Multiple sequence alignment - TraesCS5A01G141100

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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 TraesCS5A01G141100 chr5A 100.000 4629 0 0 1 4629 313305827 313310455 0.000000e+00 8549
1 TraesCS5A01G141100 chr5A 86.008 243 24 6 4015 4254 350066589 350066354 7.690000e-63 252
2 TraesCS5A01G141100 chr5B 93.728 4177 188 31 8 4170 263214359 263218475 0.000000e+00 6194
3 TraesCS5A01G141100 chr5B 91.483 317 24 3 4297 4612 263218734 263219048 2.560000e-117 433
4 TraesCS5A01G141100 chr5B 85.597 243 25 8 4015 4254 295594742 295594977 3.580000e-61 246
5 TraesCS5A01G141100 chr5D 96.639 3273 105 3 812 4082 240510382 240507113 0.000000e+00 5430
6 TraesCS5A01G141100 chr5D 93.417 714 25 9 1 701 240511235 240510531 0.000000e+00 1038
7 TraesCS5A01G141100 chr5D 96.781 497 13 3 4121 4615 240507113 240506618 0.000000e+00 826
8 TraesCS5A01G141100 chr2D 83.540 322 43 9 4304 4619 645934699 645935016 4.530000e-75 292
9 TraesCS5A01G141100 chr6B 87.500 240 26 4 4015 4251 650791145 650790907 1.640000e-69 274
10 TraesCS5A01G141100 chr2A 83.062 307 41 10 4305 4604 771680672 771680974 7.630000e-68 268
11 TraesCS5A01G141100 chr3B 87.288 236 23 7 4023 4252 556288702 556288468 3.550000e-66 263
12 TraesCS5A01G141100 chr2B 81.988 322 47 11 4305 4619 789615537 789615220 3.550000e-66 263
13 TraesCS5A01G141100 chr2B 85.020 247 29 8 4013 4254 449827087 449826844 1.290000e-60 244
14 TraesCS5A01G141100 chr4B 85.833 240 30 4 4015 4251 183524986 183525224 7.690000e-63 252
15 TraesCS5A01G141100 chr7D 84.959 246 30 7 4011 4251 627876170 627876413 4.630000e-60 243
16 TraesCS5A01G141100 chr1B 84.774 243 31 6 4015 4252 573075080 573074839 5.990000e-59 239


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 TraesCS5A01G141100 chr5A 313305827 313310455 4628 False 8549.000000 8549 100.000000 1 4629 1 chr5A.!!$F1 4628
1 TraesCS5A01G141100 chr5B 263214359 263219048 4689 False 3313.500000 6194 92.605500 8 4612 2 chr5B.!!$F2 4604
2 TraesCS5A01G141100 chr5D 240506618 240511235 4617 True 2431.333333 5430 95.612333 1 4615 3 chr5D.!!$R1 4614

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
756 774 0.247460 GCCTCATCACCAAAAAGGCC 59.753 55.000 0.0 0.0 45.45 5.19 F
1464 1577 0.518636 ACACGCATGACAATCACTGC 59.481 50.000 0.0 0.0 31.91 4.40 F
