Multiple sequence alignment - TraesCS5D01G138000

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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 TraesCS5D01G138000 chr5D 100.000 4147 0 0 1 4147 219527498 219523352 0.000000e+00 7659
1 TraesCS5D01G138000 chr5A 95.452 3342 111 13 837 4144 292861775 292858441 0.000000e+00 5291
2 TraesCS5D01G138000 chr5A 90.972 576 37 10 1 570 292862852 292862286 0.000000e+00 761
3 TraesCS5D01G138000 chr5A 99.187 123 0 1 597 719 292861897 292861776 1.940000e-53 220
4 TraesCS5D01G138000 chr5B 92.785 3382 136 39 840 4144 238314896 238318246 0.000000e+00 4795
5 TraesCS5D01G138000 chr5B 91.711 3366 151 43 835 4144 242138451 242135158 0.000000e+00 4553
6 TraesCS5D01G138000 chr5B 91.066 638 30 14 1 625 242139325 242138702 0.000000e+00 837
7 TraesCS5D01G138000 chr5B 90.694 634 32 12 1 628 238312263 238312875 0.000000e+00 819
8 TraesCS5D01G138000 chr5B 90.977 133 10 2 714 844 660144710 660144578 1.180000e-40 178
9 TraesCS5D01G138000 chr5B 90.909 132 10 2 714 843 671344590 671344459 4.260000e-40 176
10 TraesCS5D01G138000 chr5B 97.030 101 0 3 618 715 242138551 242138451 2.560000e-37 167
11 TraesCS5D01G138000 chr4A 91.603 131 9 2 714 842 719164034 719163904 3.290000e-41 180
12 TraesCS5D01G138000 chr4A 90.152 132 10 3 714 843 633176219 633176089 7.130000e-38 169
13 TraesCS5D01G138000 chr2B 91.045 134 9 3 711 841 653690514 653690381 1.180000e-40 178
14 TraesCS5D01G138000 chr1A 90.977 133 8 4 713 841 451738540 451738672 4.260000e-40 176
15 TraesCS5D01G138000 chr1A 95.745 47 1 1 3559 3604 13944765 13944719 1.600000e-09 75
16 TraesCS5D01G138000 chr4B 90.840 131 10 2 710 838 413734178 413734308 1.530000e-39 174
17 TraesCS5D01G138000 chr1D 90.909 132 8 4 709 839 2500225 2500353 1.530000e-39 174
18 TraesCS5D01G138000 chr2D 90.226 133 12 1 711 842 5772975 5773107 5.510000e-39 172
19 TraesCS5D01G138000 chr3D 97.368 76 2 0 3561 3636 19210039 19209964 3.360000e-26 130


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 TraesCS5D01G138000 chr5D 219523352 219527498 4146 True 7659.000000 7659 100.000000 1 4147 1 chr5D.!!$R1 4146
1 TraesCS5D01G138000 chr5A 292858441 292862852 4411 True 2090.666667 5291 95.203667 1 4144 3 chr5A.!!$R1 4143
2 TraesCS5D01G138000 chr5B 238312263 238318246 5983 False 2807.000000 4795 91.739500 1 4144 2 chr5B.!!$F1 4143
3 TraesCS5D01G138000 chr5B 242135158 242139325 4167 True 1852.333333 4553 93.269000 1 4144 3 chr5B.!!$R3 4143

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
850 3198 0.108472 GGGAGTACTACAACGGTGCC 60.108 60.0 7.57 0.0 0.00 5.01 F
