Multiple sequence alignment - TraesCS6D01G297500

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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 TraesCS6D01G297500 chr6D 100.000 4634 0 0 1 4634 408650345 408654978 0.000000e+00 8558
1 TraesCS6D01G297500 chr6D 81.913 669 83 15 139 789 450820720 450820072 8.830000e-147 531
2 TraesCS6D01G297500 chr6B 95.119 4651 131 31 1 4601 613110955 613115559 0.000000e+00 7243
3 TraesCS6D01G297500 chr6A 95.680 3727 76 32 671 4369 554459214 554462883 0.000000e+00 5912
4 TraesCS6D01G297500 chr6A 94.068 590 28 7 1 588 554458639 554459223 0.000000e+00 889
5 TraesCS6D01G297500 chr6A 95.726 234 9 1 4368 4601 554462948 554463180 4.380000e-100 375
6 TraesCS6D01G297500 chr6A 78.442 552 56 30 384 911 596341119 596340607 7.540000e-78 302
7 TraesCS6D01G297500 chr6A 94.017 117 6 1 237 353 596341232 596341117 4.770000e-40 176
8 TraesCS6D01G297500 chr3D 81.796 401 48 17 144 536 335628992 335628609 3.480000e-81 313
9 TraesCS6D01G297500 chr3D 91.209 91 7 1 4013 4102 237809572 237809662 6.300000e-24 122
10 TraesCS6D01G297500 chr3A 81.297 401 50 17 144 536 453601966 453601583 7.540000e-78 302
11 TraesCS6D01G297500 chr3B 81.095 402 49 20 144 536 434048881 434048498 3.510000e-76 296
12 TraesCS6D01G297500 chr3B 91.209 91 7 1 4013 4102 345690130 345690220 6.300000e-24 122
13 TraesCS6D01G297500 chr1D 89.899 99 6 4 4011 4108 320590034 320589939 1.750000e-24 124
14 TraesCS6D01G297500 chr1D 89.011 91 9 1 4013 4102 319515834 319515744 1.360000e-20 111
15 TraesCS6D01G297500 chr4D 91.566 83 7 0 4014 4096 34699143 34699225 1.050000e-21 115
16 TraesCS6D01G297500 chr7D 90.000 80 7 1 4017 4096 78795082 78795160 8.200000e-18 102
17 TraesCS6D01G297500 chr5A 90.667 75 5 1 4019 4091 25069854 25069780 1.060000e-16 99


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 TraesCS6D01G297500 chr6D 408650345 408654978 4633 False 8558 8558 100.0000 1 4634 1 chr6D.!!$F1 4633
1 TraesCS6D01G297500 chr6D 450820072 450820720 648 True 531 531 81.9130 139 789 1 chr6D.!!$R1 650
2 TraesCS6D01G297500 chr6B 613110955 613115559 4604 False 7243 7243 95.1190 1 4601 1 chr6B.!!$F1 4600
3 TraesCS6D01G297500 chr6A 554458639 554463180 4541 False 2392 5912 95.1580 1 4601 3 chr6A.!!$F1 4600
4 TraesCS6D01G297500 chr6A 596340607 596341232 625 True 239 302 86.2295 237 911 2 chr6A.!!$R1 674

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
851 984 0.250081 CTCCATCCCTAAGCTTCGGC 60.250 60.0 11.53 0.0 42.17 5.54 F
1713 1893 0.041839 GCAACCATATTCTCGCGCTG 60.042 55.0 5.56 0.0 0.00 5.18 F