2152 2265 0.890683 CATTTCCACACCAAGAGGGC 59.109 55.000 0.0 0.0 42.05 5.19 F
2243 2356 1.061812 ACCATCTGTCCTCCTGCCTAT 60.062 52.381 0.0 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1981 2094 0.177141 TCGGCCCTACCATTCTTTCG 59.823 55.000 0.0 0.0 39.03 3.46 R
2421 2534 0.329261 CAAGGGCATCTTCTCCACCA 59.671 55.000 0.0 0.0 32.41 4.17 R
3205 3318 0.386113 GGAGCCTAGAAGTACCTGCG 59.614 60.000 0.0 0.0 0.00 5.18 R
3652 3765 1.915228 GGAGTAGCCCAATGCCTGA 59.085 57.895 0.0 0.0 42.71 3.86 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 9.967451 AAAGAGAAGGGGAAATAAAAACAAAAA 57.033 25.926 0.00 0.00 0.00 1.94
104 107 4.848357 CTTCATGATGGACAAAGGTAGGT 58.152 43.478 0.00 0.00 0.00 3.08
109 112 3.843619 TGATGGACAAAGGTAGGTGATCA 59.156 43.478 0.00 0.00 0.00 2.92
147 153 6.985188 AGTACATTTGGACATGTCATGTAC 57.015 37.500 34.28 34.28 45.03 2.90
158 164 6.203530 GGACATGTCATGTACTGTTATGATGG 59.796 42.308 26.47 6.35 45.03 3.51
203 209 1.504912 CATGATCTCCAGGACAGGGT 58.495 55.000 0.00 0.00 0.00 4.34
236 247 1.073199 CTCCCTTTTGGTGCCGACT 59.927 57.895 0.00 0.00 38.10 4.18
314 328 0.323816 CAGGAAAAAGGAGCCTCCCC 60.324 60.000 7.26 0.43 37.19 4.81
390 406 1.474077 GATCCAGTTCCATGTGGTTGC 59.526 52.381 0.00 0.00 35.14 4.17
391 407 0.539438 TCCAGTTCCATGTGGTTGCC 60.539 55.000 0.00 0.00 35.14 4.52
392 408 0.827089 CCAGTTCCATGTGGTTGCCA 60.827 55.000 0.00 0.00 36.34 4.92
499 515 2.276309 GAGCCCATCCTTCACCCAGG 62.276 65.000 0.00 0.00 34.86 4.45
593 609 1.069204 ACTACGCCTATGCTGTGATGG 59.931 52.381 0.00 0.00 34.43 3.51
618 636 8.360390 GGATCTTTGTTTCCTTCTGTGTAATTT 58.640 33.333 0.00 0.00 0.00 1.82
674 692 1.218316 CCTGTCTTAGGTCGGCACC 59.782 63.158 0.00 0.00 42.00 5.01
682 700 2.181021 GGTCGGCACCTGTAGACG 59.819 66.667 0.00 0.00 40.00 4.18
685 703 0.731855 GTCGGCACCTGTAGACGTTC 60.732 60.000 0.00 0.00 0.00 3.95
730 748 6.591834 AGAAGTCATCTGGTTAATGAAGAACG 59.408 38.462 0.00 0.00 36.88 3.95
731 749 5.794894 AGTCATCTGGTTAATGAAGAACGT 58.205 37.500 0.00 0.00 35.04 3.99
732 750 5.869888 AGTCATCTGGTTAATGAAGAACGTC 59.130 40.000 0.00 0.00 35.04 4.34
735 753 4.232221 TCTGGTTAATGAAGAACGTCGTC 58.768 43.478 0.00 0.00 0.00 4.20
736 754 2.981805 TGGTTAATGAAGAACGTCGTCG 59.018 45.455 0.00 0.00 43.34 5.12
737 755 2.343544 GGTTAATGAAGAACGTCGTCGG 59.656 50.000 7.05 0.00 41.85 4.79
