Multiple sequence alignment - TraesCS4A01G218400

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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 TraesCS4A01G218400 chr4A 100.000 4650 0 0 1 4650 520124235 520128884 0.000000e+00 8588.0
1 TraesCS4A01G218400 chr4A 85.271 129 18 1 3198 3325 37807057 37806929 1.050000e-26 132.0
2 TraesCS4A01G218400 chr4D 93.844 4272 171 42 416 4650 69126501 69130717 0.000000e+00 6348.0
3 TraesCS4A01G218400 chr4D 88.119 303 12 11 17 316 69126119 69126400 5.760000e-89 339.0
4 TraesCS4A01G218400 chr4B 92.063 2709 126 37 1994 4650 101776358 101779029 0.000000e+00 3729.0
5 TraesCS4A01G218400 chr4B 95.933 1549 45 9 416 1958 101774481 101776017 0.000000e+00 2495.0
6 TraesCS4A01G218400 chr4B 94.904 157 2 4 141 295 101773360 101773512 1.670000e-59 241.0
7 TraesCS4A01G218400 chr4B 93.571 140 3 6 16 151 101773204 101773341 2.190000e-48 204.0
8 TraesCS4A01G218400 chr4B 85.621 153 20 2 3198 3348 413830725 413830877 4.820000e-35 159.0
9 TraesCS4A01G218400 chr5D 89.103 156 15 1 3195 3348 175299902 175300057 4.750000e-45 193.0
10 TraesCS4A01G218400 chr5D 88.028 142 16 1 3208 3348 27353993 27353852 2.880000e-37 167.0
11 TraesCS4A01G218400 chr3A 88.462 156 16 2 3198 3351 523559768 523559923 2.210000e-43 187.0
12 TraesCS4A01G218400 chr2A 88.000 150 17 1 3198 3346 330080074 330080223 4.780000e-40 176.0
13 TraesCS4A01G218400 chr6B 86.842 152 19 1 3198 3348 209587389 209587540 8.000000e-38 169.0
14 TraesCS4A01G218400 chr7D 97.222 36 0 1 1739 1773 205553560 205553595 5.020000e-05 60.2


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 TraesCS4A01G218400 chr4A 520124235 520128884 4649 False 8588.00 8588 100.00000 1 4650 1 chr4A.!!$F1 4649
1 TraesCS4A01G218400 chr4D 69126119 69130717 4598 False 3343.50 6348 90.98150 17 4650 2 chr4D.!!$F1 4633
2 TraesCS4A01G218400 chr4B 101773204 101779029 5825 False 1667.25 3729 94.11775 16 4650 4 chr4B.!!$F2 4634

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
721 1713 1.341383 GGCAATGGGTGACTCAGGAAT 60.341 52.381 0.00 0.0 29.52 3.01 F
2243 3551 0.107643 TTCACCATGAGTTCACGGCA 59.892 50.000 0.00 0.0 31.24 5.69 F
3005 4331 0.984995 ACTTGTCCACTTCCTAGGGC 59.015 55.000 9.46 0.0 0.00 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2354 3662 0.459237 CCAAACGTGCAGCAAACCAA 60.459 50.000 0.0 0.0 0.00 3.67 R
3515 4844 1.067295 ACCAGATGTTTGCCTCCTCA 58.933 50.000 0.0 0.0 0.00 3.86 R
4503 5858 1.618837 GGCACGATAGATAAGAGCCCA 59.381 52.381 0.0 0.0 41.38 5.36 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
