Multiple sequence alignment - TraesCS5B01G094600

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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 TraesCS5B01G094600 chr5B 100.000 6552 0 0 1 6552 124281765 124288316 0.000000e+00 12100.0
1 TraesCS5B01G094600 chr5D 95.048 6624 225 55 1 6550 113647701 113654295 0.000000e+00 10320.0
2 TraesCS5B01G094600 chr5A 95.299 5807 203 41 773 6552 118757382 118763145 0.000000e+00 9147.0
3 TraesCS5B01G094600 chr5A 92.745 703 41 8 1 699 118756632 118757328 0.000000e+00 1007.0
4 TraesCS5B01G094600 chr5A 91.534 378 24 6 1 376 118754927 118755298 1.260000e-141 514.0
5 TraesCS5B01G094600 chr5A 89.323 384 29 7 1 376 118750863 118751242 7.690000e-129 472.0
6 TraesCS5B01G094600 chr7A 87.124 598 67 5 5064 5658 132400879 132401469 0.000000e+00 669.0
7 TraesCS5B01G094600 chr7A 85.366 82 7 1 6012 6088 121396023 121396104 5.450000e-11 80.5
8 TraesCS5B01G094600 chr3B 90.373 509 26 3 1710 2217 724392968 724392482 0.000000e+00 647.0
9 TraesCS5B01G094600 chr7D 88.836 421 44 2 5064 5483 412180945 412181363 1.260000e-141 514.0
10 TraesCS5B01G094600 chr7D 86.242 298 29 5 5142 5439 563542248 563542533 4.930000e-81 313.0
11 TraesCS5B01G094600 chr7D 86.242 298 29 5 5142 5439 621148789 621148504 4.930000e-81 313.0
12 TraesCS5B01G094600 chr7D 86.242 298 28 6 5142 5439 601941216 601940932 1.770000e-80 311.0
13 TraesCS5B01G094600 chr7D 84.946 93 8 2 6007 6093 573982278 573982370 9.050000e-14 89.8
14 TraesCS5B01G094600 chr2D 86.913 298 27 5 5142 5439 103150081 103150366 2.280000e-84 324.0
15 TraesCS5B01G094600 chr2D 84.783 92 9 1 6006 6092 82181918 82182009 3.250000e-13 87.9
16 TraesCS5B01G094600 chr1D 86.242 298 29 5 5142 5439 267598588 267598873 4.930000e-81 313.0
17 TraesCS5B01G094600 chr1A 86.207 87 6 3 6018 6099 343398331 343398416 9.050000e-14 89.8
18 TraesCS5B01G094600 chr1A 89.189 74 5 2 6012 6082 581594150 581594223 9.050000e-14 89.8
19 TraesCS5B01G094600 chr6B 85.057 87 8 1 6011 6092 124550501 124550587 4.210000e-12 84.2
20 TraesCS5B01G094600 chr2B 82.828 99 12 1 6006 6099 134045450 134045548 4.210000e-12 84.2


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 TraesCS5B01G094600 chr5B 124281765 124288316 6551 False 12100 12100 100.00000 1 6552 1 chr5B.!!$F1 6551
1 TraesCS5B01G094600 chr5D 113647701 113654295 6594 False 10320 10320 95.04800 1 6550 1 chr5D.!!$F1 6549
2 TraesCS5B01G094600 chr5A 118750863 118763145 12282 False 2785 9147 92.22525 1 6552 4 chr5A.!!$F1 6551
