Multiple sequence alignment - TraesCS1A01G219400

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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 TraesCS1A01G219400 chr1A 100.000 4751 0 0 1 4751 388155906 388160656 0.000000e+00 8774.0
1 TraesCS1A01G219400 chr1D 94.710 4783 178 32 9 4751 308581440 308586187 0.000000e+00 7361.0
2 TraesCS1A01G219400 chr1D 76.938 529 108 11 14 534 130294827 130295349 6.020000e-74 289.0
3 TraesCS1A01G219400 chr1D 80.952 273 48 3 10 282 103411779 103411511 3.720000e-51 213.0
4 TraesCS1A01G219400 chr1D 81.915 94 11 6 361 450 222033111 222033020 1.830000e-09 75.0
5 TraesCS1A01G219400 chr1B 93.546 3099 152 23 9 3080 418668408 418671485 0.000000e+00 4571.0
6 TraesCS1A01G219400 chr1B 95.816 1649 56 8 3111 4751 418671481 418673124 0.000000e+00 2651.0
7 TraesCS1A01G219400 chr1B 80.407 393 72 5 9 398 327931290 327931680 1.290000e-75 294.0
8 TraesCS1A01G219400 chr1B 79.554 269 54 1 14 282 217169608 217169875 1.750000e-44 191.0
9 TraesCS1A01G219400 chr2D 77.455 550 107 15 9 547 10753509 10754052 3.570000e-81 313.0
10 TraesCS1A01G219400 chr7D 73.368 383 88 10 53 424 439478985 439478606 3.860000e-26 130.0
11 TraesCS1A01G219400 chr3D 95.082 61 3 0 997 1057 64642481 64642541 3.910000e-16 97.1
12 TraesCS1A01G219400 chr3B 95.082 61 3 0 997 1057 107663521 107663581 3.910000e-16 97.1
13 TraesCS1A01G219400 chr3A 93.443 61 4 0 997 1057 75406290 75406350 1.820000e-14 91.6
14 TraesCS1A01G219400 chr2B 81.373 102 11 7 1738 1835 581997640 581997543 5.100000e-10 76.8
15 TraesCS1A01G219400 chr2B 89.655 58 3 3 1779 1835 191749495 191749440 2.370000e-08 71.3
16 TraesCS1A01G219400 chr6D 83.333 78 8 4 1761 1835 437590104 437590029 3.070000e-07 67.6


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 TraesCS1A01G219400 chr1A 388155906 388160656 4750 False 8774 8774 100.000 1 4751 1 chr1A.!!$F1 4750
1 TraesCS1A01G219400 chr1D 308581440 308586187 4747 False 7361 7361 94.710 9 4751 1 chr1D.!!$F2 4742
2 TraesCS1A01G219400 chr1D 130294827 130295349 522 False 289 289 76.938 14 534 1 chr1D.!!$F1 520
3 TraesCS1A01G219400 chr1B 418668408 418673124 4716 False 3611 4571 94.681 9 4751 2 chr1B.!!$F3 4742
4 TraesCS1A01G219400 chr2D 10753509 10754052 543 False 313 313 77.455 9 547 1 chr2D.!!$F1 538

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
