Multiple sequence alignment - TraesCS1A01G224900

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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 TraesCS1A01G224900 chr1A 100.000 2690 0 0 1 2690 394853690 394851001 0.000000e+00 4968
1 TraesCS1A01G224900 chr1D 93.528 2565 112 15 1 2550 314575504 314572979 0.000000e+00 3768
2 TraesCS1A01G224900 chr1B 94.284 2152 102 13 413 2548 426073280 426071134 0.000000e+00 3273
3 TraesCS1A01G224900 chr1B 89.600 250 17 7 127 374 426073585 426073343 2.600000e-80 309
4 TraesCS1A01G224900 chr1B 91.034 145 13 0 2546 2690 334894668 334894524 2.110000e-46 196
5 TraesCS1A01G224900 chr7D 82.597 724 116 4 701 1414 556639524 556640247 4.890000e-177 630
6 TraesCS1A01G224900 chr7A 83.756 671 103 3 750 1414 642253438 642254108 4.890000e-177 630
7 TraesCS1A01G224900 chr7A 91.096 146 13 0 2545 2690 451519975 451519830 5.870000e-47 198
8 TraesCS1A01G224900 chr6B 82.456 456 53 6 1166 1621 22711663 22711235 9.090000e-100 374
9 TraesCS1A01G224900 chr6B 86.416 346 40 4 1719 2064 22711178 22710840 3.270000e-99 372
10 TraesCS1A01G224900 chr6B 91.608 143 12 0 2548 2690 172738371 172738513 5.870000e-47 198
11 TraesCS1A01G224900 chr6B 91.608 143 12 0 2548 2690 481857851 481857993 5.870000e-47 198
12 TraesCS1A01G224900 chr5A 91.391 151 13 0 2540 2690 320214236 320214386 9.760000e-50 207
13 TraesCS1A01G224900 chr5A 91.667 144 10 2 2548 2690 414775661 414775803 5.870000e-47 198
14 TraesCS1A01G224900 chr2D 91.667 144 11 1 2548 2690 476515147 476515290 5.870000e-47 198
15 TraesCS1A01G224900 chr4D 90.066 151 15 0 2540 2690 386984660 386984810 2.110000e-46 196
16 TraesCS1A01G224900 chr3D 91.034 145 13 0 2546 2690 87925998 87926142 2.110000e-46 196


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 TraesCS1A01G224900 chr1A 394851001 394853690 2689 True 4968 4968 100.000 1 2690 1 chr1A.!!$R1 2689
1 TraesCS1A01G224900 chr1D 314572979 314575504 2525 True 3768 3768 93.528 1 2550 1 chr1D.!!$R1 2549
2 TraesCS1A01G224900 chr1B 426071134 426073585 2451 True 1791 3273 91.942 127 2548 2 chr1B.!!$R2 2421
3 TraesCS1A01G224900 chr7D 556639524 556640247 723 False 630 630 82.597 701 1414 1 chr7D.!!$F1 713
4 TraesCS1A01G224900 chr7A 642253438 642254108 670 False 630 630 83.756 750 1414 1 chr7A.!!$F1 664
5 TraesCS1A01G224900 chr6B 22710840 22711663 823 True 373 374 84.436 1166 2064 2 chr6B.!!$R1 898