2263 2443 0.106769 TGACAAGGTTTGCCAGCTGA 60.107 50.0 17.39 0.0 37.19 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2196 2376 0.911769 GACCATCCATGTCAGGGTCA 59.088 55.000 16.85 0.00 45.70 4.02 R
2976 3156 1.568597 TCGATCCCCATGGGTGAAAAT 59.431 47.619 29.33 13.85 44.74 1.82 R
3853 4033 2.981081 TCCCATGGTGATATGATCTGCA 59.019 45.455 11.73 0.00 0.00 4.41 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
43 44 6.690957 TCAAAAAGCGTCTTGTGTTTTGATAG 59.309 34.615 5.92 0.00 41.07 2.08
63 64 6.943146 TGATAGATAGGGAGTAGTAAGCAGTG 59.057 42.308 0.00 0.00 0.00 3.66
80 81 1.071299 TGCATCGACTTGCTGTGGT 59.929 52.632 11.96 0.00 43.18 4.16
82 83 1.639298 GCATCGACTTGCTGTGGTCC 61.639 60.000 3.74 0.00 39.57 4.46
132 133 2.879233 GCGGTGAGAACAGGGGACA 61.879 63.158 0.00 0.00 0.00 4.02
172 173 3.244345 TGAACAACGAGACAACGTGAATC 59.756 43.478 0.00 0.00 45.83 2.52
173 174 2.132762 ACAACGAGACAACGTGAATCC 58.867 47.619 0.00 0.00 45.83 3.01
201 202 2.816672 CAGAGCAAAAGAAAGGAGACCC 59.183 50.000 0.00 0.00 0.00 4.46
257 258 0.387750 CTCAAGCCCTTTCGCAAAGC 60.388 55.000 3.86 0.00 37.18 3.51
370 371 6.938030 TCAACATAACCGGTCTTAATCAAGTT 59.062 34.615 8.04 0.21 33.20 2.66
589 606 0.399454 CATCAGGGGATGGCCTAGTG 59.601 60.000 3.32 0.00 45.84 2.74
596 613 2.237392 GGGGATGGCCTAGTGATGATAC 59.763 54.545 3.32 0.00 0.00 2.24
597 614 2.093973 GGGATGGCCTAGTGATGATACG 60.094 54.545 3.32 0.00 0.00 3.06
599 616 3.367498 GGATGGCCTAGTGATGATACGAC 60.367 52.174 3.32 0.00 0.00 4.34
600 617 2.661718 TGGCCTAGTGATGATACGACA 58.338 47.619 3.32 0.00 0.00 4.35
614 636 0.311165 ACGACAACAGAGAGACACGG 59.689 55.000 0.00 0.00 0.00 4.94
845 978 2.839836 GCCCCTCCATCCCTAAGC 59.160 66.667 0.00 0.00 0.00 3.09
846 979 1.772156 GCCCCTCCATCCCTAAGCT 60.772 63.158 0.00 0.00 0.00 3.74
847 980 1.356494 GCCCCTCCATCCCTAAGCTT 61.356 60.000 3.48 3.48 0.00 3.74
848 981 0.767998 CCCCTCCATCCCTAAGCTTC 59.232 60.000 0.00 0.00 0.00 3.86
849 982 0.394565 CCCTCCATCCCTAAGCTTCG 59.605 60.000 0.00 0.00 0.00 3.79
850 983 0.394565 CCTCCATCCCTAAGCTTCGG 59.605 60.000 10.06 10.06 0.00 4.30
851 984 0.250081 CTCCATCCCTAAGCTTCGGC 60.250 60.000 11.53 0.00 42.17 5.54
911 1049 4.629200 CAGGTGAAGCTTCTATGTTCAGAC 59.371 45.833 26.09 12.71 30.94 3.51
913 1051 4.867608 GGTGAAGCTTCTATGTTCAGACTC 59.132 45.833 26.09 4.72 30.94 3.36
917 1062 7.172361 GTGAAGCTTCTATGTTCAGACTCTTTT 59.828 37.037 26.09 0.00 30.94 2.27
954 1099 1.825474 GTTCAGAGATGAGGGAACGGA 59.175 52.381 0.00 0.00 31.48 4.69
994 1139 0.408700 ACGGGGAGAGGTGAAGTACT 59.591 55.000 0.00 0.00 0.00 2.73
1018 1163 5.918011 TCTTTCATGCATGTTTTACGGAAAC 59.082 36.000 25.43 0.68 46.28 2.78
1036 1190 1.379916 CACATTCCACAGGGCCAGA 59.620 57.895 6.18 0.00 0.00 3.86