199 200 0.041238 TCCTCCATCACCTCCGTCTT 59.959 55.000 0.00 0.0 0.0 3.01 F
1353 1394 0.110238 CCGACGCAAAACCTCACATG 60.110 55.000 0.00 0.0 0.0 3.21 F
1433 1475 0.403655 TGTGCTGCCCTGTCCAATTA 59.596 50.000 0.00 0.0 0.0 1.40 F
2533 2577 1.464608 ACTGACGCGGTGATGAATTTG 59.535 47.619 12.47 0.0 0.0 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2007 2049 0.731417 CAGAATGTAGCTGTGCAGGC 59.269 55.0 0.00 3.65 0.00 4.85 R
3191 3235 0.318120 TGCGAGATGAGAAGTGCACA 59.682 50.0 21.04 0.00 0.00 4.57 R
3192 3236 1.649664 ATGCGAGATGAGAAGTGCAC 58.350 50.0 9.40 9.40 34.86 4.57 R
4532 4583 0.758123 CTCTCAGAGGGGCTGGATTC 59.242 60.0 0.00 0.00 44.98 2.52 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
108 109 6.126409 TGCTTCTTGAGTTTTTCCTCCTTTA 58.874 36.000 0.00 0.00 0.00 1.85
110 111 6.263392 GCTTCTTGAGTTTTTCCTCCTTTACT 59.737 38.462 0.00 0.00 0.00 2.24
127 128 0.395586 ACTGCCTTGGCTTTGACACA 60.396 50.000 13.18 0.00 0.00 3.72
130 131 0.746659 GCCTTGGCTTTGACACAACT 59.253 50.000 4.11 0.00 0.00 3.16
131 132 1.136891 GCCTTGGCTTTGACACAACTT 59.863 47.619 4.11 0.00 0.00 2.66
160 161 0.173708 GTCGCCGAGTTGATCTTCCT 59.826 55.000 0.00 0.00 0.00 3.36
162 163 0.108615 CGCCGAGTTGATCTTCCTGT 60.109 55.000 0.00 0.00 0.00 4.00
187 188 0.683973 GTGATGCTCGGATCCTCCAT 59.316 55.000 10.75 9.11 35.91 3.41
199 200 0.041238 TCCTCCATCACCTCCGTCTT 59.959 55.000 0.00 0.00 0.00 3.01
257 258 1.081277 GGGGAGAAGAGAGTGGGGT 59.919 63.158 0.00 0.00 0.00 4.95
274 276 2.619590 GGGGTAAAGGGCGAGAATTTGA 60.620 50.000 0.00 0.00 0.00 2.69
284 286 3.525537 GCGAGAATTTGATGGAGAGTGA 58.474 45.455 0.00 0.00 0.00 3.41
286 288 4.498241 CGAGAATTTGATGGAGAGTGACA 58.502 43.478 0.00 0.00 0.00 3.58
291 293 4.687901 TTTGATGGAGAGTGACAAGACA 57.312 40.909 0.00 0.00 0.00 3.41
312 316 4.823989 ACAAAAGAAGTGAGTGAGGGATTG 59.176 41.667 0.00 0.00 0.00 2.67
317 321 2.902608 AGTGAGTGAGGGATTGTACCA 58.097 47.619 0.00 0.00 0.00 3.25
318 322 3.454858 AGTGAGTGAGGGATTGTACCAT 58.545 45.455 0.00 0.00 0.00 3.55
339 343 3.743521 TGAAAACAGTGCAGACAGCTAT 58.256 40.909 0.00 0.00 45.94 2.97
403 414 0.528684 GAGTCCTACGTGGCTCATGC 60.529 60.000 0.00 0.00 38.22 4.06
404 415 0.972983 AGTCCTACGTGGCTCATGCT 60.973 55.000 0.00 0.00 39.59 3.79
547 565 0.819582 GGATACCGTTTGAGGGTCGA 59.180 55.000 0.00 0.00 37.56 4.20
553 575 0.818296 CGTTTGAGGGTCGAGGAGAT 59.182 55.000 0.00 0.00 0.00 2.75
556 578 1.330655 TTGAGGGTCGAGGAGATGCC 61.331 60.000 0.00 0.00 0.00 4.40