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
43 44 0.034896 AAAGCGACCCACGTGAGAAT 59.965 50.0 19.3 0.0 44.6 2.40 F
529 563 0.535335 AAGCATAGCCCGAAACGAGA 59.465 50.0 0.0 0.0 0.0 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 1510 0.911769 ATGGTGAAGCTGAATCGGGA 59.088 50.0 0.00 0.0 0.00 5.14 R
2366 2446 0.686789 TGTCAGTACTGTGCCAGCAT 59.313 50.0 21.99 0.0 34.37 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
40 41 2.372690 CGAAAGCGACCCACGTGAG 61.373 63.158 19.30 6.24 44.60 3.51
43 44 0.034896 AAAGCGACCCACGTGAGAAT 59.965 50.000 19.30 0.00 44.60 2.40
49 50 2.500229 GACCCACGTGAGAATTTTCCA 58.500 47.619 19.30 0.00 0.00 3.53
59 60 6.595716 ACGTGAGAATTTTCCAAGGATTCTAG 59.404 38.462 3.99 2.87 39.52 2.43
76 77 6.371825 GGATTCTAGTCCTGTAAACCAAACAG 59.628 42.308 0.00 0.00 43.26 3.16
118 119 7.709149 AAGAATTGGATCAAAAGGGTTCTAG 57.291 36.000 0.00 0.00 0.00 2.43
122 123 5.422214 TGGATCAAAAGGGTTCTAGAGAC 57.578 43.478 0.00 0.00 0.00 3.36
125 126 4.252971 TCAAAAGGGTTCTAGAGACACG 57.747 45.455 0.00 0.00 0.00 4.49
140 141 0.738389 ACACGCCCAAGTTCAAACAG 59.262 50.000 0.00 0.00 0.00 3.16
184 185 1.812922 GTGCAGATGCTCGACCTGG 60.813 63.158 6.35 0.00 42.66 4.45
198 200 5.488645 TCGACCTGGTAAAAACACTTTTC 57.511 39.130 0.00 0.00 36.20 2.29
263 265 5.652014 TCAAAAGAACCTGAAGTGTGTCAAT 59.348 36.000 0.00 0.00 0.00 2.57
324 327 3.057586 TGGTAAAACCTCCCCAAGAGAA 58.942 45.455 0.00 0.00 46.50 2.87
448 480 4.783242 ACGAACATGCATAAAACAGTGAC 58.217 39.130 0.00 0.00 0.00 3.67
449 481 4.515191 ACGAACATGCATAAAACAGTGACT 59.485 37.500 0.00 0.00 0.00 3.41
456 488 4.036262 TGCATAAAACAGTGACTTGGTGAC 59.964 41.667 0.00 0.00 0.00 3.67
457 489 4.036262 GCATAAAACAGTGACTTGGTGACA 59.964 41.667 0.00 0.00 39.83 3.58
463 495 1.338337 AGTGACTTGGTGACAGACTCG 59.662 52.381 0.00 0.00 44.54 4.18
475 507 4.627467 GTGACAGACTCGCTCAAATACATT 59.373 41.667 0.00 0.00 0.00 2.71
476 508 5.805486 GTGACAGACTCGCTCAAATACATTA 59.195 40.000 0.00 0.00 0.00 1.90
477 509 5.805486 TGACAGACTCGCTCAAATACATTAC 59.195 40.000 0.00 0.00 0.00 1.89
520 554 2.918712 TAGCAGAAGAAGCATAGCCC 57.081 50.000 0.00 0.00 0.00 5.19
529 563 0.535335 AAGCATAGCCCGAAACGAGA 59.465 50.000 0.00 0.00 0.00 4.04
603 637 2.738521 CACCGTTCCAGACCAGCG 60.739 66.667 0.00 0.00 0.00 5.18
653 687 7.981142 ACATGGGTACGATATGTTTTAACTTG 58.019 34.615 0.00 0.00 31.38 3.16
