Multiple sequence alignment - TraesCS1A01G241100

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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 TraesCS1A01G241100 chr1A 100.000 2734 0 0 1 2734 428662705 428665438 0.000000e+00 5049.0
1 TraesCS1A01G241100 chr1D 93.980 1927 63 18 1 1899 331504716 331506617 0.000000e+00 2867.0
2 TraesCS1A01G241100 chr1D 90.403 521 42 8 1898 2411 331506647 331507166 0.000000e+00 678.0
3 TraesCS1A01G241100 chr1D 87.500 296 32 4 2443 2734 331507155 331507449 1.210000e-88 337.0
4 TraesCS1A01G241100 chr1B 97.276 881 23 1 1015 1895 445877856 445878735 0.000000e+00 1493.0
5 TraesCS1A01G241100 chr1B 92.964 938 36 9 1 913 445876734 445877666 0.000000e+00 1339.0
6 TraesCS1A01G241100 chr1B 88.911 514 53 4 1910 2419 445878786 445879299 4.970000e-177 630.0
7 TraesCS1A01G241100 chr2D 86.047 86 12 0 1583 1668 77170659 77170574 2.900000e-15 93.5
8 TraesCS1A01G241100 chr2B 84.043 94 12 2 1583 1676 119049476 119049386 1.350000e-13 87.9
9 TraesCS1A01G241100 chr2A 84.884 86 13 0 1583 1668 78183045 78182960 1.350000e-13 87.9
10 TraesCS1A01G241100 chr7A 81.081 111 16 4 1559 1668 547757616 547757510 1.740000e-12 84.2
11 TraesCS1A01G241100 chr7D 88.406 69 3 4 1559 1626 447908014 447908078 8.120000e-11 78.7
12 TraesCS1A01G241100 chr7B 87.879 66 3 4 1559 1623 465216986 465217047 3.780000e-09 73.1


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 TraesCS1A01G241100 chr1A 428662705 428665438 2733 False 5049 5049 100.000000 1 2734 1 chr1A.!!$F1 2733
1 TraesCS1A01G241100 chr1D 331504716 331507449 2733 False 1294 2867 90.627667 1 2734 3 chr1D.!!$F1 2733
2 TraesCS1A01G241100 chr1B 445876734 445879299 2565 False 1154 1493 93.050333 1 2419 3 chr1B.!!$F1 2418

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
165 166 2.221749 CGCATTGGTGACATAAGATCCG 59.778 50.000 0.00 0.0 42.32 4.18 F
1470 1588 1.154150 CCCGTTCGAGTACGTCACC 60.154 63.158 8.68 0.0 39.81 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1686 1804 0.749454 GGCATGTCGGCATCCTTCTT 60.749 55.0 0.0 0.0 40.76 2.52 R
2348 2518 0.107945 CAGGTGCTACAGAAGGAGCC 60.108 60.0 0.0 0.0 44.46 4.70 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
165 166 2.221749 CGCATTGGTGACATAAGATCCG 59.778 50.000 0.00 0.00 42.32 4.18
258 259 8.547967 TTAAAGCGAATGTTATCTTCTCTTGT 57.452 30.769 0.00 0.00 30.38 3.16
285 300 2.916716 CCATGCGATAACACTTTGTTGC 59.083 45.455 1.73 0.00 41.30 4.17
