Multiple sequence alignment - TraesCS1B01G141200

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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 TraesCS1B01G141200 chr1B 100.000 4618 0 0 1 4618 188266268 188261651 0.000000e+00 8528.0
1 TraesCS1B01G141200 chr1B 85.586 111 16 0 2718 2828 354987541 354987431 2.920000e-22 117.0
2 TraesCS1B01G141200 chr1D 94.736 4654 173 33 1 4618 123704476 123699859 0.000000e+00 7171.0
3 TraesCS1B01G141200 chr1A 93.735 4677 213 38 3 4618 135972642 135967985 0.000000e+00 6940.0
4 TraesCS1B01G141200 chr1A 94.444 126 7 0 8 133 136069269 136069144 1.310000e-45 195.0
5 TraesCS1B01G141200 chr1A 93.077 130 9 0 4 133 136068849 136068720 1.700000e-44 191.0
6 TraesCS1B01G141200 chr1A 83.784 111 18 0 2718 2828 343421553 343421443 6.320000e-19 106.0
7 TraesCS1B01G141200 chr2D 82.353 408 62 6 4211 4618 43285094 43284697 3.420000e-91 346.0
8 TraesCS1B01G141200 chr6A 87.013 77 9 1 2729 2805 616036460 616036535 8.230000e-13 86.1
9 TraesCS1B01G141200 chr6B 80.000 110 15 7 2717 2822 96233815 96233921 1.780000e-09 75.0
10 TraesCS1B01G141200 chr7D 85.484 62 6 2 2728 2788 579197866 579197925 1.390000e-05 62.1
11 TraesCS1B01G141200 chr7D 96.970 33 1 0 2793 2825 378172701 378172733 6.450000e-04 56.5
12 TraesCS1B01G141200 chr4A 97.297 37 0 1 2797 2832 621122345 621122381 1.390000e-05 62.1
13 TraesCS1B01G141200 chr6D 81.333 75 12 2 2752 2825 448030712 448030785 4.990000e-05 60.2
14 TraesCS1B01G141200 chr6D 90.698 43 4 0 2728 2770 431932205 431932163 1.790000e-04 58.4
15 TraesCS1B01G141200 chr5D 97.059 34 1 0 2727 2760 411631000 411630967 1.790000e-04 58.4
16 TraesCS1B01G141200 chr7A 87.500 48 6 0 2778 2825 116122548 116122595 6.450000e-04 56.5


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 TraesCS1B01G141200 chr1B 188261651 188266268 4617 True 8528 8528 100.000 1 4618 1 chr1B.!!$R1 4617
1 TraesCS1B01G141200 chr1D 123699859 123704476 4617 True 7171 7171 94.736 1 4618 1 chr1D.!!$R1 4617
2 TraesCS1B01G141200 chr1A 135967985 135972642 4657 True 6940 6940 93.735 3 4618 1 chr1A.!!$R1 4615

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
289 290 0.038744 AGTGGGTGAAAGATGGGCTG 59.961 55.0 0.00 0.0 0.00 4.85 F
368 378 0.331616 GGAGTGGGGGCAAACATACT 59.668 55.0 0.00 0.0 0.00 2.12 F
1183 1237 0.617820 GGAGCAGTCCCAGGGTAAGA 60.618 60.0 5.01 0.0 36.76 2.10 F
