Multiple sequence alignment - TraesCS3D01G366800

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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 TraesCS3D01G366800 chr3D 100.000 2834 0 0 1 2834 481067160 481064327 0.000000e+00 5234
1 TraesCS3D01G366800 chr3B 91.740 2373 100 39 1 2305 641985026 641982682 0.000000e+00 3208
2 TraesCS3D01G366800 chr3B 94.191 241 11 3 2594 2834 641982418 641982181 5.770000e-97 364
3 TraesCS3D01G366800 chr3B 94.595 111 5 1 2523 2632 641982525 641982415 1.350000e-38 171
4 TraesCS3D01G366800 chr3A 90.028 2497 113 55 1 2402 623819724 623817269 0.000000e+00 3107
5 TraesCS3D01G366800 chr3A 89.362 329 12 8 2523 2834 623811541 623811219 2.650000e-105 392
6 TraesCS3D01G366800 chr1A 82.379 227 32 8 2308 2526 571740087 571740313 1.040000e-44 191
7 TraesCS3D01G366800 chr1A 79.018 224 39 7 2308 2524 59850216 59850438 2.280000e-31 147
8 TraesCS3D01G366800 chr5A 81.778 225 32 7 2308 2523 382090254 382090478 2.240000e-41 180
9 TraesCS3D01G366800 chr2B 81.696 224 34 4 2308 2524 717045646 717045423 2.240000e-41 180
10 TraesCS3D01G366800 chr4D 81.416 226 30 11 2308 2524 445712835 445712613 1.040000e-39 174
11 TraesCS3D01G366800 chr7B 78.222 225 37 11 2308 2523 408514584 408514363 1.770000e-27 134
12 TraesCS3D01G366800 chr7D 78.788 165 33 2 2363 2525 38229380 38229216 2.980000e-20 110


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 TraesCS3D01G366800 chr3D 481064327 481067160 2833 True 5234.000000 5234 100.000000 1 2834 1 chr3D.!!$R1 2833
1 TraesCS3D01G366800 chr3B 641982181 641985026 2845 True 1247.666667 3208 93.508667 1 2834 3 chr3B.!!$R1 2833
2 TraesCS3D01G366800 chr3A 623817269 623819724 2455 True 3107.000000 3107 90.028000 1 2402 1 chr3A.!!$R2 2401

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
348 382 0.239879 TCGAAATTTGAAGCACCGGC 59.76 50.0 0.0 0.0 41.61 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1861 1939 0.035534 ACCACCATGCGCTTGTATCA 60.036 50.0 20.4 0.0 0.0 2.15 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
155 162 7.399634 TCTCGGTAAAAAGGGAAAGATAATGT 58.600 34.615 0.00 0.00 0.00 2.71
177 188 5.065474 TGTTGGTTGTTTTAGGAGAAGTTCG 59.935 40.000 0.00 0.00 0.00 3.95
232 266 2.837591 TCCCATGTACTGCACTATGTGT 59.162 45.455 0.00 0.00 35.75 3.72
324 358 1.611519 CAGGCCCAACCGTTCTTTAA 58.388 50.000 0.00 0.00 46.52 1.52