287 302 3.913548 TGCGATAACACTTTGTTGCAT 57.086 38.095 1.73 0.00 41.30 3.96
395 413 3.181493 GCATCTCCTAAAATGCACACCAG 60.181 47.826 0.00 0.00 45.97 4.00
402 420 8.271458 TCTCCTAAAATGCACACCAGAATTATA 58.729 33.333 0.00 0.00 0.00 0.98
448 466 4.811555 TCACCGAAAGAAGACAATGTTG 57.188 40.909 0.00 0.00 0.00 3.33
692 718 3.930336 TGGAGCACTGTTAGATGTCAAG 58.070 45.455 0.00 0.00 0.00 3.02
736 762 5.734720 TCCATGAGAAGAACCATTCACTAC 58.265 41.667 0.00 0.00 0.00 2.73
985 1015 4.417437 CCCTCCCTATATATACATCCCCG 58.583 52.174 0.00 0.00 0.00 5.73
1470 1588 1.154150 CCCGTTCGAGTACGTCACC 60.154 63.158 8.68 0.00 39.81 4.02
1686 1804 1.956639 TATCGGAGGCCAGGAAGGGA 61.957 60.000 5.01 0.00 38.09 4.20
1853 1981 7.915923 CAGTCTCGCTTAATTGTTCATACTAGA 59.084 37.037 0.00 0.00 0.00 2.43
1858 1986 7.921214 TCGCTTAATTGTTCATACTAGAGGAAG 59.079 37.037 0.00 0.00 0.00 3.46
1868 1996 2.107366 ACTAGAGGAAGAGAGGCAAGC 58.893 52.381 0.00 0.00 0.00 4.01
1895 2023 5.163364 GCAAGATAGTTCAGAAGGAGATGGA 60.163 44.000 0.00 0.00 0.00 3.41
1909 2055 6.969993 AGGAGATGGATAGTTCTAGTTCAC 57.030 41.667 0.00 0.00 0.00 3.18
2038 2205 6.707290 TGAAATTAGAGGACTCAAATTCCGA 58.293 36.000 1.75 0.00 38.29 4.55
2054 2221 8.296713 TCAAATTCCGAGTTCCTTTTTCTAATG 58.703 33.333 0.00 0.00 0.00 1.90
2059 2226 5.581085 CCGAGTTCCTTTTTCTAATGTCGAT 59.419 40.000 0.00 0.00 0.00 3.59
2090 2258 3.146104 AGTTCCAAATGACCTGTCTGG 57.854 47.619 0.00 0.00 42.93 3.86
2162 2331 4.415881 ACAATTTTCAAAGAACACCCCC 57.584 40.909 0.00 0.00 0.00 5.40
2179 2348 2.553904 CCCCCTGAATATCATGTGCTCC 60.554 54.545 0.00 0.00 0.00 4.70
2180 2349 2.374504 CCCCTGAATATCATGTGCTCCT 59.625 50.000 0.00 0.00 0.00 3.69
2237 2406 3.885297 CGGCCCTTGAATGTAGATCAAAT 59.115 43.478 0.00 0.00 36.43 2.32
2260 2429 7.856145 ATGATCAAATGAAGAGTTACTGGAC 57.144 36.000 0.00 0.00 0.00 4.02
2272 2441 7.349412 AGAGTTACTGGACCTATGTGTAATC 57.651 40.000 0.00 0.00 0.00 1.75
2289 2459 2.471084 ATCACGGGACTCCTTGGGGA 62.471 60.000 0.00 0.00 39.70 4.81
2292 2462 0.845102 ACGGGACTCCTTGGGGATTT 60.845 55.000 0.00 0.00 41.36 2.17
2305 2475 2.270923 GGGGATTTTCTGCAAATTCGC 58.729 47.619 0.00 0.00 36.43 4.70
2306 2476 2.353605 GGGGATTTTCTGCAAATTCGCA 60.354 45.455 3.81 0.00 41.22 5.10
2319 2489 0.106335 ATTCGCATGAGCTCTCCCTG 59.894 55.000 16.19 8.35 39.10 4.45
2322 2492 2.108566 CATGAGCTCTCCCTGCCG 59.891 66.667 16.19 0.00 0.00 5.69
2323 2493 2.364842 ATGAGCTCTCCCTGCCGT 60.365 61.111 16.19 0.00 0.00 5.68
