Multiple sequence alignment - TraesCS5D01G204800

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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 TraesCS5D01G204800 chr5D 100.000 2975 0 0 1 2975 310257825 310260799 0.000000e+00 5494.0
1 TraesCS5D01G204800 chr5D 82.877 146 23 2 2735 2879 436016836 436016692 2.410000e-26 130.0
2 TraesCS5D01G204800 chr5B 93.647 2849 129 22 141 2972 356214191 356217004 0.000000e+00 4211.0
3 TraesCS5D01G204800 chr5B 92.683 123 4 2 1 118 356214080 356214202 3.940000e-39 172.0
4 TraesCS5D01G204800 chr5A 91.967 2888 126 32 163 2975 403755531 403758387 0.000000e+00 3951.0
5 TraesCS5D01G204800 chr5A 76.241 564 92 27 1109 1661 663769656 663769124 8.180000e-66 261.0
6 TraesCS5D01G204800 chr4D 76.626 569 90 32 1109 1661 483837732 483837191 1.050000e-69 274.0
7 TraesCS5D01G204800 chr4D 80.169 237 43 4 2735 2970 436738220 436738453 1.100000e-39 174.0
8 TraesCS5D01G204800 chr4B 81.587 315 44 9 1354 1661 614280289 614279982 6.370000e-62 248.0
9 TraesCS5D01G204800 chr4B 95.000 40 1 1 2870 2908 428024861 428024822 8.900000e-06 62.1
10 TraesCS5D01G204800 chr4A 82.716 243 37 5 2735 2975 31611196 31610957 8.350000e-51 211.0
11 TraesCS5D01G204800 chr4A 78.804 184 33 6 2664 2844 556156191 556156011 5.210000e-23 119.0
12 TraesCS5D01G204800 chrUn 80.435 184 30 6 2664 2844 337012467 337012287 5.170000e-28 135.0
13 TraesCS5D01G204800 chr2B 82.781 151 20 5 2758 2906 682913283 682913137 2.410000e-26 130.0
14 TraesCS5D01G204800 chr2B 80.488 123 18 6 2833 2951 770469140 770469260 4.080000e-14 89.8
15 TraesCS5D01G204800 chr6D 80.000 175 30 5 2671 2844 424538744 424538574 1.120000e-24 124.0
16 TraesCS5D01G204800 chr7A 78.022 182 27 9 2774 2951 132577706 132577878 5.250000e-18 102.0
17 TraesCS5D01G204800 chr1A 81.633 98 14 4 2811 2906 514254823 514254918 8.840000e-11 78.7


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 TraesCS5D01G204800 chr5D 310257825 310260799 2974 False 5494.0 5494 100.000 1 2975 1 chr5D.!!$F1 2974
1 TraesCS5D01G204800 chr5B 356214080 356217004 2924 False 2191.5 4211 93.165 1 2972 2 chr5B.!!$F1 2971
2 TraesCS5D01G204800 chr5A 403755531 403758387 2856 False 3951.0 3951 91.967 163 2975 1 chr5A.!!$F1 2812
3 TraesCS5D01G204800 chr5A 663769124 663769656 532 True 261.0 261 76.241 1109 1661 1 chr5A.!!$R1 552
4 TraesCS5D01G204800 chr4D 483837191 483837732 541 True 274.0 274 76.626 1109 1661 1 chr4D.!!$R1 552

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
113 119 0.962855 TGGCCACGTCTCAGAGAGAG 60.963 60.000 0.00 0.62 46.14 3.20 F
1107 1164 1.599047 CTTCCTGCAGGACGTCCAT 59.401 57.895 35.26 18.04 45.39 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1710 1806 1.081892 CACTGCATTGAACGAGAGGG 58.918 55.0 0.0 0.0 0.00 4.30 R
2236 2339 0.953960 CACAGGTGCCCTACGAAACC 60.954 60.0 0.0 0.0 29.64 3.27 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