2603 2666 0.040425 CTACTTGCCACCAACAACGC 60.040 55.0 0.00 0.0 0.00 4.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1827 1888 1.081094 GTGGCATGCAAGCAAATTCC 58.919 50.000 21.36 0.0 35.83 3.01 R
2055 2117 3.451141 TGACCCAAAATGTGTTGCTTC 57.549 42.857 0.00 0.0 0.00 3.86 R
2669 2732 1.663161 GGAGCTTGTGCGTTTAGTTGC 60.663 52.381 0.00 0.0 45.42 4.17 R
4099 4172 0.976073 TTCCTCTAGGGGCCTGTTCG 60.976 60.000 2.72 0.0 35.41 3.95 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
32 33 1.134670 CAGCTACCCTAACTCCAGTGC 60.135 57.143 0.00 0.00 0.00 4.40
167 168 1.077625 CTATAGGGAGAGGGGCGCT 59.922 63.158 7.64 2.69 0.00 5.92
192 193 1.342819 AGGTGAATAGAGAGATGGCGC 59.657 52.381 0.00 0.00 0.00 6.53
236 237 2.176202 TTGGGATGGGTCGGGAGAGA 62.176 60.000 0.00 0.00 41.26 3.10
237 238 1.834822 GGGATGGGTCGGGAGAGAG 60.835 68.421 0.00 0.00 41.26 3.20
238 239 1.230497 GGATGGGTCGGGAGAGAGA 59.770 63.158 0.00 0.00 41.26 3.10
239 240 0.825840 GGATGGGTCGGGAGAGAGAG 60.826 65.000 0.00 0.00 41.26 3.20
240 241 0.183971 GATGGGTCGGGAGAGAGAGA 59.816 60.000 0.00 0.00 41.26 3.10
241 242 0.106419 ATGGGTCGGGAGAGAGAGAC 60.106 60.000 0.00 0.00 41.26 3.36
261 262 7.000472 AGAGACAGAGATAGATTTGGAGAGAG 59.000 42.308 0.00 0.00 0.00 3.20
276 277 4.104738 TGGAGAGAGAAATGAAAAGTGGGT 59.895 41.667 0.00 0.00 0.00 4.51
286 287 3.230134 TGAAAAGTGGGTGAAAGATGGG 58.770 45.455 0.00 0.00 0.00 4.00
287 288 1.632589 AAAGTGGGTGAAAGATGGGC 58.367 50.000 0.00 0.00 0.00 5.36
289 290 0.038744 AGTGGGTGAAAGATGGGCTG 59.961 55.000 0.00 0.00 0.00 4.85
318 323 6.662414 TTTCATATGTGCTAGGTTTTCTCG 57.338 37.500 1.90 0.00 0.00 4.04
351 361 3.254093 TGTACTGAAAGAGGTGGAGGA 57.746 47.619 0.00 0.00 37.43 3.71
356 366 0.615850 GAAAGAGGTGGAGGAGTGGG 59.384 60.000 0.00 0.00 0.00 4.61
368 378 0.331616 GGAGTGGGGGCAAACATACT 59.668 55.000 0.00 0.00 0.00 2.12
377 387 4.215109 GGGGCAAACATACTATGACCAAT 58.785 43.478 2.90 0.00 44.49 3.16
453 463 8.856490 AATCAAAATCATTACAAGCCGAATAC 57.144 30.769 0.00 0.00 0.00 1.89
456 466 6.671614 AAATCATTACAAGCCGAATACGAA 57.328 33.333 0.00 0.00 42.66 3.85
496 507 5.946972 TCTTTTGCGGGAATAAACTCCAATA 59.053 36.000 0.00 0.00 37.20 1.90
497 508 5.828299 TTTGCGGGAATAAACTCCAATAG 57.172 39.130 0.00 0.00 37.20 1.73
520 534 2.194201 AAACCAACTCCATACACCCG 57.806 50.000 0.00 0.00 0.00 5.28
577 591 1.700186 ACAAGTCTTCTTCCACCTCCC 59.300 52.381 0.00 0.00 0.00 4.30
697 711 6.403092 CCACGAGCACAATGTCAATATAAACA 60.403 38.462 0.00 0.00 0.00 2.83