738 756 1.621107 TAATGAAGAACGTCGTCGGC 58.379 50.000 7.05 0.00 41.85 5.54
739 757 1.012486 AATGAAGAACGTCGTCGGCC 61.012 55.000 7.05 0.00 41.85 6.13
740 758 1.874345 ATGAAGAACGTCGTCGGCCT 61.874 55.000 7.05 0.00 41.85 5.19
741 759 1.800713 GAAGAACGTCGTCGGCCTC 60.801 63.158 7.05 0.38 41.85 4.70
742 760 2.467946 GAAGAACGTCGTCGGCCTCA 62.468 60.000 7.05 0.00 41.85 3.86
743 761 1.874345 AAGAACGTCGTCGGCCTCAT 61.874 55.000 7.05 0.00 41.85 2.90
744 762 1.872679 GAACGTCGTCGGCCTCATC 60.873 63.158 7.05 0.00 41.85 2.92
745 763 2.537792 GAACGTCGTCGGCCTCATCA 62.538 60.000 7.05 0.00 41.85 3.07
746 764 2.579787 CGTCGTCGGCCTCATCAC 60.580 66.667 0.00 0.00 0.00 3.06
747 765 2.202756 GTCGTCGGCCTCATCACC 60.203 66.667 0.00 0.00 0.00 4.02
748 766 2.678580 TCGTCGGCCTCATCACCA 60.679 61.111 0.00 0.00 0.00 4.17
749 767 2.264480 CGTCGGCCTCATCACCAA 59.736 61.111 0.00 0.00 0.00 3.67
750 768 1.375396 CGTCGGCCTCATCACCAAA 60.375 57.895 0.00 0.00 0.00 3.28
751 769 0.953471 CGTCGGCCTCATCACCAAAA 60.953 55.000 0.00 0.00 0.00 2.44
752 770 1.243902 GTCGGCCTCATCACCAAAAA 58.756 50.000 0.00 0.00 0.00 1.94
753 771 1.200020 GTCGGCCTCATCACCAAAAAG 59.800 52.381 0.00 0.00 0.00 2.27
754 772 0.527565 CGGCCTCATCACCAAAAAGG 59.472 55.000 0.00 0.00 45.67 3.11
755 773 3.820595 GCCTCATCACCAAAAAGGC 57.179 52.632 0.00 0.00 45.11 4.35
756 774 0.247460 GCCTCATCACCAAAAAGGCC 59.753 55.000 0.00 0.00 45.45 5.19
757 775 1.631405 CCTCATCACCAAAAAGGCCA 58.369 50.000 5.01 0.00 43.14 5.36
758 776 1.273327 CCTCATCACCAAAAAGGCCAC 59.727 52.381 5.01 0.00 43.14 5.01
761 779 1.047801 ATCACCAAAAAGGCCACCAC 58.952 50.000 5.01 0.00 43.14 4.16
798 817 6.039047 CCCATTTCATCTTGTAGGAAGTGATG 59.961 42.308 0.00 0.00 37.69 3.07
863 975 5.182001 GTGTTCTTCAACAATAGGCATCACT 59.818 40.000 0.00 0.00 44.32 3.41
944 1057 7.541091 TCTGCGCATGCTTTATAATACTAGTAC 59.459 37.037 12.24 0.00 43.34 2.73
1003 1116 4.592942 TCCTATTATCATGCCAGGAATGC 58.407 43.478 1.72 0.00 32.49 3.56
1030 1143 8.872845 GTTTAATGGACAAATTTAAGCAGATGG 58.127 33.333 0.00 0.00 0.00 3.51
1098 1211 1.896220 TGCATTCCTCTTTCGCAGTT 58.104 45.000 0.00 0.00 0.00 3.16
1315 1428 8.908786 AGACTCTGATAATCAACAAACTTTGA 57.091 30.769 8.55 0.00 39.79 2.69
1384 1497 6.127952 GGTTGAGAGTGTTACTATCGAGACTT 60.128 42.308 0.00 0.00 39.19 3.01