973 3326 0.249280 GCAAACCAAGAAACCCCACG 60.249 55.0 0.00 0.0 0.00 4.94 F
2581 5034 0.322975 TTCAGCTGACTGGCTCCTTC 59.677 55.0 18.03 0.0 44.59 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2581 5034 1.002134 ACCTTCCTCGGCCATTGTG 60.002 57.895 2.24 0.0 0.00 3.33 R
2915 5369 0.750546 GAGAGATGGGCATTGCAGCA 60.751 55.000 11.39 0.0 35.83 4.41 R
4099 6573 0.532573 CTAGCCGCCTCTTTGACTCA 59.467 55.000 0.00 0.0 0.00 3.41 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
52 54 2.124193 TGATGGGATGCGGCCTTG 60.124 61.111 0.00 0.00 0.00 3.61
77 79 2.215196 GTGGAGTTGCGGTTTCAGTTA 58.785 47.619 0.00 0.00 0.00 2.24
263 275 9.836864 AATCATTGCATATTCTTAGACACAGTA 57.163 29.630 0.00 0.00 0.00 2.74
276 288 8.689061 TCTTAGACACAGTACACTTTAGTCAAA 58.311 33.333 0.00 0.00 0.00 2.69
277 289 8.867112 TTAGACACAGTACACTTTAGTCAAAG 57.133 34.615 0.00 0.00 45.63 2.77
299 311 3.570550 GGTAAGCACCACACCATTAAACA 59.429 43.478 0.00 0.00 45.04 2.83
347 359 9.974980 TTGAAATAGTAGTGCATAATATCGTGA 57.025 29.630 0.00 0.00 0.00 4.35
348 360 9.626045 TGAAATAGTAGTGCATAATATCGTGAG 57.374 33.333 0.00 0.00 0.00 3.51
378 390 9.251792 TCTCATTCATTTTTCAACTGTTCATTG 57.748 29.630 0.00 0.00 0.00 2.82
379 391 8.945481 TCATTCATTTTTCAACTGTTCATTGT 57.055 26.923 0.00 0.00 0.00 2.71
440 452 7.445402 AGTTTGTCTTATTGCACACAGTATTCT 59.555 33.333 0.00 0.00 0.00 2.40
511 528 0.610232 AGTCCAACCAATCAGCTGGC 60.610 55.000 15.13 0.00 40.45 4.85
719 2928 4.202367 ACTTTGGCATATGCTACTACTCCC 60.202 45.833 26.12 7.66 41.70 4.30
720 2929 2.257207 TGGCATATGCTACTACTCCCC 58.743 52.381 26.12 6.95 41.70 4.81
721 2930 2.257207 GGCATATGCTACTACTCCCCA 58.743 52.381 26.12 0.00 41.70 4.96
722 2931 2.234908 GGCATATGCTACTACTCCCCAG 59.765 54.545 26.12 0.00 41.70 4.45
723 2932 2.900546 GCATATGCTACTACTCCCCAGT 59.099 50.000 20.64 0.00 38.21 4.00
724 2933 3.325135 GCATATGCTACTACTCCCCAGTT 59.675 47.826 20.64 0.00 38.21 3.16
725 2934 4.561734 GCATATGCTACTACTCCCCAGTTC 60.562 50.000 20.64 0.00 38.21 3.01
726 2935 2.615986 TGCTACTACTCCCCAGTTCA 57.384 50.000 0.00 0.00 33.62 3.18
727 2936 2.457598 TGCTACTACTCCCCAGTTCAG 58.542 52.381 0.00 0.00 33.62 3.02
728 2937 2.042569 TGCTACTACTCCCCAGTTCAGA 59.957 50.000 0.00 0.00 33.62 3.27
729 2938 3.097614 GCTACTACTCCCCAGTTCAGAA 58.902 50.000 0.00 0.00 33.62 3.02
730 2939 3.514309 GCTACTACTCCCCAGTTCAGAAA 59.486 47.826 0.00 0.00 33.62 2.52
731 2940 4.162509 GCTACTACTCCCCAGTTCAGAAAT 59.837 45.833 0.00 0.00 33.62 2.17
732 2941 5.363005 GCTACTACTCCCCAGTTCAGAAATA 59.637 44.000 0.00 0.00 33.62 1.40
