Multiple sequence alignment - TraesCS5D01G141600

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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 TraesCS5D01G141600 chr5D 100.000 4517 0 0 1 4517 226943225 226938709 0.000000e+00 8342.0
1 TraesCS5D01G141600 chr5B 93.307 4318 113 70 332 4517 244975175 244979448 0.000000e+00 6211.0
2 TraesCS5D01G141600 chr5B 91.279 344 16 5 1 342 244974891 244975222 1.480000e-124 457.0
3 TraesCS5D01G141600 chr5A 94.478 3513 79 35 730 4188 300966221 300962770 0.000000e+00 5306.0
4 TraesCS5D01G141600 chr5A 93.215 339 21 1 1 339 300966866 300966530 8.730000e-137 497.0
5 TraesCS5D01G141600 chr5A 93.730 319 11 3 332 642 300966575 300966258 1.900000e-128 470.0
6 TraesCS5D01G141600 chr5A 91.304 207 8 4 4321 4517 300962754 300962548 1.600000e-69 274.0
7 TraesCS5D01G141600 chr4A 76.083 1246 137 85 2061 3252 463924498 463923360 6.750000e-138 501.0
8 TraesCS5D01G141600 chr4D 75.492 1220 135 79 2065 3229 113236131 113237241 3.210000e-121 446.0
9 TraesCS5D01G141600 chr4D 75.202 371 54 17 1755 2115 113235569 113235911 1.690000e-29 141.0
10 TraesCS5D01G141600 chr4B 79.637 717 64 34 2065 2746 173968041 173968710 1.490000e-119 440.0
11 TraesCS5D01G141600 chr4B 75.610 369 56 15 1755 2115 173967533 173967875 7.830000e-33 152.0
12 TraesCS5D01G141600 chr4B 78.641 206 33 10 3055 3252 173968968 173969170 4.740000e-25 126.0
13 TraesCS5D01G141600 chr3B 100.000 31 0 0 819 849 418659830 418659800 1.760000e-04 58.4


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 TraesCS5D01G141600 chr5D 226938709 226943225 4516 True 8342.000000 8342 100.000000 1 4517 1 chr5D.!!$R1 4516
1 TraesCS5D01G141600 chr5B 244974891 244979448 4557 False 3334.000000 6211 92.293000 1 4517 2 chr5B.!!$F1 4516
2 TraesCS5D01G141600 chr5A 300962548 300966866 4318 True 1636.750000 5306 93.181750 1 4517 4 chr5A.!!$R1 4516
3 TraesCS5D01G141600 chr4A 463923360 463924498 1138 True 501.000000 501 76.083000 2061 3252 1 chr4A.!!$R1 1191
4 TraesCS5D01G141600 chr4D 113235569 113237241 1672 False 293.500000 446 75.347000 1755 3229 2 chr4D.!!$F1 1474
5 TraesCS5D01G141600 chr4B 173967533 173969170 1637 False 239.333333 440 77.962667 1755 3252 3 chr4B.!!$F1 1497

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
923 958 0.392461 GCCCGTGCTCATTAGACCAA 60.392 55.000 0.00 0.0 33.53 3.67 F
1002 1046 1.072489 GAGGCCTAATAGACCAAGCCC 59.928 57.143 4.42 0.0 41.42 5.19 F