217 253 2.884207 GACGTGACGCCGGATTCC 60.884 66.667 5.05 0.00 0.00 3.01
218 254 3.352338 GACGTGACGCCGGATTCCT 62.352 63.158 5.05 0.00 0.00 3.36
219 255 2.125673 CGTGACGCCGGATTCCTT 60.126 61.111 5.05 0.00 0.00 3.36
262 300 3.608506 CGATACTGTAGCACATATTCGGC 59.391 47.826 3.80 0.00 0.00 5.54
316 354 1.541310 TAAGCCAGTGGTCCGGTCTG 61.541 60.000 11.74 6.54 0.00 3.51
330 1309 3.197116 TCCGGTCTGGAGAAAAGTATTCC 59.803 47.826 0.00 0.00 43.74 3.01
337 1316 7.448777 GGTCTGGAGAAAAGTATTCCTTCTTTT 59.551 37.037 0.00 0.00 43.55 2.27
338 1317 8.851145 GTCTGGAGAAAAGTATTCCTTCTTTTT 58.149 33.333 0.00 0.00 41.79 1.94
339 1318 8.850156 TCTGGAGAAAAGTATTCCTTCTTTTTG 58.150 33.333 0.00 0.00 41.79 2.44
340 1319 8.760980 TGGAGAAAAGTATTCCTTCTTTTTGA 57.239 30.769 0.00 0.00 41.79 2.69
341 1320 9.367160 TGGAGAAAAGTATTCCTTCTTTTTGAT 57.633 29.630 0.00 0.00 41.79 2.57
342 1321 9.847706 GGAGAAAAGTATTCCTTCTTTTTGATC 57.152 33.333 0.00 0.00 41.79 2.92
406 1385 9.749340 ATATATGTATAAAGTTGGCCTTTACCC 57.251 33.333 3.32 0.00 45.85 3.69
407 1386 4.602107 TGTATAAAGTTGGCCTTTACCCC 58.398 43.478 3.32 0.00 45.85 4.95
408 1387 4.292836 TGTATAAAGTTGGCCTTTACCCCT 59.707 41.667 3.32 0.00 45.85 4.79
409 1388 5.491800 TGTATAAAGTTGGCCTTTACCCCTA 59.508 40.000 3.32 0.00 45.85 3.53
410 1389 3.907459 AAAGTTGGCCTTTACCCCTAA 57.093 42.857 3.32 0.00 41.63 2.69
411 1390 3.907459 AAGTTGGCCTTTACCCCTAAA 57.093 42.857 3.32 0.00 0.00 1.85
412 1391 3.907459 AGTTGGCCTTTACCCCTAAAA 57.093 42.857 3.32 0.00 0.00 1.52
413 1392 4.201894 AGTTGGCCTTTACCCCTAAAAA 57.798 40.909 3.32 0.00 0.00 1.94
533 1524 6.089417 GCACCTGTTTTATTTAGTGAACATGC 59.911 38.462 0.00 0.00 33.58 4.06
534 1525 7.144661 CACCTGTTTTATTTAGTGAACATGCA 58.855 34.615 0.00 0.00 32.23 3.96
535 1526 7.814107 CACCTGTTTTATTTAGTGAACATGCAT 59.186 33.333 0.00 0.00 32.23 3.96
536 1527 7.814107 ACCTGTTTTATTTAGTGAACATGCATG 59.186 33.333 25.09 25.09 32.23 4.06
618 1610 7.696755 TCATCCACAACAGAAAAATCATATCG 58.303 34.615 0.00 0.00 0.00 2.92
721 1713 1.341383 GGCAATGGGTGACTCAGGAAT 60.341 52.381 0.00 0.00 29.52 3.01
861 1853 2.586792 CCCGGCCTCCTCTTCAAG 59.413 66.667 0.00 0.00 0.00 3.02
976 1968 1.959710 AGAACCCTTCCTTCCTCTCC 58.040 55.000 0.00 0.00 0.00 3.71
986 1978 1.546773 CCTTCCTCTCCCGAGATCGAT 60.547 57.143 0.00 0.00 43.02 3.59
1110 2102 4.078516 GTGCCGGACCGCTACCTT 62.079 66.667 5.05 0.00 0.00 3.50
1275 2267 1.876714 CTACATGGACGCCGTTCGG 60.877 63.158 6.90 6.90 43.86 4.30
1305 2297 2.224281 GCTCATCATCGGACCATACCAA 60.224 50.000 0.00 0.00 0.00 3.67