557 579 2.444895 AGGGTCGAGGAGATGCCC 60.445 66.667 0.00 0.00 35.86 5.36
559 581 2.801631 GGGTCGAGGAGATGCCCTG 61.802 68.421 0.00 0.00 36.49 4.45
564 586 1.148048 GAGGAGATGCCCTGAAGCC 59.852 63.158 0.00 0.00 36.49 4.35
577 599 2.557452 CCTGAAGCCCCTGGTTGTAAAT 60.557 50.000 0.00 0.00 30.94 1.40
936 973 3.086600 CCAGCCCACCTCTCCTCC 61.087 72.222 0.00 0.00 0.00 4.30
1083 1124 1.492764 GGGTCAAGATCTTCGGGGTA 58.507 55.000 4.57 0.00 0.00 3.69
1092 1133 2.283388 TTCGGGGTACGCCTCACT 60.283 61.111 24.89 0.00 43.86 3.41
1351 1392 2.539338 GCCGACGCAAAACCTCACA 61.539 57.895 0.00 0.00 34.03 3.58
1353 1394 0.110238 CCGACGCAAAACCTCACATG 60.110 55.000 0.00 0.00 0.00 3.21
1433 1475 0.403655 TGTGCTGCCCTGTCCAATTA 59.596 50.000 0.00 0.00 0.00 1.40
1441 1483 3.132646 TGCCCTGTCCAATTATTGATTGC 59.867 43.478 6.50 1.57 43.11 3.56
1444 1486 4.498009 CCCTGTCCAATTATTGATTGCGAC 60.498 45.833 6.50 5.56 43.11 5.19
1549 1591 2.373502 GAGCTAATAATCAGCCCCCAGT 59.626 50.000 0.00 0.00 39.99 4.00
1570 1612 4.821805 AGTATTAAATCGGTGCAAGGATGG 59.178 41.667 1.83 0.00 0.00 3.51
1589 1631 4.901197 TGGTGTATACACTGTGGATGTT 57.099 40.909 29.89 0.00 45.73 2.71
1950 1992 3.832615 ACGTAAAGTCTCACCTTTGGT 57.167 42.857 0.00 0.00 36.18 3.67
2094 2137 5.981088 ATTTGATGTACACATGCCAAAGA 57.019 34.783 0.00 0.00 35.19 2.52
2359 2402 5.565509 TGCCTGTTTGTTGTTATCTATCCA 58.434 37.500 0.00 0.00 0.00 3.41
2448 2491 7.039714 AGGGATAGGAAAAACTTGACATTTGTC 60.040 37.037 3.72 3.72 44.97 3.18
2533 2577 1.464608 ACTGACGCGGTGATGAATTTG 59.535 47.619 12.47 0.00 0.00 2.32
2552 2596 2.985896 TGCCAGTTATGTTCACTAGCC 58.014 47.619 0.00 0.00 28.71 3.93
2572 2616 4.287067 AGCCTCTTCTAGTTTCATGTTCCA 59.713 41.667 0.00 0.00 0.00 3.53
2682 2726 3.629398 ACTGTTTCTTCTTGTGCTTCTGG 59.371 43.478 0.00 0.00 0.00 3.86
3031 3075 8.492415 AGGTAGGTTGCTACATCTTATGATTA 57.508 34.615 0.00 0.00 0.00 1.75
3069 3113 4.095483 GTGGCATAACTTGACCTGATTCTG 59.905 45.833 0.00 0.00 29.16 3.02
3191 3235 2.878406 GTGTAGTGTTGCATGGACAGTT 59.122 45.455 2.81 0.00 33.08 3.16
3192 3236 2.877786 TGTAGTGTTGCATGGACAGTTG 59.122 45.455 2.81 0.00 33.08 3.16
3230 3274 9.424319 TCTCGCATTTCATTAGGAAGATATTAC 57.576 33.333 0.00 0.00 36.72 1.89
3914 3958 4.158394 GGATGCATCTGTTGTTTGTATGGT 59.842 41.667 25.28 0.00 0.00 3.55
4127 4174 0.533951 CTGGAAATTTGGAGCTGGCC 59.466 55.000 0.00 0.00 0.00 5.36
