Multiple sequence alignment - TraesCS2D01G299900

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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 TraesCS2D01G299900 chr2D 100.000 6056 0 0 1 6056 382172330 382178385 0.000000e+00 11184.0
1 TraesCS2D01G299900 chr2D 100.000 36 0 0 1 36 547488764 547488729 3.920000e-07 67.6
2 TraesCS2D01G299900 chr2D 100.000 35 0 0 2 36 547426642 547426608 1.410000e-06 65.8
3 TraesCS2D01G299900 chr2A 95.692 3923 134 19 2158 6056 516426393 516430304 0.000000e+00 6276.0
4 TraesCS2D01G299900 chr2A 95.812 1910 66 5 254 2159 516424192 516426091 0.000000e+00 3072.0
5 TraesCS2D01G299900 chr2A 89.730 185 15 2 74 255 516421944 516422127 3.650000e-57 233.0
6 TraesCS2D01G299900 chr2A 94.737 95 3 1 1 93 516417025 516417119 4.890000e-31 147.0
7 TraesCS2D01G299900 chr2B 95.693 3158 89 15 2915 6056 453026711 453029837 0.000000e+00 5035.0
8 TraesCS2D01G299900 chr2B 94.294 2927 130 20 14 2920 453020871 453023780 0.000000e+00 4446.0
9 TraesCS2D01G299900 chr2B 97.887 142 3 0 2830 2971 660461561 660461420 4.690000e-61 246.0
10 TraesCS2D01G299900 chr4D 98.592 142 2 0 2830 2971 482703486 482703627 1.010000e-62 252.0
11 TraesCS2D01G299900 chr4D 96.503 143 5 0 2830 2972 65536153 65536295 2.820000e-58 237.0
12 TraesCS2D01G299900 chr7A 96.622 148 4 1 2830 2976 83784973 83784826 1.690000e-60 244.0
13 TraesCS2D01G299900 chr1D 96.552 145 5 0 2830 2974 317429492 317429636 2.180000e-59 241.0
14 TraesCS2D01G299900 chr6B 96.552 145 4 1 2830 2974 720714590 720714447 7.840000e-59 239.0
15 TraesCS2D01G299900 chr6B 96.454 141 5 0 2830 2970 225525410 225525550 3.650000e-57 233.0
16 TraesCS2D01G299900 chr6A 100.000 31 0 0 3 33 764209 764239 2.360000e-04 58.4
17 TraesCS2D01G299900 chr5D 100.000 31 0 0 7 37 519335782 519335812 2.360000e-04 58.4
18 TraesCS2D01G299900 chr5B 96.970 33 1 0 2 34 445553296 445553328 8.480000e-04 56.5
19 TraesCS2D01G299900 chr5B 100.000 29 0 0 3 31 680321133 680321161 3.000000e-03 54.7
20 TraesCS2D01G299900 chr4A 96.970 33 1 0 7 39 271792304 271792336 8.480000e-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 TraesCS2D01G299900 chr2D 382172330 382178385 6055 False 11184.000000 11184 100.000000 1 6056 1 chr2D.!!$F1 6055
1 TraesCS2D01G299900 chr2A 516421944 516430304 8360 False 3193.666667 6276 93.744667 74 6056 3 chr2A.!!$F2 5982
2 TraesCS2D01G299900 chr2B 453020871 453029837 8966 False 4740.500000 5035 94.993500 14 6056 2 chr2B.!!$F1 6042

