Multiple sequence alignment - TraesCS5D01G065900

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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 TraesCS5D01G065900 chr5D 100.000 5434 0 0 1 5434 61415470 61420903 0.000000e+00 10035.0
1 TraesCS5D01G065900 chr5A 93.710 5517 202 71 1 5417 51467656 51473127 0.000000e+00 8131.0
2 TraesCS5D01G065900 chr5A 97.333 75 2 0 5360 5434 51474597 51474671 1.590000e-25 128.0
3 TraesCS5D01G065900 chr5B 95.242 4498 135 39 943 5417 69282075 69277634 0.000000e+00 7047.0
4 TraesCS5D01G065900 chr5B 94.984 638 22 9 1 630 69283579 69282944 0.000000e+00 992.0
5 TraesCS5D01G065900 chr5B 95.578 294 9 4 627 918 69282639 69282348 8.240000e-128 468.0
6 TraesCS5D01G065900 chr2D 91.724 580 35 8 4520 5096 616886981 616886412 0.000000e+00 793.0
7 TraesCS5D01G065900 chr6D 91.286 482 29 7 4520 5001 299602024 299602492 0.000000e+00 645.0
8 TraesCS5D01G065900 chr6D 91.079 482 32 7 4520 5001 240562901 240562431 4.590000e-180 641.0
9 TraesCS5D01G065900 chr6A 91.166 283 21 3 4814 5096 115622342 115622620 1.100000e-101 381.0
10 TraesCS5D01G065900 chr3D 88.636 44 5 0 1175 1218 482204869 482204826 3.000000e-03 54.7


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 TraesCS5D01G065900 chr5D 61415470 61420903 5433 False 10035.000000 10035 100.0000 1 5434 1 chr5D.!!$F1 5433
1 TraesCS5D01G065900 chr5A 51467656 51474671 7015 False 4129.500000 8131 95.5215 1 5434 2 chr5A.!!$F1 5433
2 TraesCS5D01G065900 chr5B 69277634 69283579 5945 True 2835.666667 7047 95.2680 1 5417 3 chr5B.!!$R1 5416
3 TraesCS5D01G065900 chr2D 616886412 616886981 569 True 793.000000 793 91.7240 4520 5096 1 chr2D.!!$R1 576

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
749 1073 1.199615 GGTCTTCTCTTCCCCCTCAG 58.800 60.000 0.00 0.0 0.00 3.35 F
1128 1706 1.244019 CCCCCTTCACTCGCCTTTTG 61.244 60.000 0.00 0.0 0.00 2.44 F
1660 2240 1.270550 CAAGCAGGAAGGCGAAATTGT 59.729 47.619 0.00 0.0 39.27 2.71 F
2048 2629 2.416547 CCACATTCTTCACCGTGATGTC 59.583 50.000 12.71 0.0 0.00 3.06 F
2314 2898 4.613925 TGGGCTTGCAAAAATATTGACA 57.386 36.364 0.00 0.0 0.00 3.58 F
3757 4350 4.032960 TGTTGGTGAAATGCCATACTCT 57.967 40.909 0.00 0.0 35.71 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1627 2207 1.620822 CTGCTTGCCAGTTTAACCCT 58.379 50.000 0.0 0.0 36.79 4.34 R