1401 1514 3.070748 GACTTGCTTGGAGAAGAGAACC 58.929 50.000 0.00 0.00 0.00 3.62
1464 1577 0.518636 ACACGCATGACAATCACTGC 59.481 50.000 0.00 0.00 31.91 4.40
1481 1594 4.275689 TCACTGCGAAGAAACAAATGTCAT 59.724 37.500 0.00 0.00 0.00 3.06
1546 1659 3.179925 GCCCAGAGCAATGTCATCA 57.820 52.632 0.00 0.00 42.97 3.07
1595 1708 1.135170 CAGCGAGAAGTCTGATCTGCA 60.135 52.381 0.00 0.00 32.26 4.41
1981 2094 5.936956 GGAAATGATCAGGAGGATGTCATAC 59.063 44.000 0.09 0.00 36.00 2.39
2052 2165 7.560368 AGAATATCCTGAAGTTTGAACTCGAT 58.440 34.615 0.00 0.43 38.57 3.59
2152 2265 0.890683 CATTTCCACACCAAGAGGGC 59.109 55.000 0.00 0.00 42.05 5.19
2202 2315 4.296056 GGGAAGGGGAAGTGATAGAGTTA 58.704 47.826 0.00 0.00 0.00 2.24
2241 2354 1.081833 ACCATCTGTCCTCCTGCCT 59.918 57.895 0.00 0.00 0.00 4.75
2243 2356 1.061812 ACCATCTGTCCTCCTGCCTAT 60.062 52.381 0.00 0.00 0.00 2.57
2299 2412 4.078537 TGTGGACCATAACAGTCAATTGG 58.921 43.478 5.42 0.00 35.89 3.16
2421 2534 5.183904 CCTCAAATCGGAGAAAGGTGAAATT 59.816 40.000 0.00 0.00 43.58 1.82
2422 2535 6.012658 TCAAATCGGAGAAAGGTGAAATTG 57.987 37.500 0.00 0.00 43.58 2.32
2577 2690 4.083271 GCTGGTGTGTTGAAAGGAGATTAC 60.083 45.833 0.00 0.00 0.00 1.89
2824 2937 9.905713 TGCTGTCTATCCAAAGTAAATAATTCT 57.094 29.630 0.00 0.00 0.00 2.40
3026 3139 4.380531 TGAAGCGAGTTCAGTTGAAGAAT 58.619 39.130 0.00 0.00 40.45 2.40
3060 3173 8.134895 ACAATTTGTACAAATCAATCACGAAGT 58.865 29.630 29.10 10.34 40.26 3.01
3069 3182 7.817478 ACAAATCAATCACGAAGTACTGACATA 59.183 33.333 0.00 0.00 41.61 2.29
3123 3236 6.705863 AAAGTCAAGTGAAGAAGCATTTCT 57.294 33.333 0.00 0.00 45.51 2.52
3178 3291 2.119495 GGAAATGGGTCCAGAGAGCTA 58.881 52.381 0.00 0.00 40.49 3.32
3203 3316 1.952296 CTGCAGAAGAAAACCAGCAGT 59.048 47.619 8.42 0.00 43.16 4.40
3205 3318 2.358898 TGCAGAAGAAAACCAGCAGTTC 59.641 45.455 0.00 0.00 37.88 3.01
3292 3405 1.337260 ACACTCGAAGATGTGCAGGAC 60.337 52.381 2.69 0.00 38.55 3.85
3468 3581 0.463474 GAGGTGGAGCTGAAGCCATC 60.463 60.000 0.00 0.00 43.38 3.51
3717 3830 5.128919 AGCTTTGATGTGAGAAACTGAAGT 58.871 37.500 0.00 0.00 0.00 3.01
3801 3924 7.380536 TGGATTTGAATTATGAATGGCTATGC 58.619 34.615 0.00 0.00 0.00 3.14
4009 4132 3.603770 GCAAAATGCTTAACGTGCTACTG 59.396 43.478 0.00 0.00 40.96 2.74
4262 4483 3.813724 CGGAGGTAGTACATCTGATCGAA 59.186 47.826 17.04 0.00 37.46 3.71