4144 4195 1.677217 GGCCATCCAGTCACTCAAGAC 60.677 57.143 0.00 0.00 38.81 3.01
4186 4237 8.362639 AGCCATGCTAAATATTTTACCAATGAG 58.637 33.333 5.91 0.00 36.99 2.90
4371 4422 3.129287 CCTCCATTATGCACCAAGTGTTC 59.871 47.826 0.00 0.00 35.75 3.18
4452 4503 3.055891 ACATATTTCCAAAGCTGTTGGGC 60.056 43.478 20.54 0.00 39.96 5.36
4462 4513 2.124529 TGTTGGGCTGTGCACGAA 60.125 55.556 13.13 0.00 32.76 3.85
4532 4583 8.350722 AGCAAAAGTCATAATGCATAATCAGAG 58.649 33.333 0.00 0.00 41.18 3.35
4554 4611 1.001503 CCAGCCCCTCTGAGAGACT 59.998 63.158 11.82 2.39 45.72 3.24
4566 4623 6.549364 CCCTCTGAGAGACTGTTCACTTATAT 59.451 42.308 11.82 0.00 0.00 0.86
4567 4624 7.721842 CCCTCTGAGAGACTGTTCACTTATATA 59.278 40.741 11.82 0.00 0.00 0.86
4568 4625 9.295825 CCTCTGAGAGACTGTTCACTTATATAT 57.704 37.037 11.82 0.00 0.00 0.86
4634 4693 3.119173 ACCGTTTGAAATGGCCATATGTG 60.119 43.478 21.15 5.48 41.46 3.21
4645 4704 1.683943 CCATATGTGGGAACTGGCAG 58.316 55.000 14.16 14.16 42.11 4.85
4650 4709 3.573229 TGGGAACTGGCAGCAGCT 61.573 61.111 15.89 0.00 41.70 4.24
4651 4710 3.060615 GGGAACTGGCAGCAGCTG 61.061 66.667 18.93 18.93 41.70 4.24
4686 4745 3.922240 CAGGCAACACAATTAGATGCAAC 59.078 43.478 12.28 0.00 38.73 4.17
4744 4804 3.421844 ACTATGTTTTCCCTTGCAGGTC 58.578 45.455 0.00 0.00 31.93 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.607750 GGTGGAGGTCTGGGCAGA 60.608 66.667 0.00 0.00 34.56 4.26
6 7 2.227036 AAGGTGGAGGTCTGGGCAG 61.227 63.158 0.00 0.00 0.00 4.85
7 8 2.121963 AAGGTGGAGGTCTGGGCA 60.122 61.111 0.00 0.00 0.00 5.36
12 13 2.584391 GCGGACAAGGTGGAGGTCT 61.584 63.158 0.00 0.00 0.00 3.85
47 48 4.008933 GCTGGTGGCAGACGAGGT 62.009 66.667 0.00 0.00 41.35 3.85
108 109 0.395586 TGTGTCAAAGCCAAGGCAGT 60.396 50.000 14.40 0.00 44.88 4.40
110 111 0.459489 GTTGTGTCAAAGCCAAGGCA 59.541 50.000 14.40 0.00 44.88 4.75
131 132 0.806884 ACTCGGCGACACGACAAAAA 60.807 50.000 4.99 0.00 38.06 1.94
137 138 1.154093 GATCAACTCGGCGACACGA 60.154 57.895 4.99 2.26 41.13 4.35
199 200 4.517934 CGGAGGAGCCCCTACCGA 62.518 72.222 16.55 0.00 46.67 4.69
242 243 2.502130 CCCTTTACCCCACTCTCTTCTC 59.498 54.545 0.00 0.00 0.00 2.87
257 258 4.080582 TCTCCATCAAATTCTCGCCCTTTA 60.081 41.667 0.00 0.00 0.00 1.85
274 276 5.296151 TCTTTTGTCTTGTCACTCTCCAT 57.704 39.130 0.00 0.00 0.00 3.41
284 286 4.878397 CCTCACTCACTTCTTTTGTCTTGT 59.122 41.667 0.00 0.00 0.00 3.16