915 962 5.993748 AAAAACAACCCTGAAAGAGACAA 57.006 34.783 0.00 0.00 34.07 3.18
916 963 5.993748 AAAACAACCCTGAAAGAGACAAA 57.006 34.783 0.00 0.00 34.07 2.83
917 964 5.582689 AAACAACCCTGAAAGAGACAAAG 57.417 39.130 0.00 0.00 34.07 2.77
918 965 3.555966 ACAACCCTGAAAGAGACAAAGG 58.444 45.455 0.00 0.00 34.07 3.11
919 966 3.053619 ACAACCCTGAAAGAGACAAAGGT 60.054 43.478 0.00 0.00 34.07 3.50
920 967 3.214696 ACCCTGAAAGAGACAAAGGTG 57.785 47.619 0.00 0.00 34.07 4.00
921 968 2.777692 ACCCTGAAAGAGACAAAGGTGA 59.222 45.455 0.00 0.00 34.07 4.02
923 970 3.071602 CCCTGAAAGAGACAAAGGTGAGA 59.928 47.826 0.00 0.00 34.07 3.27
1183 1237 0.617820 GGAGCAGTCCCAGGGTAAGA 60.618 60.000 5.01 0.00 36.76 2.10
1285 1339 2.691409 TAGGCTGTATGGAGTGCAAC 57.309 50.000 0.00 0.00 0.00 4.17
1305 1359 9.601971 GTGCAACGATTGTTTCTTTAGTATTTA 57.398 29.630 0.00 0.00 35.72 1.40
1456 1516 9.571810 CGATACGACTAGTACTAGTTAGATCAT 57.428 37.037 31.14 21.77 45.63 2.45
1604 1664 5.479306 AGAGTATACAACGACACAAGCAAT 58.521 37.500 5.50 0.00 0.00 3.56
1759 1820 2.439156 GCTAGCCAGGGTTGCTGG 60.439 66.667 16.79 0.00 44.44 4.85
1827 1888 4.264253 TCTGAAATTATGGGTGCTCACTG 58.736 43.478 0.00 0.00 0.00 3.66
1843 1904 1.730064 CACTGGAATTTGCTTGCATGC 59.270 47.619 17.19 17.19 34.39 4.06
1846 1907 1.081094 GGAATTTGCTTGCATGCCAC 58.919 50.000 20.65 4.91 0.00 5.01
1857 1918 4.037208 GCTTGCATGCCACAGAGTAATATT 59.963 41.667 16.68 0.00 0.00 1.28
1881 1942 8.909708 TTTTAGTACATGCAGCATCAAAATAC 57.090 30.769 4.38 3.86 0.00 1.89
1884 1945 7.104043 AGTACATGCAGCATCAAAATACAAT 57.896 32.000 4.38 0.00 0.00 2.71
1888 1949 5.149973 TGCAGCATCAAAATACAATTGGT 57.850 34.783 10.83 0.00 0.00 3.67
1917 1978 4.125703 GTCTTGATCTCTATGTGCAAGGG 58.874 47.826 0.00 0.00 37.23 3.95
1919 1980 4.100653 TCTTGATCTCTATGTGCAAGGGAG 59.899 45.833 0.00 0.00 37.23 4.30
1945 2006 9.237846 GATTACCAAGAGCTTAATTTGCATAAC 57.762 33.333 0.00 0.00 0.00 1.89
1970 2031 5.982516 GTCATAAGAGTACTCTGCATTCCTG 59.017 44.000 25.83 14.31 40.36 3.86
2011 2073 8.872845 GTTTTTGTGTCAATGTCATTTCTTCTT 58.127 29.630 0.00 0.00 0.00 2.52
2050 2112 2.945890 GCTGGGTTCCATTACCTCAAGG 60.946 54.545 0.00 0.00 38.30 3.61
2492 2554 9.784531 AGAGATGTCTTGAAGTTGAAAGAAATA 57.215 29.630 0.00 0.00 31.76 1.40
2520 2582 7.568349 TGACAAAGCTGGTATATCTGAATTCT 58.432 34.615 7.05 0.00 0.00 2.40
2575 2638 0.999406 GGCTACAGTGTGCACATACG 59.001 55.000 24.69 16.37 0.00 3.06
2603 2666 0.040425 CTACTTGCCACCAACAACGC 60.040 55.000 0.00 0.00 0.00 4.84