348 382 0.239879 TCGAAATTTGAAGCACCGGC 59.760 50.000 0.00 0.00 41.61 6.13
553 590 2.267006 CCTCACTCATGCCTGCGT 59.733 61.111 0.00 0.00 0.00 5.24
563 608 2.158769 TCATGCCTGCGTCCTGATAAAT 60.159 45.455 0.00 0.00 0.00 1.40
564 609 3.070878 TCATGCCTGCGTCCTGATAAATA 59.929 43.478 0.00 0.00 0.00 1.40
565 610 3.552132 TGCCTGCGTCCTGATAAATAA 57.448 42.857 0.00 0.00 0.00 1.40
566 611 3.879998 TGCCTGCGTCCTGATAAATAAA 58.120 40.909 0.00 0.00 0.00 1.40
567 612 4.265893 TGCCTGCGTCCTGATAAATAAAA 58.734 39.130 0.00 0.00 0.00 1.52
583 628 6.927933 AAATAAAACTATTCGCTGCACAAC 57.072 33.333 0.00 0.00 0.00 3.32
637 682 4.352039 GAGATTTTACAGCGATCGTCTGA 58.648 43.478 31.93 19.31 35.61 3.27
651 696 5.631096 CGATCGTCTGATGCACTGTTAATAT 59.369 40.000 7.03 0.00 34.09 1.28
658 703 6.259387 TCTGATGCACTGTTAATATGCTTCTG 59.741 38.462 17.51 16.88 41.59 3.02
700 745 6.516739 TCTCATCAGTACTCTACTTGGTTG 57.483 41.667 0.00 0.00 36.76 3.77
707 752 6.774170 TCAGTACTCTACTTGGTTGTTACTCA 59.226 38.462 0.00 0.00 36.76 3.41
889 940 2.588034 GGTGGCGTCCGCTTATCC 60.588 66.667 11.82 5.61 41.60 2.59
924 976 1.307343 ATACCAGCCAGCCTCCTGT 60.307 57.895 0.00 0.00 37.38 4.00
1861 1939 3.728373 GGCGGGAAGATGGGTGGT 61.728 66.667 0.00 0.00 0.00 4.16
1923 2001 4.152644 TCGCCGTCGATAGGTGAT 57.847 55.556 18.31 0.00 42.69 3.06
1933 2011 1.240256 GATAGGTGATCTCGAGCCGT 58.760 55.000 7.81 0.00 0.00 5.68
2030 2136 2.690497 TGAATTTCCGTGGTCTTTTGCA 59.310 40.909 0.00 0.00 0.00 4.08
2191 2326 4.208460 CGTTCGTGTTTCTCTCTTTTGCTA 59.792 41.667 0.00 0.00 0.00 3.49
2194 2329 4.982916 TCGTGTTTCTCTCTTTTGCTACTC 59.017 41.667 0.00 0.00 0.00 2.59
2206 2341 1.264749 TGCTACTCGCCAAGGTCCAT 61.265 55.000 0.00 0.00 38.05 3.41
2207 2342 0.811616 GCTACTCGCCAAGGTCCATG 60.812 60.000 0.00 0.00 0.00 3.66
2208 2343 0.811616 CTACTCGCCAAGGTCCATGC 60.812 60.000 0.00 0.00 0.00 4.06
2209 2344 1.549243 TACTCGCCAAGGTCCATGCA 61.549 55.000 0.00 0.00 0.00 3.96
2306 2450 2.511600 CGGACGTGATTCAGGGCC 60.512 66.667 19.37 19.37 43.30 5.80
2323 2468 4.098501 CAGGGCCATTCAAAGGAATTCTAC 59.901 45.833 6.18 0.00 41.78 2.59
2377 2527 9.801873 AAAAATATGTATTGGTCCTTTGATTCG 57.198 29.630 0.00 0.00 0.00 3.34
2387 2537 4.383770 GGTCCTTTGATTCGTAGGATTGGA 60.384 45.833 9.12 0.00 40.05 3.53
2402 2552 4.682787 GGATTGGATCCCGTTGAATTTTC 58.317 43.478 9.90 0.00 43.88 2.29
2403 2553 4.402474 GGATTGGATCCCGTTGAATTTTCT 59.598 41.667 9.90 0.00 43.88 2.52