655 689 7.599630 TGGGTACGATATGTTTTAACTTGAC 57.400 36.000 0.00 0.00 0.00 3.18
662 698 4.985044 ATGTTTTAACTTGACGACTCCG 57.015 40.909 0.00 0.00 42.50 4.63
746 783 1.650363 GTGGGTTTCAAACGTCGGG 59.350 57.895 0.00 0.00 0.00 5.14
766 803 2.770048 CCTTCGGGGAGCCCTCAT 60.770 66.667 5.38 0.00 42.67 2.90
942 982 3.244700 CCTTCTTGTCCATGTCCTTCAGT 60.245 47.826 0.00 0.00 0.00 3.41
954 994 3.324556 TGTCCTTCAGTGTCATGTCATCA 59.675 43.478 0.00 0.00 0.00 3.07
1467 1510 3.434739 GCTCAGATGATCCATCCTTGGTT 60.435 47.826 3.55 0.00 44.06 3.67
1470 1513 2.444766 AGATGATCCATCCTTGGTTCCC 59.555 50.000 3.55 0.00 44.06 3.97
1483 1526 1.087501 GGTTCCCGATTCAGCTTCAC 58.912 55.000 0.00 0.00 0.00 3.18
1525 1568 6.173339 TCCTTGCTAACTTTATCTTCACCTG 58.827 40.000 0.00 0.00 0.00 4.00
1663 1706 5.046591 CCAGTTCCATCCACTGTAACTTCTA 60.047 44.000 0.00 0.00 40.19 2.10
1664 1707 6.352222 CCAGTTCCATCCACTGTAACTTCTAT 60.352 42.308 0.00 0.00 40.19 1.98
1706 1749 3.391296 AGTTGAGAGGGTGCTTCAGTTAA 59.609 43.478 0.00 0.00 0.00 2.01
1756 1827 1.003646 AGGTGGAGGCTCTGAGACTA 58.996 55.000 14.21 0.00 30.20 2.59
1823 1894 4.217118 TGCAGAGAAAGGATTTGAAGAAGC 59.783 41.667 0.00 0.00 39.27 3.86
1905 1976 7.390718 TCTTCACTAGCTTTCTTAAATGTTCCC 59.609 37.037 0.00 0.00 0.00 3.97
1938 2009 2.816204 ATGAGTCATCATCAGGCTCG 57.184 50.000 0.00 0.00 42.76 5.03
1950 2021 1.048724 CAGGCTCGGGGTGATCCTTA 61.049 60.000 0.00 0.00 40.34 2.69
2034 2105 8.644374 TCCTTACAAGTTTTGGCTACATTAAT 57.356 30.769 0.00 0.00 34.12 1.40
2108 2182 5.121811 AGTAACCATGCAACATCAGAGATC 58.878 41.667 0.00 0.00 0.00 2.75
2126 2200 6.373774 CAGAGATCAGCACAGTTTTAAAGGAT 59.626 38.462 0.00 0.00 0.00 3.24
2160 2234 6.015180 TGCAGATTCCTTCTTTTTGTATTGCT 60.015 34.615 0.00 0.00 29.93 3.91
2213 2287 8.689251 AGCAAACTAAAAAGTTGAAAGAGAAC 57.311 30.769 0.00 0.00 31.64 3.01
2214 2288 8.523658 AGCAAACTAAAAAGTTGAAAGAGAACT 58.476 29.630 0.00 0.00 35.08 3.01
2243 2322 1.719529 TACTTTCCCGACTTCACCCA 58.280 50.000 0.00 0.00 0.00 4.51
2297 2376 4.211125 TGTGAAGGAAAACTATGTTGCCA 58.789 39.130 0.00 0.00 0.00 4.92
2305 2384 7.906327 AGGAAAACTATGTTGCCAATAACAAT 58.094 30.769 0.00 0.00 43.13 2.71
2333 2412 2.685106 TGGTAATTTCTGGGTTGGCA 57.315 45.000 0.00 0.00 0.00 4.92
2336 2415 8.104265 AAATGGTAATTTCTGGGTTGGCACAA 62.104 38.462 0.00 0.00 35.54 3.33
2356 2436 4.714308 ACAAGTGGGGAACAAATCTTTTCA 59.286 37.500 0.00 0.00 0.00 2.69
2365 2445 5.399301 GGAACAAATCTTTTCATGTGACACG 59.601 40.000 0.22 0.00 0.00 4.49