2436 2924 0.107017 CGGTGCAGATCAAGGGGAAT 60.107 55.000 0.00 0.0 0.00 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1887 1964 3.507622 GCTTCTGAAACTGGTTAGCCATT 59.492 43.478 0.0 0.0 45.05 3.16 R
3000 3530 1.818363 CATCATCGCCTGCTGCTGT 60.818 57.895 0.0 0.0 38.05 4.40 R
3682 4266 0.035630 AAGCTGCCTACTGCCAGAAG 60.036 55.000 0.0 0.0 41.37 2.85 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
29 30 3.555917 ACGTAGAATCCTAGCATACGC 57.444 47.619 3.23 0.00 42.11 4.42
77 78 9.612066 AAATAAACCAACTCATGTTTTGATTGT 57.388 25.926 9.71 2.68 36.23 2.71
210 211 3.150767 AGCTAACTCGTTCTCTCACACT 58.849 45.455 0.00 0.00 0.00 3.55
249 250 3.512329 TGGTTGGTCGAGCTTTACATAGA 59.488 43.478 16.64 0.00 0.00 1.98
271 272 3.118371 ACTTACCTGGATTTCGCCCTAAG 60.118 47.826 0.00 0.00 0.00 2.18
326 327 7.180737 CGTCATAACGCATTCAACTAAAAAG 57.819 36.000 0.00 0.00 42.82 2.27
327 328 6.795114 CGTCATAACGCATTCAACTAAAAAGT 59.205 34.615 0.00 0.00 42.82 2.66
328 329 7.006210 CGTCATAACGCATTCAACTAAAAAGTC 59.994 37.037 0.00 0.00 42.82 3.01
329 330 7.801315 GTCATAACGCATTCAACTAAAAAGTCA 59.199 33.333 0.00 0.00 0.00 3.41
330 331 7.801315 TCATAACGCATTCAACTAAAAAGTCAC 59.199 33.333 0.00 0.00 0.00 3.67
331 332 5.751243 ACGCATTCAACTAAAAAGTCACT 57.249 34.783 0.00 0.00 0.00 3.41
332 333 6.854496 ACGCATTCAACTAAAAAGTCACTA 57.146 33.333 0.00 0.00 0.00 2.74
333 334 7.254227 ACGCATTCAACTAAAAAGTCACTAA 57.746 32.000 0.00 0.00 0.00 2.24
334 335 7.699566 ACGCATTCAACTAAAAAGTCACTAAA 58.300 30.769 0.00 0.00 0.00 1.85
335 336 7.642586 ACGCATTCAACTAAAAAGTCACTAAAC 59.357 33.333 0.00 0.00 0.00 2.01
336 337 7.642194 CGCATTCAACTAAAAAGTCACTAAACA 59.358 33.333 0.00 0.00 0.00 2.83
337 338 9.463443 GCATTCAACTAAAAAGTCACTAAACAT 57.537 29.630 0.00 0.00 0.00 2.71
339 340 8.850454 TTCAACTAAAAAGTCACTAAACATGC 57.150 30.769 0.00 0.00 0.00 4.06
340 341 7.422399 TCAACTAAAAAGTCACTAAACATGCC 58.578 34.615 0.00 0.00 0.00 4.40
341 342 5.997385 ACTAAAAAGTCACTAAACATGCCG 58.003 37.500 0.00 0.00 0.00 5.69
342 343 4.911514 AAAAAGTCACTAAACATGCCGT 57.088 36.364 0.00 0.00 0.00 5.68
343 344 4.483476 AAAAGTCACTAAACATGCCGTC 57.517 40.909 0.00 0.00 0.00 4.79
344 345 2.831685 AGTCACTAAACATGCCGTCA 57.168 45.000 0.00 0.00 0.00 4.35
345 346 3.334583 AGTCACTAAACATGCCGTCAT 57.665 42.857 0.00 0.00 0.00 3.06
346 347 4.465632 AGTCACTAAACATGCCGTCATA 57.534 40.909 0.00 0.00 0.00 2.15
347 348 4.827692 AGTCACTAAACATGCCGTCATAA 58.172 39.130 0.00 0.00 0.00 1.90