3 TraesCS5B01G094600 chr7A 132400879 132401469 590 False 669 669 87.12400 5064 5658 1 chr7A.!!$F2 594

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
846 6650 0.395724 CCACTTAATCTGGGCCCACC 60.396 60.000 24.45 0.0 40.81 4.61 F
1063 6877 0.322277 TACGTTCTCTCACCTCCGCT 60.322 55.000 0.00 0.0 0.00 5.52 F
1290 7104 0.537371 CCTCGTGTTTCAGGGCCTTT 60.537 55.000 1.32 0.0 0.00 3.11 F
1443 7257 1.066645 GTTCCACGTACGAATTCCCCT 60.067 52.381 24.41 0.0 0.00 4.79 F
1800 7616 1.277842 TCTTGCGCATCTAGGTTTCCA 59.722 47.619 12.75 0.0 0.00 3.53 F
1989 7821 2.135890 TGCTCTGGCAACTGACTGA 58.864 52.632 0.00 0.0 46.36 3.41 F
3617 9458 1.200484 ACGTGAAAAAGGCGTTGTTGT 59.800 42.857 0.00 0.0 35.11 3.32 F
5024 10865 1.134965 ACACTTCTGAGCATAGTCCGC 60.135 52.381 0.00 0.0 0.00 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2509 8343 0.527565 CAAAATTCTCCTGGGTGGCG 59.472 55.000 0.00 0.0 35.26 5.69 R
2511 8345 1.631405 TGCAAAATTCTCCTGGGTGG 58.369 50.000 0.00 0.0 37.10 4.61 R
2512 8346 5.603170 AATATGCAAAATTCTCCTGGGTG 57.397 39.130 0.00 0.0 0.00 4.61 R
3325 9166 1.678101 GTATCAGCAACCAATCCTGCC 59.322 52.381 0.00 0.0 39.47 4.85 R
3617 9458 0.882927 GGTGCACCAACGAGTAGCAA 60.883 55.000 31.23 0.0 36.91 3.91 R
3727 9568 7.192913 TGCAAGTACACAGTTAATTTTGAGTG 58.807 34.615 0.00 0.0 0.00 3.51 R
5387 11231 0.036199 GCAATCATGGCCCAGCAAAA 60.036 50.000 0.00 0.0 0.00 2.44 R
6219 12068 0.039618 AGATGCATCCCCCAACGTTT 59.960 50.000 23.06 0.0 0.00 3.60 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
222 4289 9.887406 TTTTCTTCGATTTTTGTTCTATACACC 57.113 29.630 0.00 0.00 36.21 4.16
355 6130 9.715123 AAATCCAAAACAAAATGTCGAAAAATC 57.285 25.926 0.00 0.00 0.00 2.17
370 6145 1.376609 AAATCAGCGCTTAAGGCCCG 61.377 55.000 7.50 0.00 37.74 6.13
421 6196 1.910580 GCCCAGAAACATCGGGGAGA 61.911 60.000 16.78 0.00 46.19 3.71
564 6340 7.979115 TTTCTTTGAAACATTTTCCTGTACG 57.021 32.000 0.00 0.00 0.00 3.67
567 6343 4.217754 TGAAACATTTTCCTGTACGTGC 57.782 40.909 0.00 0.00 0.00 5.34
735 6518 1.435577 CACTTAACGGCGCTTAAGGT 58.564 50.000 28.39 18.73 37.84 3.50
781 6585 1.135373 CATAGTCGCGCCCAGGTATAG 60.135 57.143 0.00 0.00 0.00 1.31
846 6650 0.395724 CCACTTAATCTGGGCCCACC 60.396 60.000 24.45 0.00 40.81 4.61
856 6660 3.971702 GGCCCACCAAGAGCCACT 61.972 66.667 0.00 0.00 46.34 4.00
911 6716 2.620627 CCGCCAAAACCCTCCTCTTATT 60.621 50.000 0.00 0.00 0.00 1.40
933 6738 1.227380 CTCTTCCCGCCATTCCTCG 60.227 63.158 0.00 0.00 0.00 4.63