2366 2446 5.749596 ACAAATCTTTTCATGTGACACGA 57.250 34.783 0.22 0.00 0.00 4.35
2369 2449 3.811722 TCTTTTCATGTGACACGATGC 57.188 42.857 0.22 0.00 0.00 3.91
2420 2500 5.811190 TGGTATCATCTCCTAGAGAGCTAC 58.189 45.833 0.32 2.56 42.26 3.58
2429 2509 2.697751 CCTAGAGAGCTACAAGCCATGT 59.302 50.000 0.00 0.00 43.77 3.21
2432 2512 2.304180 AGAGAGCTACAAGCCATGTGTT 59.696 45.455 3.13 0.00 43.77 3.32
2441 2521 2.684881 CAAGCCATGTGTTCCCAGTATC 59.315 50.000 0.00 0.00 0.00 2.24
2520 2601 5.413309 AAGACATAGCCATATAGGTGCTC 57.587 43.478 4.06 0.00 40.61 4.26
2524 2605 5.555017 ACATAGCCATATAGGTGCTCTTTG 58.445 41.667 4.06 4.64 40.61 2.77
2546 2627 7.403312 TTGGCAGCTAAAGCAGAATAATTTA 57.597 32.000 4.54 0.00 45.16 1.40
2574 2655 8.855804 TTCCCTCTGTTCCTAAATATAAGTCT 57.144 34.615 0.00 0.00 0.00 3.24
2575 2656 8.855804 TCCCTCTGTTCCTAAATATAAGTCTT 57.144 34.615 0.00 0.00 0.00 3.01
2576 2657 9.280456 TCCCTCTGTTCCTAAATATAAGTCTTT 57.720 33.333 0.00 0.00 0.00 2.52
2577 2658 9.907229 CCCTCTGTTCCTAAATATAAGTCTTTT 57.093 33.333 0.00 0.00 0.00 2.27
2608 2689 5.189659 ACAATAGAGACTACATTCGGAGC 57.810 43.478 0.00 0.00 0.00 4.70
2609 2690 4.645136 ACAATAGAGACTACATTCGGAGCA 59.355 41.667 0.00 0.00 0.00 4.26
2610 2691 5.127194 ACAATAGAGACTACATTCGGAGCAA 59.873 40.000 0.00 0.00 0.00 3.91
2611 2692 5.854010 ATAGAGACTACATTCGGAGCAAA 57.146 39.130 0.00 0.00 0.00 3.68
2612 2693 4.537135 AGAGACTACATTCGGAGCAAAA 57.463 40.909 0.00 0.00 0.00 2.44
2613 2694 5.091261 AGAGACTACATTCGGAGCAAAAT 57.909 39.130 0.00 0.00 0.00 1.82
2614 2695 4.872691 AGAGACTACATTCGGAGCAAAATG 59.127 41.667 0.00 0.00 38.54 2.32
2615 2696 4.832248 AGACTACATTCGGAGCAAAATGA 58.168 39.130 2.36 0.00 36.57 2.57
2616 2697 4.872691 AGACTACATTCGGAGCAAAATGAG 59.127 41.667 2.36 0.00 36.57 2.90
2617 2698 4.579869 ACTACATTCGGAGCAAAATGAGT 58.420 39.130 2.36 0.09 36.57 3.41
2618 2699 3.837213 ACATTCGGAGCAAAATGAGTG 57.163 42.857 2.36 0.00 36.57 3.51
2619 2700 3.411446 ACATTCGGAGCAAAATGAGTGA 58.589 40.909 2.36 0.00 36.57 3.41
2620 2701 3.820467 ACATTCGGAGCAAAATGAGTGAA 59.180 39.130 2.36 0.00 36.57 3.18
2621 2702 4.460382 ACATTCGGAGCAAAATGAGTGAAT 59.540 37.500 2.36 0.00 36.57 2.57
2622 2703 4.685169 TTCGGAGCAAAATGAGTGAATC 57.315 40.909 0.00 0.00 0.00 2.52
2623 2704 3.942829 TCGGAGCAAAATGAGTGAATCT 58.057 40.909 0.00 0.00 0.00 2.40
2624 2705 5.084818 TCGGAGCAAAATGAGTGAATCTA 57.915 39.130 0.00 0.00 0.00 1.98