3098 3688 1.271379 GGTCTGTGCTCTGGGCTTTTA 60.271 52.381 0.0 0.0 42.39 1.52 R
3272 3862 3.682696 TGCGAGTAGGACTAGACTTCAA 58.317 45.455 0.0 0.0 0.00 2.69 R
3757 4350 1.486310 AGAGCCACGCCTATGATTGAA 59.514 47.619 0.0 0.0 0.00 2.69 R
3963 4592 1.524482 GGGAGCCTAGCTGGTCAAG 59.476 63.158 0.0 0.0 39.88 3.02 R
5100 5763 1.526917 GCACATGGGGAGATTCGGG 60.527 63.158 0.0 0.0 0.00 5.14 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
83 84 2.705487 TTGAACCCACCCCAAGCCA 61.705 57.895 0.00 0.00 0.00 4.75
87 88 1.341913 AACCCACCCCAAGCCAAAAC 61.342 55.000 0.00 0.00 0.00 2.43
107 108 2.226013 ACCCCCATCTTTCTCTCTCCTT 60.226 50.000 0.00 0.00 0.00 3.36
135 136 3.876198 CCGCCCCTTCAAATCGCG 61.876 66.667 0.00 0.00 42.37 5.87
313 316 5.629079 AGATTGGATTGTTCTTCCGTTTC 57.371 39.130 0.00 0.00 35.94 2.78
314 317 4.459337 AGATTGGATTGTTCTTCCGTTTCC 59.541 41.667 0.00 0.00 35.94 3.13
315 318 2.510613 TGGATTGTTCTTCCGTTTCCC 58.489 47.619 0.00 0.00 35.94 3.97
449 458 3.822594 TTGGGATTCGTTCGTTGATTG 57.177 42.857 0.00 0.00 0.00 2.67
456 467 5.793457 GGATTCGTTCGTTGATTGTAAAAGG 59.207 40.000 0.00 0.00 0.00 3.11
497 508 1.200020 CTTTGATTCGGAGTTGGTGGC 59.800 52.381 0.00 0.00 0.00 5.01
563 574 6.266103 TGAATTCTGATTTGCTCCTTGAGTTT 59.734 34.615 7.05 0.00 31.39 2.66
606 617 1.270893 GCTCCACCGTTTCCTCTTTCT 60.271 52.381 0.00 0.00 0.00 2.52
607 618 2.810767 GCTCCACCGTTTCCTCTTTCTT 60.811 50.000 0.00 0.00 0.00 2.52
739 1060 2.760374 CTCACGCTTTTGGTCTTCTCT 58.240 47.619 0.00 0.00 0.00 3.10
749 1073 1.199615 GGTCTTCTCTTCCCCCTCAG 58.800 60.000 0.00 0.00 0.00 3.35
802 1126 6.604930 CAACTTTGCCATCCATTTTGATTTC 58.395 36.000 0.00 0.00 0.00 2.17
851 1181 7.928908 TTTCACTCTGAACATTATTTTGTGC 57.071 32.000 0.00 0.00 35.89 4.57
929 1259 7.787725 AGAAGTACTGATTTGTTTTCGTTCT 57.212 32.000 0.00 0.00 0.00 3.01
978 1556 2.314256 CATATCCTGCTGTGTGCGG 58.686 57.895 0.00 0.00 46.63 5.69
994 1572 2.436292 GGGCTGCAGCAGACTCAG 60.436 66.667 37.63 0.00 39.87 3.35
1094 1672 2.301296 TGGAGAAGAAGAAGTGAGGCTG 59.699 50.000 0.00 0.00 0.00 4.85
1099 1677 5.022787 AGAAGAAGAAGTGAGGCTGACTAT 58.977 41.667 7.15 0.00 0.00 2.12
1126 1704 2.757077 CCCCCTTCACTCGCCTTT 59.243 61.111 0.00 0.00 0.00 3.11
1128 1706 1.244019 CCCCCTTCACTCGCCTTTTG 61.244 60.000 0.00 0.00 0.00 2.44
1163 1741 5.532032 TGTTTCAGTCATTTTGATGCTCTGA 59.468 36.000 8.72 8.72 33.85 3.27
1166 1744 6.041423 TCAGTCATTTTGATGCTCTGAGTA 57.959 37.500 6.53 1.58 32.84 2.59