348 349 4.630069 AGTCACTAAACATGCCGTCATAAC 59.370 41.667 0.00 0.00 0.00 1.89
363 364 6.759261 CGTCATAACGCATTCAACTAAAAG 57.241 37.500 0.00 0.00 42.82 2.27
439 440 1.216678 AGTTTGTCACCCCACATTGGA 59.783 47.619 0.00 0.00 40.96 3.53
514 515 4.322567 GAATATTCCTCTGATGGGCAGTC 58.677 47.826 3.92 0.00 45.14 3.51
919 954 1.220749 GGTGCCCGTGCTCATTAGA 59.779 57.895 0.00 0.00 38.71 2.10
920 955 1.090052 GGTGCCCGTGCTCATTAGAC 61.090 60.000 0.00 0.00 38.71 2.59
921 956 1.090052 GTGCCCGTGCTCATTAGACC 61.090 60.000 0.00 0.00 38.71 3.85
922 957 1.220749 GCCCGTGCTCATTAGACCA 59.779 57.895 0.00 0.00 33.53 4.02
923 958 0.392461 GCCCGTGCTCATTAGACCAA 60.392 55.000 0.00 0.00 33.53 3.67
927 962 2.544685 CGTGCTCATTAGACCAAGAGG 58.455 52.381 0.00 0.00 42.21 3.69
928 963 2.166459 CGTGCTCATTAGACCAAGAGGA 59.834 50.000 0.00 0.00 38.69 3.71
1000 1044 2.436173 ACAGAGGCCTAATAGACCAAGC 59.564 50.000 4.42 0.00 0.00 4.01
1001 1045 2.050918 AGAGGCCTAATAGACCAAGCC 58.949 52.381 4.42 0.00 40.79 4.35
1002 1046 1.072489 GAGGCCTAATAGACCAAGCCC 59.928 57.143 4.42 0.00 41.42 5.19
1132 1192 5.812642 GGAGATATTATATTGCAGGACACCG 59.187 44.000 0.00 0.00 0.00 4.94
1220 1280 3.067106 TCTCACGAGAGCAATGTTTTCC 58.933 45.455 4.83 0.00 41.81 3.13
1354 1417 3.182967 CTCAAGATACAGGTGCGTTCTC 58.817 50.000 0.00 0.00 0.00 2.87
1508 1572 3.374042 TCTTGTGTTTCCAAACCTCCA 57.626 42.857 0.00 0.00 38.11 3.86
1533 1597 2.969821 TGCTATTTTGGTGACCCTGT 57.030 45.000 0.00 0.00 0.00 4.00
1655 1719 5.064071 CGAAGGTGAGAAGATAAGCCTTTTC 59.936 44.000 0.00 0.00 36.58 2.29
1713 1787 7.590689 GCTCTTGCTTATTATCTCTGCATTTTC 59.409 37.037 0.00 0.00 36.03 2.29
1923 2000 0.603975 AGAAGCTCCAACTTGACGGC 60.604 55.000 0.00 0.00 0.00 5.68
1928 2014 4.025401 CCAACTTGACGGCGGTGC 62.025 66.667 13.24 0.02 0.00 5.01
2005 2094 1.073199 AAGGGTCAGAAAGGTGGCG 59.927 57.895 0.00 0.00 0.00 5.69
2006 2095 2.359975 GGGTCAGAAAGGTGGCGG 60.360 66.667 0.00 0.00 0.00 6.13
2007 2096 3.056328 GGTCAGAAAGGTGGCGGC 61.056 66.667 0.00 0.00 0.00 6.53
2436 2924 0.107017 CGGTGCAGATCAAGGGGAAT 60.107 55.000 0.00 0.00 0.00 3.01
2725 3234 1.510480 GCCTAACATGATGGGCGCTC 61.510 60.000 14.49 2.47 35.08 5.03
3022 3561 4.115279 AGCAGGCGATGATGAACG 57.885 55.556 0.00 0.00 0.00 3.95
3023 3562 1.522355 AGCAGGCGATGATGAACGG 60.522 57.895 0.00 0.00 0.00 4.44
3651 4235 1.919918 TTGTGTTCGCTTTGCTTTGG 58.080 45.000 0.00 0.00 0.00 3.28
3652 4236 0.814457 TGTGTTCGCTTTGCTTTGGT 59.186 45.000 0.00 0.00 0.00 3.67