59 65 1.539827 GGAGTTGGTTTTGGATCACGG 59.460 52.381 0.00 0.00 0.00 4.94
104 110 3.626924 GTCAGGGTGGCCACGTCT 61.627 66.667 29.08 24.30 0.00 4.18
106 112 3.625897 CAGGGTGGCCACGTCTCA 61.626 66.667 29.08 0.00 0.00 3.27
107 113 3.314331 AGGGTGGCCACGTCTCAG 61.314 66.667 29.08 0.00 0.00 3.35
108 114 3.311110 GGGTGGCCACGTCTCAGA 61.311 66.667 29.08 0.00 0.00 3.27
109 115 2.262915 GGTGGCCACGTCTCAGAG 59.737 66.667 29.08 0.00 0.00 3.35
110 116 2.276116 GGTGGCCACGTCTCAGAGA 61.276 63.158 29.08 0.00 0.00 3.10
111 117 1.214062 GTGGCCACGTCTCAGAGAG 59.786 63.158 22.49 0.00 0.00 3.20
112 118 1.074951 TGGCCACGTCTCAGAGAGA 59.925 57.895 0.00 0.00 36.22 3.10
113 119 0.962855 TGGCCACGTCTCAGAGAGAG 60.963 60.000 0.00 0.62 46.14 3.20
126 132 4.871822 TCAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
127 133 4.892345 TCAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
128 134 4.892345 CAGAGAGAGAGAGAGAGAGAGAGA 59.108 50.000 0.00 0.00 0.00 3.10
129 135 5.009911 CAGAGAGAGAGAGAGAGAGAGAGAG 59.990 52.000 0.00 0.00 0.00 3.20
130 136 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
131 137 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
132 138 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
133 139 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
134 140 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
135 141 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
136 142 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
137 143 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
138 144 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
139 145 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
183 189 2.158957 GGCGGTTACAGAGAATGATGGA 60.159 50.000 0.00 0.00 0.00 3.41
185 191 3.722147 CGGTTACAGAGAATGATGGAGG 58.278 50.000 0.00 0.00 0.00 4.30
296 302 7.017551 AGGAAAAATGGAGGGAAAATAGCTTTT 59.982 33.333 0.00 0.00 37.28 2.27
503 510 6.237595 GCGCCTTATTCTCGATATACATTCAC 60.238 42.308 0.00 0.00 0.00 3.18
510 545 8.809159 ATTCTCGATATACATTCACAGTTCAG 57.191 34.615 0.00 0.00 0.00 3.02
511 546 7.568199 TCTCGATATACATTCACAGTTCAGA 57.432 36.000 0.00 0.00 0.00 3.27
512 547 7.418408 TCTCGATATACATTCACAGTTCAGAC 58.582 38.462 0.00 0.00 0.00 3.51
513 548 7.283354 TCTCGATATACATTCACAGTTCAGACT 59.717 37.037 0.00 0.00 36.25 3.24
514 549 7.418408 TCGATATACATTCACAGTTCAGACTC 58.582 38.462 0.00 0.00 32.54 3.36
520 555 5.934625 ACATTCACAGTTCAGACTCCATTAC 59.065 40.000 0.00 0.00 32.54 1.89
570 608 8.003508 TGCGTGTATTAGCGAGAATTAATTAG 57.996 34.615 0.00 0.00 35.87 1.73
571 609 7.115805 TGCGTGTATTAGCGAGAATTAATTAGG 59.884 37.037 0.00 0.00 35.87 2.69
572 610 7.115947 GCGTGTATTAGCGAGAATTAATTAGGT 59.884 37.037 0.00 4.50 0.00 3.08
573 611 8.425491 CGTGTATTAGCGAGAATTAATTAGGTG 58.575 37.037 0.00 0.00 0.00 4.00
679 718 2.426522 GCTCAGCACTGTGTGGAATTA 58.573 47.619 9.86 0.00 33.64 1.40
907 959 2.122729 CCACCTCCACCTCCTCCA 59.877 66.667 0.00 0.00 0.00 3.86