1168 1746 7.785033 TCAGTCATTTTGATGCTCTGAGTATA 58.215 34.615 8.28 0.00 32.84 1.47
1169 1747 8.427276 TCAGTCATTTTGATGCTCTGAGTATAT 58.573 33.333 8.28 0.06 32.84 0.86
1170 1748 9.702494 CAGTCATTTTGATGCTCTGAGTATATA 57.298 33.333 8.28 0.00 0.00 0.86
1393 1973 8.478775 AACTATAAGTAGATGTGGTGCAGATA 57.521 34.615 0.00 0.00 0.00 1.98
1444 2024 3.274288 GTGCTATTGAGTTTAGCTGGCT 58.726 45.455 0.00 0.00 42.08 4.75
1466 2046 6.128607 GGCTAGTGATGAATTGATCTGAATCG 60.129 42.308 6.46 0.00 34.39 3.34
1474 2054 7.439157 TGAATTGATCTGAATCGTTGAACTT 57.561 32.000 0.00 0.00 34.39 2.66
1484 2064 6.545508 TGAATCGTTGAACTTGCAAGATATG 58.454 36.000 32.50 17.49 0.00 1.78
1594 2174 5.661056 TCATCGTGGAGTACAAAGATTCT 57.339 39.130 0.00 0.00 29.61 2.40
1660 2240 1.270550 CAAGCAGGAAGGCGAAATTGT 59.729 47.619 0.00 0.00 39.27 2.71
1665 2245 3.798548 GCAGGAAGGCGAAATTGTTTCAA 60.799 43.478 3.66 0.00 39.63 2.69
1789 2370 6.548321 TGTTACCCTGTGATGTCCTTTAAAT 58.452 36.000 0.00 0.00 0.00 1.40
1938 2519 5.163602 TGGCATCTTTAAGTTGTTTTGTCGT 60.164 36.000 5.14 0.00 0.00 4.34
1944 2525 5.624344 TTAAGTTGTTTTGTCGTGGAACA 57.376 34.783 0.00 0.00 35.74 3.18
2048 2629 2.416547 CCACATTCTTCACCGTGATGTC 59.583 50.000 12.71 0.00 0.00 3.06
2314 2898 4.613925 TGGGCTTGCAAAAATATTGACA 57.386 36.364 0.00 0.00 0.00 3.58
2353 2937 8.012241 GCATCTTCCGTAAGTGATCAAAATATC 58.988 37.037 0.00 0.00 34.13 1.63
2514 3098 8.455682 GTCTCTAGGTATGTATCACTTCTATGC 58.544 40.741 0.00 0.00 0.00 3.14
2791 3381 8.915036 AGTTAGATTATTTGACACGTCTAGGAT 58.085 33.333 0.00 0.00 0.00 3.24
2899 3489 8.429237 AATGAGGGTTTGGTTGTCATTAATTA 57.571 30.769 0.00 0.00 36.35 1.40
3272 3862 5.047802 CAGCCTTATGTGTTTCAAGTCCAAT 60.048 40.000 0.00 0.00 0.00 3.16
3464 4054 6.035435 CGAGCGTAACTCTGTTAGTTCTACTA 59.965 42.308 0.00 0.00 45.64 1.82
3740 4333 8.137437 ACTGATAAACTTGTTCTCCATTTGTTG 58.863 33.333 0.00 0.00 0.00 3.33
3754 4347 4.630940 CCATTTGTTGGTGAAATGCCATAC 59.369 41.667 0.00 0.00 40.99 2.39
3757 4350 4.032960 TGTTGGTGAAATGCCATACTCT 57.967 40.909 0.00 0.00 35.71 3.24
3806 4435 7.410800 TGAATTTGCATTCTTTAGTTTGCTG 57.589 32.000 1.98 0.00 39.81 4.41
4127 4756 1.182667 TCATCAACCGGTCGATCACT 58.817 50.000 8.04 0.00 0.00 3.41
4157 4786 2.680352 ACGATCCAGGTGCTCCGT 60.680 61.111 0.00 0.00 39.05 4.69
4274 4903 3.973516 TCGTCGTTCCAGCAGCGT 61.974 61.111 0.00 0.00 0.00 5.07