3653 4237 1.203523 TGTGTTCGCTTTGCTTTGGTT 59.796 42.857 0.00 0.00 0.00 3.67
3654 4238 2.267426 GTGTTCGCTTTGCTTTGGTTT 58.733 42.857 0.00 0.00 0.00 3.27
3655 4239 2.029124 GTGTTCGCTTTGCTTTGGTTTG 59.971 45.455 0.00 0.00 0.00 2.93
3675 4259 2.047151 CTTTGCGTGTTCCGTGCTGT 62.047 55.000 0.00 0.00 39.32 4.40
3676 4260 2.316361 TTTGCGTGTTCCGTGCTGTG 62.316 55.000 0.00 0.00 39.32 3.66
3679 4263 2.177580 CGTGTTCCGTGCTGTGGTT 61.178 57.895 0.00 0.00 0.00 3.67
3680 4264 1.711060 CGTGTTCCGTGCTGTGGTTT 61.711 55.000 0.00 0.00 0.00 3.27
3681 4265 0.028902 GTGTTCCGTGCTGTGGTTTC 59.971 55.000 0.00 0.00 0.00 2.78
3682 4266 1.098712 TGTTCCGTGCTGTGGTTTCC 61.099 55.000 0.00 0.00 0.00 3.13
3683 4267 0.818040 GTTCCGTGCTGTGGTTTCCT 60.818 55.000 0.00 0.00 0.00 3.36
3684 4268 0.106918 TTCCGTGCTGTGGTTTCCTT 60.107 50.000 0.00 0.00 0.00 3.36
3685 4269 0.534203 TCCGTGCTGTGGTTTCCTTC 60.534 55.000 0.00 0.00 0.00 3.46
3688 4272 0.954452 GTGCTGTGGTTTCCTTCTGG 59.046 55.000 0.00 0.00 0.00 3.86
3690 4274 0.823356 GCTGTGGTTTCCTTCTGGCA 60.823 55.000 0.00 0.00 0.00 4.92
3692 4276 0.550914 TGTGGTTTCCTTCTGGCAGT 59.449 50.000 15.27 0.00 0.00 4.40
3693 4277 1.771854 TGTGGTTTCCTTCTGGCAGTA 59.228 47.619 15.27 3.63 0.00 2.74
3694 4278 2.224523 TGTGGTTTCCTTCTGGCAGTAG 60.225 50.000 15.27 14.38 0.00 2.57
3713 4305 3.778954 AGGCAGCTTATCCCTACAATC 57.221 47.619 0.00 0.00 0.00 2.67
3769 4364 3.632145 AGTGGAATGTTGTCAACTCAACC 59.368 43.478 16.45 13.65 44.66 3.77
3794 4389 1.074566 AGTGCCTTTAGCTTTCTGCCT 59.925 47.619 0.00 0.00 44.23 4.75
4000 4618 6.777091 CACATTATTGATGGGGTAAGATTGGA 59.223 38.462 0.00 0.00 40.21 3.53
4088 4706 4.819630 CACAGTAATAAACACCACCACTGT 59.180 41.667 0.00 0.00 44.29 3.55
4204 4828 2.028561 ACTCCCCTACCACGGTAAAA 57.971 50.000 0.00 0.00 0.00 1.52
4237 4861 4.396166 ACATTTGGACCTTTGTCATCGATC 59.604 41.667 0.00 0.00 43.65 3.69
4264 4888 4.424626 CACTGATCAAGTACGTACTGCAT 58.575 43.478 28.00 21.25 36.83 3.96
4280 4904 1.153086 CATCCCTCCAAAGCCTCGG 60.153 63.158 0.00 0.00 0.00 4.63
4281 4905 2.378634 ATCCCTCCAAAGCCTCGGG 61.379 63.158 0.00 0.00 36.21 5.14
4312 4936 0.796927 CGCCTTTTCTCTTTCGTCCC 59.203 55.000 0.00 0.00 0.00 4.46
4314 4938 1.807142 GCCTTTTCTCTTTCGTCCCAG 59.193 52.381 0.00 0.00 0.00 4.45
4315 4939 2.810767 GCCTTTTCTCTTTCGTCCCAGT 60.811 50.000 0.00 0.00 0.00 4.00
4318 4942 1.712056 TTCTCTTTCGTCCCAGTGGA 58.288 50.000 11.95 0.00 38.75 4.02
4360 5006 0.109458 TAGTGGTACGTGCTTGCTCG 60.109 55.000 14.19 14.19 0.00 5.03