2332 2502 2.111878 CCCTGCCGTCATGGGATC 59.888 66.667 0.00 0.00 43.47 3.36
2348 2518 0.610687 GATCTAGATCCAAGGGCCGG 59.389 60.000 20.33 0.00 31.76 6.13
2352 2522 4.570874 GATCCAAGGGCCGGGCTC 62.571 72.222 28.80 16.44 0.00 4.70
2383 2553 2.393271 CCTGAACTTAGGTGCTCTGG 57.607 55.000 0.00 0.00 32.99 3.86
2400 2570 5.747951 CTCTGGGAGCACAAGATATTTTC 57.252 43.478 0.00 0.00 0.00 2.29
2401 2571 4.526970 TCTGGGAGCACAAGATATTTTCC 58.473 43.478 0.00 0.00 0.00 3.13
2402 2572 3.631250 TGGGAGCACAAGATATTTTCCC 58.369 45.455 0.00 0.00 42.49 3.97
2403 2573 2.959030 GGGAGCACAAGATATTTTCCCC 59.041 50.000 0.00 0.00 37.42 4.81
2404 2574 3.373110 GGGAGCACAAGATATTTTCCCCT 60.373 47.826 0.00 0.00 37.42 4.79
2405 2575 4.141251 GGGAGCACAAGATATTTTCCCCTA 60.141 45.833 0.00 0.00 37.42 3.53
2406 2576 5.445964 GGAGCACAAGATATTTTCCCCTAA 58.554 41.667 0.00 0.00 0.00 2.69
2407 2577 5.532779 GGAGCACAAGATATTTTCCCCTAAG 59.467 44.000 0.00 0.00 0.00 2.18
2408 2578 6.327386 AGCACAAGATATTTTCCCCTAAGA 57.673 37.500 0.00 0.00 0.00 2.10
2409 2579 6.122964 AGCACAAGATATTTTCCCCTAAGAC 58.877 40.000 0.00 0.00 0.00 3.01
2410 2580 5.299531 GCACAAGATATTTTCCCCTAAGACC 59.700 44.000 0.00 0.00 0.00 3.85
2411 2581 6.423182 CACAAGATATTTTCCCCTAAGACCA 58.577 40.000 0.00 0.00 0.00 4.02
2412 2582 6.889722 CACAAGATATTTTCCCCTAAGACCAA 59.110 38.462 0.00 0.00 0.00 3.67
2413 2583 7.067494 CACAAGATATTTTCCCCTAAGACCAAG 59.933 40.741 0.00 0.00 0.00 3.61
2414 2584 5.696030 AGATATTTTCCCCTAAGACCAAGC 58.304 41.667 0.00 0.00 0.00 4.01
2415 2585 2.597578 TTTTCCCCTAAGACCAAGCC 57.402 50.000 0.00 0.00 0.00 4.35
2416 2586 1.755200 TTTCCCCTAAGACCAAGCCT 58.245 50.000 0.00 0.00 0.00 4.58
2417 2587 0.991920 TTCCCCTAAGACCAAGCCTG 59.008 55.000 0.00 0.00 0.00 4.85
2418 2588 0.118346 TCCCCTAAGACCAAGCCTGA 59.882 55.000 0.00 0.00 0.00 3.86
2419 2589 0.991920 CCCCTAAGACCAAGCCTGAA 59.008 55.000 0.00 0.00 0.00 3.02
2420 2590 1.566231 CCCCTAAGACCAAGCCTGAAT 59.434 52.381 0.00 0.00 0.00 2.57
2421 2591 2.777692 CCCCTAAGACCAAGCCTGAATA 59.222 50.000 0.00 0.00 0.00 1.75
2422 2592 3.395941 CCCCTAAGACCAAGCCTGAATAT 59.604 47.826 0.00 0.00 0.00 1.28
2423 2593 4.597507 CCCCTAAGACCAAGCCTGAATATA 59.402 45.833 0.00 0.00 0.00 0.86
2424 2594 5.073144 CCCCTAAGACCAAGCCTGAATATAA 59.927 44.000 0.00 0.00 0.00 0.98
2425 2595 6.410388 CCCCTAAGACCAAGCCTGAATATAAA 60.410 42.308 0.00 0.00 0.00 1.40