4513 5150 5.282510 CGTAGCTGAGGTAGTTGGATTAAG 58.717 45.833 0.00 0.00 0.00 1.85
4547 5184 1.079503 GAAGTTTAGCTGCTGGGACG 58.920 55.000 13.43 0.00 0.00 4.79
4549 5186 0.037232 AGTTTAGCTGCTGGGACGAC 60.037 55.000 13.43 2.02 0.00 4.34
4550 5187 1.019805 GTTTAGCTGCTGGGACGACC 61.020 60.000 13.43 0.00 40.81 4.79
4551 5188 1.192146 TTTAGCTGCTGGGACGACCT 61.192 55.000 13.43 0.00 41.11 3.85
4552 5189 0.323999 TTAGCTGCTGGGACGACCTA 60.324 55.000 13.43 0.00 41.11 3.08
4553 5190 0.752009 TAGCTGCTGGGACGACCTAG 60.752 60.000 13.43 12.74 45.77 3.02
4554 5191 3.082579 GCTGCTGGGACGACCTAGG 62.083 68.421 17.99 7.41 43.66 3.02
4555 5192 3.075005 TGCTGGGACGACCTAGGC 61.075 66.667 17.99 12.75 43.66 3.93
4621 5258 4.466726 AGCTAGTAAGTAACCCCAGTTCAG 59.533 45.833 0.00 0.00 37.42 3.02
4628 5265 5.008165 AGTAACCCCAGTTCAGTAGTAGT 57.992 43.478 0.00 0.00 37.42 2.73
4642 5279 6.178324 TCAGTAGTAGTAGCAGTAGAAGCAA 58.822 40.000 0.00 0.00 0.00 3.91
4645 5282 8.622157 CAGTAGTAGTAGCAGTAGAAGCAATAA 58.378 37.037 0.00 0.00 0.00 1.40
4784 5436 4.099266 CCTCTATCTCTATGCCTATGCCAC 59.901 50.000 0.00 0.00 36.33 5.01
4946 5608 1.276622 ACCTAACCTAGCCCTGTGTG 58.723 55.000 0.00 0.00 0.00 3.82
4947 5609 0.107654 CCTAACCTAGCCCTGTGTGC 60.108 60.000 0.00 0.00 0.00 4.57
4948 5610 0.905357 CTAACCTAGCCCTGTGTGCT 59.095 55.000 0.00 0.00 42.81 4.40
4949 5611 0.613260 TAACCTAGCCCTGTGTGCTG 59.387 55.000 0.00 0.00 39.91 4.41
4950 5612 1.418908 AACCTAGCCCTGTGTGCTGT 61.419 55.000 0.00 0.00 39.91 4.40
4952 5614 0.250901 CCTAGCCCTGTGTGCTGTTT 60.251 55.000 0.00 0.00 39.91 2.83
5061 5724 2.031919 TGGCCATGTGGTGACGAC 59.968 61.111 0.00 0.00 37.57 4.34
5062 5725 3.118454 GGCCATGTGGTGACGACG 61.118 66.667 0.00 0.00 37.57 5.12
5063 5726 2.048597 GCCATGTGGTGACGACGA 60.049 61.111 0.00 0.00 37.57 4.20
5064 5727 2.094659 GCCATGTGGTGACGACGAG 61.095 63.158 0.00 0.00 37.57 4.18
5065 5728 2.094659 CCATGTGGTGACGACGAGC 61.095 63.158 0.00 0.00 0.00 5.03
5070 5733 1.947146 TGGTGACGACGAGCAAACG 60.947 57.895 0.00 0.00 39.31 3.60
5148 5812 2.366640 TTGATAGGAGACGGGAGAGG 57.633 55.000 0.00 0.00 0.00 3.69
5149 5813 1.519498 TGATAGGAGACGGGAGAGGA 58.481 55.000 0.00 0.00 0.00 3.71
5287 5951 1.386525 CCATTGCATCCGTCTTGGGG 61.387 60.000 0.00 0.00 38.76 4.96
5355 6019 2.612721 CCCTTTGCCTTGCATTGGTAAC 60.613 50.000 8.78 0.00 38.76 2.50