1058 6872 2.883122 AGAGGTACGTTCTCTCACCT 57.117 50.000 13.27 9.77 44.11 4.00
1063 6877 0.322277 TACGTTCTCTCACCTCCGCT 60.322 55.000 0.00 0.00 0.00 5.52
1072 6886 4.049817 ACCTCCGCTCGTCCCTCT 62.050 66.667 0.00 0.00 0.00 3.69
1138 6952 4.035278 CGTTCTCGGAAGCTTCTAGAAT 57.965 45.455 30.17 0.34 34.32 2.40
1140 6954 4.438880 CGTTCTCGGAAGCTTCTAGAATGA 60.439 45.833 33.25 22.28 37.81 2.57
1273 7087 4.348020 TCCTGGTAATCACCTCTTACCT 57.652 45.455 12.13 0.00 45.53 3.08
1288 7102 0.834687 TACCTCGTGTTTCAGGGCCT 60.835 55.000 0.00 0.00 33.57 5.19
1290 7104 0.537371 CCTCGTGTTTCAGGGCCTTT 60.537 55.000 1.32 0.00 0.00 3.11
1291 7105 1.271163 CCTCGTGTTTCAGGGCCTTTA 60.271 52.381 1.32 0.00 0.00 1.85
1305 7119 6.271391 TCAGGGCCTTTAAGATCCGATATTTA 59.729 38.462 1.32 0.00 0.00 1.40
1353 7167 8.573035 GTTGTTAATCCAAGTATTTGACTTCCA 58.427 33.333 0.00 0.00 45.81 3.53
1443 7257 1.066645 GTTCCACGTACGAATTCCCCT 60.067 52.381 24.41 0.00 0.00 4.79
1615 7431 2.887568 GTGGACGAGCTCATGCCG 60.888 66.667 15.40 1.87 40.80 5.69
1789 7605 2.359900 CCCTAGAAGTTTCTTGCGCAT 58.640 47.619 12.75 0.00 38.70 4.73
1800 7616 1.277842 TCTTGCGCATCTAGGTTTCCA 59.722 47.619 12.75 0.00 0.00 3.53
1815 7631 9.672673 TCTAGGTTTCCATTCATTCTTCTTAAG 57.327 33.333 0.00 0.00 0.00 1.85
1823 7639 8.587608 TCCATTCATTCTTCTTAAGCAATTTGT 58.412 29.630 0.00 0.00 0.00 2.83
1852 7668 5.882000 TGGCTATGATTGGCATGATATGTAC 59.118 40.000 0.00 0.00 37.87 2.90
1853 7669 6.118170 GGCTATGATTGGCATGATATGTACT 58.882 40.000 0.00 0.00 37.87 2.73
1875 7691 5.665459 CTGTAGTTCAGTAGCTGGCTATTT 58.335 41.667 5.58 0.00 39.17 1.40
1911 7727 6.752351 TGATATCGCAGAACTGAAACTACTTC 59.248 38.462 5.97 0.00 43.58 3.01
1923 7740 6.102006 TGAAACTACTTCACAACTGAAACG 57.898 37.500 0.00 0.00 39.20 3.60
1943 7761 3.447944 ACGTGAAGGGAGATCTTTAGGTC 59.552 47.826 0.00 0.00 29.49 3.85
1976 7808 3.760684 CTGGCTTTGGTAGAATTTGCTCT 59.239 43.478 0.00 0.00 0.00 4.09
1977 7809 3.507233 TGGCTTTGGTAGAATTTGCTCTG 59.493 43.478 0.00 0.00 0.00 3.35
1978 7810 3.119352 GGCTTTGGTAGAATTTGCTCTGG 60.119 47.826 0.00 0.00 0.00 3.86
1989 7821 2.135890 TGCTCTGGCAACTGACTGA 58.864 52.632 0.00 0.00 46.36 3.41
2034 7866 6.558009 TCAGAAACAATATCTGCTTTCATGC 58.442 36.000 0.00 0.00 43.19 4.06
2041 7874 7.101054 ACAATATCTGCTTTCATGCATTTGTT 58.899 30.769 0.00 0.00 42.48 2.83
2089 7922 5.653507 TCTAAACATTTGCCATCTTGCATC 58.346 37.500 0.00 0.00 41.70 3.91
2118 7952 7.013178 TGCAAAGACTTGTTTTGTGATCTCATA 59.987 33.333 0.00 0.00 37.73 2.15
2127 7961 5.746307 TTTGTGATCTCATAGATGCTTGC 57.254 39.130 0.00 0.00 34.53 4.01