2426 2596 6.712547 CCCTAAGACCAAGCCTGAATATAAAG 59.287 42.308 0.00 0.00 0.00 1.85
2427 2597 7.420214 CCCTAAGACCAAGCCTGAATATAAAGA 60.420 40.741 0.00 0.00 0.00 2.52
2428 2598 7.993183 CCTAAGACCAAGCCTGAATATAAAGAA 59.007 37.037 0.00 0.00 0.00 2.52
2429 2599 9.566432 CTAAGACCAAGCCTGAATATAAAGAAT 57.434 33.333 0.00 0.00 0.00 2.40
2430 2600 8.457238 AAGACCAAGCCTGAATATAAAGAATC 57.543 34.615 0.00 0.00 0.00 2.52
2431 2601 7.810260 AGACCAAGCCTGAATATAAAGAATCT 58.190 34.615 0.00 0.00 0.00 2.40
2432 2602 8.277918 AGACCAAGCCTGAATATAAAGAATCTT 58.722 33.333 0.00 0.00 0.00 2.40
2433 2603 8.230472 ACCAAGCCTGAATATAAAGAATCTTG 57.770 34.615 0.00 0.00 0.00 3.02
2434 2604 8.055181 ACCAAGCCTGAATATAAAGAATCTTGA 58.945 33.333 0.00 0.00 31.61 3.02
2435 2605 8.906867 CCAAGCCTGAATATAAAGAATCTTGAA 58.093 33.333 0.00 0.00 31.61 2.69
2438 2608 9.911788 AGCCTGAATATAAAGAATCTTGAAAGA 57.088 29.630 0.00 0.00 39.78 2.52
2446 2616 4.731313 AGAATCTTGAAAGAACACCCCT 57.269 40.909 0.00 0.00 38.77 4.79
2450 2620 7.066781 AGAATCTTGAAAGAACACCCCTTAAA 58.933 34.615 0.00 0.00 38.77 1.52
2470 2640 4.842091 CAGGCTTGATTGGCGCGC 62.842 66.667 25.94 25.94 37.59 6.86
2481 2651 3.537668 GGCGCGCCAAAAGAAAAG 58.462 55.556 43.55 0.00 35.81 2.27
2517 2687 1.560923 AAGATCGAGTGAATTCCGCG 58.439 50.000 0.00 0.00 0.00 6.46
2521 2691 0.669318 TCGAGTGAATTCCGCGCTTT 60.669 50.000 5.56 0.00 0.00 3.51
2522 2692 0.165944 CGAGTGAATTCCGCGCTTTT 59.834 50.000 5.56 0.00 0.00 2.27
2530 2700 0.444651 TTCCGCGCTTTTATGTTCGG 59.555 50.000 5.56 0.00 38.34 4.30
2538 2708 3.695816 GCTTTTATGTTCGGAAGATGCC 58.304 45.455 10.36 0.00 41.60 4.40
2548 2718 1.153958 GAAGATGCCGCTTGTTGCC 60.154 57.895 0.00 0.00 38.78 4.52
2551 2721 2.282391 ATGCCGCTTGTTGCCTCA 60.282 55.556 0.00 0.00 38.78 3.86
2552 2722 2.533391 GATGCCGCTTGTTGCCTCAC 62.533 60.000 0.00 0.00 38.78 3.51
2555 2725 2.186160 CCGCTTGTTGCCTCACACA 61.186 57.895 0.00 0.00 38.78 3.72
2589 2759 0.585357 GTCGATGATGTGGCATCTGC 59.415 55.000 10.02 0.00 41.90 4.26
2590 2760 0.466963 TCGATGATGTGGCATCTGCT 59.533 50.000 10.02 0.00 41.90 4.24
2605 2775 4.704007 GCTTCAGCAATCCGCATG 57.296 55.556 0.00 0.00 46.13 4.06
2608 2778 1.660167 CTTCAGCAATCCGCATGAGA 58.340 50.000 0.00 0.00 46.13 3.27
2620 2790 2.225019 CCGCATGAGATTGACTATTGGC 59.775 50.000 0.00 0.00 0.00 4.52
2634 2804 1.229145 TTGGCCCCACCCAATGAAG 60.229 57.895 0.00 0.00 39.85 3.02
2635 2805 1.734420 TTGGCCCCACCCAATGAAGA 61.734 55.000 0.00 0.00 39.85 2.87