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 0.040514 TTGGCATTTTCGCACTCGTG 60.041 50.000 0.00 0.0 36.96 4.35 F
569 2651 0.179108 GTTGTTCGGCGGCTATCTCT 60.179 55.000 7.21 0.0 0.00 3.10 F
651 2733 0.376152 CGCATTGCTTCGCATCTCTT 59.624 50.000 7.12 0.0 38.76 2.85 F
1446 3532 0.475828 AGGTAGGTGGGGAAGTTGCT 60.476 55.000 0.00 0.0 0.00 3.91 F
1595 3681 1.003355 AGGTGCAGATTGGTGACGG 60.003 57.895 0.00 0.0 0.00 4.79 F
2891 5291 0.321653 AAGTGTAGGGAAAGGCTGCG 60.322 55.000 0.00 0.0 0.00 5.18 F
4261 9615 0.991146 TGATCCCAAAGCCTGCTGTA 59.009 50.000 0.00 0.0 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1420 3506 0.722676 TCCCCACCTACCTCCAGAAT 59.277 55.000 0.00 0.00 0.00 2.40 R
1430 3516 0.984230 CTCAGCAACTTCCCCACCTA 59.016 55.000 0.00 0.00 0.00 3.08 R
2600 4990 0.667993 AATTGTGTTGCACGACAGGG 59.332 50.000 0.00 0.00 37.14 4.45 R
2874 5274 0.248289 TACGCAGCCTTTCCCTACAC 59.752 55.000 0.00 0.00 0.00 2.90 R
3124 8469 3.624861 AGACAGTCAGTGTGCAGAAAAAG 59.375 43.478 2.66 0.00 40.56 2.27 R
4561 9915 1.352156 GACCGTCCAGCGCTTAACAG 61.352 60.000 7.50 3.64 39.71 3.16 R
5068 10422 2.472861 CGATAATGACGATGGAGCACAC 59.527 50.000 0.00 0.00 0.00 3.82 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
17 18 2.107953 GTCTCCATGGAGCTCGGC 59.892 66.667 33.39 17.57 41.71 5.54
20 21 3.157252 TCCATGGAGCTCGGCCTC 61.157 66.667 11.44 0.00 0.00 4.70
37 38 1.067000 CCTCCATTTGGCATTTTCGCA 60.067 47.619 0.00 0.00 34.44 5.10
43 44 0.040514 TTGGCATTTTCGCACTCGTG 60.041 50.000 0.00 0.00 36.96 4.35
177 181 7.553881 TCAAAATCGAGTAGAAATGAATCCC 57.446 36.000 0.00 0.00 0.00 3.85
178 182 6.542370 TCAAAATCGAGTAGAAATGAATCCCC 59.458 38.462 0.00 0.00 0.00 4.81
181 185 6.935240 ATCGAGTAGAAATGAATCCCCATA 57.065 37.500 0.00 0.00 0.00 2.74
230 235 4.335315 GCGAATCAAACAATCACCATAGGA 59.665 41.667 0.00 0.00 0.00 2.94
527 2609 1.373748 GTCACCGCGCTTTCCTACA 60.374 57.895 5.56 0.00 0.00 2.74
569 2651 0.179108 GTTGTTCGGCGGCTATCTCT 60.179 55.000 7.21 0.00 0.00 3.10
651 2733 0.376152 CGCATTGCTTCGCATCTCTT 59.624 50.000 7.12 0.00 38.76 2.85
779 2861 5.897250 TGAACTGGTTAGGCAGATGATACTA 59.103 40.000 0.00 0.00 0.00 1.82
1063 3149 2.680352 ACCTGACACGGGCGATCT 60.680 61.111 0.00 0.00 32.02 2.75
1148 3234 1.911471 TGCCATCGCAACCTCCATA 59.089 52.632 0.00 0.00 43.74 2.74
1317 3403 1.741770 AAGCGATGTCCGTGCTTCC 60.742 57.895 0.00 0.00 45.24 3.46
1420 3506 6.406692 TTTCAACAATTGGTATTCGGGAAA 57.593 33.333 10.83 5.43 0.00 3.13