1659 1839 2.734591 GCCGTCATCCCGCTCATA 59.265 61.111 0.00 0.00 0.00 2.15
1713 1893 0.041839 GCAACCATATTCTCGCGCTG 60.042 55.000 5.56 0.00 0.00 5.18
2263 2443 0.106769 TGACAAGGTTTGCCAGCTGA 60.107 50.000 17.39 0.00 37.19 4.26
3481 3661 1.270412 TGTACGGCCTAATAATGCGGG 60.270 52.381 0.00 0.00 32.68 6.13
3717 3897 3.254166 AGTTTGCAAGTCCAACATAGCTG 59.746 43.478 0.00 0.00 0.00 4.24
3724 3904 0.253044 TCCAACATAGCTGCTGACCC 59.747 55.000 13.43 0.00 0.00 4.46
3845 4025 6.150641 GTCATTGAAGATCATATCACCATGGG 59.849 42.308 18.09 5.22 0.00 4.00
3846 4026 5.651612 TTGAAGATCATATCACCATGGGT 57.348 39.130 18.09 4.15 35.62 4.51
3847 4027 6.762077 TTGAAGATCATATCACCATGGGTA 57.238 37.500 18.09 6.46 32.11 3.69
3848 4028 6.364568 TGAAGATCATATCACCATGGGTAG 57.635 41.667 18.09 5.69 32.11 3.18
3849 4029 5.846164 TGAAGATCATATCACCATGGGTAGT 59.154 40.000 18.09 1.42 32.11 2.73
3850 4030 6.014242 TGAAGATCATATCACCATGGGTAGTC 60.014 42.308 18.09 3.17 32.11 2.59
3851 4031 5.406163 AGATCATATCACCATGGGTAGTCA 58.594 41.667 18.09 0.00 32.11 3.41
3852 4032 6.028131 AGATCATATCACCATGGGTAGTCAT 58.972 40.000 18.09 0.00 32.11 3.06
3853 4033 6.503217 AGATCATATCACCATGGGTAGTCATT 59.497 38.462 18.09 0.00 32.11 2.57
3854 4034 5.868454 TCATATCACCATGGGTAGTCATTG 58.132 41.667 18.09 2.24 32.11 2.82
3855 4035 2.418368 TCACCATGGGTAGTCATTGC 57.582 50.000 18.09 0.00 32.11 3.56
3856 4036 1.632920 TCACCATGGGTAGTCATTGCA 59.367 47.619 18.09 0.00 32.11 4.08
3857 4037 2.019249 CACCATGGGTAGTCATTGCAG 58.981 52.381 18.09 0.00 32.11 4.41
3858 4038 1.915489 ACCATGGGTAGTCATTGCAGA 59.085 47.619 18.09 0.00 32.11 4.26
3859 4039 2.511218 ACCATGGGTAGTCATTGCAGAT 59.489 45.455 18.09 0.00 32.11 2.90
3860 4040 3.144506 CCATGGGTAGTCATTGCAGATC 58.855 50.000 2.85 0.00 0.00 2.75
3861 4041 3.434024 CCATGGGTAGTCATTGCAGATCA 60.434 47.826 2.85 0.00 0.00 2.92
3862 4042 4.395625 CATGGGTAGTCATTGCAGATCAT 58.604 43.478 0.00 0.00 0.00 2.45
3863 4043 5.513614 CCATGGGTAGTCATTGCAGATCATA 60.514 44.000 2.85 0.00 0.00 2.15
3864 4044 5.830799 TGGGTAGTCATTGCAGATCATAT 57.169 39.130 0.00 0.00 0.00 1.78
3865 4045 5.798132 TGGGTAGTCATTGCAGATCATATC 58.202 41.667 0.00 0.00 0.00 1.63
3866 4046 5.307716 TGGGTAGTCATTGCAGATCATATCA 59.692 40.000 0.00 0.00 0.00 2.15
3867 4047 5.641209 GGGTAGTCATTGCAGATCATATCAC 59.359 44.000 0.00 0.00 0.00 3.06
3868 4048 5.641209 GGTAGTCATTGCAGATCATATCACC 59.359 44.000 0.00 0.00 0.00 4.02
3869 4049 5.300411 AGTCATTGCAGATCATATCACCA 57.700 39.130 0.00 0.00 0.00 4.17
3870 4050 5.877491 AGTCATTGCAGATCATATCACCAT 58.123 37.500 0.00 0.00 0.00 3.55
3871 4051 5.705905 AGTCATTGCAGATCATATCACCATG 59.294 40.000 0.00 0.00 0.00 3.66