4393 5039 2.663119 GGTTTAGTTGTACGCGTGGTAG 59.337 50.000 24.59 0.00 0.00 3.18
4399 5045 0.667453 TGTACGCGTGGTAGTGTTGA 59.333 50.000 24.59 0.00 36.19 3.18
4403 5049 3.241067 ACGCGTGGTAGTGTTGATATT 57.759 42.857 12.93 0.00 0.00 1.28
4410 5062 7.201410 CGCGTGGTAGTGTTGATATTATATTCC 60.201 40.741 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 4.929819 TGTTGCGTATGCTAGGATTCTA 57.070 40.909 8.69 0.00 43.34 2.10
29 30 5.119931 TGTTAGCTTGGCTTAACATGTTG 57.880 39.130 21.42 6.45 40.44 3.33
91 92 6.588204 AGATACATTGCGTCAAAACCCTATA 58.412 36.000 0.00 0.00 0.00 1.31
210 211 4.080356 CCAACCAGAATGTTAGGATCCTCA 60.080 45.833 20.22 11.97 0.00 3.86
249 250 1.286248 AGGGCGAAATCCAGGTAAGT 58.714 50.000 0.00 0.00 0.00 2.24
271 272 5.851047 ATGCAAAATGCTTTTAAGACTGC 57.149 34.783 10.25 10.25 45.31 4.40
326 327 4.491924 CGTTATGACGGCATGTTTAGTGAC 60.492 45.833 15.86 0.00 45.32 3.67
327 328 3.615056 CGTTATGACGGCATGTTTAGTGA 59.385 43.478 15.86 0.00 45.32 3.41
328 329 3.923412 CGTTATGACGGCATGTTTAGTG 58.077 45.455 15.86 0.00 45.32 2.74
341 342 6.608610 ACCTTTTAGTTGAATGCGTTATGAC 58.391 36.000 0.00 0.00 0.00 3.06
342 343 6.428465 TGACCTTTTAGTTGAATGCGTTATGA 59.572 34.615 0.00 0.00 0.00 2.15
343 344 6.523201 GTGACCTTTTAGTTGAATGCGTTATG 59.477 38.462 0.00 0.00 0.00 1.90
344 345 6.430000 AGTGACCTTTTAGTTGAATGCGTTAT 59.570 34.615 0.00 0.00 0.00 1.89
345 346 5.761234 AGTGACCTTTTAGTTGAATGCGTTA 59.239 36.000 0.00 0.00 0.00 3.18
346 347 4.578928 AGTGACCTTTTAGTTGAATGCGTT 59.421 37.500 0.00 0.00 0.00 4.84
347 348 4.134563 AGTGACCTTTTAGTTGAATGCGT 58.865 39.130 0.00 0.00 0.00 5.24
348 349 4.749245 AGTGACCTTTTAGTTGAATGCG 57.251 40.909 0.00 0.00 0.00 4.73
349 350 7.422399 TGTTTAGTGACCTTTTAGTTGAATGC 58.578 34.615 0.00 0.00 0.00 3.56
350 351 9.612620 GATGTTTAGTGACCTTTTAGTTGAATG 57.387 33.333 0.00 0.00 0.00 2.67
351 352 8.793592 GGATGTTTAGTGACCTTTTAGTTGAAT 58.206 33.333 0.00 0.00 0.00 2.57
352 353 7.041644 CGGATGTTTAGTGACCTTTTAGTTGAA 60.042 37.037 0.00 0.00 0.00 2.69
353 354 6.425721 CGGATGTTTAGTGACCTTTTAGTTGA 59.574 38.462 0.00 0.00 0.00 3.18
354 355 6.204108 ACGGATGTTTAGTGACCTTTTAGTTG 59.796 38.462 0.00 0.00 0.00 3.16
355 356 6.293698 ACGGATGTTTAGTGACCTTTTAGTT 58.706 36.000 0.00 0.00 0.00 2.24
356 357 5.861727 ACGGATGTTTAGTGACCTTTTAGT 58.138 37.500 0.00 0.00 0.00 2.24
357 358 7.762615 TCATACGGATGTTTAGTGACCTTTTAG 59.237 37.037 7.68 0.00 34.41 1.85