2404 2554 5.592688 GGATTGGATCCCGTTGAATTTTCTA 59.407 40.000 9.90 0.00 43.88 2.10
2405 2555 6.265422 GGATTGGATCCCGTTGAATTTTCTAT 59.735 38.462 9.90 0.00 43.88 1.98
2406 2556 6.449635 TTGGATCCCGTTGAATTTTCTATG 57.550 37.500 9.90 0.00 0.00 2.23
2407 2557 4.887071 TGGATCCCGTTGAATTTTCTATGG 59.113 41.667 9.90 6.15 38.36 2.74
2409 2559 5.592688 GGATCCCGTTGAATTTTCTATGGAA 59.407 40.000 12.67 0.00 40.19 3.53
2410 2560 6.265422 GGATCCCGTTGAATTTTCTATGGAAT 59.735 38.462 12.67 0.52 40.19 3.01
2411 2561 7.201911 GGATCCCGTTGAATTTTCTATGGAATT 60.202 37.037 12.67 0.00 40.19 2.17
2412 2562 7.475137 TCCCGTTGAATTTTCTATGGAATTT 57.525 32.000 12.67 0.00 40.19 1.82
2413 2563 7.902087 TCCCGTTGAATTTTCTATGGAATTTT 58.098 30.769 12.67 0.00 40.19 1.82
2414 2564 8.371699 TCCCGTTGAATTTTCTATGGAATTTTT 58.628 29.630 12.67 0.00 40.19 1.94
2415 2565 8.655970 CCCGTTGAATTTTCTATGGAATTTTTC 58.344 33.333 12.67 0.00 40.19 2.29
2416 2566 9.202273 CCGTTGAATTTTCTATGGAATTTTTCA 57.798 29.630 7.06 0.63 40.19 2.69
2448 2598 8.328758 TGTTTCATAGGAAATCTAACATCCACT 58.671 33.333 5.77 0.00 44.32 4.00
2449 2599 9.178758 GTTTCATAGGAAATCTAACATCCACTT 57.821 33.333 5.77 0.00 44.32 3.16
2450 2600 8.964476 TTCATAGGAAATCTAACATCCACTTC 57.036 34.615 0.00 0.00 35.62 3.01
2451 2601 8.089625 TCATAGGAAATCTAACATCCACTTCA 57.910 34.615 0.00 0.00 35.62 3.02
2452 2602 8.548025 TCATAGGAAATCTAACATCCACTTCAA 58.452 33.333 0.00 0.00 35.62 2.69
2454 2604 5.649831 AGGAAATCTAACATCCACTTCAAGC 59.350 40.000 0.00 0.00 35.62 4.01
2455 2605 5.649831 GGAAATCTAACATCCACTTCAAGCT 59.350 40.000 0.00 0.00 33.30 3.74
2456 2606 6.183360 GGAAATCTAACATCCACTTCAAGCTC 60.183 42.308 0.00 0.00 33.30 4.09
2457 2607 5.690464 ATCTAACATCCACTTCAAGCTCT 57.310 39.130 0.00 0.00 0.00 4.09
2458 2608 5.489792 TCTAACATCCACTTCAAGCTCTT 57.510 39.130 0.00 0.00 0.00 2.85
2459 2609 5.869579 TCTAACATCCACTTCAAGCTCTTT 58.130 37.500 0.00 0.00 0.00 2.52
2460 2610 6.299141 TCTAACATCCACTTCAAGCTCTTTT 58.701 36.000 0.00 0.00 0.00 2.27
2461 2611 5.859205 AACATCCACTTCAAGCTCTTTTT 57.141 34.783 0.00 0.00 0.00 1.94
2462 2612 6.959639 AACATCCACTTCAAGCTCTTTTTA 57.040 33.333 0.00 0.00 0.00 1.52
2463 2613 7.530426 AACATCCACTTCAAGCTCTTTTTAT 57.470 32.000 0.00 0.00 0.00 1.40
2464 2614 8.635765 AACATCCACTTCAAGCTCTTTTTATA 57.364 30.769 0.00 0.00 0.00 0.98