2636 2806 1.311059 GGCCCCACCCAATGAAGAT 59.689 57.895 0.00 0.00 0.00 2.40
2637 2807 1.044790 GGCCCCACCCAATGAAGATG 61.045 60.000 0.00 0.00 0.00 2.90
2638 2808 0.324645 GCCCCACCCAATGAAGATGT 60.325 55.000 0.00 0.00 0.00 3.06
2639 2809 1.767759 CCCCACCCAATGAAGATGTC 58.232 55.000 0.00 0.00 0.00 3.06
2640 2810 1.005805 CCCCACCCAATGAAGATGTCA 59.994 52.381 0.00 0.00 41.67 3.58
2641 2811 2.557229 CCCCACCCAATGAAGATGTCAA 60.557 50.000 0.00 0.00 40.50 3.18
2644 2814 4.223477 CCCACCCAATGAAGATGTCAAAAT 59.777 41.667 0.00 0.00 40.50 1.82
2646 2816 5.047164 CCACCCAATGAAGATGTCAAAATCA 60.047 40.000 0.00 0.00 40.50 2.57
2648 2818 7.147863 CCACCCAATGAAGATGTCAAAATCATA 60.148 37.037 0.00 0.00 40.50 2.15
2662 2835 8.714906 TGTCAAAATCATAAAAGGGGGTAAAAA 58.285 29.630 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
92 93 9.813826 ATTTATTCAGATTCCGATAAAAGGGAT 57.186 29.630 0.00 0.00 31.11 3.85
131 132 5.793457 GTCACCAATGCGACTATTTGTTTAC 59.207 40.000 0.00 0.00 0.00 2.01
165 166 6.094186 GTCAGAGTTGGGAGGACATTATTTTC 59.906 42.308 0.00 0.00 0.00 2.29
258 259 3.751479 AGTGTTATCGCATGGATAGCA 57.249 42.857 13.09 13.09 43.79 3.49
287 302 8.323567 TGCCAGAGATATCAAAAGATGCATATA 58.676 33.333 0.00 0.00 0.00 0.86
293 308 7.506328 TGATTGCCAGAGATATCAAAAGATG 57.494 36.000 5.32 0.00 0.00 2.90
391 409 7.431249 TCTCGACGCTTAAATATAATTCTGGT 58.569 34.615 0.00 0.00 0.00 4.00
395 413 7.334574 TGCTCTCGACGCTTAAATATAATTC 57.665 36.000 3.89 0.00 0.00 2.17
402 420 5.127693 AGATATGCTCTCGACGCTTAAAT 57.872 39.130 3.89 0.00 0.00 1.40
433 451 5.751243 AGTAACGCAACATTGTCTTCTTT 57.249 34.783 0.00 0.00 0.00 2.52
448 466 4.167268 AGAGAAGACATCGAAAGTAACGC 58.833 43.478 0.00 0.00 0.00 4.84
497 516 1.021968 AGCGTGTTTTTGGTCCAGTC 58.978 50.000 0.00 0.00 0.00 3.51
653 675 4.094590 GCTCCAATCACTCAGTTCATTCAG 59.905 45.833 0.00 0.00 0.00 3.02
736 762 3.379688 GGGAAATGGAAGCTTCTAGCAAG 59.620 47.826 25.05 0.00 45.56 4.01
842 872 4.654262 TCAGGACAGTTGACCTTAGTTCTT 59.346 41.667 0.30 0.00 38.11 2.52
843 873 4.223953 TCAGGACAGTTGACCTTAGTTCT 58.776 43.478 0.30 0.00 38.11 3.01
844 874 4.602340 TCAGGACAGTTGACCTTAGTTC 57.398 45.455 0.30 0.00 38.11 3.01
926 956 4.978580 GGTTGACATTTGAAAAGTCAGAGC 59.021 41.667 14.45 11.74 42.54 4.09
985 1015 3.010200 AGATTTGAGGATTCCTGGTGC 57.990 47.619 10.74 0.00 31.76 5.01
1055 1173 2.413453 CGTCTAGAACAAGCTTTGAGGC 59.587 50.000 0.00 0.00 0.00 4.70
1686 1804 0.749454 GGCATGTCGGCATCCTTCTT 60.749 55.000 0.00 0.00 40.76 2.52