3872 4052 5.007682 TCATTGCAGATCATATCACCATGG 58.992 41.667 11.19 11.19 0.00 3.66
3930 4110 4.461081 AGACTTGATACACCTCTCTGACAC 59.539 45.833 0.00 0.00 0.00 3.67
3957 4137 5.404096 TGTGATGACATTGTGATGCATTTC 58.596 37.500 0.00 0.00 36.72 2.17
4024 4207 5.221843 TGTGGTTATATGGTATTCCCTCTGC 60.222 44.000 0.00 0.00 0.00 4.26
4040 4223 3.820467 CCTCTGCACCAAAATGTAAGACA 59.180 43.478 0.00 0.00 0.00 3.41
4164 4351 4.264460 TCTTGTTTTGTTGGTGCTTTGT 57.736 36.364 0.00 0.00 0.00 2.83
4169 4356 5.514279 TGTTTTGTTGGTGCTTTGTTTTTG 58.486 33.333 0.00 0.00 0.00 2.44
4203 4390 5.065090 TCAGTCTCATTGATTAATTGTGCGG 59.935 40.000 0.00 0.00 0.00 5.69
4285 4472 3.999001 TCATTGTCTTCAGCAAGCTGTAG 59.001 43.478 20.34 19.58 43.96 2.74
4299 4486 1.410882 GCTGTAGGGTAGAGGCTCTTG 59.589 57.143 24.13 4.54 0.00 3.02
4463 4717 6.866770 GCAGGTAACCAATCTTTTACTTTTCC 59.133 38.462 0.00 0.00 37.17 3.13
4477 4731 9.813080 CTTTTACTTTTCCGAACTTGATTCTAG 57.187 33.333 0.00 0.00 34.88 2.43
4479 4733 6.787085 ACTTTTCCGAACTTGATTCTAGTG 57.213 37.500 1.47 0.00 34.88 2.74
4495 4752 7.342026 TGATTCTAGTGAAATGCAGTACTCCTA 59.658 37.037 0.00 0.00 35.63 2.94
4605 4862 9.771534 AGAGCCTTTTGATTATCTAACTGTATC 57.228 33.333 0.00 0.00 0.00 2.24
4606 4863 9.771534 GAGCCTTTTGATTATCTAACTGTATCT 57.228 33.333 0.00 0.00 0.00 1.98
4630 4887 9.973661 TCTTGATAAAATTACTCCAATTCAGGA 57.026 29.630 0.00 0.00 35.74 3.86
4632 4889 8.519799 TGATAAAATTACTCCAATTCAGGACC 57.480 34.615 0.00 0.00 35.74 4.46
4633 4890 8.336235 TGATAAAATTACTCCAATTCAGGACCT 58.664 33.333 0.00 0.00 35.74 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 5.298276 ACAAGACGCTTTTTGATACAAAGGA 59.702 36.000 0.16 0.00 32.66 3.36
43 44 3.637229 TGCACTGCTTACTACTCCCTATC 59.363 47.826 1.98 0.00 0.00 2.08
63 64 1.639298 GGACCACAGCAAGTCGATGC 61.639 60.000 2.71 2.71 46.78 3.91
80 81 4.713553 ACAATATCATTGGCACATACGGA 58.286 39.130 4.09 0.00 39.30 4.69
82 83 9.462174 AATTTAACAATATCATTGGCACATACG 57.538 29.630 4.09 0.00 39.30 3.06
172 173 4.531332 CTTTCTTTTGCTCTGTTCTTCGG 58.469 43.478 0.00 0.00 0.00 4.30
173 174 4.273480 TCCTTTCTTTTGCTCTGTTCTTCG 59.727 41.667 0.00 0.00 0.00 3.79
201 202 0.603707 TGCTGTTGCGGAGGAAGAAG 60.604 55.000 0.00 0.00 39.56 2.85
257 258 0.622665 AGGGCATGGAAGGTGAAGAG 59.377 55.000 0.00 0.00 0.00 2.85
396 399 5.335269 GCTAGAGCAGGTTTTCTTTTCTTCC 60.335 44.000 0.00 0.00 41.59 3.46
450 456 7.487189 GTCTCATGCAATTCAAAGGATTTACAG 59.513 37.037 0.00 0.00 35.03 2.74
539 556 1.028868 GCTTGAGGCCACTGATCACC 61.029 60.000 5.01 0.00 34.27 4.02
569 586 1.377994 CTAGGCCATCCCCTGATGC 59.622 63.158 5.01 0.00 45.86 3.91
589 606 5.031578 GTGTCTCTCTGTTGTCGTATCATC 58.968 45.833 0.00 0.00 0.00 2.92
