4.51
2400 7838 4.082571 GCATGCTAGTAATTAAGCCATGGG 60.083 45.833 15.13 0.00 37.97 4.00
2401 7839 4.520111 TGCATGCTAGTAATTAAGCCATGG 59.480 41.667 20.33 7.63 37.97 3.66
2402 7840 5.694231 TGCATGCTAGTAATTAAGCCATG 57.306 39.130 20.33 10.17 37.97 3.66
2403 7841 5.771666 ACATGCATGCTAGTAATTAAGCCAT 59.228 36.000 26.53 0.00 37.97 4.40
2404 7842 5.132502 ACATGCATGCTAGTAATTAAGCCA 58.867 37.500 26.53 0.00 37.97 4.75
2405 7843 5.695851 ACATGCATGCTAGTAATTAAGCC 57.304 39.130 26.53 0.00 37.97 4.35
2406 7844 7.171508 TCACTACATGCATGCTAGTAATTAAGC 59.828 37.037 26.98 2.70 39.25 3.09
2407 7845 8.593492 TCACTACATGCATGCTAGTAATTAAG 57.407 34.615 26.98 18.97 0.00 1.85
2408 7846 8.956533 TTCACTACATGCATGCTAGTAATTAA 57.043 30.769 26.98 19.68 0.00 1.40
2409 7847 8.992073 CATTCACTACATGCATGCTAGTAATTA 58.008 33.333 26.98 18.12 0.00 1.40
2410 7848 7.040892 CCATTCACTACATGCATGCTAGTAATT 60.041 37.037 26.98 17.60 31.19 1.40
2411 7849 6.429078 CCATTCACTACATGCATGCTAGTAAT 59.571 38.462 26.98 23.06 31.19 1.89
2412 7850 5.759763 CCATTCACTACATGCATGCTAGTAA 59.240 40.000 26.98 22.39 31.19 2.24
2413 7851 5.163311 ACCATTCACTACATGCATGCTAGTA 60.163 40.000 26.98 18.71 31.19 1.82
2414 7852 4.132336 CCATTCACTACATGCATGCTAGT 58.868 43.478 26.53 25.13 31.19 2.57
2415 7853 4.132336 ACCATTCACTACATGCATGCTAG 58.868 43.478 26.53 24.57 31.19 3.42
2416 7854 4.155063 ACCATTCACTACATGCATGCTA 57.845 40.909 26.53 15.84 31.19 3.49
2417 7855 3.008835 ACCATTCACTACATGCATGCT 57.991 42.857 26.53 15.56 31.19 3.79
2418 7856 4.898829 TTACCATTCACTACATGCATGC 57.101 40.909 26.53 11.82 31.19 4.06
2419 7857 6.038492 TGTCATTACCATTCACTACATGCATG 59.962 38.462 25.09 25.09 32.25 4.06
2420 7858 6.038603 GTGTCATTACCATTCACTACATGCAT 59.961 38.462 0.00 0.00 0.00 3.96
2421 7859 5.353956 GTGTCATTACCATTCACTACATGCA 59.646 40.000 0.00 0.00 0.00 3.96
2422 7860 5.353956 TGTGTCATTACCATTCACTACATGC 59.646 40.000 0.00 0.00 0.00 4.06
2423 7861 6.595326 AGTGTGTCATTACCATTCACTACATG 59.405 38.462 0.00 0.00 33.78 3.21
2424 7862 6.711277 AGTGTGTCATTACCATTCACTACAT 58.289 36.000 0.00 0.00 33.78 2.29
2425 7863 6.109156 AGTGTGTCATTACCATTCACTACA 57.891 37.500 0.00 0.00 33.78 2.74
2426 7864 6.090898 GTGAGTGTGTCATTACCATTCACTAC 59.909 42.308 12.59 0.00 38.71 2.73
2427 7865 6.163476 GTGAGTGTGTCATTACCATTCACTA 58.837 40.000 12.59 0.00 38.71 2.74