733 2942 5.678955 ACTACTCCCCAGTTCAGAAATAC 57.321 43.478 0.00 0.00 33.62 1.89
734 2943 5.342866 ACTACTCCCCAGTTCAGAAATACT 58.657 41.667 0.00 0.00 33.62 2.12
735 2944 5.785940 ACTACTCCCCAGTTCAGAAATACTT 59.214 40.000 0.00 0.00 33.62 2.24
736 2945 4.911390 ACTCCCCAGTTCAGAAATACTTG 58.089 43.478 0.00 0.00 0.00 3.16
737 2946 4.351111 ACTCCCCAGTTCAGAAATACTTGT 59.649 41.667 0.00 0.00 0.00 3.16
738 2947 4.906618 TCCCCAGTTCAGAAATACTTGTC 58.093 43.478 0.00 0.00 0.00 3.18
739 2948 4.349636 TCCCCAGTTCAGAAATACTTGTCA 59.650 41.667 0.00 0.00 0.00 3.58
740 2949 5.014123 TCCCCAGTTCAGAAATACTTGTCAT 59.986 40.000 0.00 0.00 0.00 3.06
741 2950 5.711976 CCCCAGTTCAGAAATACTTGTCATT 59.288 40.000 0.00 0.00 0.00 2.57
742 2951 6.884295 CCCCAGTTCAGAAATACTTGTCATTA 59.116 38.462 0.00 0.00 0.00 1.90
743 2952 7.393234 CCCCAGTTCAGAAATACTTGTCATTAA 59.607 37.037 0.00 0.00 0.00 1.40
744 2953 8.792633 CCCAGTTCAGAAATACTTGTCATTAAA 58.207 33.333 0.00 0.00 0.00 1.52
824 3033 8.826546 ATTCATTTCGATGACAAGTATTTTCG 57.173 30.769 0.00 0.00 0.00 3.46
825 3034 6.771076 TCATTTCGATGACAAGTATTTTCGG 58.229 36.000 0.00 0.00 0.00 4.30
826 3035 6.592220 TCATTTCGATGACAAGTATTTTCGGA 59.408 34.615 0.00 0.00 0.00 4.55
827 3036 5.773239 TTCGATGACAAGTATTTTCGGAC 57.227 39.130 0.00 0.00 0.00 4.79
828 3037 3.855379 TCGATGACAAGTATTTTCGGACG 59.145 43.478 0.00 0.00 0.00 4.79
829 3038 3.000078 CGATGACAAGTATTTTCGGACGG 60.000 47.826 0.00 0.00 0.00 4.79
830 3039 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
831 3040 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
832 3041 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
833 3042 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
834 3043 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
845 3193 1.399791 GACGGAGGGAGTACTACAACG 59.600 57.143 7.57 10.31 0.00 4.10
850 3198 0.108472 GGGAGTACTACAACGGTGCC 60.108 60.000 7.57 0.00 0.00 5.01
920 3268 2.158871 ACTAGAGTAGGCGTCTCCTCTG 60.159 54.545 21.11 13.32 43.20 3.35
926 3274 2.347322 GGCGTCTCCTCTGCTCTGT 61.347 63.158 0.00 0.00 0.00 3.41
927 3275 1.138671 GCGTCTCCTCTGCTCTGTC 59.861 63.158 0.00 0.00 0.00 3.51
928 3276 1.312371 GCGTCTCCTCTGCTCTGTCT 61.312 60.000 0.00 0.00 0.00 3.41
970 3323 0.392706 CCAGCAAACCAAGAAACCCC 59.607 55.000 0.00 0.00 0.00 4.95
973 3326 0.249280 GCAAACCAAGAAACCCCACG 60.249 55.000 0.00 0.00 0.00 4.94
1241 3603 3.028366 GCGAGCAGGAAAAGCCGAC 62.028 63.158 0.00 0.00 43.43 4.79
1391 3759 1.047034 GCCACCCTAGGTCCGTATGT 61.047 60.000 8.29 0.00 31.02 2.29
1522 3890 2.751688 GGTCCAGTTTGGGCGGTA 59.248 61.111 0.00 0.00 44.85 4.02