2145 7979 6.049149 TGCTTGCAGATACCTAATTCAGTAC 58.951 40.000 0.00 0.00 0.00 2.73
2158 7992 9.125026 ACCTAATTCAGTACAAATGATCCATTC 57.875 33.333 0.00 0.00 32.43 2.67
2263 8097 4.833380 TCTAGTGAGGTATACATCAAGGCC 59.167 45.833 20.89 9.40 38.46 5.19
2509 8343 8.817876 AGACCTCCCTATATTAGTTTAGATTGC 58.182 37.037 0.00 0.00 0.00 3.56
2511 8345 6.535508 CCTCCCTATATTAGTTTAGATTGCGC 59.464 42.308 0.00 0.00 0.00 6.09
2512 8346 6.403878 TCCCTATATTAGTTTAGATTGCGCC 58.596 40.000 4.18 0.00 0.00 6.53
2625 8459 7.765307 AGTTCTATTTGTTGCTATGAATGTGG 58.235 34.615 0.00 0.00 0.00 4.17
2814 8648 9.981114 AACTCTATTTAATGGTGAAAAACTTGG 57.019 29.630 0.00 0.00 0.00 3.61
2963 8798 3.643320 TCAGAGGAGAGCTGACAAGAAAA 59.357 43.478 0.00 0.00 37.46 2.29
2976 8811 7.869429 AGCTGACAAGAAAAGTAAATCAAATGG 59.131 33.333 0.00 0.00 0.00 3.16
3023 8858 3.760684 ACTCTCTTTTGCTTAAGGCCATG 59.239 43.478 5.01 0.00 40.92 3.66
3032 8867 3.376859 TGCTTAAGGCCATGTAAATCACG 59.623 43.478 5.01 0.00 40.92 4.35
3042 8877 5.180117 GCCATGTAAATCACGATATCTGCTT 59.820 40.000 0.34 0.00 0.00 3.91
3092 8928 5.320277 TGTTCCATTACATCCATGTGTTGA 58.680 37.500 2.26 0.00 41.89 3.18
3106 8942 6.493115 TCCATGTGTTGATTCCATACAAAGTT 59.507 34.615 0.00 0.00 0.00 2.66
3422 9263 7.281366 AGCCTATGATCTTATTTCCATGGAT 57.719 36.000 17.06 3.82 0.00 3.41
3617 9458 1.200484 ACGTGAAAAAGGCGTTGTTGT 59.800 42.857 0.00 0.00 35.11 3.32
3705 9546 3.557577 TTGAATGTCTTGCACCGAATG 57.442 42.857 0.00 0.00 0.00 2.67
3710 9551 6.287525 TGAATGTCTTGCACCGAATGATATA 58.712 36.000 0.00 0.00 0.00 0.86
3997 9838 4.188247 TGCACTGTATTCTCTTAGCGTT 57.812 40.909 0.00 0.00 0.00 4.84
4003 9844 4.171005 TGTATTCTCTTAGCGTTGGTTCG 58.829 43.478 0.00 0.00 0.00 3.95
4020 9861 4.062991 GGTTCGGTTGTAATCAAGTCTGT 58.937 43.478 0.00 0.00 33.97 3.41
4129 9970 8.244113 GGTAAAAACATTCCACTCCAATCTTAG 58.756 37.037 0.00 0.00 0.00 2.18
4359 10200 3.012518 CACCACCTCTCTTAATGCAAGG 58.987 50.000 0.00 0.00 34.76 3.61
4454 10295 6.443934 TGGAAAATATGGTGATTGTAACGG 57.556 37.500 0.00 0.00 0.00 4.44
4744 10585 7.352079 ACCTTGTTGAATCTTGAAATCAGTT 57.648 32.000 0.00 0.00 0.00 3.16
5024 10865 1.134965 ACACTTCTGAGCATAGTCCGC 60.135 52.381 0.00 0.00 0.00 5.54
5030 10871 1.524355 CTGAGCATAGTCCGCATTTCG 59.476 52.381 0.00 0.00 38.08 3.46
5184 11028 1.736126 AGCGATGTTGATGAAGCACTG 59.264 47.619 0.00 0.00 0.00 3.66
5610 11454 1.204941 GATGTGCGACTAGGGTGTCTT 59.795 52.381 0.00 0.00 35.00 3.01
5683 11527 7.095523 CGAGAAATGTACTAGTCTAGTAGAGCC 60.096 44.444 18.29 8.70 41.59 4.70