358 359 7.613585 TCATACGGATGTTTAGTGACCTTTTA 58.386 34.615 7.68 0.00 34.41 1.52
359 360 6.469410 TCATACGGATGTTTAGTGACCTTTT 58.531 36.000 7.68 0.00 34.41 2.27
360 361 6.045072 TCATACGGATGTTTAGTGACCTTT 57.955 37.500 7.68 0.00 34.41 3.11
361 362 5.670792 TCATACGGATGTTTAGTGACCTT 57.329 39.130 7.68 0.00 34.41 3.50
362 363 5.670792 TTCATACGGATGTTTAGTGACCT 57.329 39.130 7.68 0.00 34.41 3.85
363 364 5.220340 CGTTTCATACGGATGTTTAGTGACC 60.220 44.000 7.68 0.00 46.42 4.02
393 394 4.729227 TTGAACCTCGACTACATATGCA 57.271 40.909 1.58 0.00 0.00 3.96
394 395 4.270325 GGTTTGAACCTCGACTACATATGC 59.730 45.833 1.58 0.00 45.75 3.14
395 396 5.968387 GGTTTGAACCTCGACTACATATG 57.032 43.478 0.00 0.00 45.75 1.78
439 440 3.009473 TCTGCTTGCTTGGTCTAGGAATT 59.991 43.478 0.00 0.00 0.00 2.17
569 581 3.251016 TCATATCAGTCCCTCCCTCTG 57.749 52.381 0.00 0.00 0.00 3.35
653 667 4.491409 GCCCCTCCCCGCTTCTTC 62.491 72.222 0.00 0.00 0.00 2.87
927 962 1.692411 GAGAGGAGAGGAGAGGCTTC 58.308 60.000 0.00 0.00 0.00 3.86
928 963 0.106719 CGAGAGGAGAGGAGAGGCTT 60.107 60.000 0.00 0.00 0.00 4.35
1002 1046 0.178964 TGCAGAAAACCAAGAGGGGG 60.179 55.000 0.00 0.00 42.91 5.40
1173 1233 2.766263 AGGTGCGGTATGATCAGAAGAA 59.234 45.455 0.09 0.00 0.00 2.52
1174 1234 2.388735 AGGTGCGGTATGATCAGAAGA 58.611 47.619 0.09 0.00 0.00 2.87
1175 1235 2.898729 AGGTGCGGTATGATCAGAAG 57.101 50.000 0.09 0.00 0.00 2.85
1218 1278 2.291282 ACAACAACAACAACCAGGAGGA 60.291 45.455 0.00 0.00 38.69 3.71
1219 1279 2.099405 ACAACAACAACAACCAGGAGG 58.901 47.619 0.00 0.00 42.21 4.30
1220 1280 3.056891 ACAACAACAACAACAACCAGGAG 60.057 43.478 0.00 0.00 0.00 3.69
1354 1417 0.385598 TCTTGAGTTGAGACGACGCG 60.386 55.000 3.53 3.53 0.00 6.01
1357 1420 3.675698 GGAATGTCTTGAGTTGAGACGAC 59.324 47.826 0.00 0.00 45.05 4.34
1508 1572 4.592778 AGGGTCACCAAAATAGCAAAACAT 59.407 37.500 0.00 0.00 40.13 2.71
1533 1597 4.315803 GAATTTCGGAGGAACAGAGAACA 58.684 43.478 0.00 0.00 0.00 3.18
1713 1787 6.939551 TCTCCGTTACAGAAAATTAACTCG 57.060 37.500 0.00 0.00 0.00 4.18
1887 1964 3.507622 GCTTCTGAAACTGGTTAGCCATT 59.492 43.478 0.00 0.00 45.05 3.16
1992 2081 4.697756 CCGCCGCCACCTTTCTGA 62.698 66.667 0.00 0.00 0.00 3.27
2436 2924 4.939368 CCACCGCCGTTGTTGGGA 62.939 66.667 0.00 0.00 0.00 4.37
3000 3530 1.818363 CATCATCGCCTGCTGCTGT 60.818 57.895 0.00 0.00 38.05 4.40
3328 3897 1.069596 GTTGGTTGGCTGGCTTTGG 59.930 57.895 2.00 0.00 0.00 3.28
3651 4235 2.203599 CGGAACACGCAAAGCAAAC 58.796 52.632 0.00 0.00 34.82 2.93