910 962 2.452114 CCTCCACCTCCTCCACCT 59.548 66.667 0.00 0.00 0.00 4.00
912 964 2.037367 TCCACCTCCTCCACCTCG 59.963 66.667 0.00 0.00 0.00 4.63
1033 1090 4.373116 TCAGCTTCCGCCCGACAC 62.373 66.667 0.00 0.00 36.60 3.67
1063 1120 2.328099 CCGCTGTTCCACTGCTTCC 61.328 63.158 4.52 0.00 40.34 3.46
1107 1164 1.599047 CTTCCTGCAGGACGTCCAT 59.401 57.895 35.26 18.04 45.39 3.41
1215 1272 2.699809 CCCTACGACGACGACGAG 59.300 66.667 25.15 16.55 42.66 4.18
1227 1296 2.783935 GACGAGGACGACGAGGAC 59.216 66.667 0.00 0.00 42.66 3.85
1228 1297 3.081159 GACGAGGACGACGAGGACG 62.081 68.421 0.00 4.85 42.66 4.79
1229 1298 3.862402 CGAGGACGACGAGGACGG 61.862 72.222 0.00 0.00 44.46 4.79
1668 1764 5.773239 ACAACATCGAGGTAATTAACACG 57.227 39.130 13.35 13.35 0.00 4.49
1703 1799 5.757886 ACAAACGTACCTTGATCAATGTTG 58.242 37.500 19.53 13.98 0.00 3.33
1729 1825 1.081892 CCCTCTCGTTCAATGCAGTG 58.918 55.000 8.08 8.08 0.00 3.66
1730 1826 1.609061 CCCTCTCGTTCAATGCAGTGT 60.609 52.381 14.62 0.00 0.00 3.55
1743 1839 6.207928 TCAATGCAGTGTCAATTGTGTTAAG 58.792 36.000 14.62 0.00 0.00 1.85
1753 1849 7.855904 GTGTCAATTGTGTTAAGAATTCTCGTT 59.144 33.333 8.78 0.00 27.19 3.85
1754 1850 8.402472 TGTCAATTGTGTTAAGAATTCTCGTTT 58.598 29.630 8.78 0.00 27.19 3.60
1755 1851 9.233232 GTCAATTGTGTTAAGAATTCTCGTTTT 57.767 29.630 8.78 0.00 27.19 2.43
1756 1852 9.445786 TCAATTGTGTTAAGAATTCTCGTTTTC 57.554 29.630 8.78 0.00 27.19 2.29
1761 1857 9.849166 TGTGTTAAGAATTCTCGTTTTCTTTTT 57.151 25.926 8.78 0.00 41.26 1.94
2071 2171 3.530398 TTTTTGAGAACGCCGCCGC 62.530 57.895 0.00 0.00 38.22 6.53
2298 2401 6.765989 TGTTCTACACAGCTGAATTTTGTAGT 59.234 34.615 27.41 13.29 40.29 2.73
2299 2402 7.929245 TGTTCTACACAGCTGAATTTTGTAGTA 59.071 33.333 27.41 20.75 40.29 1.82
2568 2686 7.209471 TGCTAATCAGTTCGGTGTTTTTATT 57.791 32.000 0.00 0.00 0.00 1.40
2657 2777 8.306680 GCATATCGCTTAGTCACCTAAATAAA 57.693 34.615 0.00 0.00 37.77 1.40
2665 2785 7.334671 GCTTAGTCACCTAAATAAAAGCAGAGT 59.665 37.037 0.00 0.00 38.33 3.24
2683 2803 4.232310 GCTCAGGGCATCTCCAAC 57.768 61.111 0.00 0.00 41.35 3.77
2689 2809 1.135094 AGGGCATCTCCAACGATGAT 58.865 50.000 5.07 0.00 42.63 2.45
2692 2812 1.202687 GGCATCTCCAACGATGATCCA 60.203 52.381 5.07 0.00 42.63 3.41
2706 2826 2.789213 TGATCCACAAATTTGCTCCGA 58.211 42.857 18.12 8.54 0.00 4.55
2754 2874 2.351276 GACACCGATGCCCAAGGT 59.649 61.111 0.00 0.00 39.12 3.50
2794 2914 5.118510 CCCGCATACATTTCAAAACAACTTC 59.881 40.000 0.00 0.00 0.00 3.01
2855 2975 6.480524 TTTTCATACAAACCAGACGAGATG 57.519 37.500 0.00 0.00 0.00 2.90
2866 2986 2.283617 CAGACGAGATGCATGCTAACAC 59.716 50.000 20.33 7.81 0.00 3.32
2868 2988 0.578683 CGAGATGCATGCTAACACGG 59.421 55.000 20.33 0.00 0.00 4.94
2927 3048 2.169978 AGCGATCCAACCCTAAACCTAC 59.830 50.000 0.00 0.00 0.00 3.18
2935 3056 1.007600 ACCCTAAACCTACCCTACGCT 59.992 52.381 0.00 0.00 0.00 5.07