1430 3516 3.118000 GGTATTCGGGAAATTCTGGAGGT 60.118 47.826 0.00 0.00 0.00 3.85
1440 3526 0.494551 TTCTGGAGGTAGGTGGGGAA 59.505 55.000 0.00 0.00 0.00 3.97
1446 3532 0.475828 AGGTAGGTGGGGAAGTTGCT 60.476 55.000 0.00 0.00 0.00 3.91
1534 3620 2.627699 GTTTTCTCCAATGGCCTGACAA 59.372 45.455 3.32 0.00 0.00 3.18
1545 3631 5.736951 ATGGCCTGACAATAGAGATAGTC 57.263 43.478 3.32 0.00 0.00 2.59
1546 3632 4.546674 TGGCCTGACAATAGAGATAGTCA 58.453 43.478 3.32 0.00 38.56 3.41
1556 3642 8.497910 ACAATAGAGATAGTCACATTATGGGT 57.502 34.615 0.00 0.00 0.00 4.51
1557 3643 8.370940 ACAATAGAGATAGTCACATTATGGGTG 58.629 37.037 0.00 0.00 37.60 4.61
1572 3658 1.704628 TGGGTGGTGATGATCAACAGT 59.295 47.619 14.38 0.00 45.96 3.55
1588 3674 2.224606 ACAGTGTTGAGGTGCAGATTG 58.775 47.619 0.00 0.00 0.00 2.67
1595 3681 1.003355 AGGTGCAGATTGGTGACGG 60.003 57.895 0.00 0.00 0.00 4.79
1670 3756 1.305201 TGCTTTCCGAACGCTTCTTT 58.695 45.000 10.60 0.00 0.00 2.52
1703 3789 2.027385 GGCTCCACCCAATGAAGATTC 58.973 52.381 0.00 0.00 0.00 2.52
1836 3922 7.112122 TGCATCCACTATTCTTACAGTCAATT 58.888 34.615 0.00 0.00 0.00 2.32
1932 4018 2.892852 TGGCAATTTGAAGAGGGTTCTG 59.107 45.455 0.00 0.00 32.79 3.02
2041 4127 2.086610 ATGGCCCAAGAGTTGTTGTT 57.913 45.000 0.00 0.00 0.00 2.83
2135 4221 7.148289 GGGTACTGTTTTCTTGCTAAATCCTAC 60.148 40.741 0.00 0.00 0.00 3.18
2140 4226 8.232913 TGTTTTCTTGCTAAATCCTACTTTGT 57.767 30.769 0.00 0.00 0.00 2.83
2142 4228 9.608617 GTTTTCTTGCTAAATCCTACTTTGTAC 57.391 33.333 0.00 0.00 0.00 2.90
2159 4245 2.811431 TGTACGAGTTTCCAATGCAAGG 59.189 45.455 0.00 0.00 0.00 3.61
2170 4559 2.749621 CCAATGCAAGGAGGTCAGTTAC 59.250 50.000 2.49 0.00 0.00 2.50
2248 4637 7.005709 ACTGTAATAATGGGCTATAGTGGTC 57.994 40.000 0.84 0.00 0.00 4.02
2261 4650 6.154192 GGCTATAGTGGTCCCCTTAGTATTAC 59.846 46.154 0.84 0.00 0.00 1.89
2380 4769 2.825532 ACCCTTTGTCCATTTTCATCCG 59.174 45.455 0.00 0.00 0.00 4.18
2411 4800 9.429359 AGAAGTACATAGATATTGTAATGCAGC 57.571 33.333 0.00 0.00 31.72 5.25
2465 4854 1.404181 GCTGCTGTCGGTAGATGTTCA 60.404 52.381 0.20 0.00 0.00 3.18
2607 4997 5.404366 CGATTAACACAATATACCCCTGTCG 59.596 44.000 0.00 0.00 0.00 4.35
2611 5001 1.834896 ACAATATACCCCTGTCGTGCA 59.165 47.619 0.00 0.00 0.00 4.57
2637 5027 4.515944 ACAATTGCATGTTCAAACCCAATG 59.484 37.500 5.05 0.00 0.00 2.82
2643 5033 3.972950 TGTTCAAACCCAATGTACACG 57.027 42.857 0.00 0.00 0.00 4.49