3652 4236 4.700037 CGGAACACGCAAAGCAAA 57.300 50.000 0.00 0.00 34.82 3.68
3675 4259 1.351017 CCTACTGCCAGAAGGAAACCA 59.649 52.381 0.00 0.00 36.89 3.67
3676 4260 1.950954 GCCTACTGCCAGAAGGAAACC 60.951 57.143 0.00 0.00 36.89 3.27
3679 4263 0.615331 CTGCCTACTGCCAGAAGGAA 59.385 55.000 0.00 0.00 40.16 3.36
3680 4264 1.903877 GCTGCCTACTGCCAGAAGGA 61.904 60.000 0.00 0.00 40.16 3.36
3681 4265 1.451028 GCTGCCTACTGCCAGAAGG 60.451 63.158 0.00 0.00 40.16 3.46
3682 4266 0.035630 AAGCTGCCTACTGCCAGAAG 60.036 55.000 0.00 0.00 41.37 2.85
3683 4267 1.275666 TAAGCTGCCTACTGCCAGAA 58.724 50.000 0.00 0.00 41.37 3.02
3684 4268 1.414181 GATAAGCTGCCTACTGCCAGA 59.586 52.381 0.00 0.00 41.37 3.86
3685 4269 1.542108 GGATAAGCTGCCTACTGCCAG 60.542 57.143 0.00 0.00 41.37 4.85
3688 4272 0.761802 AGGGATAAGCTGCCTACTGC 59.238 55.000 0.00 0.00 45.34 4.40
3692 4276 3.583086 GGATTGTAGGGATAAGCTGCCTA 59.417 47.826 0.00 0.00 45.34 3.93
3694 4278 2.553247 GGGATTGTAGGGATAAGCTGCC 60.553 54.545 0.00 0.00 35.03 4.85
3713 4305 4.039245 CCTCCAGTAGTATATGTGTGTGGG 59.961 50.000 0.00 0.00 0.00 4.61
3769 4364 3.686726 CAGAAAGCTAAAGGCACTACTGG 59.313 47.826 0.00 0.00 44.79 4.00
3794 4389 1.300620 CCTCACACCGACGAAGCAA 60.301 57.895 0.00 0.00 0.00 3.91
4000 4618 1.045911 GCAGCTAGCTAGGGGACAGT 61.046 60.000 18.86 0.00 41.15 3.55
4204 4828 2.946990 AGGTCCAAATGTTCGTTCGTTT 59.053 40.909 0.00 0.00 0.00 3.60
4207 4831 3.242936 ACAAAGGTCCAAATGTTCGTTCG 60.243 43.478 0.00 0.00 0.00 3.95
4212 4836 4.215399 TCGATGACAAAGGTCCAAATGTTC 59.785 41.667 0.00 0.00 43.65 3.18
4237 4861 6.008292 CAGTACGTACTTGATCAGTGGATCG 61.008 48.000 25.35 5.59 42.70 3.69
4264 4888 3.009115 CCCGAGGCTTTGGAGGGA 61.009 66.667 3.00 0.00 44.70 4.20
4281 4905 1.322538 AAAAGGCGATGGGTGATGGC 61.323 55.000 0.00 0.00 35.12 4.40
4312 4936 2.499289 AGAGCAGTACCAAGATCCACTG 59.501 50.000 0.00 0.00 41.06 3.66
4314 4938 2.763448 AGAGAGCAGTACCAAGATCCAC 59.237 50.000 0.00 0.00 0.00 4.02
4315 4939 3.027412 GAGAGAGCAGTACCAAGATCCA 58.973 50.000 0.00 0.00 0.00 3.41
4318 4942 3.880490 CGTAGAGAGAGCAGTACCAAGAT 59.120 47.826 0.00 0.00 0.00 2.40
4360 5006 2.737252 CAACTAAACCGAACTGAGCTCC 59.263 50.000 12.15 0.00 0.00 4.70
4403 5049 5.833131 GGGCCTCTCAAAACAATGGAATATA 59.167 40.000 0.84 0.00 0.00 0.86
4410 5062 0.527565 CCGGGCCTCTCAAAACAATG 59.472 55.000 0.84 0.00 0.00 2.82


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

AutoCloner maintained by Alex Coulton.