5734 11581 2.682352 GAGCCTTTCTCCTTCAGCAATC 59.318 50.000 0.00 0.00 35.77 2.67
5856 11703 6.753107 TTGGTGCTAAAGACTATTTAAGCC 57.247 37.500 0.00 0.00 0.00 4.35
5907 11754 1.070601 GCTTGGTTGGCATTTCTGGTT 59.929 47.619 0.00 0.00 0.00 3.67
5911 11758 1.901833 GGTTGGCATTTCTGGTTGGAT 59.098 47.619 0.00 0.00 0.00 3.41
6002 11849 3.933861 TTCTAAGAAAGGAGGATGCCC 57.066 47.619 0.00 0.00 0.00 5.36
6005 11852 1.580059 AAGAAAGGAGGATGCCCGTA 58.420 50.000 0.00 0.00 37.58 4.02
6006 11853 1.123928 AGAAAGGAGGATGCCCGTAG 58.876 55.000 0.00 0.00 37.58 3.51
6009 11856 2.170012 AAGGAGGATGCCCGTAGTAA 57.830 50.000 0.00 0.00 37.58 2.24
6011 11858 2.690840 AGGAGGATGCCCGTAGTAATT 58.309 47.619 0.00 0.00 37.58 1.40
6013 11860 3.577415 AGGAGGATGCCCGTAGTAATTAC 59.423 47.826 7.57 7.57 37.58 1.89
6015 11862 4.321824 GGAGGATGCCCGTAGTAATTACTC 60.322 50.000 21.25 12.01 36.24 2.59
6016 11863 3.577415 AGGATGCCCGTAGTAATTACTCC 59.423 47.826 21.25 13.53 36.24 3.85
6037 11884 5.755849 TCCCTCCTTTCCATAATTCTTGTC 58.244 41.667 0.00 0.00 0.00 3.18
6038 11885 5.252863 TCCCTCCTTTCCATAATTCTTGTCA 59.747 40.000 0.00 0.00 0.00 3.58
6088 11935 0.828677 AGAATTACGGAACCGAGGGG 59.171 55.000 20.14 0.00 42.83 4.79
6101 11948 1.558294 CCGAGGGGGTAACTTTTAGCT 59.442 52.381 0.00 0.00 0.00 3.32
6185 12032 3.758755 AGATGAACAGTCTGTGCAGAA 57.241 42.857 18.66 0.00 39.71 3.02
6189 12038 5.641209 AGATGAACAGTCTGTGCAGAAATAC 59.359 40.000 18.66 6.43 39.71 1.89
6197 12046 7.826252 ACAGTCTGTGCAGAAATACATAGAAAT 59.174 33.333 4.21 0.00 39.48 2.17
6219 12068 9.683069 GAAATTGAAATTCTTAGAAAGTGCTGA 57.317 29.630 0.00 0.00 0.00 4.26
6257 12106 1.841302 TTGTCTCCGGGCTGCATTCT 61.841 55.000 0.00 0.00 0.00 2.40
6316 12165 0.252927 AGGCTTAGGAGAACTGCCCT 60.253 55.000 0.00 0.00 44.19 5.19
6327 12176 2.046507 CTGCCCTGGTCTCAGCAC 60.047 66.667 0.00 0.00 39.61 4.40
6345 12195 1.967066 CACCACCAGAGACAAGAGACT 59.033 52.381 0.00 0.00 0.00 3.24
6355 12205 3.993736 GAGACAAGAGACTTGAAAGCTCC 59.006 47.826 16.65 0.00 32.93 4.70
6419 12271 3.740115 TGTTACCTGAAACCTGAGCTTC 58.260 45.455 0.00 0.00 0.00 3.86
6464 12316 4.312443 CGTTAAGGCTACTGGAACTCAAA 58.688 43.478 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
344 6119 3.120338 CCTTAAGCGCTGATTTTTCGACA 60.120 43.478 12.58 0.00 0.00 4.35
383 6158 1.290203 CGCGACTATGCAAATGGTCT 58.710 50.000 0.00 0.00 30.96 3.85
385 6160 1.714899 GGCGCGACTATGCAAATGGT 61.715 55.000 12.10 0.00 34.15 3.55