2695 5093 3.252701 CCATGAATAGCAACATCTCCTGC 59.747 47.826 0.00 0.00 38.91 4.85
2697 5095 2.093500 TGAATAGCAACATCTCCTGCGT 60.093 45.455 0.00 0.00 43.51 5.24
2748 5146 2.157474 GCGGTGTGGAATTTGCATTTTC 59.843 45.455 0.00 0.00 0.00 2.29
2874 5274 1.538950 GGAAACAGCCTCTTGCAGAAG 59.461 52.381 0.00 0.00 44.83 2.85
2891 5291 0.321653 AAGTGTAGGGAAAGGCTGCG 60.322 55.000 0.00 0.00 0.00 5.18
2912 5312 4.382362 GCGTACTATAGACCCAAAGTGGTT 60.382 45.833 6.78 0.00 39.24 3.67
3124 8469 8.144478 TGTAGCTGTGTTATATCTTGGATCTTC 58.856 37.037 0.00 0.00 0.00 2.87
3180 8526 4.074627 TGTGGTAGACAATGTTTTCCGA 57.925 40.909 0.00 0.00 0.00 4.55
3338 8689 2.436911 AGGCCGGTTATTACCTTCGAAT 59.563 45.455 1.90 0.00 42.66 3.34
3421 8772 3.826157 TGCAAGGGAAAATCTGGTGTAAG 59.174 43.478 0.00 0.00 0.00 2.34
3865 9219 7.268586 TGAAGTTCTTTCTAGCCACTCATATC 58.731 38.462 4.17 0.00 36.71 1.63
3976 9330 7.997803 TGAACTTCTCTCAGATATCTCTCATCA 59.002 37.037 1.03 0.00 0.00 3.07
4121 9475 6.207614 ACTTATATCTTCTGCGAGCTGACATA 59.792 38.462 4.15 5.11 0.00 2.29
4129 9483 2.228059 GCGAGCTGACATAGTACCCTA 58.772 52.381 0.00 0.00 0.00 3.53
4154 9508 3.806521 CAGTGTGACTTCAGGAACTTGAG 59.193 47.826 0.00 0.00 34.60 3.02
4184 9538 6.589523 CCAGAGAATGCTTTTATATCTCGAGG 59.410 42.308 13.56 0.00 41.04 4.63
4209 9563 9.909644 GGAATTGAGGATTTTGATGATATCTTG 57.090 33.333 3.98 0.00 0.00 3.02
4261 9615 0.991146 TGATCCCAAAGCCTGCTGTA 59.009 50.000 0.00 0.00 0.00 2.74
4417 9771 1.571919 CTTTCGTGCCCTAGAATCCG 58.428 55.000 0.00 0.00 0.00 4.18
4561 9915 2.212900 GACCCCACTGGCGCATTTTC 62.213 60.000 10.83 0.00 37.83 2.29
4862 10216 5.815233 TTTCAGTCTCTCCATCTTTCTGT 57.185 39.130 0.00 0.00 0.00 3.41
4966 10320 0.318869 TTGCTGCATCACCTTTTGCG 60.319 50.000 1.84 0.00 41.80 4.85
5068 10422 4.370049 TGCACAATGAAGTTGATGTTTGG 58.630 39.130 0.00 0.00 40.37 3.28
5242 10598 1.968017 CATGCTTCCGTGGCAGTGT 60.968 57.895 0.00 0.00 43.15 3.55
5293 10649 2.296190 TCATGTAGCAGTGTTGTCTCGT 59.704 45.455 0.00 0.00 0.00 4.18
5306 10662 5.049543 GTGTTGTCTCGTAGTCTGTTCTAGT 60.050 44.000 0.00 0.00 0.00 2.57
5347 10703 0.625849 ATGGTTGATCCCTGGACCAC 59.374 55.000 6.37 0.00 44.27 4.16
5419 10775 8.364129 TGGTTTAGATGCAAATTCTTTTTGTC 57.636 30.769 0.00 0.00 0.00 3.18
5420 10776 8.203485 TGGTTTAGATGCAAATTCTTTTTGTCT 58.797 29.630 0.00 0.00 0.00 3.41
5421 10777 9.691362 GGTTTAGATGCAAATTCTTTTTGTCTA 57.309 29.630 0.00 0.00 0.00 2.59
5494 10850 5.004922 TCAAGTAAAGGTGCAAACAAAGG 57.995 39.130 0.00 0.00 0.00 3.11