2465 2615 8.635765 ACATCCACTTCAAGCTCTTTTTATAA 57.364 30.769 0.00 0.00 0.00 0.98
2466 2616 9.247861 ACATCCACTTCAAGCTCTTTTTATAAT 57.752 29.630 0.00 0.00 0.00 1.28
2501 2651 8.984891 TTTTGTATGCCATCAAATACTTCTTG 57.015 30.769 4.06 0.00 34.30 3.02
2502 2652 7.701539 TTGTATGCCATCAAATACTTCTTGT 57.298 32.000 0.00 0.00 31.75 3.16
2503 2653 7.701539 TGTATGCCATCAAATACTTCTTGTT 57.298 32.000 0.00 0.00 31.75 2.83
2504 2654 7.537715 TGTATGCCATCAAATACTTCTTGTTG 58.462 34.615 0.00 0.00 31.75 3.33
2505 2655 6.839124 ATGCCATCAAATACTTCTTGTTGA 57.161 33.333 0.00 0.00 34.68 3.18
2506 2656 6.839124 TGCCATCAAATACTTCTTGTTGAT 57.161 33.333 0.00 0.00 40.47 2.57
2507 2657 6.855836 TGCCATCAAATACTTCTTGTTGATC 58.144 36.000 0.00 0.00 38.37 2.92
2508 2658 6.660521 TGCCATCAAATACTTCTTGTTGATCT 59.339 34.615 0.00 0.00 38.37 2.75
2509 2659 7.177216 TGCCATCAAATACTTCTTGTTGATCTT 59.823 33.333 0.00 0.00 38.37 2.40
2510 2660 8.677300 GCCATCAAATACTTCTTGTTGATCTTA 58.323 33.333 0.00 0.00 38.37 2.10
2532 2682 2.820059 AGATTCAAGTGACGTCTGCA 57.180 45.000 17.92 0.00 0.00 4.41
2551 2701 0.461339 ATCCAACATGTACCGTCCGC 60.461 55.000 0.00 0.00 0.00 5.54
2618 2768 1.000396 GCCTTTGAGGATGGTGGCT 60.000 57.895 0.00 0.00 37.67 4.75
2709 2895 0.387622 CTGAACATTTGGCGTGCCTG 60.388 55.000 12.84 4.75 36.94 4.85
2716 2902 1.089481 TTTGGCGTGCCTGATCGATC 61.089 55.000 18.72 18.72 36.94 3.69
2725 2911 1.068885 GCCTGATCGATCGGTCTAGTG 60.069 57.143 27.39 15.32 0.00 2.74
2727 2913 0.952280 TGATCGATCGGTCTAGTGGC 59.048 55.000 27.39 1.91 0.00 5.01
2728 2914 1.240256 GATCGATCGGTCTAGTGGCT 58.760 55.000 21.05 0.00 0.00 4.75
2729 2915 1.609555 GATCGATCGGTCTAGTGGCTT 59.390 52.381 21.05 0.00 0.00 4.35
2732 2918 0.530870 GATCGGTCTAGTGGCTTGCC 60.531 60.000 4.43 4.43 0.00 4.52
2784 2970 4.830573 GCTTCCACCTTCAGCCTT 57.169 55.556 0.00 0.00 0.00 4.35
2785 2971 2.261215 GCTTCCACCTTCAGCCTTG 58.739 57.895 0.00 0.00 0.00 3.61
2786 2972 1.871126 GCTTCCACCTTCAGCCTTGC 61.871 60.000 0.00 0.00 0.00 4.01
2828 3014 1.594331 AAACGAACTCTGCTTCCCAC 58.406 50.000 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 31 1.459450 TAAACGGAATCAAGGGCAGC 58.541 50.000 0.00 0.00 0.00 5.25
155 162 4.035909 GCGAACTTCTCCTAAAACAACCAA 59.964 41.667 0.00 0.00 0.00 3.67
177 188 3.452474 CTGCACTAGACAGATAGGTTGC 58.548 50.000 10.77 0.50 37.32 4.17
232 266 6.485313 CACCACCTCTTACTAACAATGTCAAA 59.515 38.462 0.00 0.00 0.00 2.69