4290 4511 9.609346 AATGTAAGTATTAGAATTTGTAGCGGT 57.391 29.630 0.00 0.00 0.00 5.68
4531 4790 4.104897 AGACAATAAAATAGCTCCCTCCCC 59.895 45.833 0.00 0.00 0.00 4.81
4612 4871 3.944015 AGATGCAGCTTTGACCATTACTC 59.056 43.478 0.00 0.00 0.00 2.59
4615 4874 3.753272 TGCAGCTTTGACCATTACTCTTC 59.247 43.478 0.00 0.00 0.00 2.87
4616 4875 4.006319 GCAGCTTTGACCATTACTCTTCT 58.994 43.478 0.00 0.00 0.00 2.85
4617 4876 4.457257 GCAGCTTTGACCATTACTCTTCTT 59.543 41.667 0.00 0.00 0.00 2.52
4618 4877 5.048434 GCAGCTTTGACCATTACTCTTCTTT 60.048 40.000 0.00 0.00 0.00 2.52
4619 4878 6.515696 GCAGCTTTGACCATTACTCTTCTTTT 60.516 38.462 0.00 0.00 0.00 2.27
4620 4879 7.428826 CAGCTTTGACCATTACTCTTCTTTTT 58.571 34.615 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 54 3.515901 AGGAGATCTCGGCTTACTTTGTT 59.484 43.478 16.46 0.00 0.00 2.83
147 153 3.272574 ACTCAGGTGCCATCATAACAG 57.727 47.619 0.00 0.00 0.00 3.16
158 164 3.006967 TGAGGAGAAAGTTACTCAGGTGC 59.993 47.826 0.00 0.00 35.24 5.01
220 231 1.539827 CTTTAGTCGGCACCAAAAGGG 59.460 52.381 0.00 0.00 44.81 3.95
390 406 1.475280 CATGCAGTGGAGAAATGGTGG 59.525 52.381 0.00 0.00 0.00 4.61
391 407 1.135199 GCATGCAGTGGAGAAATGGTG 60.135 52.381 14.21 0.00 0.00 4.17
392 408 1.180029 GCATGCAGTGGAGAAATGGT 58.820 50.000 14.21 0.00 0.00 3.55
471 487 2.673200 GGATGGGCTCTCACCTGCA 61.673 63.158 0.00 0.00 0.00 4.41
499 515 1.571460 CACAGCACAAGAAGCGTCC 59.429 57.895 0.00 0.00 37.01 4.79
593 609 9.399403 GAAATTACACAGAAGGAAACAAAGATC 57.601 33.333 0.00 0.00 0.00 2.75
618 636 2.038814 TTGCGGAACAGACTGGCAGA 62.039 55.000 23.66 0.00 34.76 4.26
672 690 0.666577 GCTTGCGAACGTCTACAGGT 60.667 55.000 0.00 0.00 0.00 4.00
674 692 1.136690 TTGCTTGCGAACGTCTACAG 58.863 50.000 0.00 0.00 0.00 2.74
730 748 2.202756 GGTGATGAGGCCGACGAC 60.203 66.667 0.00 0.00 0.00 4.34
731 749 1.822114 TTTGGTGATGAGGCCGACGA 61.822 55.000 0.00 0.00 0.00 4.20
732 750 0.953471 TTTTGGTGATGAGGCCGACG 60.953 55.000 0.00 0.00 0.00 5.12
735 753 0.527565 CCTTTTTGGTGATGAGGCCG 59.472 55.000 0.00 0.00 0.00 6.13
736 754 0.247460 GCCTTTTTGGTGATGAGGCC 59.753 55.000 0.00 0.00 45.53 5.19
737 755 3.820595 GCCTTTTTGGTGATGAGGC 57.179 52.632 0.00 0.00 45.21 4.70
738 756 1.273327 GTGGCCTTTTTGGTGATGAGG 59.727 52.381 3.32 0.00 38.35 3.86
739 757 1.273327 GGTGGCCTTTTTGGTGATGAG 59.727 52.381 3.32 0.00 38.35 2.90