2428 7866 4.997395 GTGAGTGTGTCATTACCATTCACT 59.003 41.667 12.59 0.00 38.71 3.41
2429 7867 4.154195 GGTGAGTGTGTCATTACCATTCAC 59.846 45.833 11.95 11.95 39.71 3.18
2430 7868 4.041567 AGGTGAGTGTGTCATTACCATTCA 59.958 41.667 0.00 0.00 37.56 2.57
2431 7869 4.579869 AGGTGAGTGTGTCATTACCATTC 58.420 43.478 0.00 0.00 37.56 2.67
2432 7870 4.640771 AGGTGAGTGTGTCATTACCATT 57.359 40.909 0.00 0.00 37.56 3.16
2433 7871 4.777896 AGTAGGTGAGTGTGTCATTACCAT 59.222 41.667 0.00 0.00 37.56 3.55
2434 7872 4.157246 AGTAGGTGAGTGTGTCATTACCA 58.843 43.478 0.00 0.00 37.56 3.25
2435 7873 4.803098 AGTAGGTGAGTGTGTCATTACC 57.197 45.455 0.00 0.00 37.56 2.85
2436 7874 6.456501 AGAAAGTAGGTGAGTGTGTCATTAC 58.543 40.000 0.00 0.00 37.56 1.89
2437 7875 6.493802 AGAGAAAGTAGGTGAGTGTGTCATTA 59.506 38.462 0.00 0.00 37.56 1.90
2438 7876 5.305644 AGAGAAAGTAGGTGAGTGTGTCATT 59.694 40.000 0.00 0.00 37.56 2.57
2439 7877 4.835615 AGAGAAAGTAGGTGAGTGTGTCAT 59.164 41.667 0.00 0.00 37.56 3.06
2440 7878 4.215908 AGAGAAAGTAGGTGAGTGTGTCA 58.784 43.478 0.00 0.00 0.00 3.58
2441 7879 4.521256 AGAGAGAAAGTAGGTGAGTGTGTC 59.479 45.833 0.00 0.00 0.00 3.67
2442 7880 4.475345 AGAGAGAAAGTAGGTGAGTGTGT 58.525 43.478 0.00 0.00 0.00 3.72
2443 7881 4.520874 TGAGAGAGAAAGTAGGTGAGTGTG 59.479 45.833 0.00 0.00 0.00 3.82
2444 7882 4.521256 GTGAGAGAGAAAGTAGGTGAGTGT 59.479 45.833 0.00 0.00 0.00 3.55
2445 7883 4.378978 CGTGAGAGAGAAAGTAGGTGAGTG 60.379 50.000 0.00 0.00 0.00 3.51
2446 7884 3.754323 CGTGAGAGAGAAAGTAGGTGAGT 59.246 47.826 0.00 0.00 0.00 3.41
2447 7885 3.127895 CCGTGAGAGAGAAAGTAGGTGAG 59.872 52.174 0.00 0.00 0.00 3.51
2448 7886 3.082548 CCGTGAGAGAGAAAGTAGGTGA 58.917 50.000 0.00 0.00 0.00 4.02
2449 7887 2.416162 GCCGTGAGAGAGAAAGTAGGTG 60.416 54.545 0.00 0.00 0.00 4.00
2450 7888 1.819903 GCCGTGAGAGAGAAAGTAGGT 59.180 52.381 0.00 0.00 0.00 3.08
2451 7889 1.135333 GGCCGTGAGAGAGAAAGTAGG 59.865 57.143 0.00 0.00 0.00 3.18
2452 7890 1.819288 TGGCCGTGAGAGAGAAAGTAG 59.181 52.381 0.00 0.00 0.00 2.57
2453 7891 1.544691 GTGGCCGTGAGAGAGAAAGTA 59.455 52.381 0.00 0.00 0.00 2.24
2454 7892 0.318762 GTGGCCGTGAGAGAGAAAGT 59.681 55.000 0.00 0.00 0.00 2.66
2455 7893 0.605589 AGTGGCCGTGAGAGAGAAAG 59.394 55.000 0.00 0.00 0.00 2.62
2456 7894 0.603569 GAGTGGCCGTGAGAGAGAAA 59.396 55.000 0.00 0.00 0.00 2.52
2457 7895 0.539669 TGAGTGGCCGTGAGAGAGAA 60.540 55.000 0.00 0.00 0.00 2.87