1577 2571 7.426410 TCACTAGATAAATACTGTGCACTAGC 58.574 38.462 19.41 3.46 42.57 3.42
1581 2575 3.703001 AAATACTGTGCACTAGCCTGT 57.297 42.857 19.41 9.40 41.13 4.00
1582 2576 3.703001 AATACTGTGCACTAGCCTGTT 57.297 42.857 19.41 1.30 41.13 3.16
1583 2577 4.819105 AATACTGTGCACTAGCCTGTTA 57.181 40.909 19.41 2.82 41.13 2.41
1880 2877 5.327616 TGGACATGGTGCATAGAAATTTG 57.672 39.130 0.00 0.00 0.00 2.32
2003 3305 6.301169 ACTAGGAAAGCACCTATATATGCC 57.699 41.667 4.97 0.00 43.12 4.40
2129 3437 1.770110 AATGGGGGAGATAGCGGCA 60.770 57.895 1.45 0.00 0.00 5.69
2243 3551 0.107643 TTCACCATGAGTTCACGGCA 59.892 50.000 0.00 0.00 31.24 5.69
2525 3837 2.992124 TGTTCTTTTGTGACCGGAGA 57.008 45.000 9.46 0.00 0.00 3.71
2553 3865 5.581605 ACAAGCTTTGTAACATGTGTCTTG 58.418 37.500 0.00 8.00 43.27 3.02
2627 3940 1.111116 TACCGTTCTATGGAGGGGCG 61.111 60.000 3.81 0.00 0.00 6.13
2732 4045 3.972133 TGGAACGGACAAGGTATCTAGA 58.028 45.455 0.00 0.00 0.00 2.43
2738 4051 5.999044 ACGGACAAGGTATCTAGAGTTCTA 58.001 41.667 0.00 0.00 0.00 2.10
2806 4119 2.906389 TGGCAGGTCACTAAGTCATCTT 59.094 45.455 0.00 0.00 37.65 2.40
2985 4311 3.030291 TGCTGGCTCTTTTTCCTTGAAA 58.970 40.909 0.00 0.00 0.00 2.69
2986 4312 3.450457 TGCTGGCTCTTTTTCCTTGAAAA 59.550 39.130 0.00 0.00 39.36 2.29
2987 4313 3.804325 GCTGGCTCTTTTTCCTTGAAAAC 59.196 43.478 1.69 0.00 40.56 2.43
2988 4314 4.442052 GCTGGCTCTTTTTCCTTGAAAACT 60.442 41.667 1.69 0.00 40.56 2.66
2989 4315 5.664457 CTGGCTCTTTTTCCTTGAAAACTT 58.336 37.500 1.69 0.00 40.56 2.66
2990 4316 5.418676 TGGCTCTTTTTCCTTGAAAACTTG 58.581 37.500 1.69 0.00 40.56 3.16
2991 4317 5.046663 TGGCTCTTTTTCCTTGAAAACTTGT 60.047 36.000 1.69 0.00 40.56 3.16
2992 4318 5.520288 GGCTCTTTTTCCTTGAAAACTTGTC 59.480 40.000 1.69 0.00 40.56 3.18
2993 4319 5.520288 GCTCTTTTTCCTTGAAAACTTGTCC 59.480 40.000 1.69 0.00 40.56 4.02
2994 4320 6.597832 TCTTTTTCCTTGAAAACTTGTCCA 57.402 33.333 1.69 0.00 40.56 4.02
2995 4321 6.394809 TCTTTTTCCTTGAAAACTTGTCCAC 58.605 36.000 1.69 0.00 40.56 4.02
2996 4322 5.993748 TTTTCCTTGAAAACTTGTCCACT 57.006 34.783 0.00 0.00 36.73 4.00
2997 4323 5.993748 TTTCCTTGAAAACTTGTCCACTT 57.006 34.783 0.00 0.00 0.00 3.16
2998 4324 5.576447 TTCCTTGAAAACTTGTCCACTTC 57.424 39.130 0.00 0.00 0.00 3.01
2999 4325 3.951680 TCCTTGAAAACTTGTCCACTTCC 59.048 43.478 0.00 0.00 0.00 3.46
3000 4326 3.954258 CCTTGAAAACTTGTCCACTTCCT 59.046 43.478 0.00 0.00 0.00 3.36
3001 4327 5.104277 TCCTTGAAAACTTGTCCACTTCCTA 60.104 40.000 0.00 0.00 0.00 2.94
3002 4328 5.239525 CCTTGAAAACTTGTCCACTTCCTAG 59.760 44.000 0.00 0.00 0.00 3.02