421 6196 3.070159 AGTTGGATATATGACTGCAGCGT 59.930 43.478 15.27 10.69 0.00 5.07
564 6340 4.757594 TGCATTTGGGAAATATTCAGCAC 58.242 39.130 0.00 0.00 0.00 4.40
567 6343 7.852971 AAACATGCATTTGGGAAATATTCAG 57.147 32.000 0.00 0.00 0.00 3.02
781 6585 1.866925 GCCCATTACGCTAATCGGC 59.133 57.895 9.34 9.34 43.38 5.54
784 6588 2.221055 CGAACAGCCCATTACGCTAATC 59.779 50.000 0.00 0.00 33.91 1.75
846 6650 2.087646 GGAAGGCTAAAGTGGCTCTTG 58.912 52.381 2.09 0.00 42.20 3.02
856 6660 2.046700 CGTGGCGGGAAGGCTAAA 60.047 61.111 0.00 0.00 46.88 1.85
884 6688 2.116556 GGGTTTTGGCGGGAAGGA 59.883 61.111 0.00 0.00 0.00 3.36
911 6716 2.286121 AATGGCGGGAAGAGGGGA 60.286 61.111 0.00 0.00 0.00 4.81
933 6738 1.186200 GGGAAATGAGAGGGTTTGGC 58.814 55.000 0.00 0.00 0.00 4.52
1032 6846 0.109412 AGAACGTACCTCTTTCCGCG 60.109 55.000 0.00 0.00 0.00 6.46
1058 6872 4.043100 TCCAGAGGGACGAGCGGA 62.043 66.667 0.00 0.00 38.64 5.54
1072 6886 3.003173 CCAGAGGCTTCCGGTCCA 61.003 66.667 0.00 0.00 0.00 4.02
1138 6952 2.023414 AACACGGCCGTCTGAACTCA 62.023 55.000 31.80 0.00 0.00 3.41
1140 6954 1.594293 CAACACGGCCGTCTGAACT 60.594 57.895 31.80 0.68 0.00 3.01
1273 7087 2.105134 TCTTAAAGGCCCTGAAACACGA 59.895 45.455 0.00 0.00 0.00 4.35
1305 7119 6.431198 ACAAATCGGCGTGAAATTACTAAT 57.569 33.333 6.85 0.00 0.00 1.73
1311 7125 3.363341 ACAACAAATCGGCGTGAAATT 57.637 38.095 6.85 0.00 0.00 1.82
1349 7163 3.010472 TGCTGGAATTGGAGAGAATGGAA 59.990 43.478 0.00 0.00 0.00 3.53
1350 7164 2.577563 TGCTGGAATTGGAGAGAATGGA 59.422 45.455 0.00 0.00 0.00 3.41
1353 7167 4.263639 TGTCTTGCTGGAATTGGAGAGAAT 60.264 41.667 0.00 0.00 0.00 2.40
1443 7257 5.069251 GGAAAGAATTAGATCTCGTGGAGGA 59.931 44.000 0.00 0.00 0.00 3.71
1789 7605 9.672673 CTTAAGAAGAATGAATGGAAACCTAGA 57.327 33.333 0.00 0.00 0.00 2.43
1800 7616 9.635520 CAGACAAATTGCTTAAGAAGAATGAAT 57.364 29.630 6.67 0.00 0.00 2.57
1815 7631 2.754552 TCATAGCCACCAGACAAATTGC 59.245 45.455 0.00 0.00 0.00 3.56
1823 7639 0.918258 TGCCAATCATAGCCACCAGA 59.082 50.000 0.00 0.00 0.00 3.86
1853 7669 5.677319 AAATAGCCAGCTACTGAACTACA 57.323 39.130 0.51 0.00 32.44 2.74
1875 7691 8.498358 CAGTTCTGCGATATCAGCAAATAATTA 58.502 33.333 18.32 0.00 44.67 1.40
1911 7727 2.285083 TCCCTTCACGTTTCAGTTGTG 58.715 47.619 0.00 0.00 34.96 3.33
1923 7740 5.685520 AAGACCTAAAGATCTCCCTTCAC 57.314 43.478 0.00 0.00 0.00 3.18
1976 7808 2.865119 ATCACATCAGTCAGTTGCCA 57.135 45.000 0.00 0.00 0.00 4.92
1977 7809 5.575957 CATTAATCACATCAGTCAGTTGCC 58.424 41.667 0.00 0.00 0.00 4.52