1723 1841 6.618287 TGCTAATGTTATCTTGAATTCCGG 57.382 37.500 2.27 0.00 0.00 5.14
1853 1981 1.294780 CACGCTTGCCTCTCTTCCT 59.705 57.895 0.00 0.00 0.00 3.36
1868 1996 3.849911 TCCTTCTGAACTATCTTGCACG 58.150 45.455 0.00 0.00 0.00 5.34
1909 2055 9.071221 CATTCATTCATTTGCATCCAATTTTTG 57.929 29.630 0.00 0.00 0.00 2.44
2054 2221 8.548721 CATTTGGAACTTATTAGTACCATCGAC 58.451 37.037 0.00 0.00 33.17 4.20
2059 2226 7.827236 CAGGTCATTTGGAACTTATTAGTACCA 59.173 37.037 0.00 0.00 42.28 3.25
2142 2311 4.100808 TCAGGGGGTGTTCTTTGAAAATTG 59.899 41.667 0.00 0.00 0.00 2.32
2146 2315 3.390175 TTCAGGGGGTGTTCTTTGAAA 57.610 42.857 0.00 0.00 0.00 2.69
2162 2331 4.316645 CTCCAGGAGCACATGATATTCAG 58.683 47.826 2.60 0.00 0.00 3.02
2179 2348 2.393271 CCTGAACTTAGGTGCTCCAG 57.607 55.000 7.70 0.00 35.89 3.86
2212 2381 1.860641 TCTACATTCAAGGGCCGAGA 58.139 50.000 0.00 0.00 0.00 4.04
2237 2406 6.013379 AGGTCCAGTAACTCTTCATTTGATCA 60.013 38.462 0.00 0.00 0.00 2.92
2243 2412 6.213600 ACACATAGGTCCAGTAACTCTTCATT 59.786 38.462 0.00 0.00 0.00 2.57
2248 2417 6.895756 TGATTACACATAGGTCCAGTAACTCT 59.104 38.462 0.00 0.00 0.00 3.24
2260 2429 3.243771 GGAGTCCCGTGATTACACATAGG 60.244 52.174 0.00 0.00 46.20 2.57
2272 2441 2.606519 TCCCCAAGGAGTCCCGTG 60.607 66.667 5.25 4.41 40.92 4.94
2305 2475 2.108566 CGGCAGGGAGAGCTCATG 59.891 66.667 17.77 9.95 0.00 3.07
2306 2476 2.364842 ACGGCAGGGAGAGCTCAT 60.365 61.111 17.77 0.29 0.00 2.90
2319 2489 2.663826 GATCTAGATCCCATGACGGC 57.336 55.000 20.33 0.00 31.76 5.68
2332 2502 3.151906 CCCGGCCCTTGGATCTAG 58.848 66.667 0.00 0.00 0.00 2.43
2348 2518 0.107945 CAGGTGCTACAGAAGGAGCC 60.108 60.000 0.00 0.00 44.46 4.70
2352 2522 3.409026 AAGTTCAGGTGCTACAGAAGG 57.591 47.619 0.00 0.00 0.00 3.46
2383 2553 3.903467 AGGGGAAAATATCTTGTGCTCC 58.097 45.455 0.00 0.00 0.00 4.70
2389 2559 6.039829 GCTTGGTCTTAGGGGAAAATATCTTG 59.960 42.308 0.00 0.00 0.00 3.02
2391 2561 5.399152 GGCTTGGTCTTAGGGGAAAATATCT 60.399 44.000 0.00 0.00 0.00 1.98
2399 2569 0.118346 TCAGGCTTGGTCTTAGGGGA 59.882 55.000 0.00 0.00 0.00 4.81
2400 2570 0.991920 TTCAGGCTTGGTCTTAGGGG 59.008 55.000 0.00 0.00 0.00 4.79
2401 2571 4.713792 ATATTCAGGCTTGGTCTTAGGG 57.286 45.455 0.00 0.00 0.00 3.53
2402 2572 7.509546 TCTTTATATTCAGGCTTGGTCTTAGG 58.490 38.462 0.00 0.00 0.00 2.69
2403 2573 8.964476 TTCTTTATATTCAGGCTTGGTCTTAG 57.036 34.615 0.00 0.00 0.00 2.18