2458 7896 0.962855 CTGAGTGGCCGTGAGAGAGA 60.963 60.000 0.00 0.00 0.00 3.10
2459 7897 1.247419 ACTGAGTGGCCGTGAGAGAG 61.247 60.000 0.00 0.00 0.00 3.20
2460 7898 0.827925 AACTGAGTGGCCGTGAGAGA 60.828 55.000 0.00 0.00 0.00 3.10
2461 7899 0.034059 AAACTGAGTGGCCGTGAGAG 59.966 55.000 0.00 0.00 0.00 3.20
2462 7900 0.033504 GAAACTGAGTGGCCGTGAGA 59.966 55.000 0.00 0.00 0.00 3.27
2463 7901 0.951040 GGAAACTGAGTGGCCGTGAG 60.951 60.000 0.00 0.00 0.00 3.51
2464 7902 1.070786 GGAAACTGAGTGGCCGTGA 59.929 57.895 0.00 0.00 0.00 4.35
2465 7903 0.951040 GAGGAAACTGAGTGGCCGTG 60.951 60.000 0.00 0.00 44.43 4.94
2466 7904 1.122019 AGAGGAAACTGAGTGGCCGT 61.122 55.000 0.00 0.00 44.43 5.68
2467 7905 0.895530 TAGAGGAAACTGAGTGGCCG 59.104 55.000 0.00 0.00 44.43 6.13
2468 7906 3.274288 CATTAGAGGAAACTGAGTGGCC 58.726 50.000 0.00 0.00 44.43 5.36
2469 7907 3.686726 CACATTAGAGGAAACTGAGTGGC 59.313 47.826 0.00 0.00 44.43 5.01
2470 7908 3.686726 GCACATTAGAGGAAACTGAGTGG 59.313 47.826 0.00 0.00 44.43 4.00
2471 7909 4.318332 TGCACATTAGAGGAAACTGAGTG 58.682 43.478 0.00 0.00 44.43 3.51
2472 7910 4.623932 TGCACATTAGAGGAAACTGAGT 57.376 40.909 0.00 0.00 44.43 3.41
2473 7911 4.201891 GCATGCACATTAGAGGAAACTGAG 60.202 45.833 14.21 0.00 44.43 3.35
2474 7912 3.691118 GCATGCACATTAGAGGAAACTGA 59.309 43.478 14.21 0.00 44.43 3.41
2475 7913 3.441222 TGCATGCACATTAGAGGAAACTG 59.559 43.478 18.46 0.00 44.43 3.16
2476 7914 3.441572 GTGCATGCACATTAGAGGAAACT 59.558 43.478 39.12 0.00 45.53 2.66
2477 7915 3.762779 GTGCATGCACATTAGAGGAAAC 58.237 45.455 39.12 12.67 45.53 2.78
2489 7927 5.508994 GGGTTAATTAATAGGGTGCATGCAC 60.509 44.000 37.29 37.29 45.49 4.57
2490 7928 4.586841 GGGTTAATTAATAGGGTGCATGCA 59.413 41.667 18.46 18.46 0.00 3.96
2491 7929 4.320935 CGGGTTAATTAATAGGGTGCATGC 60.321 45.833 11.82 11.82 0.00 4.06
2492 7930 4.217550 CCGGGTTAATTAATAGGGTGCATG 59.782 45.833 0.31 0.00 0.00 4.06
2493 7931 4.141111 ACCGGGTTAATTAATAGGGTGCAT 60.141 41.667 6.32 0.00 0.00 3.96
2494 7932 3.202595 ACCGGGTTAATTAATAGGGTGCA 59.797 43.478 6.32 0.00 0.00 4.57
2495 7933 3.824133 ACCGGGTTAATTAATAGGGTGC 58.176 45.455 6.32 0.00 0.00 5.01
2496 7934 6.018016 CGTTTACCGGGTTAATTAATAGGGTG 60.018 42.308 19.24 6.37 0.00 4.61
2497 7935 6.054941 CGTTTACCGGGTTAATTAATAGGGT 58.945 40.000 4.31 16.35 0.00 4.34