1523 3891 1.376812 GGTCCAGTTTGGGCGGTAG 60.377 63.158 0.00 0.00 44.85 3.18
1524 3892 1.373812 GTCCAGTTTGGGCGGTAGT 59.626 57.895 0.00 0.00 38.32 2.73
1740 4135 5.035443 CGACCTGATCCGTTAGAAAGTTAG 58.965 45.833 0.00 0.00 0.00 2.34
1744 4139 6.096564 ACCTGATCCGTTAGAAAGTTAGTAGG 59.903 42.308 0.00 0.00 0.00 3.18
1994 4411 8.822805 ACTTTTCCCTTACATTGTGATCTAGTA 58.177 33.333 0.00 0.00 0.00 1.82
2000 4417 4.576216 ACATTGTGATCTAGTAGCGGAG 57.424 45.455 0.00 0.00 0.00 4.63
2083 4500 1.528586 GCGCGCATAATGTCATTCTCT 59.471 47.619 29.10 0.00 0.00 3.10
2134 4551 1.229625 TGCCAGTGGGACCATCTCT 60.230 57.895 12.15 0.00 35.59 3.10
2293 4719 5.468540 TGCGTGCCTATGTATTAAGAGAT 57.531 39.130 0.00 0.00 0.00 2.75
2301 4727 8.841300 TGCCTATGTATTAAGAGATAGATAGCG 58.159 37.037 14.13 0.96 35.83 4.26
2311 4737 6.080969 AGAGATAGATAGCGATCCCCTAAA 57.919 41.667 2.88 0.00 31.81 1.85
2399 4828 1.414919 TGTCCGGAGTAGTTTGCACTT 59.585 47.619 3.06 0.00 34.06 3.16
2454 4907 4.086706 ACTTGGCTAATGGCTATGTACC 57.913 45.455 0.00 0.00 37.85 3.34
2507 4960 7.733402 TTTAACTGGTGTATTGTGTCTTACC 57.267 36.000 0.00 0.00 0.00 2.85
2581 5034 0.322975 TTCAGCTGACTGGCTCCTTC 59.677 55.000 18.03 0.00 44.59 3.46
2711 5164 3.401342 TGCCACTCCTATCCAGGTATAGA 59.599 47.826 7.25 0.00 43.18 1.98
2759 5212 7.495606 ACACCTTTTGAATTTTGAAACCATCTC 59.504 33.333 0.00 0.00 0.00 2.75
2850 5304 1.703014 GCATCAGAGGAGGATGGGCA 61.703 60.000 0.00 0.00 41.87 5.36
2877 5331 1.375396 CAACCATCTGCCGTTCCGA 60.375 57.895 0.00 0.00 0.00 4.55
2915 5369 2.681778 CCTCCTCCGGTGCTCACT 60.682 66.667 0.00 0.00 0.00 3.41
3230 5687 5.775701 TGGGTTCTATCCTAATCAGCTAGAC 59.224 44.000 0.00 0.00 0.00 2.59
3388 5845 0.676466 TCTGCCATTGCTGTAACGGG 60.676 55.000 0.00 0.00 38.71 5.28
3422 5882 7.392418 AGTACTTTAATCAGTGGTTACCTTCC 58.608 38.462 2.07 0.00 0.00 3.46
3503 5963 6.109320 ACGTGTGTTACTTTTGATTTCGAA 57.891 33.333 0.00 0.00 0.00 3.71
3550 6022 3.235200 AGCCTGTTTCTAGAGTCACTGT 58.765 45.455 0.00 0.00 0.00 3.55
3574 6046 4.255301 TCCTGTTGACGTGTGTTACTTTT 58.745 39.130 0.00 0.00 0.00 2.27
3631 6103 1.250840 GCACTTAGGGCCTGTTTGGG 61.251 60.000 18.53 5.54 36.00 4.12
3746 6218 2.051518 GGGCGCCATCCAAACATGA 61.052 57.895 30.85 0.00 0.00 3.07
3843 6316 1.301423 TACAACGTTGTTGTGGGCTC 58.699 50.000 36.26 0.00 42.35 4.70
3948 6421 2.941720 GGAAGCTTAACTCTCCAGCATG 59.058 50.000 0.00 0.00 35.88 4.06
3961 6434 4.164030 TCTCCAGCATGTTGGTATACACAT 59.836 41.667 25.75 4.19 39.35 3.21
3964 6437 6.418946 TCCAGCATGTTGGTATACACATTTA 58.581 36.000 25.75 1.52 39.35 1.40