2404 2574 9.561069 GATTCTTTATATTCAGGCTTGGTCTTA 57.439 33.333 0.00 0.00 0.00 2.10
2405 2575 8.277918 AGATTCTTTATATTCAGGCTTGGTCTT 58.722 33.333 0.00 0.00 0.00 3.01
2406 2576 7.810260 AGATTCTTTATATTCAGGCTTGGTCT 58.190 34.615 0.00 0.00 0.00 3.85
2407 2577 8.348507 CAAGATTCTTTATATTCAGGCTTGGTC 58.651 37.037 0.00 0.00 0.00 4.02
2408 2578 8.055181 TCAAGATTCTTTATATTCAGGCTTGGT 58.945 33.333 0.00 0.00 32.27 3.67
2409 2579 8.455903 TCAAGATTCTTTATATTCAGGCTTGG 57.544 34.615 0.00 0.00 32.27 3.61
2412 2582 9.911788 TCTTTCAAGATTCTTTATATTCAGGCT 57.088 29.630 0.00 0.00 0.00 4.58
2419 2589 9.190317 GGGGTGTTCTTTCAAGATTCTTTATAT 57.810 33.333 0.00 0.00 34.49 0.86
2420 2590 8.390921 AGGGGTGTTCTTTCAAGATTCTTTATA 58.609 33.333 0.00 0.00 34.49 0.98
2421 2591 7.241628 AGGGGTGTTCTTTCAAGATTCTTTAT 58.758 34.615 0.00 0.00 34.49 1.40
2422 2592 6.610830 AGGGGTGTTCTTTCAAGATTCTTTA 58.389 36.000 0.00 0.00 34.49 1.85
2423 2593 5.458595 AGGGGTGTTCTTTCAAGATTCTTT 58.541 37.500 0.00 0.00 34.49 2.52
2424 2594 5.066913 AGGGGTGTTCTTTCAAGATTCTT 57.933 39.130 0.00 0.00 34.49 2.52
2425 2595 4.731313 AGGGGTGTTCTTTCAAGATTCT 57.269 40.909 0.00 0.00 34.49 2.40
2426 2596 6.894339 TTAAGGGGTGTTCTTTCAAGATTC 57.106 37.500 0.00 0.00 34.49 2.52
2427 2597 7.418597 GGTTTTAAGGGGTGTTCTTTCAAGATT 60.419 37.037 0.00 0.00 34.49 2.40
2428 2598 6.041637 GGTTTTAAGGGGTGTTCTTTCAAGAT 59.958 38.462 0.00 0.00 34.49 2.40
2429 2599 5.361571 GGTTTTAAGGGGTGTTCTTTCAAGA 59.638 40.000 0.00 0.00 0.00 3.02
2430 2600 5.128008 TGGTTTTAAGGGGTGTTCTTTCAAG 59.872 40.000 0.00 0.00 0.00 3.02
2431 2601 5.024118 TGGTTTTAAGGGGTGTTCTTTCAA 58.976 37.500 0.00 0.00 0.00 2.69
2432 2602 4.611367 TGGTTTTAAGGGGTGTTCTTTCA 58.389 39.130 0.00 0.00 0.00 2.69
2433 2603 4.038763 CCTGGTTTTAAGGGGTGTTCTTTC 59.961 45.833 0.00 0.00 0.00 2.62
2434 2604 3.964688 CCTGGTTTTAAGGGGTGTTCTTT 59.035 43.478 0.00 0.00 0.00 2.52
2435 2605 3.572642 CCTGGTTTTAAGGGGTGTTCTT 58.427 45.455 0.00 0.00 0.00 2.52
2436 2606 2.755208 GCCTGGTTTTAAGGGGTGTTCT 60.755 50.000 0.00 0.00 35.17 3.01
2437 2607 1.616865 GCCTGGTTTTAAGGGGTGTTC 59.383 52.381 0.00 0.00 35.17 3.18
2438 2608 1.219469 AGCCTGGTTTTAAGGGGTGTT 59.781 47.619 0.00 0.00 35.17 3.32
2439 2609 0.857675 AGCCTGGTTTTAAGGGGTGT 59.142 50.000 0.00 0.00 35.17 4.16
2440 2610 1.618343 CAAGCCTGGTTTTAAGGGGTG 59.382 52.381 0.00 0.00 35.17 4.61
2441 2611 1.501604 TCAAGCCTGGTTTTAAGGGGT 59.498 47.619 0.00 0.00 35.17 4.95
2446 2616 2.029470 CGCCAATCAAGCCTGGTTTTAA 60.029 45.455 0.00 0.00 34.97 1.52