5756 11114 9.727627 GTTTGCCTCTTTGATCAAGAATATAAG 57.272 33.333 8.41 1.55 41.25 1.73
5791 11149 8.478877 TCTTTTTGGGAGCAAAACTGTTAAATA 58.521 29.630 0.00 0.00 34.25 1.40
5909 11267 7.989741 AGAGATATTTCACTCTACACAATTGGG 59.010 37.037 6.04 6.04 40.98 4.12
6001 11360 6.423604 GGATTGTTTGTCCAGTAAACCAAATG 59.576 38.462 0.00 0.00 37.25 2.32
6018 11377 6.515832 ACCAAATGTGTTCCTTTTCTCATTC 58.484 36.000 0.00 0.00 30.80 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.107953 GCCGAGCTCCATGGAGAC 59.892 66.667 40.29 30.08 44.53 3.36
1 2 3.157252 GGCCGAGCTCCATGGAGA 61.157 66.667 40.29 9.63 44.53 3.71
2 3 3.160047 AGGCCGAGCTCCATGGAG 61.160 66.667 33.73 33.73 44.56 3.86
3 4 3.157252 GAGGCCGAGCTCCATGGA 61.157 66.667 15.27 15.27 0.00 3.41
4 5 4.247380 GGAGGCCGAGCTCCATGG 62.247 72.222 4.97 4.97 39.45 3.66
5 6 3.473647 TGGAGGCCGAGCTCCATG 61.474 66.667 8.47 0.00 44.02 3.66
8 9 1.821332 CAAATGGAGGCCGAGCTCC 60.821 63.158 8.47 0.00 40.05 4.70
9 10 1.821332 CCAAATGGAGGCCGAGCTC 60.821 63.158 2.73 2.73 37.39 4.09
10 11 2.273449 CCAAATGGAGGCCGAGCT 59.727 61.111 0.00 0.00 37.39 4.09
11 12 3.521796 GCCAAATGGAGGCCGAGC 61.522 66.667 2.98 0.00 46.50 5.03
17 18 1.067000 TGCGAAAATGCCAAATGGAGG 60.067 47.619 2.98 0.00 37.39 4.30
20 21 1.994779 GAGTGCGAAAATGCCAAATGG 59.005 47.619 0.00 0.00 38.53 3.16
114 118 6.072673 TCCGCTTAAACTTCTTGGAAGAATTC 60.073 38.462 13.30 0.00 43.52 2.17
192 197 4.305001 GATTCGCGTGATCTGAATCATC 57.695 45.455 5.77 0.00 44.60 2.92
206 211 2.610219 TGGTGATTGTTTGATTCGCG 57.390 45.000 0.00 0.00 0.00 5.87
255 269 3.769739 TGCTTGCCTCTCTCAAACTTA 57.230 42.857 0.00 0.00 0.00 2.24
287 2367 4.582760 TGGTACACGCGATTCCAC 57.417 55.556 15.93 2.63 0.00 4.02
300 2382 1.111116 CGATCTTAGGGCCCGTGGTA 61.111 60.000 18.44 0.00 0.00 3.25
545 2627 4.736631 GCCGCCGAACAACGAAGC 62.737 66.667 0.00 0.00 45.77 3.86
569 2651 5.061179 GTGAGGCTTACTTAGTTTGGAACA 58.939 41.667 1.59 0.00 0.00 3.18
651 2733 2.632377 CTGGAAAAATCTAGCGGCTGA 58.368 47.619 13.86 8.61 0.00 4.26
728 2810 3.356290 GGGCAAAATAGAAGAGCAGGAA 58.644 45.455 0.00 0.00 0.00 3.36
808 2890 9.281371 GGTCTTAGAAACTACACCAAAACTTAT 57.719 33.333 0.00 0.00 0.00 1.73
809 2891 8.266473 TGGTCTTAGAAACTACACCAAAACTTA 58.734 33.333 0.00 0.00 30.86 2.24
874 2956 4.565962 GCAACATGATCTATCAGCTATCGG 59.434 45.833 0.00 0.00 40.64 4.18
1063 3149 2.270850 GGCGGTGGCATAAGGTGA 59.729 61.111 0.00 0.00 42.47 4.02
1148 3234 3.211865 CAGAGCATACAAGACATGGCAT 58.788 45.455 0.00 0.00 0.00 4.40