3003 4329 4.714632 TGAAAACTTGTCCACTTCCTAGG 58.285 43.478 0.82 0.82 0.00 3.02
3004 4330 3.790089 AAACTTGTCCACTTCCTAGGG 57.210 47.619 9.46 0.00 0.00 3.53
3005 4331 0.984995 ACTTGTCCACTTCCTAGGGC 59.015 55.000 9.46 0.00 0.00 5.19
3220 4548 6.253946 ACTCCCTCCCTTCACAAATATAAG 57.746 41.667 0.00 0.00 0.00 1.73
3285 4613 8.994429 TTTTAGTGTGTGTGTTCATTCATTTT 57.006 26.923 0.00 0.00 0.00 1.82
3312 4640 9.331466 AGTCCATATGTAGTCCATATTGAGATT 57.669 33.333 1.24 0.00 42.87 2.40
3325 4653 7.503566 TCCATATTGAGATTTCCAAACCATCTC 59.496 37.037 0.00 0.00 42.29 2.75
3508 4837 2.672098 ACAGACTACCTGCATCCTAGG 58.328 52.381 0.82 0.82 46.81 3.02
3515 4844 4.475016 ACTACCTGCATCCTAGGATTTGTT 59.525 41.667 22.29 8.04 38.71 2.83
3533 4862 1.815003 GTTGAGGAGGCAAACATCTGG 59.185 52.381 0.00 0.00 0.00 3.86
3632 4961 3.007940 AGGAGTCGACAATGGATTCAACA 59.992 43.478 19.50 0.00 0.00 3.33
3633 4962 3.751175 GGAGTCGACAATGGATTCAACAA 59.249 43.478 19.50 0.00 0.00 2.83
3744 5073 2.037772 CCCCATGATGGAGTACACTAGC 59.962 54.545 14.26 0.00 40.96 3.42
3872 5205 6.535540 AGCTCCACTACTTCTCTATTATCGA 58.464 40.000 0.00 0.00 0.00 3.59
3916 5249 3.125829 CGTGATATGCTTGAAAGTGTGCT 59.874 43.478 0.00 0.00 0.00 4.40
3981 5314 3.370103 GGGAACCGTCAAATATGGAGACA 60.370 47.826 0.00 0.00 43.68 3.41
4000 5333 3.302092 GACAATAGTCGAGAGCATTTGCG 60.302 47.826 0.00 0.00 39.62 4.85
4089 5422 7.148902 CGATATATGTTGTCTTTCGGTGATCAG 60.149 40.741 0.00 0.00 0.00 2.90
4092 5425 5.147330 TGTTGTCTTTCGGTGATCAGTAT 57.853 39.130 0.00 0.00 0.00 2.12
4137 5471 4.524328 GGGGGAATTTTCGATGAGCAATAT 59.476 41.667 0.00 0.00 0.00 1.28
4138 5472 5.464168 GGGGAATTTTCGATGAGCAATATG 58.536 41.667 0.00 0.00 0.00 1.78
4237 5571 7.330208 GCCTAACTTCTACGACAAAATAGTTGA 59.670 37.037 0.00 0.00 0.00 3.18
4256 5590 6.458210 AGTTGACTAGCCAAAATTTTGATGG 58.542 36.000 28.44 20.22 40.55 3.51
4276 5610 3.055530 TGGAACTTTTGCTTGCCTTTGAA 60.056 39.130 0.00 0.00 0.00 2.69
4287 5621 4.440880 CTTGCCTTTGAATTGGTCAACAA 58.559 39.130 0.00 0.00 46.09 2.83
4330 5682 4.475345 TGGGTACAAAAACATTGGTAGCT 58.525 39.130 0.00 0.00 35.28 3.32
4348 5701 6.101150 TGGTAGCTATCCAAACATAGACCAAT 59.899 38.462 11.28 0.00 33.42 3.16
4384 5739 2.280628 GACCAGAAAGTTGATAGGGCG 58.719 52.381 0.00 0.00 0.00 6.13
4409 5764 0.975887 GTTGGCCACCATCCAAACAT 59.024 50.000 3.88 0.00 44.36 2.71
4417 5772 3.056179 CCACCATCCAAACATACCCAAAC 60.056 47.826 0.00 0.00 0.00 2.93
4424 5779 3.552684 CCAAACATACCCAAACTGTGCAG 60.553 47.826 0.00 0.00 0.00 4.41
4425 5780 1.909700 ACATACCCAAACTGTGCAGG 58.090 50.000 4.11 0.00 0.00 4.85