286 288 4.164221 TCCCTCACTCACTTCTTTTGTCTT 59.836 41.667 0.00 0.00 0.00 3.01
291 293 5.053978 ACAATCCCTCACTCACTTCTTTT 57.946 39.130 0.00 0.00 0.00 2.27
312 316 3.563808 TGTCTGCACTGTTTTCATGGTAC 59.436 43.478 0.00 0.00 0.00 3.34
317 321 2.579873 AGCTGTCTGCACTGTTTTCAT 58.420 42.857 4.39 0.00 45.94 2.57
318 322 2.042686 AGCTGTCTGCACTGTTTTCA 57.957 45.000 4.39 0.00 45.94 2.69
353 358 1.070758 GACTCACCAGAAACTGAGGCA 59.929 52.381 0.00 0.00 41.59 4.75
459 472 5.760743 CCTCATCGATTCACTGAGTAGTCTA 59.239 44.000 11.06 0.00 35.67 2.59
471 484 3.119280 TCAACGCTAACCTCATCGATTCA 60.119 43.478 0.00 0.00 0.00 2.57
547 565 2.381941 GGGCTTCAGGGCATCTCCT 61.382 63.158 0.00 0.00 42.84 3.69
556 578 0.404040 TTACAACCAGGGGCTTCAGG 59.596 55.000 0.00 0.00 0.00 3.86
557 579 2.286365 TTTACAACCAGGGGCTTCAG 57.714 50.000 0.00 0.00 0.00 3.02
559 581 2.755103 CAGATTTACAACCAGGGGCTTC 59.245 50.000 0.00 0.00 0.00 3.86
564 586 2.027561 TCGTCCAGATTTACAACCAGGG 60.028 50.000 0.00 0.00 0.00 4.45
577 599 5.050490 GCTAATTAATGCTTCTCGTCCAGA 58.950 41.667 0.00 0.00 0.00 3.86
613 635 1.732259 CCCATTCCTGTTCGTCGAAAG 59.268 52.381 9.70 9.29 0.00 2.62
801 823 0.253394 AAGGGAAGGAAGGGAGGGAG 60.253 60.000 0.00 0.00 0.00 4.30
802 824 0.253207 GAAGGGAAGGAAGGGAGGGA 60.253 60.000 0.00 0.00 0.00 4.20
803 825 1.282653 GGAAGGGAAGGAAGGGAGGG 61.283 65.000 0.00 0.00 0.00 4.30
804 826 1.282653 GGGAAGGGAAGGAAGGGAGG 61.283 65.000 0.00 0.00 0.00 4.30
1083 1124 0.977627 TGGATCCATCAGTGAGGCGT 60.978 55.000 11.44 0.00 0.00 5.68
1433 1475 2.380084 ACAGTACCGTCGCAATCAAT 57.620 45.000 0.00 0.00 0.00 2.57
1441 1483 2.937591 TGAAAGCTAACAGTACCGTCG 58.062 47.619 0.00 0.00 0.00 5.12
1444 1486 6.084277 GGATTTTTGAAAGCTAACAGTACCG 58.916 40.000 0.00 0.00 0.00 4.02
1541 1583 2.227194 CACCGATTTAATACTGGGGGC 58.773 52.381 0.00 0.00 0.00 5.80
1549 1591 4.578516 CACCATCCTTGCACCGATTTAATA 59.421 41.667 0.00 0.00 0.00 0.98
1570 1612 6.203915 TCAAACAACATCCACAGTGTATACAC 59.796 38.462 25.51 25.51 46.77 2.90
1589 1631 7.611079 TGTCATAAGTCATGATCCAATCAAACA 59.389 33.333 0.00 0.00 45.37 2.83
1735 1777 2.918712 AGCATGATTAAGCGCTAGGT 57.081 45.000 12.05 0.00 35.48 3.08
2004 2046 0.883833 AATGTAGCTGTGCAGGCAAC 59.116 50.000 13.09 0.00 0.00 4.17
2007 2049 0.731417 CAGAATGTAGCTGTGCAGGC 59.269 55.000 0.00 3.65 0.00 4.85
2372 2415 9.944663 GAAGACAACACTACAAAATTACAATCA 57.055 29.630 0.00 0.00 0.00 2.57