740 758 1.337118 GGTGGCCTTTTTGGTGATGA 58.663 50.000 3.32 0.00 38.35 2.92
741 759 1.047002 TGGTGGCCTTTTTGGTGATG 58.953 50.000 3.32 0.00 38.35 3.07
742 760 1.047801 GTGGTGGCCTTTTTGGTGAT 58.952 50.000 3.32 0.00 38.35 3.06
743 761 0.324738 TGTGGTGGCCTTTTTGGTGA 60.325 50.000 3.32 0.00 38.35 4.02
744 762 0.539051 TTGTGGTGGCCTTTTTGGTG 59.461 50.000 3.32 0.00 38.35 4.17
745 763 1.280457 TTTGTGGTGGCCTTTTTGGT 58.720 45.000 3.32 0.00 38.35 3.67
746 764 2.409948 TTTTGTGGTGGCCTTTTTGG 57.590 45.000 3.32 0.00 39.35 3.28
747 765 4.157472 ACAAATTTTGTGGTGGCCTTTTTG 59.843 37.500 13.80 3.73 43.48 2.44
748 766 4.339748 ACAAATTTTGTGGTGGCCTTTTT 58.660 34.783 13.80 0.00 43.48 1.94
749 767 3.961849 ACAAATTTTGTGGTGGCCTTTT 58.038 36.364 13.80 0.00 43.48 2.27
750 768 3.643199 ACAAATTTTGTGGTGGCCTTT 57.357 38.095 13.80 0.00 43.48 3.11
761 779 5.005094 AGATGAAATGGGCCACAAATTTTG 58.995 37.500 9.28 7.59 0.00 2.44
771 789 3.297134 TCCTACAAGATGAAATGGGCC 57.703 47.619 0.00 0.00 0.00 5.80
777 795 7.939039 AGAAACATCACTTCCTACAAGATGAAA 59.061 33.333 7.62 0.00 38.62 2.69
798 817 9.103048 CACTAACAATGAACGTTGATAAGAAAC 57.897 33.333 5.00 0.00 33.37 2.78
863 975 8.668353 GTTTGTTATCTATCTGTTTCTGATGCA 58.332 33.333 0.00 0.00 0.00 3.96
898 1010 5.932883 GCAGATGAATTGAGCTCATGATCTA 59.067 40.000 19.04 0.75 33.63 1.98
899 1011 4.757657 GCAGATGAATTGAGCTCATGATCT 59.242 41.667 19.04 14.84 33.63 2.75
944 1057 4.019681 TCATTAGCCTGGGTATAATTCGGG 60.020 45.833 6.42 0.00 0.00 5.14
1003 1116 8.586273 CATCTGCTTAAATTTGTCCATTAAACG 58.414 33.333 0.00 0.00 0.00 3.60
1030 1143 0.747255 TCTGTGCCGAGATCCTTAGC 59.253 55.000 0.00 0.00 0.00 3.09
1068 1181 7.041780 GCGAAAGAGGAATGCAATATTCTCTTA 60.042 37.037 16.90 0.00 31.63 2.10
1098 1211 7.712639 GGATAATCACAAGAAGACTGATAAGCA 59.287 37.037 0.00 0.00 0.00 3.91
1315 1428 1.549265 GGAATTTTTGGACTCCGGGGT 60.549 52.381 6.72 6.72 0.00 4.95
1384 1497 0.321671 CCGGTTCTCTTCTCCAAGCA 59.678 55.000 0.00 0.00 0.00 3.91
1401 1514 1.069204 ACATATACTCCTGCACTGCCG 59.931 52.381 0.00 0.00 0.00 5.69
1481 1594 2.038952 ACAGTATCAGCTGCCAGAAACA 59.961 45.455 9.47 0.00 39.96 2.83
1486 1599 0.107800 AGCACAGTATCAGCTGCCAG 60.108 55.000 9.47 0.00 39.96 4.85
1545 1658 4.349048 TCACCATATCCTTCTCTTCCCATG 59.651 45.833 0.00 0.00 0.00 3.66
1546 1659 4.570926 TCACCATATCCTTCTCTTCCCAT 58.429 43.478 0.00 0.00 0.00 4.00