2941 3062 3.145551 CTACCCTACGCTGGCGGT 61.146 66.667 18.99 9.44 44.69 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 4.068599 CAACTCCTGGTTCCTTCTTTCTC 58.931 47.826 0.00 0.00 35.74 2.87
104 110 4.871822 TCTCTCTCTCTCTCTCTCTCTGA 58.128 47.826 0.00 0.00 0.00 3.27
106 112 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
107 113 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
108 114 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
109 115 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
110 116 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
111 117 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
112 118 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
113 119 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
114 120 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
115 121 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
116 122 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
117 123 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
118 124 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
119 125 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
120 126 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
121 127 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
122 128 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
123 129 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
124 130 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
125 131 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
126 132 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
127 133 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
128 134 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
129 135 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
130 136 4.222336 CCTCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
131 137 3.244044 GCCTCTCTCTCTCTCTCTCTCTC 60.244 56.522 0.00 0.00 0.00 3.20
132 138 2.703007 GCCTCTCTCTCTCTCTCTCTCT 59.297 54.545 0.00 0.00 0.00 3.10
133 139 2.546795 CGCCTCTCTCTCTCTCTCTCTC 60.547 59.091 0.00 0.00 0.00 3.20
134 140 1.414181 CGCCTCTCTCTCTCTCTCTCT 59.586 57.143 0.00 0.00 0.00 3.10
135 141 1.541233 CCGCCTCTCTCTCTCTCTCTC 60.541 61.905 0.00 0.00 0.00 3.20
136 142 0.469917 CCGCCTCTCTCTCTCTCTCT 59.530 60.000 0.00 0.00 0.00 3.10
137 143 0.535102 CCCGCCTCTCTCTCTCTCTC 60.535 65.000 0.00 0.00 0.00 3.20
138 144 1.531748 CCCGCCTCTCTCTCTCTCT 59.468 63.158 0.00 0.00 0.00 3.10
139 145 1.528309 CCCCGCCTCTCTCTCTCTC 60.528 68.421 0.00 0.00 0.00 3.20
159 165 3.179443 TCATTCTCTGTAACCGCCATC 57.821 47.619 0.00 0.00 0.00 3.51
215 221 3.066380 TCTTAAGCGGTTAAAACGTCCC 58.934 45.455 19.35 0.00 0.00 4.46
296 302 1.862201 CACGTCGTTCTGTGGCTAAAA 59.138 47.619 0.00 0.00 32.47 1.52
503 510 4.180057 GCTCAGTAATGGAGTCTGAACTG 58.820 47.826 8.31 8.31 37.68 3.16
509 544 6.239176 GCTAGTATTGCTCAGTAATGGAGTCT 60.239 42.308 0.00 0.00 34.83 3.24