2625 2706 5.674525 TCGGAGCAAAATGAGTGAATCTAT 58.325 37.500 0.00 0.00 0.00 1.98
2626 2707 6.816136 TCGGAGCAAAATGAGTGAATCTATA 58.184 36.000 0.00 0.00 0.00 1.31
2627 2708 6.701841 TCGGAGCAAAATGAGTGAATCTATAC 59.298 38.462 0.00 0.00 0.00 1.47
2628 2709 6.703607 CGGAGCAAAATGAGTGAATCTATACT 59.296 38.462 0.00 0.00 0.00 2.12
2629 2710 7.095857 CGGAGCAAAATGAGTGAATCTATACTC 60.096 40.741 0.00 0.00 42.77 2.59
2630 2711 7.930865 GGAGCAAAATGAGTGAATCTATACTCT 59.069 37.037 0.00 0.00 42.86 3.24
2631 2712 9.973450 GAGCAAAATGAGTGAATCTATACTCTA 57.027 33.333 0.00 0.00 42.86 2.43
2684 2765 9.620259 AGTCCATATTGAAATCTCTAAAAGGAC 57.380 33.333 0.00 0.00 39.53 3.85
2685 2766 9.620259 GTCCATATTGAAATCTCTAAAAGGACT 57.380 33.333 0.00 0.00 37.06 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 0.242825 TGGGTCGCTTTCGTACTCAG 59.757 55.000 0.00 0.00 36.96 3.35
90 91 8.933653 AGAACCCTTTTGATCCAATTCTTTTTA 58.066 29.630 0.00 0.00 0.00 1.52
118 119 1.002792 GTTTGAACTTGGGCGTGTCTC 60.003 52.381 0.00 0.00 0.00 3.36
122 123 0.030638 CCTGTTTGAACTTGGGCGTG 59.969 55.000 0.00 0.00 0.00 5.34
125 126 0.315251 GAGCCTGTTTGAACTTGGGC 59.685 55.000 13.74 13.74 38.75 5.36
215 217 6.168164 ACTTGCAACATGAGTTTTTGTTTG 57.832 33.333 0.00 0.00 35.28 2.93
223 225 5.964758 TCTTTTGAACTTGCAACATGAGTT 58.035 33.333 0.00 0.00 38.88 3.01
263 265 4.331108 TGCCATCATGCACTAGTTTTACA 58.669 39.130 0.00 0.00 36.04 2.41
324 327 5.711506 TGGCTTGTCTGTATTGTGAATTCAT 59.288 36.000 12.12 0.00 0.00 2.57
448 480 0.315251 TGAGCGAGTCTGTCACCAAG 59.685 55.000 0.00 0.00 0.00 3.61
449 481 0.750249 TTGAGCGAGTCTGTCACCAA 59.250 50.000 0.00 0.00 0.00 3.67
456 488 7.166638 CAGTAGTAATGTATTTGAGCGAGTCTG 59.833 40.741 0.00 0.00 0.00 3.51
457 489 7.067129 TCAGTAGTAATGTATTTGAGCGAGTCT 59.933 37.037 0.00 0.00 0.00 3.24
489 521 4.590850 TCTTCTGCTATGCGATGTGTAT 57.409 40.909 0.00 0.00 0.00 2.29
494 526 2.207590 TGCTTCTTCTGCTATGCGATG 58.792 47.619 0.00 0.00 0.00 3.84
529 563 4.105697 TCTTGGTAAACTGGAGAAATGGGT 59.894 41.667 0.00 0.00 0.00 4.51
603 637 1.228657 GGTTTCTGGCGTGTCCTGTC 61.229 60.000 0.00 0.00 35.49 3.51
653 687 1.874345 TTGCTCTTCCCGGAGTCGTC 61.874 60.000 0.73 0.00 35.89 4.20
655 689 1.153745 CTTGCTCTTCCCGGAGTCG 60.154 63.158 0.73 0.00 35.89 4.18
662 698 2.041115 GGCGTTCCTTGCTCTTCCC 61.041 63.158 0.00 0.00 0.00 3.97
766 803 1.300620 CGGACACGCCAAAGACTCA 60.301 57.895 0.00 0.00 35.94 3.41