596 613 0.591659 TCCGTGTCTCTCTGTTGTCG 59.408 55.000 0.00 0.00 0.00 4.35
597 614 3.246619 GAATCCGTGTCTCTCTGTTGTC 58.753 50.000 0.00 0.00 0.00 3.18
599 616 2.254459 CGAATCCGTGTCTCTCTGTTG 58.746 52.381 0.00 0.00 0.00 3.33
600 617 2.638556 CGAATCCGTGTCTCTCTGTT 57.361 50.000 0.00 0.00 0.00 3.16
614 636 2.159282 TCTCCGTTCCTGCTTACGAATC 60.159 50.000 0.00 0.00 40.03 2.52
630 652 1.571215 CCCCCGTTCGTTTTTCTCCG 61.571 60.000 0.00 0.00 0.00 4.63
917 1062 4.452795 TCTGAACACGTGTCTCAAACAAAA 59.547 37.500 23.61 3.68 40.31 2.44
921 1066 3.444916 TCTCTGAACACGTGTCTCAAAC 58.555 45.455 23.61 9.83 0.00 2.93
954 1099 0.750546 TCCGTGCCTAGTAGACGCAT 60.751 55.000 0.00 0.00 34.51 4.73
979 1124 5.415221 CATGAAAGAGTACTTCACCTCTCC 58.585 45.833 0.00 0.00 35.05 3.71
987 1132 7.478667 CGTAAAACATGCATGAAAGAGTACTTC 59.521 37.037 32.75 9.42 35.05 3.01
994 1139 5.697473 TTCCGTAAAACATGCATGAAAGA 57.303 34.783 32.75 15.08 0.00 2.52
1018 1163 0.962356 GTCTGGCCCTGTGGAATGTG 60.962 60.000 0.00 0.00 0.00 3.21
1027 1181 1.298014 GAAGAGGTGTCTGGCCCTG 59.702 63.158 0.00 0.00 31.37 4.45
1036 1190 1.609794 GACGGGAGGGAAGAGGTGT 60.610 63.158 0.00 0.00 0.00 4.16
1152 1308 2.366972 ATTGGGGTCTCCGGGGAG 60.367 66.667 2.77 8.48 43.21 4.30
1229 1385 0.825840 GACGAGAGCTAGATGCCCCT 60.826 60.000 0.00 0.00 44.23 4.79
1656 1836 4.155733 TGGTCGGCGCCACCTATG 62.156 66.667 33.43 17.43 34.66 2.23
1713 1893 1.069935 GAGGGGATTAGAGCGCCAC 59.930 63.158 2.29 0.00 40.52 5.01
2196 2376 0.911769 GACCATCCATGTCAGGGTCA 59.088 55.000 16.85 0.00 45.70 4.02
2263 2443 2.036475 CACTATCTGCGATAACCTGCCT 59.964 50.000 0.00 0.00 0.00 4.75
2973 3153 4.599676 TCGATCCCCATGGGTGAAAATATA 59.400 41.667 29.33 3.78 44.74 0.86
2976 3156 1.568597 TCGATCCCCATGGGTGAAAAT 59.431 47.619 29.33 13.85 44.74 1.82
3269 3449 7.482654 TCTTTGACTTCATAACTGACAACTG 57.517 36.000 0.00 0.00 0.00 3.16
3309 3489 7.227314 CGGAAGAGATCATCCAAATCAATGTTA 59.773 37.037 11.38 0.00 33.57 2.41
3481 3661 3.801594 GCAGCTAGCTCAGTTACATTCTC 59.198 47.826 16.15 0.00 41.15 2.87
3717 3897 5.415701 TGAATGAATTACTTGAAGGGTCAGC 59.584 40.000 0.00 0.00 34.49 4.26
3845 4025 6.226052 TGGTGATATGATCTGCAATGACTAC 58.774 40.000 0.00 0.00 0.00 2.73
3846 4026 6.423776 TGGTGATATGATCTGCAATGACTA 57.576 37.500 0.00 0.00 0.00 2.59
3847 4027 5.300411 TGGTGATATGATCTGCAATGACT 57.700 39.130 0.00 0.00 0.00 3.41
3848 4028 5.106277 CCATGGTGATATGATCTGCAATGAC 60.106 44.000 2.57 0.00 0.00 3.06
3849 4029 5.007682 CCATGGTGATATGATCTGCAATGA 58.992 41.667 2.57 0.00 0.00 2.57
3850 4030 4.157840 CCCATGGTGATATGATCTGCAATG 59.842 45.833 11.73 0.00 0.00 2.82
3851 4031 4.043686 TCCCATGGTGATATGATCTGCAAT 59.956 41.667 11.73 0.00 0.00 3.56