2518 2562 0.523968 CTGGCAAATTCATCACCGCG 60.524 55.000 0.00 0.00 0.00 6.46
2552 2596 5.551233 TGGTGGAACATGAAACTAGAAGAG 58.449 41.667 0.00 0.00 44.52 2.85
2682 2726 7.404139 ACTGATAAAACAGACGACTTACAAC 57.596 36.000 0.00 0.00 40.63 3.32
2716 2760 4.723789 AGGAAGGGCTTTATCATCTCAAGA 59.276 41.667 0.00 0.00 0.00 3.02
3031 3075 6.889722 AGTTATGCCACACAGGTGTAATAATT 59.110 34.615 4.52 4.88 42.83 1.40
3069 3113 3.118665 TCCCCTTGCGGTACTACATAAAC 60.119 47.826 0.00 0.00 0.00 2.01
3191 3235 0.318120 TGCGAGATGAGAAGTGCACA 59.682 50.000 21.04 0.00 0.00 4.57
3192 3236 1.649664 ATGCGAGATGAGAAGTGCAC 58.350 50.000 9.40 9.40 34.86 4.57
3197 3241 5.987953 TCCTAATGAAATGCGAGATGAGAAG 59.012 40.000 0.00 0.00 0.00 2.85
3230 3274 9.760660 GTTCTGAGTTATATACAAAGTGCAAAG 57.239 33.333 0.00 0.00 0.00 2.77
4084 4131 4.286297 TCCGGACAAAATCTGAAGACAT 57.714 40.909 0.00 0.00 35.44 3.06
4127 4174 3.692257 AAGGTCTTGAGTGACTGGATG 57.308 47.619 0.00 0.00 37.16 3.51
4144 4195 4.678840 GCATGGCTTCTTTCAACCATAAGG 60.679 45.833 0.00 0.00 40.95 2.69
4186 4237 8.545420 CCAAATAAGAATAAAATCATGCAGCAC 58.455 33.333 0.00 0.00 0.00 4.40
4442 4493 2.908940 GTGCACAGCCCAACAGCT 60.909 61.111 13.17 0.00 46.45 4.24
4462 4513 1.277579 TGGATGGCCAAACAATGCAT 58.722 45.000 10.96 0.00 42.49 3.96
4518 4569 4.765856 GGCTGGATTCTCTGATTATGCATT 59.234 41.667 3.54 0.00 0.00 3.56
4532 4583 0.758123 CTCTCAGAGGGGCTGGATTC 59.242 60.000 0.00 0.00 44.98 2.52
4588 4647 9.614792 GGTGGAAGTATTGATATGAAGTAACTT 57.385 33.333 1.52 1.52 0.00 2.66
4604 4663 3.192633 GCCATTTCAAACGGTGGAAGTAT 59.807 43.478 0.00 0.00 33.53 2.12
4607 4666 1.336795 GGCCATTTCAAACGGTGGAAG 60.337 52.381 0.00 0.00 33.53 3.46
4609 4668 0.468214 TGGCCATTTCAAACGGTGGA 60.468 50.000 0.00 0.00 33.53 4.02
4610 4669 0.607620 ATGGCCATTTCAAACGGTGG 59.392 50.000 14.09 0.00 34.84 4.61
4634 4693 3.060615 CAGCTGCTGCCAGTTCCC 61.061 66.667 17.73 0.00 41.26 3.97
4650 4709 4.340246 CCTGACAGGCCTGCAGCA 62.340 66.667 33.91 27.12 46.50 4.41
4659 4718 3.411446 TCTAATTGTGTTGCCTGACAGG 58.589 45.455 17.83 17.83 38.80 4.00
4668 4727 6.855836 AGTATGGTTGCATCTAATTGTGTTG 58.144 36.000 0.00 0.00 0.00 3.33
4669 4728 7.466746 AAGTATGGTTGCATCTAATTGTGTT 57.533 32.000 0.00 0.00 0.00 3.32
4712 4772 7.703058 AGGGAAAACATAGTACAGGATTTTG 57.297 36.000 0.00 0.00 0.00 2.44


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

AutoCloner maintained by Alex Coulton.