3973 6446 9.684448 TGTTGGTATACACATTTACACATTTTG 57.316 29.630 5.01 0.00 0.00 2.44
4014 6487 1.672881 GCATAAGATGTGCTCGGCTTT 59.327 47.619 0.00 0.00 39.45 3.51
4015 6488 2.098117 GCATAAGATGTGCTCGGCTTTT 59.902 45.455 0.00 0.00 39.45 2.27
4057 6530 7.224557 GGAAACATGCAAAGTAGTCAAATGTTT 59.775 33.333 9.83 9.83 44.84 2.83
4061 6534 9.248291 ACATGCAAAGTAGTCAAATGTTTTTAG 57.752 29.630 0.00 0.00 0.00 1.85
4144 6618 6.208204 GCTCCTTCATGCCATAAAAGATGTAT 59.792 38.462 1.61 0.00 0.00 2.29
4145 6619 7.514784 TCCTTCATGCCATAAAAGATGTATG 57.485 36.000 1.61 0.00 0.00 2.39
4146 6620 7.062322 TCCTTCATGCCATAAAAGATGTATGT 58.938 34.615 1.61 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 54 0.893727 AAACCGCAACTCCACCATCC 60.894 55.000 0.00 0.00 0.00 3.51
77 79 1.494721 CACCCCTACCACTGCCATTAT 59.505 52.381 0.00 0.00 0.00 1.28
205 217 2.900122 ATGCAGATTTACACGCACAC 57.100 45.000 0.00 0.00 37.17 3.82
206 218 2.668001 GCAATGCAGATTTACACGCACA 60.668 45.455 0.00 0.00 37.17 4.57
207 219 1.913403 GCAATGCAGATTTACACGCAC 59.087 47.619 0.00 0.00 37.17 5.34
208 220 1.135431 GGCAATGCAGATTTACACGCA 60.135 47.619 7.79 0.00 39.01 5.24
209 221 1.135431 TGGCAATGCAGATTTACACGC 60.135 47.619 7.79 0.00 0.00 5.34
210 222 2.162208 AGTGGCAATGCAGATTTACACG 59.838 45.455 7.79 0.00 33.67 4.49
211 223 3.191162 TCAGTGGCAATGCAGATTTACAC 59.809 43.478 10.58 3.95 0.00 2.90
257 269 7.307219 GCTTACCTTTGACTAAAGTGTACTGTG 60.307 40.741 0.00 0.00 41.36 3.66
261 273 6.073385 GGTGCTTACCTTTGACTAAAGTGTAC 60.073 42.308 0.00 0.00 41.36 2.90
263 275 4.820173 GGTGCTTACCTTTGACTAAAGTGT 59.180 41.667 0.00 0.00 41.36 3.55
276 288 3.799432 TTAATGGTGTGGTGCTTACCT 57.201 42.857 0.00 0.00 35.51 3.08
277 289 3.570550 TGTTTAATGGTGTGGTGCTTACC 59.429 43.478 0.00 0.00 35.05 2.85
299 311 8.220755 TCAAACAGCTTAAACTATGAAACTGT 57.779 30.769 0.00 0.00 38.70 3.55
346 358 7.917505 ACAGTTGAAAAATGAATGAGACAACTC 59.082 33.333 0.00 0.00 46.37 3.01
347 359 7.775120 ACAGTTGAAAAATGAATGAGACAACT 58.225 30.769 0.00 0.00 46.37 3.16
348 360 7.992180 ACAGTTGAAAAATGAATGAGACAAC 57.008 32.000 0.00 0.00 46.37 3.32
463 480 6.659745 AGTGTACTGGAGTATACAACAACA 57.340 37.500 14.04 3.44 42.66 3.33
464 481 7.958053 AAAGTGTACTGGAGTATACAACAAC 57.042 36.000 14.04 0.99 42.66 3.32
465 482 7.041644 GCAAAAGTGTACTGGAGTATACAACAA 60.042 37.037 14.04 0.00 42.66 2.83
511 528 1.203523 CGACCTCTCTCCTTTGACCAG 59.796 57.143 0.00 0.00 0.00 4.00
798 3007 9.914923 CGAAAATACTTGTCATCGAAATGAATA 57.085 29.630 0.00 0.00 43.42 1.75
799 3008 7.910162 CCGAAAATACTTGTCATCGAAATGAAT 59.090 33.333 0.00 0.00 43.42 2.57