5358 6022 1.255882 TGCCTTGCATTGGTAACCTG 58.744 50.000 7.89 0.00 31.71 4.00
5383 7587 6.349944 GCAAGTACTGGCTAGTGAACTAACTA 60.350 42.308 15.42 0.00 37.78 2.24
5390 7594 7.177921 ACTGGCTAGTGAACTAACTATACACAA 59.822 37.037 0.13 0.00 35.34 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
83 84 3.010696 GGAGAGAGAAAGATGGGGGTTTT 59.989 47.826 0.00 0.00 0.00 2.43
87 88 2.188818 AGGAGAGAGAAAGATGGGGG 57.811 55.000 0.00 0.00 0.00 5.40
337 341 0.877743 GGAAGCAAGAACACAGCTCC 59.122 55.000 0.00 0.00 37.70 4.70
449 458 6.995686 ACCCCAATGATTTGTTTTCCTTTTAC 59.004 34.615 0.00 0.00 0.00 2.01
456 467 3.073678 GCCACCCCAATGATTTGTTTTC 58.926 45.455 0.00 0.00 0.00 2.29
511 522 4.202050 CGCAGGGGGAGAAAAATAATCAAG 60.202 45.833 0.00 0.00 0.00 3.02
512 523 3.699038 CGCAGGGGGAGAAAAATAATCAA 59.301 43.478 0.00 0.00 0.00 2.57
563 574 1.091537 GGGCCGAAATGTCAAATCGA 58.908 50.000 11.07 0.00 38.82 3.59
688 1009 6.155827 TGAAAACACAAGAAAAGACAAGTGG 58.844 36.000 0.00 0.00 0.00 4.00
739 1060 2.805827 ATCTTGGGGCTGAGGGGGAA 62.806 60.000 0.00 0.00 0.00 3.97
802 1126 8.622948 AAAAGGTAGTATTGTCCAGAGAAAAG 57.377 34.615 0.00 0.00 0.00 2.27
839 1163 3.894920 TCCACACACGCACAAAATAATG 58.105 40.909 0.00 0.00 0.00 1.90
848 1172 0.450184 AAACAACTCCACACACGCAC 59.550 50.000 0.00 0.00 0.00 5.34
850 1174 0.248458 CCAAACAACTCCACACACGC 60.248 55.000 0.00 0.00 0.00 5.34
851 1181 1.091537 ACCAAACAACTCCACACACG 58.908 50.000 0.00 0.00 0.00 4.49
978 1556 3.126225 GCTGAGTCTGCTGCAGCC 61.126 66.667 34.64 20.05 46.94 4.85
994 1572 3.072184 ACCTCATACTGATCCATCCTTGC 59.928 47.826 0.00 0.00 0.00 4.01
1126 1704 3.436243 ACTGAAACAAAACTGGTCCCAA 58.564 40.909 0.00 0.00 0.00 4.12
1128 1706 3.020984 TGACTGAAACAAAACTGGTCCC 58.979 45.455 0.00 0.00 0.00 4.46
1163 1741 5.485353 AGCACATACCTGCACCATATATACT 59.515 40.000 0.00 0.00 39.86 2.12
1166 1744 4.286808 TCAGCACATACCTGCACCATATAT 59.713 41.667 0.00 0.00 39.86 0.86
1168 1746 2.439135 TCAGCACATACCTGCACCATAT 59.561 45.455 0.00 0.00 39.86 1.78
1169 1747 1.836802 TCAGCACATACCTGCACCATA 59.163 47.619 0.00 0.00 39.86 2.74
1170 1748 0.620030 TCAGCACATACCTGCACCAT 59.380 50.000 0.00 0.00 39.86 3.55
1171 1749 0.399833 TTCAGCACATACCTGCACCA 59.600 50.000 0.00 0.00 39.86 4.17
1172 1750 1.089920 CTTCAGCACATACCTGCACC 58.910 55.000 0.00 0.00 39.86 5.01
1251 1829 2.682352 GGGAAGATGAAGCAGAAGAAGC 59.318 50.000 0.00 0.00 0.00 3.86