1317 3403 6.807230 TCTCGAGAAAATAAAGAAGTCGAAGG 59.193 38.462 14.01 0.00 34.81 3.46
1420 3506 0.722676 TCCCCACCTACCTCCAGAAT 59.277 55.000 0.00 0.00 0.00 2.40
1430 3516 0.984230 CTCAGCAACTTCCCCACCTA 59.016 55.000 0.00 0.00 0.00 3.08
1440 3526 3.450457 CCTTCAGTATCCTCTCAGCAACT 59.550 47.826 0.00 0.00 0.00 3.16
1446 3532 3.034635 GCTTCCCTTCAGTATCCTCTCA 58.965 50.000 0.00 0.00 0.00 3.27
1534 3620 7.019388 ACCACCCATAATGTGACTATCTCTAT 58.981 38.462 0.00 0.00 35.74 1.98
1545 3631 4.463070 TGATCATCACCACCCATAATGTG 58.537 43.478 0.00 0.00 0.00 3.21
1546 3632 4.794311 TGATCATCACCACCCATAATGT 57.206 40.909 0.00 0.00 0.00 2.71
1556 3642 4.067192 CTCAACACTGTTGATCATCACCA 58.933 43.478 22.10 0.46 0.00 4.17
1557 3643 3.438087 CCTCAACACTGTTGATCATCACC 59.562 47.826 22.10 0.00 0.00 4.02
1572 3658 1.142667 TCACCAATCTGCACCTCAACA 59.857 47.619 0.00 0.00 0.00 3.33
1588 3674 2.584608 CAGATCCCACCCGTCACC 59.415 66.667 0.00 0.00 0.00 4.02
1595 3681 1.152673 GCAATCCCCAGATCCCACC 60.153 63.158 0.00 0.00 0.00 4.61
1670 3756 2.554893 GGTGGAGCCAATACAAAACGAA 59.445 45.455 0.00 0.00 37.17 3.85
1680 3766 1.358787 TCTTCATTGGGTGGAGCCAAT 59.641 47.619 15.82 15.82 39.65 3.16
1703 3789 6.147821 ACGGTATTCTGATTTGTCTGAAACAG 59.852 38.462 2.62 0.00 39.58 3.16
1757 3843 5.975693 TTTGATTTCCTTTACCGCATCTT 57.024 34.783 0.00 0.00 0.00 2.40
1932 4018 5.412594 TGAACATGAAAGAAGTACCATGAGC 59.587 40.000 12.62 6.19 38.83 4.26
1965 4051 1.872952 CAGAATGTTGCCTCACGTTGA 59.127 47.619 0.00 0.00 0.00 3.18
2041 4127 3.254411 TGTTGATTGGCTTTATGCAACGA 59.746 39.130 0.00 0.00 45.15 3.85
2135 4221 4.481930 TGCATTGGAAACTCGTACAAAG 57.518 40.909 0.00 0.00 0.00 2.77
2140 4226 3.334691 CTCCTTGCATTGGAAACTCGTA 58.665 45.455 9.76 0.00 32.61 3.43
2142 4228 1.470098 CCTCCTTGCATTGGAAACTCG 59.530 52.381 9.76 0.00 32.61 4.18
2465 4854 8.754080 GCATATGGTAGGACTAAATAGTGATCT 58.246 37.037 4.56 0.00 36.50 2.75
2600 4990 0.667993 AATTGTGTTGCACGACAGGG 59.332 50.000 0.00 0.00 37.14 4.45
2611 5001 3.876320 GGGTTTGAACATGCAATTGTGTT 59.124 39.130 12.75 12.75 40.97 3.32
2667 5065 4.579340 AGATGTTGCTATTCATGGCAGAAG 59.421 41.667 0.00 0.00 45.06 2.85
2785 5185 3.575965 AAATTCTGAAACATCGGGTGC 57.424 42.857 0.00 0.00 0.00 5.01
2874 5274 0.248289 TACGCAGCCTTTCCCTACAC 59.752 55.000 0.00 0.00 0.00 2.90
3124 8469 3.624861 AGACAGTCAGTGTGCAGAAAAAG 59.375 43.478 2.66 0.00 40.56 2.27
3180 8526 7.419518 GCATATTGACCTACTATATGGATGGCT 60.420 40.741 0.00 0.00 41.46 4.75