942 982 4.096833 GCAAGCCTTTATGATGACATGACA 59.903 41.667 0.00 0.00 37.87 3.58
954 994 5.451520 GCTCATTCTGAATGCAAGCCTTTAT 60.452 40.000 23.37 0.00 38.77 1.40
1467 1510 0.911769 ATGGTGAAGCTGAATCGGGA 59.088 50.000 0.00 0.00 0.00 5.14
1470 1513 5.051891 AGAAAAATGGTGAAGCTGAATCG 57.948 39.130 0.00 0.00 0.00 3.34
1483 1526 5.983720 GCAAGGATGATGATGAGAAAAATGG 59.016 40.000 0.00 0.00 0.00 3.16
1635 1678 2.795231 CAGTGGATGGAACTGGTGAT 57.205 50.000 0.00 0.00 41.13 3.06
1663 1706 3.708403 TGTTGAGTCAGATGGCAAGAT 57.292 42.857 0.00 0.00 0.00 2.40
1664 1707 3.181451 ACTTGTTGAGTCAGATGGCAAGA 60.181 43.478 20.06 0.00 36.38 3.02
1905 1976 2.095212 TGACTCATCGGAACAAGAGACG 60.095 50.000 0.00 0.00 32.59 4.18
1938 2009 6.070824 ACAAACAAATCAATAAGGATCACCCC 60.071 38.462 0.00 0.00 36.73 4.95
1950 2021 4.101430 AGGGTTGCAGACAAACAAATCAAT 59.899 37.500 0.00 0.00 45.87 2.57
2108 2182 7.951530 ATCAAAATCCTTTAAAACTGTGCTG 57.048 32.000 0.00 0.00 0.00 4.41
2160 2234 4.263594 GGTTTATTCTGTAGGTGGGTTGGA 60.264 45.833 0.00 0.00 0.00 3.53
2209 2283 7.333672 GTCGGGAAAGTATTCATGTTTAGTTCT 59.666 37.037 0.00 0.00 37.29 3.01
2210 2284 7.333672 AGTCGGGAAAGTATTCATGTTTAGTTC 59.666 37.037 0.00 0.00 37.29 3.01
2213 2287 7.333423 TGAAGTCGGGAAAGTATTCATGTTTAG 59.667 37.037 0.00 0.00 37.29 1.85
2214 2288 7.118680 GTGAAGTCGGGAAAGTATTCATGTTTA 59.881 37.037 0.00 0.00 37.29 2.01
2243 2322 8.585881 TGTTTAGTCTTTAGTTACAGAGATGCT 58.414 33.333 0.00 0.00 0.00 3.79
2305 2384 7.093552 CCAACCCAGAAATTACCATTTGACATA 60.094 37.037 0.00 0.00 32.35 2.29
2333 2412 4.714308 TGAAAAGATTTGTTCCCCACTTGT 59.286 37.500 0.00 0.00 0.00 3.16
2336 2415 4.901250 ACATGAAAAGATTTGTTCCCCACT 59.099 37.500 0.00 0.00 0.00 4.00
2342 2422 6.198687 TCGTGTCACATGAAAAGATTTGTTC 58.801 36.000 0.00 0.00 0.00 3.18
2356 2436 1.003476 TGCCAGCATCGTGTCACAT 60.003 52.632 3.42 0.00 0.00 3.21
2365 2445 1.338105 TGTCAGTACTGTGCCAGCATC 60.338 52.381 21.99 4.43 34.37 3.91
2366 2446 0.686789 TGTCAGTACTGTGCCAGCAT 59.313 50.000 21.99 0.00 34.37 3.79
2369 2449 2.233676 TGGTATGTCAGTACTGTGCCAG 59.766 50.000 21.99 0.00 37.52 4.85
2420 2500 2.198827 TACTGGGAACACATGGCTTG 57.801 50.000 0.00 0.00 35.60 4.01
2429 2509 3.506398 TGACTGACAGATACTGGGAACA 58.494 45.455 10.08 0.00 35.51 3.18
2502 2583 4.940046 CCAAAGAGCACCTATATGGCTATG 59.060 45.833 0.00 0.00 38.15 2.23
2520 2601 3.863142 ATTCTGCTTTAGCTGCCAAAG 57.137 42.857 14.88 14.88 42.66 2.77