288 322 0.252479 CTGCAGATTCAGCCTGTCCT 59.748 55.000 8.42 0.00 34.29 3.85
290 324 1.375098 GCCTGCAGATTCAGCCTGTC 61.375 60.000 17.39 0.00 34.29 3.51
324 358 4.447389 CCGGTGCTTCAAATTTCGAAAAAT 59.553 37.500 15.66 4.14 36.64 1.82
553 590 7.497579 TGCAGCGAATAGTTTTATTTATCAGGA 59.502 33.333 0.00 0.00 29.67 3.86
563 608 5.029650 CAGTTGTGCAGCGAATAGTTTTA 57.970 39.130 0.00 0.00 0.00 1.52
564 609 3.888934 CAGTTGTGCAGCGAATAGTTTT 58.111 40.909 0.00 0.00 0.00 2.43
565 610 3.542712 CAGTTGTGCAGCGAATAGTTT 57.457 42.857 0.00 0.00 0.00 2.66
583 628 9.754382 ATTTGGCTAATGAATTAAGTATTGCAG 57.246 29.630 0.00 0.00 0.00 4.41
637 682 6.016527 CCATCAGAAGCATATTAACAGTGCAT 60.017 38.462 10.14 0.05 41.19 3.96
651 696 8.862325 TTTTAAAAGATACTCCATCAGAAGCA 57.138 30.769 0.00 0.00 35.96 3.91
700 745 7.532884 CCAAAACAGCGTTATTTACTGAGTAAC 59.467 37.037 4.23 0.00 35.38 2.50
707 752 4.400120 TCCCCAAAACAGCGTTATTTACT 58.600 39.130 0.00 0.00 0.00 2.24
786 831 2.029844 GCACCAGAGGCTGTCGAAC 61.030 63.158 0.00 0.00 0.00 3.95
839 890 2.758423 CCCTTAAAAATTCGGAGGTGGG 59.242 50.000 0.00 0.00 0.00 4.61
889 940 2.556559 GGTATCTAGGAGCAGGGAGAGG 60.557 59.091 0.00 0.00 0.00 3.69
1763 1841 4.880426 TCTCCTCATCCCCCGCCC 62.880 72.222 0.00 0.00 0.00 6.13
1861 1939 0.035534 ACCACCATGCGCTTGTATCA 60.036 50.000 20.40 0.00 0.00 2.15
1907 1985 0.110147 GAGATCACCTATCGACGGCG 60.110 60.000 2.87 2.87 39.79 6.46
1908 1986 0.110147 CGAGATCACCTATCGACGGC 60.110 60.000 0.00 0.00 39.79 5.68
1909 1987 1.461512 CTCGAGATCACCTATCGACGG 59.538 57.143 6.58 0.00 40.29 4.79
1912 1990 1.524848 GGCTCGAGATCACCTATCGA 58.475 55.000 18.75 4.24 42.71 3.59
1917 1995 1.077357 AGACGGCTCGAGATCACCT 60.077 57.895 18.75 2.75 0.00 4.00
2030 2136 2.224354 CCCAAGAGCAAAATGCCAAACT 60.224 45.455 0.00 0.00 46.52 2.66
2092 2208 0.391661 ATCCATGCATCGATACGGCC 60.392 55.000 4.86 0.00 0.00 6.13
2191 2326 2.045926 GCATGGACCTTGGCGAGT 60.046 61.111 9.29 0.00 0.00 4.18
2194 2329 2.048023 ACATGCATGGACCTTGGCG 61.048 57.895 29.41 1.63 0.00 5.69
2208 2343 3.622612 TCTGTTCCATAACGCATCACATG 59.377 43.478 0.00 0.00 38.53 3.21
2209 2344 3.623060 GTCTGTTCCATAACGCATCACAT 59.377 43.478 0.00 0.00 38.53 3.21
2351 2498 9.801873 CGAATCAAAGGACCAATACATATTTTT 57.198 29.630 0.00 0.00 0.00 1.94
2352 2499 8.966868 ACGAATCAAAGGACCAATACATATTTT 58.033 29.630 0.00 0.00 0.00 1.82
2355 2502 7.878127 CCTACGAATCAAAGGACCAATACATAT 59.122 37.037 0.00 0.00 31.64 1.78