4426 5781 1.144913 ACATACCCAAACTGTGCAGGT 59.855 47.619 4.11 0.00 34.52 4.00
4461 5816 0.390860 ATCGCCCGAGAAATCTCCAG 59.609 55.000 4.90 0.00 39.79 3.86
4503 5858 6.861065 TGTTTTTCAGCTTCTTCGTTCTAT 57.139 33.333 0.00 0.00 0.00 1.98
4510 5865 2.159028 GCTTCTTCGTTCTATGGGCTCT 60.159 50.000 0.00 0.00 0.00 4.09
4522 5877 3.601443 ATGGGCTCTTATCTATCGTGC 57.399 47.619 0.00 0.00 0.00 5.34
4535 5890 2.187599 ATCGTGCCGCTTGTGCTTTC 62.188 55.000 0.00 0.00 36.97 2.62
4545 5900 4.631813 CCGCTTGTGCTTTCTCTATAAAGT 59.368 41.667 0.00 0.00 38.48 2.66
4547 5902 5.446473 CGCTTGTGCTTTCTCTATAAAGTGG 60.446 44.000 0.00 0.00 38.48 4.00
4555 5910 7.072454 TGCTTTCTCTATAAAGTGGGGTGATAT 59.928 37.037 0.00 0.00 38.48 1.63
4569 5924 4.839121 GGGTGATATGCCCATTTCGTATA 58.161 43.478 7.00 0.00 45.40 1.47
4574 5929 7.931407 GGTGATATGCCCATTTCGTATATATCA 59.069 37.037 0.00 0.00 35.11 2.15
4575 5930 8.765219 GTGATATGCCCATTTCGTATATATCAC 58.235 37.037 14.75 14.75 43.64 3.06
4633 5990 3.526931 ATCACTACAAGGTCCACGATG 57.473 47.619 0.00 0.00 0.00 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
217 253 6.925718 TCGAAGATGCTATACCAATGAAGAAG 59.074 38.462 0.00 0.00 0.00 2.85
218 254 6.816136 TCGAAGATGCTATACCAATGAAGAA 58.184 36.000 0.00 0.00 0.00 2.52
219 255 6.405278 TCGAAGATGCTATACCAATGAAGA 57.595 37.500 0.00 0.00 0.00 2.87
262 300 3.813724 CCCTAGGCAAGCCCCAGG 61.814 72.222 18.08 18.08 38.11 4.45
316 354 9.847706 GATCAAAAAGAAGGAATACTTTTCTCC 57.152 33.333 0.00 0.00 42.80 3.71
391 1370 3.907459 TTTAGGGGTAAAGGCCAACTT 57.093 42.857 5.01 0.00 42.52 2.66
392 1371 3.907459 TTTTAGGGGTAAAGGCCAACT 57.093 42.857 5.01 0.00 0.00 3.16
410 1389 7.066404 GGTTCACACCACCAATTTTGTATTTTT 59.934 33.333 0.00 0.00 43.61 1.94
411 1390 6.540551 GGTTCACACCACCAATTTTGTATTTT 59.459 34.615 0.00 0.00 43.61 1.82
412 1391 6.052360 GGTTCACACCACCAATTTTGTATTT 58.948 36.000 0.00 0.00 43.61 1.40
413 1392 5.606505 GGTTCACACCACCAATTTTGTATT 58.393 37.500 0.00 0.00 43.61 1.89
414 1393 5.208463 GGTTCACACCACCAATTTTGTAT 57.792 39.130 0.00 0.00 43.61 2.29
415 1394 4.657436 GGTTCACACCACCAATTTTGTA 57.343 40.909 0.00 0.00 43.61 2.41
469 1460 2.806608 TCGTCTTTTTCTAGCACCGT 57.193 45.000 0.00 0.00 0.00 4.83
533 1524 2.130395 CGTCCCATCTTCGATCACATG 58.870 52.381 0.00 0.00 0.00 3.21
534 1525 1.757118 ACGTCCCATCTTCGATCACAT 59.243 47.619 0.00 0.00 0.00 3.21
535 1526 1.135112 CACGTCCCATCTTCGATCACA 60.135 52.381 0.00 0.00 0.00 3.58
536 1527 1.560923 CACGTCCCATCTTCGATCAC 58.439 55.000 0.00 0.00 0.00 3.06
721 1713 0.250252 TGCAATTGCGTGACTCCAGA 60.250 50.000 24.58 0.67 45.83 3.86