510 545 5.923684 GCTAGTATTGCTCAGTAATGGAGTC 59.076 44.000 0.00 0.00 34.83 3.36
511 546 5.363868 TGCTAGTATTGCTCAGTAATGGAGT 59.636 40.000 0.00 0.00 34.83 3.85
512 547 5.847304 TGCTAGTATTGCTCAGTAATGGAG 58.153 41.667 0.00 0.00 35.47 3.86
513 548 5.869649 TGCTAGTATTGCTCAGTAATGGA 57.130 39.130 0.00 0.00 0.00 3.41
514 549 5.106791 GCATGCTAGTATTGCTCAGTAATGG 60.107 44.000 11.37 0.00 33.61 3.16
520 555 4.784329 CATTGCATGCTAGTATTGCTCAG 58.216 43.478 20.33 0.00 37.28 3.35
687 726 3.372458 GCTTTTTCATCTCATCCCTCCCT 60.372 47.826 0.00 0.00 0.00 4.20
907 959 3.692406 GACGGGGTCAAGCGAGGT 61.692 66.667 0.00 0.00 32.09 3.85
1205 1262 3.771491 CGTCGTCCTCGTCGTCGT 61.771 66.667 1.33 0.00 41.73 4.34
1440 1524 3.020026 CTGCAGCTTCTTGGCGTCG 62.020 63.158 0.00 0.00 37.29 5.12
1515 1611 3.343788 CTCCGCCGTCTTCTCGCTT 62.344 63.158 0.00 0.00 0.00 4.68
1554 1650 1.827789 GGTGTTGAGCTTGTGGCCA 60.828 57.895 0.00 0.00 43.05 5.36
1668 1764 1.154112 CGTTTGTAATGCCGTGGCC 60.154 57.895 8.69 0.00 41.09 5.36
1703 1799 3.249559 GCATTGAACGAGAGGGATTGATC 59.750 47.826 0.00 0.00 0.00 2.92
1708 1804 1.556911 ACTGCATTGAACGAGAGGGAT 59.443 47.619 0.00 0.00 0.00 3.85
1710 1806 1.081892 CACTGCATTGAACGAGAGGG 58.918 55.000 0.00 0.00 0.00 4.30
1729 1825 8.782533 AAACGAGAATTCTTAACACAATTGAC 57.217 30.769 13.59 0.00 0.00 3.18
1730 1826 9.445786 GAAAACGAGAATTCTTAACACAATTGA 57.554 29.630 13.59 0.00 0.00 2.57
1743 1839 6.357240 CGTCCTGAAAAAGAAAACGAGAATTC 59.643 38.462 0.00 0.00 31.69 2.17
1753 1849 4.574828 CACCTTCTCGTCCTGAAAAAGAAA 59.425 41.667 0.00 0.00 0.00 2.52
1754 1850 4.127171 CACCTTCTCGTCCTGAAAAAGAA 58.873 43.478 0.00 0.00 0.00 2.52
1755 1851 3.728845 CACCTTCTCGTCCTGAAAAAGA 58.271 45.455 0.00 0.00 0.00 2.52
1756 1852 2.224314 GCACCTTCTCGTCCTGAAAAAG 59.776 50.000 0.00 0.00 0.00 2.27
1761 1857 2.636412 CGGCACCTTCTCGTCCTGA 61.636 63.158 0.00 0.00 0.00 3.86
2224 2324 7.646526 GTGCCCTACGAAACCAATTAAAATATC 59.353 37.037 0.00 0.00 0.00 1.63
2236 2339 0.953960 CACAGGTGCCCTACGAAACC 60.954 60.000 0.00 0.00 29.64 3.27
2591 2710 5.801380 ACTAATCGCTTTCCTAGGTGAAAA 58.199 37.500 9.08 1.12 34.06 2.29
2683 2803 3.699067 GGAGCAAATTTGTGGATCATCG 58.301 45.455 19.03 0.00 0.00 3.84
2689 2809 1.974265 TGTCGGAGCAAATTTGTGGA 58.026 45.000 19.03 8.81 0.00 4.02
2692 2812 2.513753 TGGATGTCGGAGCAAATTTGT 58.486 42.857 19.03 6.52 0.00 2.83
2706 2826 2.512286 CTGTCCGCGCATGGATGT 60.512 61.111 8.75 0.00 40.91 3.06
2794 2914 6.458342 GCATTAATTTCCTCCGGTTAGTTGAG 60.458 42.308 0.00 0.00 0.00 3.02
2825 2945 3.157881 TGGTTTGTATGAAAATCCGCCA 58.842 40.909 0.00 0.00 0.00 5.69
2855 2975 1.714899 AATCCGCCGTGTTAGCATGC 61.715 55.000 10.51 10.51 0.00 4.06
2866 2986 4.285807 TGAAATGTAATGAAATCCGCCG 57.714 40.909 0.00 0.00 0.00 6.46
2868 2988 6.942886 TGTTTGAAATGTAATGAAATCCGC 57.057 33.333 0.00 0.00 0.00 5.54
2910 3031 3.231699 AGGGTAGGTTTAGGGTTGGAT 57.768 47.619 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.