1978 7810 5.032863 GCATTAATCACATCAGTCAGTTGC 58.967 41.667 0.00 0.00 0.00 4.17
1989 7821 9.491675 TTCTGAACAATTTTGCATTAATCACAT 57.508 25.926 0.00 0.00 0.00 3.21
2024 7856 8.033626 TTGTCATATAACAAATGCATGAAAGCA 58.966 29.630 0.00 0.00 40.38 3.91
2062 7895 6.765036 TGCAAGATGGCAAATGTTTAGAAAAA 59.235 30.769 0.00 0.00 41.65 1.94
2064 7897 5.851720 TGCAAGATGGCAAATGTTTAGAAA 58.148 33.333 0.00 0.00 41.65 2.52
2089 7922 4.493547 TCACAAAACAAGTCTTTGCAAGG 58.506 39.130 1.35 1.35 37.29 3.61
2095 7928 8.908786 TCTATGAGATCACAAAACAAGTCTTT 57.091 30.769 0.00 0.00 0.00 2.52
2118 7952 5.933617 TGAATTAGGTATCTGCAAGCATCT 58.066 37.500 0.00 0.00 0.00 2.90
2145 7979 5.702865 ACAGTTGTTCGAATGGATCATTTG 58.297 37.500 0.00 2.33 36.78 2.32
2263 8097 1.341531 AGTGGTGTCACCTTCGAGAAG 59.658 52.381 22.56 5.90 44.64 2.85
2509 8343 0.527565 CAAAATTCTCCTGGGTGGCG 59.472 55.000 0.00 0.00 35.26 5.69
2511 8345 1.631405 TGCAAAATTCTCCTGGGTGG 58.369 50.000 0.00 0.00 37.10 4.61
2512 8346 5.603170 AATATGCAAAATTCTCCTGGGTG 57.397 39.130 0.00 0.00 0.00 4.61
2814 8648 9.415544 GGGAGTATGAATATGATTTCATTTTGC 57.584 33.333 5.13 1.01 42.29 3.68
3023 8858 7.368750 GCAAAAAGCAGATATCGTGATTTAC 57.631 36.000 14.50 7.61 44.79 2.01
3177 9013 7.814264 AATAGCATTTGGGAAGATTACTGAG 57.186 36.000 0.00 0.00 0.00 3.35
3325 9166 1.678101 GTATCAGCAACCAATCCTGCC 59.322 52.381 0.00 0.00 39.47 4.85
3422 9263 4.165372 CAGGCAAGGTAAATAGGGTTAGGA 59.835 45.833 0.00 0.00 0.00 2.94
3490 9331 3.307691 CCTGCTCATCACCCTTAAGTTCA 60.308 47.826 0.97 0.00 0.00 3.18
3617 9458 0.882927 GGTGCACCAACGAGTAGCAA 60.883 55.000 31.23 0.00 36.91 3.91
3716 9557 8.405531 CAGTTAATTTTGAGTGGTCAGAAAAGA 58.594 33.333 0.00 0.00 31.00 2.52
3718 9559 7.973388 CACAGTTAATTTTGAGTGGTCAGAAAA 59.027 33.333 0.00 0.00 31.00 2.29
3727 9568 7.192913 TGCAAGTACACAGTTAATTTTGAGTG 58.807 34.615 0.00 0.00 0.00 3.51
3997 9838 4.062293 CAGACTTGATTACAACCGAACCA 58.938 43.478 0.00 0.00 32.27 3.67
4003 9844 6.619801 AAACAGACAGACTTGATTACAACC 57.380 37.500 0.00 0.00 32.27 3.77
4020 9861 7.283127 ACAGCTCAAATCAGAAACTAAAACAGA 59.717 33.333 0.00 0.00 0.00 3.41
4187 10028 8.199449 ACCCAAAAGTGCAATATGAGAATTATG 58.801 33.333 0.00 0.00 0.00 1.90
4815 10656 2.620115 TGAACAGCAAGAAGGCAAAGAG 59.380 45.455 0.00 0.00 35.83 2.85
5030 10871 7.553044 AGCAGGGTATTAAGTTCACTTACAATC 59.447 37.037 0.00 0.00 38.09 2.67
5387 11231 0.036199 GCAATCATGGCCCAGCAAAA 60.036 50.000 0.00 0.00 0.00 2.44
5388 11232 0.905809 AGCAATCATGGCCCAGCAAA 60.906 50.000 0.00 0.00 0.00 3.68