1338 1918 7.178274 ACCAAAAATGACATCAATAAGCTGGTA 59.822 33.333 0.00 0.00 0.00 3.25
1444 2024 7.981225 TCAACGATTCAGATCAATTCATCACTA 59.019 33.333 0.00 0.00 32.33 2.74
1466 2046 6.672147 AGACAACATATCTTGCAAGTTCAAC 58.328 36.000 25.19 9.62 0.00 3.18
1484 2064 2.538939 GGAAAGCACGACACAAGACAAC 60.539 50.000 0.00 0.00 0.00 3.32
1496 2076 3.904136 ATTCAGTGAAAGGAAAGCACG 57.096 42.857 10.14 0.00 37.60 5.34
1594 2174 5.486419 CCTTTTACCTACCTTCTCTACCCAA 59.514 44.000 0.00 0.00 0.00 4.12
1627 2207 1.620822 CTGCTTGCCAGTTTAACCCT 58.379 50.000 0.00 0.00 36.79 4.34
1679 2259 9.708222 CAAGTAAACAGAATGAGCATAATACAC 57.292 33.333 0.00 0.00 39.69 2.90
1702 2282 6.029346 ACATAGCAACCCTGAAATTTCAAG 57.971 37.500 20.82 15.09 36.64 3.02
1708 2288 3.019564 GCAGACATAGCAACCCTGAAAT 58.980 45.455 0.00 0.00 0.00 2.17
1789 2370 7.612633 ACAGGGACTAAAGTTTGTGAAAAACTA 59.387 33.333 0.39 0.00 36.73 2.24
1872 2453 4.036518 ACTGCACCTCCTCAGAGAAATAT 58.963 43.478 0.00 0.00 43.39 1.28
1938 2519 5.941058 TGAGAACAGTTAAAAGTGTGTTCCA 59.059 36.000 9.78 6.00 46.59 3.53
1944 2525 7.319646 TGCAAAATGAGAACAGTTAAAAGTGT 58.680 30.769 0.00 0.00 44.09 3.55
2244 2827 7.147958 TGGAATCACATCATTACCAGGATTA 57.852 36.000 0.00 0.00 0.00 1.75
2314 2898 3.306849 CGGAAGATGCCAGATCATCAGAT 60.307 47.826 6.53 0.00 43.94 2.90
2353 2937 8.397906 TCGAATATGCATAAGAAAGACAAAAGG 58.602 33.333 11.13 0.00 0.00 3.11
2514 3098 7.222999 GTCTAGGTTCAGGAAAGTGATTTATCG 59.777 40.741 0.00 0.00 0.00 2.92
2593 3182 3.849911 CCTGAGAGCAGTCATTTCGTAA 58.150 45.455 0.00 0.00 40.63 3.18
3098 3688 1.271379 GGTCTGTGCTCTGGGCTTTTA 60.271 52.381 0.00 0.00 42.39 1.52
3272 3862 3.682696 TGCGAGTAGGACTAGACTTCAA 58.317 45.455 0.00 0.00 0.00 2.69
3464 4054 6.506538 AGTTGTATATTCCTTGATGCTCCT 57.493 37.500 0.00 0.00 0.00 3.69
3532 4122 4.381718 GCTTTACTGGTAACCTCGTCATCT 60.382 45.833 0.00 0.00 0.00 2.90
3740 4333 5.357878 TGATTGAAGAGTATGGCATTTCACC 59.642 40.000 4.78 5.03 0.00 4.02
3754 4347 1.869767 GCCACGCCTATGATTGAAGAG 59.130 52.381 0.00 0.00 0.00 2.85
3757 4350 1.486310 AGAGCCACGCCTATGATTGAA 59.514 47.619 0.00 0.00 0.00 2.69
3963 4592 1.524482 GGGAGCCTAGCTGGTCAAG 59.476 63.158 0.00 0.00 39.88 3.02
4127 4756 1.621317 TGGATCGTGCACTTGTCCTTA 59.379 47.619 23.66 9.49 0.00 2.69
4434 5063 1.970114 GACCGACAGACCGTGGAGA 60.970 63.158 0.00 0.00 0.00 3.71
4435 5064 2.567049 GACCGACAGACCGTGGAG 59.433 66.667 0.00 0.00 0.00 3.86