1595 1708 7.400599 TCATTATTGCTGCTCTCAAATTCTT 57.599 32.000 0.00 0.00 0.00 2.52
1693 1806 1.134098 ACCATAACAAGGATCCTGCCG 60.134 52.381 17.02 9.80 0.00 5.69
1902 2015 1.004595 CGTCCGAGATACTGTCGTCA 58.995 55.000 0.00 0.00 35.59 4.35
1903 2016 1.284657 TCGTCCGAGATACTGTCGTC 58.715 55.000 0.00 0.00 35.59 4.20
1904 2017 1.598132 CATCGTCCGAGATACTGTCGT 59.402 52.381 0.00 0.00 35.59 4.34
1981 2094 0.177141 TCGGCCCTACCATTCTTTCG 59.823 55.000 0.00 0.00 39.03 3.46
2052 2165 1.908619 TGCAAGTCCATTAGCCTCTGA 59.091 47.619 0.00 0.00 0.00 3.27
2152 2265 5.303589 AGGCATTTGAAGGATCATATGGTTG 59.696 40.000 2.13 0.00 42.12 3.77
2202 2315 1.771255 GCTGAATCAGGTATCTGGGGT 59.229 52.381 12.66 0.00 41.23 4.95
2241 2354 5.880901 GGAAGATCAAATAGGCTTCCCATA 58.119 41.667 0.00 0.00 46.74 2.74
2243 2356 4.170468 GGAAGATCAAATAGGCTTCCCA 57.830 45.455 0.00 0.00 46.74 4.37
2299 2412 2.070028 GCGAGGAGTCCAAGTTTCTTC 58.930 52.381 12.86 0.00 0.00 2.87
2421 2534 0.329261 CAAGGGCATCTTCTCCACCA 59.671 55.000 0.00 0.00 32.41 4.17
2422 2535 0.394899 CCAAGGGCATCTTCTCCACC 60.395 60.000 0.00 0.00 32.41 4.61
2577 2690 1.608055 TATTGCCTTCATGCATCCCG 58.392 50.000 0.00 0.00 41.70 5.14
2824 2937 2.193447 GCTTCGACGACATATTGCTCA 58.807 47.619 0.00 0.00 0.00 4.26
2831 2944 2.159352 TGGAATTCGCTTCGACGACATA 60.159 45.455 0.00 0.00 42.78 2.29
3060 3173 3.028130 TCCCAAGCGTCATATGTCAGTA 58.972 45.455 1.90 0.00 0.00 2.74
3069 3182 1.742761 CTCAACATCCCAAGCGTCAT 58.257 50.000 0.00 0.00 0.00 3.06
3178 3291 3.005155 GCTGGTTTTCTTCTGCAGTTGAT 59.995 43.478 14.67 0.00 0.00 2.57
3203 3316 1.749634 GAGCCTAGAAGTACCTGCGAA 59.250 52.381 0.00 0.00 0.00 4.70
3205 3318 0.386113 GGAGCCTAGAAGTACCTGCG 59.614 60.000 0.00 0.00 0.00 5.18
3292 3405 3.591023 CTCTGAGCTATGATGCATCTGG 58.409 50.000 26.32 16.55 34.99 3.86
3652 3765 1.915228 GGAGTAGCCCAATGCCTGA 59.085 57.895 0.00 0.00 42.71 3.86
3801 3924 7.524717 TTAAAGAAAGGGGAACATTTGAGAG 57.475 36.000 0.00 0.00 45.67 3.20
3845 3968 9.670719 GAATATAGTTCGTTACAACCCTACTAC 57.329 37.037 0.00 0.00 0.00 2.73
4009 4132 2.220313 CAGGACGGAGGTAGTAGTAGC 58.780 57.143 0.00 0.00 0.00 3.58
4290 4511 9.926158 ATGTCACAAAATAGCAATAATGTTTCA 57.074 25.926 0.00 0.00 0.00 2.69
4488 4747 4.694037 GTCTTACTTCGCAACAAGGGTAAT 59.306 41.667 0.00 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.