5594 11438 1.136305 GCATAAGACACCCTAGTCGCA 59.864 52.381 0.00 0.00 43.24 5.10
5683 11527 4.481930 TTCACAGGAACAAATAGCAACG 57.518 40.909 0.00 0.00 0.00 4.10
5734 11581 2.810274 CACTCCAGTGTCAACCAATGAG 59.190 50.000 0.00 0.00 41.63 2.90
5799 11646 5.162794 CAAATTCATCATTGTCGGAAAGCA 58.837 37.500 0.00 0.00 0.00 3.91
5856 11703 3.628942 TCCAAGCAATTCCATGAGAATCG 59.371 43.478 9.10 1.57 44.75 3.34
5907 11754 4.511527 TCAGCTGCAAAAACAAAAATCCA 58.488 34.783 9.47 0.00 0.00 3.41
5911 11758 9.270640 ACATATATTCAGCTGCAAAAACAAAAA 57.729 25.926 9.47 0.00 0.00 1.94
6002 11849 5.361857 TGGAAAGGAGGGAGTAATTACTACG 59.638 44.000 19.46 0.00 38.05 3.51
6005 11852 8.582891 ATTATGGAAAGGAGGGAGTAATTACT 57.417 34.615 18.05 18.05 39.71 2.24
6006 11853 9.286170 GAATTATGGAAAGGAGGGAGTAATTAC 57.714 37.037 7.57 7.57 0.00 1.89
6009 11856 7.713704 AGAATTATGGAAAGGAGGGAGTAAT 57.286 36.000 0.00 0.00 0.00 1.89
6011 11858 6.447084 ACAAGAATTATGGAAAGGAGGGAGTA 59.553 38.462 0.00 0.00 0.00 2.59
6013 11860 5.760131 ACAAGAATTATGGAAAGGAGGGAG 58.240 41.667 0.00 0.00 0.00 4.30
6015 11862 5.509498 TGACAAGAATTATGGAAAGGAGGG 58.491 41.667 0.00 0.00 0.00 4.30
6016 11863 6.040166 CCATGACAAGAATTATGGAAAGGAGG 59.960 42.308 0.00 0.00 42.05 4.30
6063 11910 4.181578 CTCGGTTCCGTAATTCTTGTCAT 58.818 43.478 11.04 0.00 0.00 3.06
6064 11911 3.581755 CTCGGTTCCGTAATTCTTGTCA 58.418 45.455 11.04 0.00 0.00 3.58
6076 11923 1.547472 AAGTTACCCCCTCGGTTCCG 61.547 60.000 4.74 4.74 45.36 4.30
6088 11935 5.970317 TTTTAGGGCAGCTAAAAGTTACC 57.030 39.130 5.05 0.00 33.11 2.85
6176 12023 9.844790 TTTCAATTTCTATGTATTTCTGCACAG 57.155 29.630 0.00 0.00 0.00 3.66
6197 12046 7.643764 CGTTTCAGCACTTTCTAAGAATTTCAA 59.356 33.333 0.00 0.00 0.00 2.69
6211 12060 1.106944 CCCCCAACGTTTCAGCACTT 61.107 55.000 0.00 0.00 0.00 3.16
6219 12068 0.039618 AGATGCATCCCCCAACGTTT 59.960 50.000 23.06 0.00 0.00 3.60
6257 12106 1.971167 GGACAAGGCGCATTGGACA 60.971 57.895 34.59 0.00 34.36 4.02
6266 12115 2.251409 ATCATGAGATGGACAAGGCG 57.749 50.000 0.09 0.00 31.91 5.52
6316 12165 1.459348 TCTGGTGGTGCTGAGACCA 60.459 57.895 0.00 0.00 44.09 4.02
6327 12176 2.630098 TCAAGTCTCTTGTCTCTGGTGG 59.370 50.000 8.93 0.00 0.00 4.61
6355 12205 6.662414 TTCTACCAAATATGTCTCAAAGCG 57.338 37.500 0.00 0.00 0.00 4.68
6419 12271 0.578683 CTTGTGCCGCATATGTCTCG 59.421 55.000 4.29 0.00 0.00 4.04
6464 12316 1.002257 TGCTCACCGGCATGTTGAT 60.002 52.632 0.00 0.00 37.29 2.57


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

AutoCloner maintained by Alex Coulton.