3421 8772 6.095720 TGTCATTTTACCATTTCGGGATAACC 59.904 38.462 0.00 0.00 40.22 2.85
3573 8924 6.357367 ACTTATGAGTGTGACAAAGAAGGTT 58.643 36.000 1.37 0.00 33.99 3.50
3574 8925 5.930135 ACTTATGAGTGTGACAAAGAAGGT 58.070 37.500 1.37 0.00 33.99 3.50
3865 9219 7.588512 CCACTGGAATTTAAAAGAGTCTGAAG 58.411 38.462 0.00 0.00 0.00 3.02
4121 9475 5.084519 TGAAGTCACACTGATTAGGGTACT 58.915 41.667 0.00 0.00 38.92 2.73
4129 9483 4.696479 AGTTCCTGAAGTCACACTGATT 57.304 40.909 0.00 0.00 0.00 2.57
4154 9508 8.443953 AGATATAAAAGCATTCTCTGGTGAAC 57.556 34.615 0.00 0.00 35.27 3.18
4184 9538 9.408069 GCAAGATATCATCAAAATCCTCAATTC 57.592 33.333 5.32 0.00 0.00 2.17
4209 9563 2.927553 ATTCCGAGATTGCTTGTTGC 57.072 45.000 0.00 0.00 43.25 4.17
4417 9771 5.552870 TCTCCCTTAAAGCCATCAGTATC 57.447 43.478 0.00 0.00 0.00 2.24
4561 9915 1.352156 GACCGTCCAGCGCTTAACAG 61.352 60.000 7.50 3.64 39.71 3.16
4589 9943 6.801575 TCTCCCTTTACACATTCAACAAAAC 58.198 36.000 0.00 0.00 0.00 2.43
4862 10216 3.330701 AGAAAGGTTGGCAGAATCTACCA 59.669 43.478 0.00 0.00 0.00 3.25
5068 10422 2.472861 CGATAATGACGATGGAGCACAC 59.527 50.000 0.00 0.00 0.00 3.82
5242 10598 8.169977 ACAGAAGCATGAATCTTAAGTGAAAA 57.830 30.769 1.63 0.00 0.00 2.29
5293 10649 5.868258 CGTGACAGAGTACTAGAACAGACTA 59.132 44.000 0.00 0.00 0.00 2.59
5306 10662 6.459710 CCATAGAATGTTAGCGTGACAGAGTA 60.460 42.308 0.00 0.00 0.00 2.59
5347 10703 8.778358 GCATAATGGAAGAGTTTACCAATAGAG 58.222 37.037 0.00 0.00 37.24 2.43
5359 10715 8.462016 GTGAATACTTTTGCATAATGGAAGAGT 58.538 33.333 0.00 0.00 43.46 3.24
5364 10720 6.979817 GCATGTGAATACTTTTGCATAATGGA 59.020 34.615 0.00 0.00 32.19 3.41
5419 10775 7.336396 TGATGATTCTTCCATGGCTGATATAG 58.664 38.462 6.96 0.00 0.00 1.31
5420 10776 7.261688 TGATGATTCTTCCATGGCTGATATA 57.738 36.000 6.96 0.00 0.00 0.86
5421 10777 6.135819 TGATGATTCTTCCATGGCTGATAT 57.864 37.500 6.96 4.45 0.00 1.63
5473 10829 4.754322 ACCTTTGTTTGCACCTTTACTTG 58.246 39.130 0.00 0.00 0.00 3.16
5558 10915 7.548427 ACTTGTGTGATCTATGAAATGAGAGTG 59.452 37.037 0.00 0.00 0.00 3.51
5614 10971 8.969260 ATCTTCAATTATTGCTAGATGACACA 57.031 30.769 16.08 0.00 33.48 3.72
5756 11114 5.705609 TGCTCCCAAAAAGACTGAAATAC 57.294 39.130 0.00 0.00 0.00 1.89
5774 11132 6.969473 GCATCCTCTATTTAACAGTTTTGCTC 59.031 38.462 0.00 0.00 0.00 4.26
6001 11360 8.702163 TTGAAAAAGAATGAGAAAAGGAACAC 57.298 30.769 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.