861 1853 2.032550 TGGCTAGTTATACTCGCGTCAC 59.967 50.000 5.77 0.00 37.74 3.67
976 1968 2.127194 GGCGTCGATCGATCTCGG 60.127 66.667 27.65 17.04 42.86 4.63
986 1978 2.103538 GCATCTTACCGGCGTCGA 59.896 61.111 12.93 0.00 39.00 4.20
1110 2102 2.359850 GCGATGTTGGGCCAGTGA 60.360 61.111 6.23 0.00 0.00 3.41
1275 2267 2.897780 GATGATGAGCAGCGAGACC 58.102 57.895 0.00 0.00 0.00 3.85
1305 2297 0.955178 CGGCAGGATACGAGATGAGT 59.045 55.000 0.00 0.00 46.39 3.41
1515 2508 5.932303 TCTAAATTCAGGTCCAGAAGTTTCG 59.068 40.000 13.91 7.23 35.30 3.46
1519 2512 7.020827 TCAATCTAAATTCAGGTCCAGAAGT 57.979 36.000 2.88 0.00 0.00 3.01
2129 3437 4.282703 ACCAAGAAGTATACCGTCAGTTGT 59.717 41.667 0.00 0.00 0.00 3.32
2354 3662 0.459237 CCAAACGTGCAGCAAACCAA 60.459 50.000 0.00 0.00 0.00 3.67
2531 3843 5.581605 ACAAGACACATGTTACAAAGCTTG 58.418 37.500 0.00 5.25 37.01 4.01
2567 3880 6.939730 TGAATGGCAACTTAAATCTGTAGTCA 59.060 34.615 0.00 0.00 37.61 3.41
2627 3940 1.486310 TGATGGTAGTCATGGTGCTCC 59.514 52.381 0.00 0.00 35.97 4.70
2966 4292 5.268118 AGTTTTCAAGGAAAAAGAGCCAG 57.732 39.130 5.77 0.00 42.09 4.85
2985 4311 1.351350 GCCCTAGGAAGTGGACAAGTT 59.649 52.381 11.48 0.00 0.00 2.66
2986 4312 0.984995 GCCCTAGGAAGTGGACAAGT 59.015 55.000 11.48 0.00 0.00 3.16
2987 4313 0.984230 TGCCCTAGGAAGTGGACAAG 59.016 55.000 11.48 0.00 0.00 3.16
2988 4314 1.073284 GTTGCCCTAGGAAGTGGACAA 59.927 52.381 11.48 0.17 0.00 3.18
2989 4315 0.690762 GTTGCCCTAGGAAGTGGACA 59.309 55.000 11.48 0.00 0.00 4.02
2990 4316 0.984995 AGTTGCCCTAGGAAGTGGAC 59.015 55.000 11.48 0.09 0.00 4.02
2991 4317 1.351017 CAAGTTGCCCTAGGAAGTGGA 59.649 52.381 11.48 0.00 0.00 4.02
2992 4318 1.073923 ACAAGTTGCCCTAGGAAGTGG 59.926 52.381 11.48 0.27 0.00 4.00
2993 4319 2.427506 GACAAGTTGCCCTAGGAAGTG 58.572 52.381 11.48 1.60 0.00 3.16
2994 4320 1.351350 GGACAAGTTGCCCTAGGAAGT 59.649 52.381 11.48 0.00 0.00 3.01
2995 4321 1.351017 TGGACAAGTTGCCCTAGGAAG 59.649 52.381 11.48 0.00 0.00 3.46
2996 4322 1.073284 GTGGACAAGTTGCCCTAGGAA 59.927 52.381 11.48 0.00 0.00 3.36
2997 4323 0.690762 GTGGACAAGTTGCCCTAGGA 59.309 55.000 11.48 0.00 0.00 2.94
2998 4324 0.693049 AGTGGACAAGTTGCCCTAGG 59.307 55.000 9.80 0.06 0.00 3.02
2999 4325 2.427506 GAAGTGGACAAGTTGCCCTAG 58.572 52.381 9.80 0.00 0.00 3.02
3000 4326 1.073284 GGAAGTGGACAAGTTGCCCTA 59.927 52.381 9.80 0.00 0.00 3.53
3001 4327 0.178990 GGAAGTGGACAAGTTGCCCT 60.179 55.000 9.80 5.84 0.00 5.19
3002 4328 0.178990 AGGAAGTGGACAAGTTGCCC 60.179 55.000 0.40 0.40 30.05 5.36
3003 4329 2.427506 CTAGGAAGTGGACAAGTTGCC 58.572 52.381 1.81 6.10 30.05 4.52