2619 2682 2.035530 ACGCTAACCGCTAGTAGAGT 57.964 50.000 0.00 0.00 41.76 3.24
2650 2713 1.134788 ACATTACTGCGGTGAGTAGCC 60.135 52.381 8.92 0.00 35.89 3.93
2669 2732 4.696455 AGCCCAAAGTTTCAACAATTCAG 58.304 39.130 0.00 0.00 0.00 3.02
2679 2742 6.472163 AGTTTCAACAATTCAGCAACTAAACG 59.528 34.615 0.00 0.00 0.00 3.60
2803 2866 7.277098 ACAAAGTTATATTACGTGAGCGACAAT 59.723 33.333 0.00 0.00 42.00 2.71
2805 2868 7.161829 AGTTATATTACGTGAGCGACAATTG 57.838 36.000 3.24 3.24 42.00 2.32
2872 2936 3.214328 CCCATGGATTGGTAGTACAAGC 58.786 50.000 15.22 0.00 44.83 4.01
2879 2943 6.170506 TGGATTGGTAGTACAAGCACTAAAG 58.829 40.000 2.06 0.00 38.43 1.85
2901 2965 7.907214 AAGATCGAACTTATAAAACTGCAGT 57.093 32.000 15.25 15.25 0.00 4.40
2938 3002 8.465999 CCTTGGTAGATATAGTTGCAGAGATAG 58.534 40.741 0.00 0.00 0.00 2.08
2951 3015 5.405797 TGCAGAGATAGACATATTCATCGC 58.594 41.667 0.00 0.00 0.00 4.58
2967 3031 2.941453 TCGCCTCAACTGTATCTGTC 57.059 50.000 0.00 0.00 0.00 3.51
3102 3174 6.070424 TGAGGGTAAAGTTATAGGTGTCTTGG 60.070 42.308 0.00 0.00 0.00 3.61
3259 3331 8.954350 AGACTGGTCAATTGATTTCTAAGAATG 58.046 33.333 12.12 0.00 0.00 2.67
3288 3360 7.217200 AGCATATTACGTCCACATGACTTTAT 58.783 34.615 0.00 0.00 42.13 1.40
3309 3381 2.239654 TCACCCACATTCCCATCTCTTC 59.760 50.000 0.00 0.00 0.00 2.87
3322 3394 4.442612 CCCATCTCTTCGACATGAGAACAT 60.443 45.833 13.59 0.00 41.82 2.71
3402 3474 5.279384 CGCGTCACCTACTATGACTTTATT 58.721 41.667 0.00 0.00 43.60 1.40
3426 3498 9.740239 ATTAATGTTAATTAGACTGCATTGCAG 57.260 29.630 31.84 31.84 44.56 4.41
3454 3526 7.210718 TGCAATTCATTATGCTGGATTCTAG 57.789 36.000 0.00 0.00 42.97 2.43
3554 3626 1.363744 GCTACACGCTCAGCAAATCT 58.636 50.000 0.00 0.00 37.73 2.40
3575 3647 2.697425 CGACCAGCGATCTTTGCG 59.303 61.111 0.00 0.00 44.57 4.85
3614 3686 5.950758 ATGCGTTGGAATTTACACAAGTA 57.049 34.783 0.00 0.00 0.00 2.24
3648 3720 7.038729 TGAGAGTCAGATTTCCAACTAGAACAT 60.039 37.037 0.00 0.00 0.00 2.71
3831 3903 8.428852 ACTTAAAATGTTAGCCAATTTGGTCTT 58.571 29.630 16.62 5.99 40.46 3.01
3877 3949 3.630168 TGACATGGGTATGGACAAATGG 58.370 45.455 0.00 0.00 38.66 3.16
3885 3957 5.832595 TGGGTATGGACAAATGGATATTGTG 59.167 40.000 0.00 0.00 40.90 3.33
3913 3985 8.958119 TTCCTTCCACATTATGATACTTACAC 57.042 34.615 0.00 0.00 0.00 2.90
4096 4169 1.370051 GAAGCCCGCGTTTTGACAC 60.370 57.895 4.92 0.00 0.00 3.67
4099 4172 4.676586 CCCGCGTTTTGACACGGC 62.677 66.667 4.92 0.00 44.29 5.68