2498 7936 6.287525 TCGTTTACCGGGTTAATTAATAGGG 58.712 40.000 4.31 12.59 37.11 3.53
2499 7937 7.209475 TCTCGTTTACCGGGTTAATTAATAGG 58.791 38.462 4.31 7.88 38.54 2.57
2500 7938 8.647143 TTCTCGTTTACCGGGTTAATTAATAG 57.353 34.615 4.31 0.00 38.54 1.73
2501 7939 9.442047 TTTTCTCGTTTACCGGGTTAATTAATA 57.558 29.630 4.31 0.00 38.54 0.98
2502 7940 7.920160 TTTCTCGTTTACCGGGTTAATTAAT 57.080 32.000 4.31 0.00 38.54 1.40
2503 7941 7.736447 TTTTCTCGTTTACCGGGTTAATTAA 57.264 32.000 4.31 0.00 38.54 1.40
2504 7942 7.736447 TTTTTCTCGTTTACCGGGTTAATTA 57.264 32.000 4.31 0.00 38.54 1.40
2505 7943 6.631971 TTTTTCTCGTTTACCGGGTTAATT 57.368 33.333 4.31 0.00 38.54 1.40
2541 7979 9.979578 TGTCAAGATAAAAATTAATGTGTGCTT 57.020 25.926 0.00 0.00 0.00 3.91
2542 7980 9.410556 GTGTCAAGATAAAAATTAATGTGTGCT 57.589 29.630 0.00 0.00 0.00 4.40
2543 7981 8.647226 GGTGTCAAGATAAAAATTAATGTGTGC 58.353 33.333 0.00 0.00 0.00 4.57
2544 7982 9.912634 AGGTGTCAAGATAAAAATTAATGTGTG 57.087 29.630 0.00 0.00 0.00 3.82
2545 7983 9.912634 CAGGTGTCAAGATAAAAATTAATGTGT 57.087 29.630 0.00 0.00 0.00 3.72
2546 7984 9.912634 ACAGGTGTCAAGATAAAAATTAATGTG 57.087 29.630 0.00 0.00 0.00 3.21
2555 7993 9.349713 ACTCAAATTACAGGTGTCAAGATAAAA 57.650 29.630 0.00 0.00 0.00 1.52
2556 7994 8.918202 ACTCAAATTACAGGTGTCAAGATAAA 57.082 30.769 0.00 0.00 0.00 1.40
2557 7995 8.918202 AACTCAAATTACAGGTGTCAAGATAA 57.082 30.769 0.00 0.00 0.00 1.75
2558 7996 8.918202 AAACTCAAATTACAGGTGTCAAGATA 57.082 30.769 0.00 0.00 0.00 1.98
2559 7997 7.823745 AAACTCAAATTACAGGTGTCAAGAT 57.176 32.000 0.00 0.00 0.00 2.40
2560 7998 7.639113 AAAACTCAAATTACAGGTGTCAAGA 57.361 32.000 0.00 0.00 0.00 3.02
2561 7999 7.222611 CCAAAAACTCAAATTACAGGTGTCAAG 59.777 37.037 0.00 0.00 0.00 3.02
2562 8000 7.038659 CCAAAAACTCAAATTACAGGTGTCAA 58.961 34.615 0.00 0.00 0.00 3.18
2563 8001 6.568869 CCAAAAACTCAAATTACAGGTGTCA 58.431 36.000 0.00 0.00 0.00 3.58
2564 8002 5.462068 GCCAAAAACTCAAATTACAGGTGTC 59.538 40.000 0.00 0.00 0.00 3.67
2565 8003 5.356426 GCCAAAAACTCAAATTACAGGTGT 58.644 37.500 0.00 0.00 0.00 4.16
2566 8004 4.749598 GGCCAAAAACTCAAATTACAGGTG 59.250 41.667 0.00 0.00 0.00 4.00
2567 8005 4.653801 AGGCCAAAAACTCAAATTACAGGT 59.346 37.500 5.01 0.00 0.00 4.00
2568 8006 5.213891 AGGCCAAAAACTCAAATTACAGG 57.786 39.130 5.01 0.00 0.00 4.00
2569 8007 6.048509 ACAAGGCCAAAAACTCAAATTACAG 58.951 36.000 5.01 0.00 0.00 2.74