3004 4330 2.427506 CCTAGGAAGTGGACAAGTTGC 58.572 52.381 1.05 0.00 0.00 4.17
3005 4331 2.876079 GCCCTAGGAAGTGGACAAGTTG 60.876 54.545 11.48 0.00 0.00 3.16
3259 4587 9.598517 AAAATGAATGAACACACACACTAAAAT 57.401 25.926 0.00 0.00 0.00 1.82
3452 4781 9.100197 ACCTTCATTTTTGTTTCCCTATGTATT 57.900 29.630 0.00 0.00 0.00 1.89
3453 4782 8.664669 ACCTTCATTTTTGTTTCCCTATGTAT 57.335 30.769 0.00 0.00 0.00 2.29
3508 4837 4.219288 AGATGTTTGCCTCCTCAACAAATC 59.781 41.667 0.00 0.00 35.87 2.17
3515 4844 1.067295 ACCAGATGTTTGCCTCCTCA 58.933 50.000 0.00 0.00 0.00 3.86
3568 4897 2.376808 ACTCCTTCAGCTGTTCGATG 57.623 50.000 14.67 3.92 0.00 3.84
3632 4961 4.357325 TCTCTCTAGTCCTGCTTTCCATT 58.643 43.478 0.00 0.00 0.00 3.16
3633 4962 3.960102 CTCTCTCTAGTCCTGCTTTCCAT 59.040 47.826 0.00 0.00 0.00 3.41
3872 5205 9.325198 TCACGAACTAAGCATCATTATTACATT 57.675 29.630 0.00 0.00 0.00 2.71
3916 5249 5.234752 ACATGTCACGTAGTATGCAAAGAA 58.765 37.500 0.00 0.00 41.61 2.52
3981 5314 2.893637 ACGCAAATGCTCTCGACTATT 58.106 42.857 3.63 0.00 39.32 1.73
4000 5333 8.730680 ACAACATCTGATATTGGAAGTACAAAC 58.269 33.333 12.79 0.00 33.48 2.93
4138 5472 9.959749 CCTCTAGAATTTTGTAGTCTCATACTC 57.040 37.037 0.00 0.00 39.80 2.59
4237 5571 6.670695 AGTTCCATCAAAATTTTGGCTAGT 57.329 33.333 26.45 10.90 38.66 2.57
4256 5590 5.504392 CAATTCAAAGGCAAGCAAAAGTTC 58.496 37.500 0.00 0.00 0.00 3.01
4276 5610 2.851263 TCTAGCCGTTGTTGACCAAT 57.149 45.000 0.00 0.00 35.02 3.16
4302 5638 7.790782 ACCAATGTTTTTGTACCCATTCTAT 57.209 32.000 0.00 0.00 0.00 1.98
4304 5640 6.295067 GCTACCAATGTTTTTGTACCCATTCT 60.295 38.462 0.00 0.00 0.00 2.40
4369 5722 2.673368 CACTCACGCCCTATCAACTTTC 59.327 50.000 0.00 0.00 0.00 2.62
4409 5764 2.440253 ACTTACCTGCACAGTTTGGGTA 59.560 45.455 0.00 0.00 0.00 3.69
4417 5772 5.692204 CGAGGAATAATACTTACCTGCACAG 59.308 44.000 0.00 0.00 0.00 3.66
4424 5779 5.100943 GGCGATCGAGGAATAATACTTACC 58.899 45.833 21.57 0.00 0.00 2.85
4425 5780 5.100943 GGGCGATCGAGGAATAATACTTAC 58.899 45.833 21.57 0.00 0.00 2.34
4426 5781 4.142534 CGGGCGATCGAGGAATAATACTTA 60.143 45.833 21.57 0.00 0.00 2.24
4503 5858 1.618837 GGCACGATAGATAAGAGCCCA 59.381 52.381 0.00 0.00 41.38 5.36
4535 5890 5.491982 GGCATATCACCCCACTTTATAGAG 58.508 45.833 0.00 0.00 0.00 2.43
4555 5910 5.142061 ACGTGATATATACGAAATGGGCA 57.858 39.130 16.22 0.00 43.82 5.36
4602 5957 6.365970 ACCTTGTAGTGATTTGATCTCTGT 57.634 37.500 0.00 0.00 35.08 3.41
4609 5964 3.322541 TCGTGGACCTTGTAGTGATTTGA 59.677 43.478 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.