2357 2504 6.055588 CCTACGAATCAAAGGACCAATACAT 58.944 40.000 0.00 0.00 31.64 2.29
2368 2518 5.931441 GGATCCAATCCTACGAATCAAAG 57.069 43.478 6.95 0.00 46.19 2.77
2387 2537 7.660030 AATTCCATAGAAAATTCAACGGGAT 57.340 32.000 0.00 0.00 35.09 3.85
2421 2571 9.125026 GTGGATGTTAGATTTCCTATGAAACAT 57.875 33.333 0.00 0.00 42.97 2.71
2422 2572 8.328758 AGTGGATGTTAGATTTCCTATGAAACA 58.671 33.333 0.00 0.00 42.97 2.83
2425 2575 8.548025 TGAAGTGGATGTTAGATTTCCTATGAA 58.452 33.333 0.00 0.00 0.00 2.57
2426 2576 8.089625 TGAAGTGGATGTTAGATTTCCTATGA 57.910 34.615 0.00 0.00 0.00 2.15
2427 2577 8.737168 TTGAAGTGGATGTTAGATTTCCTATG 57.263 34.615 0.00 0.00 0.00 2.23
2429 2579 6.823689 GCTTGAAGTGGATGTTAGATTTCCTA 59.176 38.462 0.00 0.00 0.00 2.94
2430 2580 5.649831 GCTTGAAGTGGATGTTAGATTTCCT 59.350 40.000 0.00 0.00 0.00 3.36
2431 2581 5.649831 AGCTTGAAGTGGATGTTAGATTTCC 59.350 40.000 0.00 0.00 0.00 3.13
2433 2583 6.479884 AGAGCTTGAAGTGGATGTTAGATTT 58.520 36.000 0.00 0.00 0.00 2.17
2434 2584 6.059787 AGAGCTTGAAGTGGATGTTAGATT 57.940 37.500 0.00 0.00 0.00 2.40
2435 2585 5.690464 AGAGCTTGAAGTGGATGTTAGAT 57.310 39.130 0.00 0.00 0.00 1.98
2436 2586 5.489792 AAGAGCTTGAAGTGGATGTTAGA 57.510 39.130 0.00 0.00 0.00 2.10
2438 2588 6.959639 AAAAAGAGCTTGAAGTGGATGTTA 57.040 33.333 0.00 0.00 0.00 2.41
2439 2589 5.859205 AAAAAGAGCTTGAAGTGGATGTT 57.141 34.783 0.00 0.00 0.00 2.71
2440 2590 8.635765 TTATAAAAAGAGCTTGAAGTGGATGT 57.364 30.769 0.00 0.00 0.00 3.06
2475 2625 9.421806 CAAGAAGTATTTGATGGCATACAAAAA 57.578 29.630 20.77 11.95 39.01 1.94
2476 2626 8.584157 ACAAGAAGTATTTGATGGCATACAAAA 58.416 29.630 20.77 13.84 39.01 2.44
2477 2627 8.121305 ACAAGAAGTATTTGATGGCATACAAA 57.879 30.769 19.82 19.82 39.67 2.83
2478 2628 7.701539 ACAAGAAGTATTTGATGGCATACAA 57.298 32.000 0.00 4.11 0.00 2.41
2479 2629 7.392953 TCAACAAGAAGTATTTGATGGCATACA 59.607 33.333 0.00 0.00 31.56 2.29
2480 2630 7.761409 TCAACAAGAAGTATTTGATGGCATAC 58.239 34.615 0.00 0.00 31.56 2.39
2481 2631 7.936496 TCAACAAGAAGTATTTGATGGCATA 57.064 32.000 0.00 0.00 31.56 3.14
2482 2632 6.839124 TCAACAAGAAGTATTTGATGGCAT 57.161 33.333 0.00 0.00 31.56 4.40
2483 2633 6.660521 AGATCAACAAGAAGTATTTGATGGCA 59.339 34.615 0.00 0.00 38.51 4.92
2484 2634 7.093322 AGATCAACAAGAAGTATTTGATGGC 57.907 36.000 0.00 0.00 38.51 4.40