800 3009 7.118535 TCCGAAAATACTTGTCATCGAAATGAA 59.881 33.333 0.00 0.00 43.42 2.57
801 3010 6.592220 TCCGAAAATACTTGTCATCGAAATGA 59.408 34.615 0.00 0.00 39.63 2.57
802 3011 6.682863 GTCCGAAAATACTTGTCATCGAAATG 59.317 38.462 0.00 0.00 32.38 2.32
803 3012 6.455113 CGTCCGAAAATACTTGTCATCGAAAT 60.455 38.462 0.00 0.00 32.38 2.17
804 3013 5.164031 CGTCCGAAAATACTTGTCATCGAAA 60.164 40.000 0.00 0.00 32.38 3.46
805 3014 4.325204 CGTCCGAAAATACTTGTCATCGAA 59.675 41.667 0.00 0.00 32.38 3.71
806 3015 3.855379 CGTCCGAAAATACTTGTCATCGA 59.145 43.478 0.00 0.00 32.38 3.59
807 3016 3.000078 CCGTCCGAAAATACTTGTCATCG 60.000 47.826 0.00 0.00 0.00 3.84
808 3017 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
809 3018 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
810 3019 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
811 3020 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
812 3021 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
813 3022 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
814 3023 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
815 3024 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
816 3025 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
817 3026 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
818 3027 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
819 3028 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
820 3029 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
821 3030 0.911769 TAGTACTCCCTCCGTCCGAA 59.088 55.000 0.00 0.00 0.00 4.30
822 3031 0.179000 GTAGTACTCCCTCCGTCCGA 59.821 60.000 0.00 0.00 0.00 4.55
823 3032 0.107508 TGTAGTACTCCCTCCGTCCG 60.108 60.000 0.00 0.00 0.00 4.79
824 3033 1.747924 GTTGTAGTACTCCCTCCGTCC 59.252 57.143 0.00 0.00 0.00 4.79
825 3034 1.399791 CGTTGTAGTACTCCCTCCGTC 59.600 57.143 0.00 0.00 0.00 4.79
826 3035 1.457346 CGTTGTAGTACTCCCTCCGT 58.543 55.000 0.00 0.00 0.00 4.69
827 3036 0.737219 CCGTTGTAGTACTCCCTCCG 59.263 60.000 0.00 0.00 0.00 4.63
828 3037 1.475682 CACCGTTGTAGTACTCCCTCC 59.524 57.143 0.00 0.00 0.00 4.30
829 3038 1.135170 GCACCGTTGTAGTACTCCCTC 60.135 57.143 0.00 0.00 0.00 4.30
830 3039 0.893447 GCACCGTTGTAGTACTCCCT 59.107 55.000 0.00 0.00 0.00 4.20
831 3040 0.108472 GGCACCGTTGTAGTACTCCC 60.108 60.000 0.00 0.00 0.00 4.30
832 3041 0.604578 TGGCACCGTTGTAGTACTCC 59.395 55.000 0.00 0.00 0.00 3.85
833 3042 1.271656 AGTGGCACCGTTGTAGTACTC 59.728 52.381 15.27 0.00 0.00 2.59
834 3043 1.000506 CAGTGGCACCGTTGTAGTACT 59.999 52.381 15.27 0.00 0.00 2.73
850 3198 2.185350 CTAGCCGAGGCACCAGTG 59.815 66.667 17.18 0.00 44.88 3.66