4436 5065 3.359523 CGACCGACAGACCGTGGA 61.360 66.667 0.00 0.00 0.00 4.02
4438 5067 3.606065 GACCGACCGACAGACCGTG 62.606 68.421 0.00 0.00 0.00 4.94
4439 5068 3.360340 GACCGACCGACAGACCGT 61.360 66.667 0.00 0.00 0.00 4.83
4442 5071 4.773117 GGCGACCGACCGACAGAC 62.773 72.222 0.72 0.00 37.55 3.51
4513 5150 0.320697 ACTTCAGGCCTAACACCGAC 59.679 55.000 3.98 0.00 0.00 4.79
4547 5184 1.555075 TGAGATGGTGTTGCCTAGGTC 59.445 52.381 11.31 3.32 38.35 3.85
4549 5186 1.556911 ACTGAGATGGTGTTGCCTAGG 59.443 52.381 3.67 3.67 38.35 3.02
4550 5187 2.027745 ACACTGAGATGGTGTTGCCTAG 60.028 50.000 0.00 0.00 44.25 3.02
4551 5188 1.977854 ACACTGAGATGGTGTTGCCTA 59.022 47.619 0.00 0.00 44.25 3.93
4552 5189 0.767375 ACACTGAGATGGTGTTGCCT 59.233 50.000 0.00 0.00 44.25 4.75
4553 5190 3.329300 ACACTGAGATGGTGTTGCC 57.671 52.632 0.00 0.00 44.25 4.52
4628 5265 7.055667 AGTGCTATTATTGCTTCTACTGCTA 57.944 36.000 0.06 0.00 0.00 3.49
4676 5328 3.264450 CAGATCCAGGGTTCCAACTTAGT 59.736 47.826 0.00 0.00 0.00 2.24
4768 5420 2.495270 AGATCGTGGCATAGGCATAGAG 59.505 50.000 0.15 0.00 43.71 2.43
4784 5436 1.759445 ACCCAATCAGGAGACAGATCG 59.241 52.381 0.00 0.00 41.22 3.69
4946 5608 2.509870 GAATCAAGCTACGCAAACAGC 58.490 47.619 0.00 0.00 40.87 4.40
4947 5609 2.483877 TGGAATCAAGCTACGCAAACAG 59.516 45.455 0.00 0.00 0.00 3.16
4948 5610 2.499197 TGGAATCAAGCTACGCAAACA 58.501 42.857 0.00 0.00 0.00 2.83
4949 5611 3.492313 CTTGGAATCAAGCTACGCAAAC 58.508 45.455 0.00 0.00 43.10 2.93
4950 5612 3.829886 CTTGGAATCAAGCTACGCAAA 57.170 42.857 0.00 0.00 43.10 3.68
5061 5724 2.781646 GGTTCTTGTTTTCGTTTGCTCG 59.218 45.455 0.00 0.00 0.00 5.03
5062 5725 3.791353 CAGGTTCTTGTTTTCGTTTGCTC 59.209 43.478 0.00 0.00 0.00 4.26
5063 5726 3.428862 CCAGGTTCTTGTTTTCGTTTGCT 60.429 43.478 0.00 0.00 0.00 3.91
5064 5727 2.857748 CCAGGTTCTTGTTTTCGTTTGC 59.142 45.455 0.00 0.00 0.00 3.68
5065 5728 3.443976 CCCAGGTTCTTGTTTTCGTTTG 58.556 45.455 0.00 0.00 0.00 2.93
5100 5763 1.526917 GCACATGGGGAGATTCGGG 60.527 63.158 0.00 0.00 0.00 5.14
5355 6019 1.550524 TCACTAGCCAGTACTTGCAGG 59.449 52.381 20.04 13.79 32.21 4.85
5358 6022 3.320673 AGTTCACTAGCCAGTACTTGC 57.679 47.619 10.90 10.90 32.21 4.01
5383 7587 8.436046 AAAAGCACATTTTGATTGTTGTGTAT 57.564 26.923 4.11 0.00 39.67 2.29


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

AutoCloner maintained by Alex Coulton.