3852 4032 3.395273 TCCCATGGTGATATGATCTGCAA 59.605 43.478 11.73 0.00 0.00 4.08
3853 4033 2.981081 TCCCATGGTGATATGATCTGCA 59.019 45.455 11.73 0.00 0.00 4.41
3854 4034 3.708403 TCCCATGGTGATATGATCTGC 57.292 47.619 11.73 0.00 0.00 4.26
3855 4035 8.683615 CATTATTTCCCATGGTGATATGATCTG 58.316 37.037 11.73 0.00 0.00 2.90
3856 4036 7.837689 CCATTATTTCCCATGGTGATATGATCT 59.162 37.037 11.73 0.00 36.01 2.75
3857 4037 7.835682 TCCATTATTTCCCATGGTGATATGATC 59.164 37.037 11.73 0.00 40.90 2.92
3858 4038 7.711557 TCCATTATTTCCCATGGTGATATGAT 58.288 34.615 11.73 7.79 40.90 2.45
3859 4039 7.101292 TCCATTATTTCCCATGGTGATATGA 57.899 36.000 11.73 5.91 40.90 2.15
3860 4040 7.779754 TTCCATTATTTCCCATGGTGATATG 57.220 36.000 11.73 6.44 40.90 1.78
3861 4041 8.977559 AATTCCATTATTTCCCATGGTGATAT 57.022 30.769 11.73 10.48 40.90 1.63
3862 4042 8.233820 AGAATTCCATTATTTCCCATGGTGATA 58.766 33.333 11.73 3.55 40.90 2.15
3863 4043 7.077745 AGAATTCCATTATTTCCCATGGTGAT 58.922 34.615 11.73 4.06 40.90 3.06
3864 4044 6.442961 AGAATTCCATTATTTCCCATGGTGA 58.557 36.000 11.73 4.83 40.90 4.02
3865 4045 6.736110 AGAATTCCATTATTTCCCATGGTG 57.264 37.500 11.73 2.15 40.90 4.17
3866 4046 9.093458 GATAAGAATTCCATTATTTCCCATGGT 57.907 33.333 11.73 0.00 40.90 3.55
3867 4047 9.092338 TGATAAGAATTCCATTATTTCCCATGG 57.908 33.333 4.14 4.14 41.39 3.66
3869 4049 9.887862 ACTGATAAGAATTCCATTATTTCCCAT 57.112 29.630 0.65 0.00 0.00 4.00
3930 4110 4.155280 TGCATCACAATGTCATCACAGAAG 59.845 41.667 0.00 0.00 35.41 2.85
4164 4351 7.587037 ATGAGACTGAATCCTGAAACAAAAA 57.413 32.000 0.00 0.00 0.00 1.94
4169 4356 6.998968 ATCAATGAGACTGAATCCTGAAAC 57.001 37.500 0.00 0.00 0.00 2.78
4203 4390 3.191371 CCACCTTCCAGAATAAGCAACAC 59.809 47.826 0.00 0.00 0.00 3.32
4285 4472 1.757699 CACCTACAAGAGCCTCTACCC 59.242 57.143 0.00 0.00 0.00 3.69
4299 4486 4.757149 ACAAATTCTTGAGCTGTCACCTAC 59.243 41.667 0.00 0.00 36.33 3.18
4463 4717 6.128445 ACTGCATTTCACTAGAATCAAGTTCG 60.128 38.462 0.00 0.00 41.84 3.95
4477 4731 4.035675 GCCAATAGGAGTACTGCATTTCAC 59.964 45.833 17.34 0.00 36.89 3.18
4479 4733 4.455606 AGCCAATAGGAGTACTGCATTTC 58.544 43.478 17.34 8.22 36.89 2.17
4546 4803 8.613482 GGGAGCTCAGTAAATTTAAGTTATGTC 58.387 37.037 17.19 0.00 0.00 3.06
4604 4861 9.973661 TCCTGAATTGGAGTAATTTTATCAAGA 57.026 29.630 0.00 0.00 39.06 3.02
4606 4863 8.966868 GGTCCTGAATTGGAGTAATTTTATCAA 58.033 33.333 0.00 0.00 39.06 2.57
4607 4864 8.336235 AGGTCCTGAATTGGAGTAATTTTATCA 58.664 33.333 0.00 0.00 39.06 2.15
4608 4865 8.753497 AGGTCCTGAATTGGAGTAATTTTATC 57.247 34.615 0.00 0.00 39.06 1.75


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

AutoCloner maintained by Alex Coulton.