4106 4179 0.316689 GTTTTGACACGGCGAACAGG 60.317 55.000 16.62 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 1.196012 GCACTGGAGTTAGGGTAGCT 58.804 55.000 0.00 0.00 0.00 3.32
167 168 4.702612 GCCATCTCTCTATTCACCTATCGA 59.297 45.833 0.00 0.00 0.00 3.59
171 172 2.558795 GCGCCATCTCTCTATTCACCTA 59.441 50.000 0.00 0.00 0.00 3.08
192 193 3.011517 CTCCCCTGACCACCCCAG 61.012 72.222 0.00 0.00 0.00 4.45
222 223 0.106419 GTCTCTCTCTCCCGACCCAT 60.106 60.000 0.00 0.00 0.00 4.00
236 237 6.910191 TCTCTCCAAATCTATCTCTGTCTCT 58.090 40.000 0.00 0.00 0.00 3.10
237 238 6.998074 TCTCTCTCCAAATCTATCTCTGTCTC 59.002 42.308 0.00 0.00 0.00 3.36
238 239 6.910191 TCTCTCTCCAAATCTATCTCTGTCT 58.090 40.000 0.00 0.00 0.00 3.41
239 240 7.581213 TTCTCTCTCCAAATCTATCTCTGTC 57.419 40.000 0.00 0.00 0.00 3.51
240 241 7.969690 TTTCTCTCTCCAAATCTATCTCTGT 57.030 36.000 0.00 0.00 0.00 3.41
241 242 8.640651 TCATTTCTCTCTCCAAATCTATCTCTG 58.359 37.037 0.00 0.00 0.00 3.35
261 262 5.928264 CCATCTTTCACCCACTTTTCATTTC 59.072 40.000 0.00 0.00 0.00 2.17
326 332 5.454755 CCTCCACCTCTTTCAGTACAAAGAA 60.455 44.000 9.06 1.62 40.97 2.52
327 333 4.040461 CCTCCACCTCTTTCAGTACAAAGA 59.960 45.833 7.83 7.83 39.59 2.52
328 334 4.040461 TCCTCCACCTCTTTCAGTACAAAG 59.960 45.833 0.00 0.00 35.06 2.77
330 336 3.578716 CTCCTCCACCTCTTTCAGTACAA 59.421 47.826 0.00 0.00 0.00 2.41
332 338 3.056465 CACTCCTCCACCTCTTTCAGTAC 60.056 52.174 0.00 0.00 0.00 2.73
335 345 1.277557 CCACTCCTCCACCTCTTTCAG 59.722 57.143 0.00 0.00 0.00 3.02
351 361 2.849943 TCATAGTATGTTTGCCCCCACT 59.150 45.455 9.94 0.00 0.00 4.00
356 366 5.221244 GGAATTGGTCATAGTATGTTTGCCC 60.221 44.000 9.94 4.81 0.00 5.36
406 416 3.260884 TCAATCTCGAGCCAGGTTTTAGT 59.739 43.478 7.81 0.00 0.00 2.24
413 423 2.609427 TGATTCAATCTCGAGCCAGG 57.391 50.000 7.81 0.00 0.00 4.45
453 463 2.034558 AGAAAATTGCACAGGTGGTTCG 59.965 45.455 1.10 0.00 0.00 3.95
456 466 4.190772 CAAAAGAAAATTGCACAGGTGGT 58.809 39.130 1.10 0.00 0.00 4.16
496 507 5.506708 GGGTGTATGGAGTTGGTTTAATCT 58.493 41.667 0.00 0.00 0.00 2.40
497 508 4.334481 CGGGTGTATGGAGTTGGTTTAATC 59.666 45.833 0.00 0.00 0.00 1.75
520 534 5.291971 ACTTGCAATTTCATTCCTTGTCAC 58.708 37.500 0.00 0.00 0.00 3.67
671 685 0.523072 ATTGACATTGTGCTCGTGGC 59.477 50.000 0.00 0.00 42.22 5.01
797 843 3.619419 TCCTTGAATTTCATGATGCCGA 58.381 40.909 12.51 0.61 0.00 5.54
898 945 3.316308 CACCTTTGTCTCTTTCAGGGTTG 59.684 47.826 0.00 0.00 0.00 3.77