2450 2620 2.639327 GCGCCAATCAAGCCTGGTT 61.639 57.895 0.00 0.00 34.97 3.67
2470 2640 4.561735 TGTAAGGACGCTTTTCTTTTGG 57.438 40.909 0.00 0.00 0.00 3.28
2481 2651 7.381678 ACTCGATCTTAAATAATGTAAGGACGC 59.618 37.037 0.00 0.00 32.85 5.19
2500 2670 0.872021 AGCGCGGAATTCACTCGATC 60.872 55.000 8.83 0.00 0.00 3.69
2517 2687 3.695816 GGCATCTTCCGAACATAAAAGC 58.304 45.455 0.00 0.00 0.00 3.51
2530 2700 4.465413 GCAACAAGCGGCATCTTC 57.535 55.556 1.45 0.00 0.00 2.87
2548 2718 0.673985 TCCTCCAAGACGTGTGTGAG 59.326 55.000 0.00 0.00 0.00 3.51
2551 2721 1.416401 ACATTCCTCCAAGACGTGTGT 59.584 47.619 0.00 0.00 0.00 3.72
2552 2722 2.069273 GACATTCCTCCAAGACGTGTG 58.931 52.381 0.00 0.00 0.00 3.82
2555 2725 1.254026 TCGACATTCCTCCAAGACGT 58.746 50.000 0.00 0.00 0.00 4.34
2589 2759 1.660167 TCTCATGCGGATTGCTGAAG 58.340 50.000 0.00 0.00 46.63 3.02
2590 2760 2.336945 ATCTCATGCGGATTGCTGAA 57.663 45.000 0.00 0.00 46.63 3.02
2603 2773 2.785269 TGGGGCCAATAGTCAATCTCAT 59.215 45.455 4.39 0.00 0.00 2.90
2605 2775 2.576615 GTGGGGCCAATAGTCAATCTC 58.423 52.381 4.39 0.00 0.00 2.75
2608 2778 0.261696 GGGTGGGGCCAATAGTCAAT 59.738 55.000 4.39 0.00 39.65 2.57
2615 2785 0.618393 CTTCATTGGGTGGGGCCAAT 60.618 55.000 4.39 0.00 39.65 3.16
2620 2790 1.005805 TGACATCTTCATTGGGTGGGG 59.994 52.381 0.00 0.00 0.00 4.96
2631 2801 7.093333 ACCCCCTTTTATGATTTTGACATCTTC 60.093 37.037 0.00 0.00 0.00 2.87
2632 2802 6.730507 ACCCCCTTTTATGATTTTGACATCTT 59.269 34.615 0.00 0.00 0.00 2.40
2634 2804 6.544928 ACCCCCTTTTATGATTTTGACATC 57.455 37.500 0.00 0.00 0.00 3.06
2635 2805 8.442660 TTTACCCCCTTTTATGATTTTGACAT 57.557 30.769 0.00 0.00 0.00 3.06
2636 2806 7.857404 TTTACCCCCTTTTATGATTTTGACA 57.143 32.000 0.00 0.00 0.00 3.58
2637 2807 9.733556 ATTTTTACCCCCTTTTATGATTTTGAC 57.266 29.630 0.00 0.00 0.00 3.18
2640 2810 9.527157 CCAATTTTTACCCCCTTTTATGATTTT 57.473 29.630 0.00 0.00 0.00 1.82
2641 2811 8.895624 TCCAATTTTTACCCCCTTTTATGATTT 58.104 29.630 0.00 0.00 0.00 2.17
2644 2814 7.292591 TGTTCCAATTTTTACCCCCTTTTATGA 59.707 33.333 0.00 0.00 0.00 2.15
2646 2816 7.634526 TGTTCCAATTTTTACCCCCTTTTAT 57.365 32.000 0.00 0.00 0.00 1.40
2648 2818 5.977821 TGTTCCAATTTTTACCCCCTTTT 57.022 34.783 0.00 0.00 0.00 2.27
2662 2835 8.472007 TCCTATTTACACAAGTTTGTTCCAAT 57.528 30.769 0.00 0.00 39.91 3.16


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

AutoCloner maintained by Alex Coulton.