2500 2650 9.087424 CGTCACTTGAATCTTATAAGATCAACA 57.913 33.333 24.75 20.70 44.67 3.33
2501 2651 9.088512 ACGTCACTTGAATCTTATAAGATCAAC 57.911 33.333 24.75 18.90 44.67 3.18
2502 2652 9.302345 GACGTCACTTGAATCTTATAAGATCAA 57.698 33.333 24.75 24.18 44.67 2.57
2503 2653 8.687242 AGACGTCACTTGAATCTTATAAGATCA 58.313 33.333 24.75 20.21 44.67 2.92
2504 2654 8.963130 CAGACGTCACTTGAATCTTATAAGATC 58.037 37.037 24.75 18.36 44.67 2.75
2506 2656 6.752351 GCAGACGTCACTTGAATCTTATAAGA 59.248 38.462 19.50 17.32 39.78 2.10
2507 2657 6.531594 TGCAGACGTCACTTGAATCTTATAAG 59.468 38.462 19.50 6.11 0.00 1.73
2508 2658 6.394809 TGCAGACGTCACTTGAATCTTATAA 58.605 36.000 19.50 0.00 0.00 0.98
2509 2659 5.961272 TGCAGACGTCACTTGAATCTTATA 58.039 37.500 19.50 0.00 0.00 0.98
2510 2660 4.820897 TGCAGACGTCACTTGAATCTTAT 58.179 39.130 19.50 0.00 0.00 1.73
2511 2661 4.251543 TGCAGACGTCACTTGAATCTTA 57.748 40.909 19.50 0.00 0.00 2.10
2512 2662 3.111853 TGCAGACGTCACTTGAATCTT 57.888 42.857 19.50 0.00 0.00 2.40
2513 2663 2.820059 TGCAGACGTCACTTGAATCT 57.180 45.000 19.50 0.00 0.00 2.40
2514 2664 2.349886 GGATGCAGACGTCACTTGAATC 59.650 50.000 19.50 15.91 33.10 2.52
2515 2665 2.289631 TGGATGCAGACGTCACTTGAAT 60.290 45.455 19.50 7.44 33.10 2.57
2516 2666 1.069978 TGGATGCAGACGTCACTTGAA 59.930 47.619 19.50 1.86 33.10 2.69
2517 2667 0.678950 TGGATGCAGACGTCACTTGA 59.321 50.000 19.50 0.00 33.10 3.02
2518 2668 1.195448 GTTGGATGCAGACGTCACTTG 59.805 52.381 19.50 8.69 33.10 3.16
2519 2669 1.202639 TGTTGGATGCAGACGTCACTT 60.203 47.619 19.50 7.50 33.10 3.16
2520 2670 0.392706 TGTTGGATGCAGACGTCACT 59.607 50.000 19.50 0.00 33.10 3.41
2521 2671 1.129251 CATGTTGGATGCAGACGTCAC 59.871 52.381 19.50 10.06 33.10 3.67
2532 2682 0.461339 GCGGACGGTACATGTTGGAT 60.461 55.000 2.30 0.00 0.00 3.41
2656 2842 2.176045 TCTTGGATACCGTCTGCTTCA 58.824 47.619 0.00 0.00 0.00 3.02
2657 2843 2.961526 TCTTGGATACCGTCTGCTTC 57.038 50.000 0.00 0.00 0.00 3.86
2709 2895 1.240256 AGCCACTAGACCGATCGATC 58.760 55.000 18.66 15.68 0.00 3.69
2716 2902 1.448540 CAGGCAAGCCACTAGACCG 60.449 63.158 14.40 0.00 38.92 4.79
2785 2971 4.577246 CTAGCTCTGACGGCCCGC 62.577 72.222 1.23 0.00 0.00 6.13
2786 2972 2.829003 TCTAGCTCTGACGGCCCG 60.829 66.667 0.00 0.00 0.00 6.13
2801 2987 2.630580 AGCAGAGTTCGTTTTCCTCTCT 59.369 45.455 0.00 0.00 33.38 3.10


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

AutoCloner maintained by Alex Coulton.