915 962 1.627834 CTCCAGCCTTCTTCTCACCTT 59.372 52.381 0.00 0.00 0.00 3.50
916 963 1.274712 CTCCAGCCTTCTTCTCACCT 58.725 55.000 0.00 0.00 0.00 4.00
917 964 0.392327 GCTCCAGCCTTCTTCTCACC 60.392 60.000 0.00 0.00 34.31 4.02
918 965 3.151461 GCTCCAGCCTTCTTCTCAC 57.849 57.895 0.00 0.00 34.31 3.51
1116 1170 1.188871 TGGCCACCGACATGTGAGTA 61.189 55.000 1.15 0.00 38.55 2.59
1218 1272 6.427242 TGTGCTATCAGTACTAGATAGGAACG 59.573 42.308 26.41 13.70 44.44 3.95
1305 1359 5.858581 GCAGATTCAGTAACGCAGAAATTTT 59.141 36.000 0.00 0.00 0.00 1.82
1306 1360 5.393962 GCAGATTCAGTAACGCAGAAATTT 58.606 37.500 0.00 0.00 0.00 1.82
1386 1440 2.352805 GGACAGTCCAGGCCCAAG 59.647 66.667 15.43 0.00 36.28 3.61
1604 1664 9.877178 CCTTTCAGAGAAGTAATTCTAAAGCTA 57.123 33.333 16.06 0.00 0.00 3.32
1618 1678 7.048629 TGATATACTGCTCCTTTCAGAGAAG 57.951 40.000 0.00 0.00 44.22 2.85
1827 1888 1.081094 GTGGCATGCAAGCAAATTCC 58.919 50.000 21.36 0.00 35.83 3.01
1843 1904 9.325198 TGCATGTACTAAAATATTACTCTGTGG 57.675 33.333 0.00 0.00 0.00 4.17
1846 1907 9.045223 TGCTGCATGTACTAAAATATTACTCTG 57.955 33.333 0.00 0.00 0.00 3.35
1857 1918 8.049655 TGTATTTTGATGCTGCATGTACTAAA 57.950 30.769 21.53 14.43 0.00 1.85
1881 1942 6.098982 AGAGATCAAGACCTACCTACCAATTG 59.901 42.308 0.00 0.00 0.00 2.32
1884 1945 5.208294 AGAGATCAAGACCTACCTACCAA 57.792 43.478 0.00 0.00 0.00 3.67
1888 1949 5.770663 GCACATAGAGATCAAGACCTACCTA 59.229 44.000 0.00 0.00 0.00 3.08
1917 1978 7.088589 TGCAAATTAAGCTCTTGGTAATCTC 57.911 36.000 4.67 0.00 0.00 2.75
1919 1980 9.237846 GTTATGCAAATTAAGCTCTTGGTAATC 57.762 33.333 0.00 0.00 0.00 1.75
1945 2006 4.979197 GGAATGCAGAGTACTCTTATGACG 59.021 45.833 23.01 11.56 37.98 4.35
1970 2031 5.741982 ACACAAAAACTTGCTTATCAACGAC 59.258 36.000 0.00 0.00 0.00 4.34
2011 2073 4.382685 CCCAGCCTTTCTAAGTCGTATGAA 60.383 45.833 0.00 0.00 0.00 2.57
2050 2112 3.733727 CCCAAAATGTGTTGCTTCGTTAC 59.266 43.478 0.00 0.00 0.00 2.50
2055 2117 3.451141 TGACCCAAAATGTGTTGCTTC 57.549 42.857 0.00 0.00 0.00 3.86
2056 2118 3.902881 TTGACCCAAAATGTGTTGCTT 57.097 38.095 0.00 0.00 0.00 3.91
2492 2554 8.757982 ATTCAGATATACCAGCTTTGTCAAAT 57.242 30.769 0.00 0.00 0.00 2.32
2575 2638 3.219281 TGGTGGCAAGTAGAGGAAAAAC 58.781 45.455 0.00 0.00 0.00 2.43
2603 2666 8.164058 AGGTTAAATACTCTACTAGCGGTTAG 57.836 38.462 0.00 0.00 35.39 2.34
2619 2682 7.329499 TCACCGCAGTAATGTAAGGTTAAATA 58.671 34.615 4.79 0.00 0.00 1.40
2650 2713 5.581874 AGTTGCTGAATTGTTGAAACTTTGG 59.418 36.000 0.00 0.00 0.00 3.28