2570 8008 5.983540 ACAAGGCCAAAAACTCAAATTACA 58.016 33.333 5.01 0.00 0.00 2.41
2571 8009 9.869757 ATATACAAGGCCAAAAACTCAAATTAC 57.130 29.630 5.01 0.00 0.00 1.89
2579 8017 9.665719 CCATTTTTATATACAAGGCCAAAAACT 57.334 29.630 5.01 0.00 30.34 2.66
2580 8018 9.660180 TCCATTTTTATATACAAGGCCAAAAAC 57.340 29.630 5.01 0.00 30.34 2.43
2582 8020 9.883142 CTTCCATTTTTATATACAAGGCCAAAA 57.117 29.630 5.01 0.00 0.00 2.44
2583 8021 8.482128 CCTTCCATTTTTATATACAAGGCCAAA 58.518 33.333 5.01 0.00 0.00 3.28
2584 8022 7.841729 TCCTTCCATTTTTATATACAAGGCCAA 59.158 33.333 5.01 0.00 30.99 4.52
2585 8023 7.358263 TCCTTCCATTTTTATATACAAGGCCA 58.642 34.615 5.01 0.00 30.99 5.36
2586 8024 7.505923 ACTCCTTCCATTTTTATATACAAGGCC 59.494 37.037 0.00 0.00 30.99 5.19
2587 8025 8.465273 ACTCCTTCCATTTTTATATACAAGGC 57.535 34.615 0.00 0.00 30.99 4.35
2600 8038 9.440761 AGTGAATAGATAGTACTCCTTCCATTT 57.559 33.333 0.00 0.00 0.00 2.32
2601 8039 9.440761 AAGTGAATAGATAGTACTCCTTCCATT 57.559 33.333 0.00 0.00 0.00 3.16
2602 8040 8.865090 CAAGTGAATAGATAGTACTCCTTCCAT 58.135 37.037 0.00 0.00 0.00 3.41
2603 8041 7.287927 CCAAGTGAATAGATAGTACTCCTTCCA 59.712 40.741 0.00 0.00 0.00 3.53
2604 8042 7.506261 TCCAAGTGAATAGATAGTACTCCTTCC 59.494 40.741 0.00 0.00 0.00 3.46
2605 8043 8.466617 TCCAAGTGAATAGATAGTACTCCTTC 57.533 38.462 0.00 0.00 0.00 3.46
2606 8044 8.282982 TCTCCAAGTGAATAGATAGTACTCCTT 58.717 37.037 0.00 0.00 0.00 3.36
2607 8045 7.817440 TCTCCAAGTGAATAGATAGTACTCCT 58.183 38.462 0.00 0.33 0.00 3.69
2608 8046 8.519526 CATCTCCAAGTGAATAGATAGTACTCC 58.480 40.741 0.00 0.00 0.00 3.85
2609 8047 9.290988 TCATCTCCAAGTGAATAGATAGTACTC 57.709 37.037 0.00 0.00 0.00 2.59
2610 8048 9.295825 CTCATCTCCAAGTGAATAGATAGTACT 57.704 37.037 0.00 0.00 0.00 2.73
2611 8049 9.073475 ACTCATCTCCAAGTGAATAGATAGTAC 57.927 37.037 0.00 0.00 0.00 2.73
2612 8050 9.647918 AACTCATCTCCAAGTGAATAGATAGTA 57.352 33.333 0.00 0.00 0.00 1.82
2613 8051 8.546083 AACTCATCTCCAAGTGAATAGATAGT 57.454 34.615 0.00 0.00 0.00 2.12
2662 8106 6.378564 TCAACAAATGACAGGAAAACCAAGTA 59.621 34.615 0.00 0.00 31.50 2.24
2742 8186 4.652421 TCGTTGTAGAAACACACACCTA 57.348 40.909 0.00 0.00 34.61 3.08
2800 8248 9.363763 GTAAATAAGTAATATAAGGACTCCGCC 57.636 37.037 0.00 0.00 0.00 6.13


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.