2550 2631 8.855804 AAGACTTATATTTAGGAACAGAGGGA 57.144 34.615 0.00 0.00 0.00 4.20
2551 2632 9.907229 AAAAGACTTATATTTAGGAACAGAGGG 57.093 33.333 0.00 0.00 0.00 4.30
2582 2663 8.512956 GCTCCGAATGTAGTCTCTATTGTAATA 58.487 37.037 0.00 0.00 0.00 0.98
2583 2664 7.014326 TGCTCCGAATGTAGTCTCTATTGTAAT 59.986 37.037 0.00 0.00 0.00 1.89
2584 2665 6.320418 TGCTCCGAATGTAGTCTCTATTGTAA 59.680 38.462 0.00 0.00 0.00 2.41
2585 2666 5.826208 TGCTCCGAATGTAGTCTCTATTGTA 59.174 40.000 0.00 0.00 0.00 2.41
2586 2667 4.645136 TGCTCCGAATGTAGTCTCTATTGT 59.355 41.667 0.00 0.00 0.00 2.71
2587 2668 5.188327 TGCTCCGAATGTAGTCTCTATTG 57.812 43.478 0.00 0.00 0.00 1.90
2588 2669 5.854010 TTGCTCCGAATGTAGTCTCTATT 57.146 39.130 0.00 0.00 0.00 1.73
2589 2670 5.854010 TTTGCTCCGAATGTAGTCTCTAT 57.146 39.130 0.00 0.00 0.00 1.98
2590 2671 5.654603 TTTTGCTCCGAATGTAGTCTCTA 57.345 39.130 0.00 0.00 0.00 2.43
2591 2672 4.537135 TTTTGCTCCGAATGTAGTCTCT 57.463 40.909 0.00 0.00 0.00 3.10
2592 2673 4.870426 TCATTTTGCTCCGAATGTAGTCTC 59.130 41.667 0.00 0.00 35.35 3.36
2593 2674 4.832248 TCATTTTGCTCCGAATGTAGTCT 58.168 39.130 0.00 0.00 35.35 3.24
2594 2675 4.631813 ACTCATTTTGCTCCGAATGTAGTC 59.368 41.667 0.00 0.00 35.35 2.59
2595 2676 4.393062 CACTCATTTTGCTCCGAATGTAGT 59.607 41.667 0.00 0.00 35.35 2.73
2596 2677 4.631377 TCACTCATTTTGCTCCGAATGTAG 59.369 41.667 0.00 0.00 35.35 2.74
2597 2678 4.574892 TCACTCATTTTGCTCCGAATGTA 58.425 39.130 0.00 0.00 35.35 2.29
2598 2679 3.411446 TCACTCATTTTGCTCCGAATGT 58.589 40.909 0.00 0.00 35.35 2.71
2599 2680 4.424061 TTCACTCATTTTGCTCCGAATG 57.576 40.909 0.00 0.00 35.18 2.67
2600 2681 4.946157 AGATTCACTCATTTTGCTCCGAAT 59.054 37.500 0.00 0.00 0.00 3.34
2601 2682 4.326826 AGATTCACTCATTTTGCTCCGAA 58.673 39.130 0.00 0.00 0.00 4.30
2602 2683 3.942829 AGATTCACTCATTTTGCTCCGA 58.057 40.909 0.00 0.00 0.00 4.55
2603 2684 5.998454 ATAGATTCACTCATTTTGCTCCG 57.002 39.130 0.00 0.00 0.00 4.63
2604 2685 7.930865 AGAGTATAGATTCACTCATTTTGCTCC 59.069 37.037 4.70 0.00 42.99 4.70
2605 2686 8.885494 AGAGTATAGATTCACTCATTTTGCTC 57.115 34.615 4.70 0.00 42.99 4.26
2658 2739 9.620259 GTCCTTTTAGAGATTTCAATATGGACT 57.380 33.333 0.00 0.00 35.99 3.85
2659 2740 9.620259 AGTCCTTTTAGAGATTTCAATATGGAC 57.380 33.333 0.00 0.00 38.27 4.02


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

AutoCloner maintained by Alex Coulton.