2669 2732 1.663161 GGAGCTTGTGCGTTTAGTTGC 60.663 52.381 0.00 0.00 45.42 4.17
2727 2790 6.837471 AGTAATATGAATCGGAGGGAGTAC 57.163 41.667 0.00 0.00 0.00 2.73
2785 2848 7.063426 CCATATCAATTGTCGCTCACGTAATAT 59.937 37.037 5.13 0.00 41.18 1.28
2791 2854 3.123050 TCCATATCAATTGTCGCTCACG 58.877 45.455 5.13 0.00 42.01 4.35
2803 2866 3.260269 ACTCCCTCCGATCCATATCAA 57.740 47.619 0.00 0.00 31.93 2.57
2805 2868 7.419711 TTTAATACTCCCTCCGATCCATATC 57.580 40.000 0.00 0.00 0.00 1.63
2872 2936 9.690434 GCAGTTTTATAAGTTCGATCTTTAGTG 57.310 33.333 13.65 8.79 0.00 2.74
2879 2943 8.276325 CCATACTGCAGTTTTATAAGTTCGATC 58.724 37.037 27.06 0.00 0.00 3.69
2925 2989 7.089538 CGATGAATATGTCTATCTCTGCAACT 58.910 38.462 0.00 0.00 0.00 3.16
2938 3002 4.122776 ACAGTTGAGGCGATGAATATGTC 58.877 43.478 0.00 0.00 0.00 3.06
2949 3013 2.654749 TGACAGATACAGTTGAGGCG 57.345 50.000 0.00 0.00 0.00 5.52
2951 3015 7.099764 ACAGTAATTGACAGATACAGTTGAGG 58.900 38.462 0.00 0.00 0.00 3.86
3102 3174 1.882623 CAGGACAGGTTTTTCCAGAGC 59.117 52.381 0.00 0.00 39.02 4.09
3212 3284 9.985318 CAGTCTTTTAAAAGCTTATCTGATCAG 57.015 33.333 20.93 17.07 35.99 2.90
3224 3296 8.593492 AATCAATTGACCAGTCTTTTAAAAGC 57.407 30.769 20.93 15.92 35.99 3.51
3259 3331 3.074504 TGTGGACGTAATATGCTCGAC 57.925 47.619 0.00 0.00 0.00 4.20
3288 3360 1.971149 AGAGATGGGAATGTGGGTGA 58.029 50.000 0.00 0.00 0.00 4.02
3309 3381 6.034363 CAGTGAGTCTTTATGTTCTCATGTCG 59.966 42.308 0.00 0.00 38.80 4.35
3426 3498 6.913873 ATCCAGCATAATGAATTGCAAAAC 57.086 33.333 1.71 0.80 41.35 2.43
3454 3526 7.064728 ACGATAGAGAAATTTTGTGAGGCTAAC 59.935 37.037 0.00 0.00 41.38 2.34
3554 3626 2.954684 AAAGATCGCTGGTCGCCCA 61.955 57.895 0.00 0.00 38.87 5.36
3575 3647 1.146263 ATTTCCATCCGGGTCTCGC 59.854 57.895 0.00 0.00 38.11 5.03
3614 3686 5.188555 TGGAAATCTGACTCTCACTTGCTAT 59.811 40.000 0.00 0.00 0.00 2.97
3648 3720 2.371841 ACAAGCACCATTCTGTGAGGTA 59.628 45.455 0.00 0.00 38.55 3.08
3877 3949 9.903682 CATAATGTGGAAGGAATTCACAATATC 57.096 33.333 7.93 0.00 43.38 1.63
3913 3985 1.665679 ACGTAGCGCATTCAAATCTGG 59.334 47.619 11.47 0.00 0.00 3.86
4006 4079 4.686091 CAGTTCAGAACATACAGCTTTCGA 59.314 41.667 15.85 0.00 0.00 3.71
4099 4172 0.976073 TTCCTCTAGGGGCCTGTTCG 60.976 60.000 2.72 0.00 35.41 3.95
4106 4179 1.540580 GCGTTACATTCCTCTAGGGGC 60.541 57.143 2.72 0.00 35.41 5.80


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

AutoCloner maintained by Alex Coulton.