920 3268 2.734276 AACGAGGAAGAAGACAGAGC 57.266 50.000 0.00 0.00 0.00 4.09
970 3323 3.047877 GGTGGCCGGTCTTTCGTG 61.048 66.667 7.97 0.00 0.00 4.35
973 3326 4.735358 GGGGGTGGCCGGTCTTTC 62.735 72.222 7.97 0.00 0.00 2.62
1220 3582 3.804193 GCTTTTCCTGCTCGCCGG 61.804 66.667 0.00 0.00 0.00 6.13
1740 4135 9.903682 TTAGCATATAAGTACGAAATCACCTAC 57.096 33.333 0.00 0.00 0.00 3.18
1744 4139 8.813643 AGGTTAGCATATAAGTACGAAATCAC 57.186 34.615 0.00 0.00 0.00 3.06
1994 4411 1.262640 AATTACGACACCCCTCCGCT 61.263 55.000 0.00 0.00 0.00 5.52
2000 4417 3.816523 TGTTTCTCAAATTACGACACCCC 59.183 43.478 0.00 0.00 0.00 4.95
2083 4500 2.680352 GAGCGTGGACCCCTCTGA 60.680 66.667 0.00 0.00 0.00 3.27
2134 4551 3.591196 GGCTTGTTGAATGCCACATTA 57.409 42.857 0.00 0.00 45.46 1.90
2253 4676 1.074775 AACCCTCTTGCGCATTCCA 59.925 52.632 12.75 0.00 0.00 3.53
2311 4737 4.819630 TGTTCGGTTGCTATCTGTCTTTTT 59.180 37.500 0.00 0.00 0.00 1.94
2330 4759 8.103924 CGCAATAGCAATTCTTGTAAAATGTTC 58.896 33.333 0.00 0.00 42.27 3.18
2355 4784 7.592533 ACAAATGAAACATTCAACAGAGATTCG 59.407 33.333 0.00 0.00 43.95 3.34
2507 4960 7.060518 TGCACGAAATATTTTCAGTTTGAATCG 59.939 33.333 1.43 8.04 37.39 3.34
2581 5034 1.002134 ACCTTCCTCGGCCATTGTG 60.002 57.895 2.24 0.00 0.00 3.33
2759 5212 4.918583 GGTCTGTGTTAGAGAACGAAGAAG 59.081 45.833 0.00 0.00 38.51 2.85
2915 5369 0.750546 GAGAGATGGGCATTGCAGCA 60.751 55.000 11.39 0.00 35.83 4.41
2987 5441 1.203038 TCCACATTGGCATGGACTTGT 60.203 47.619 4.20 0.00 40.17 3.16
3230 5687 2.034687 CCCCAACTGGACTGCTGG 59.965 66.667 0.00 0.00 37.39 4.85
3388 5845 9.702494 ACCACTGATTAAAGTACTACAAGTAAC 57.298 33.333 0.00 0.00 31.62 2.50
3422 5882 5.124138 AGACTACGTTCAGACATGGACTTAG 59.876 44.000 0.00 0.10 40.82 2.18
3529 6001 3.235200 ACAGTGACTCTAGAAACAGGCT 58.765 45.455 0.00 0.00 0.00 4.58
3550 6022 2.691526 AGTAACACACGTCAACAGGAGA 59.308 45.455 0.00 0.00 0.00 3.71
3631 6103 2.033194 GGTGGTTACTGGCTGCGAC 61.033 63.158 0.00 0.00 0.00 5.19
3746 6218 6.183360 GGTCTTTCCCTTCTCGATATTAAGGT 60.183 42.308 12.35 0.00 38.49 3.50
3843 6316 3.557595 GCTTCTTCATGGATAGAACCACG 59.442 47.826 0.00 0.00 43.03 4.94
3948 6421 9.685828 ACAAAATGTGTAAATGTGTATACCAAC 57.314 29.630 0.00 0.00 39.29 3.77
4031 6504 6.215845 ACATTTGACTACTTTGCATGTTTCC 58.784 36.000 0.00 0.00 0.00 3.13
4061 6534 7.274468 CGGTTGCTATATGTTAGATGTCATCTC 59.726 40.741 18.74 6.60 40.76 2.75
4085 6559 5.582269 TCTTTGACTCAGCAATTCTATTCGG 59.418 40.000 0.00 0.00 0.00 4.30
4099 6573 0.532573 CTAGCCGCCTCTTTGACTCA 59.467 55.000 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.