Multiple sequence alignment - TraesCS2D01G153100

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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 TraesCS2D01G153100 chr2D 100.000 3631 0 0 1 3631 95771034 95774664 0.000000e+00 6706.0
1 TraesCS2D01G153100 chr2D 88.976 127 14 0 1654 1780 96749601 96749727 1.350000e-34 158.0
2 TraesCS2D01G153100 chr2D 88.281 128 15 0 1653 1780 96679813 96679940 1.750000e-33 154.0
3 TraesCS2D01G153100 chr2A 90.504 3549 223 53 148 3631 94289483 94292982 0.000000e+00 4582.0
4 TraesCS2D01G153100 chr2A 96.032 126 5 0 4 129 94289304 94289429 4.750000e-49 206.0
5 TraesCS2D01G153100 chr2B 91.136 2730 165 41 148 2840 147490023 147492712 0.000000e+00 3629.0
6 TraesCS2D01G153100 chr2B 90.695 806 45 14 2837 3621 147492834 147493630 0.000000e+00 1046.0
7 TraesCS2D01G153100 chr2B 89.062 128 14 0 1653 1780 147830158 147830285 3.750000e-35 159.0
8 TraesCS2D01G153100 chr2B 89.062 128 14 0 1653 1780 147869911 147870038 3.750000e-35 159.0
9 TraesCS2D01G153100 chr2B 89.062 128 14 0 1653 1780 148036820 148036947 3.750000e-35 159.0
10 TraesCS2D01G153100 chr2B 87.209 86 11 0 15 100 147489429 147489514 8.300000e-17 99.0
11 TraesCS2D01G153100 chr7B 75.227 331 73 8 1956 2283 535506412 535506736 8.120000e-32 148.0
12 TraesCS2D01G153100 chr3D 86.207 87 10 1 10 94 114184165 114184079 3.860000e-15 93.5
13 TraesCS2D01G153100 chr3D 80.952 105 20 0 1676 1780 419515654 419515758 2.320000e-12 84.2
14 TraesCS2D01G153100 chr5B 79.688 128 20 5 1 125 258439983 258439859 1.800000e-13 87.9
15 TraesCS2D01G153100 chr4A 80.172 116 20 3 11 123 692389112 692389227 2.320000e-12 84.2
16 TraesCS2D01G153100 chr1A 86.842 76 7 2 15 87 581304084 581304159 8.360000e-12 82.4
17 TraesCS2D01G153100 chrUn 95.833 48 2 0 1733 1780 17364995 17365042 1.080000e-10 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 TraesCS2D01G153100 chr2D 95771034 95774664 3630 False 6706.000000 6706 100.000 1 3631 1 chr2D.!!$F1 3630
1 TraesCS2D01G153100 chr2A 94289304 94292982 3678 False 2394.000000 4582 93.268 4 3631 2 chr2A.!!$F1 3627
2 TraesCS2D01G153100 chr2B 147489429 147493630 4201 False 1591.333333 3629 89.680 15 3621 3 chr2B.!!$F4 3606

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
325 799 0.035881 CACCAGCACTGTCACCATCT 59.964 55.0 0.0 0.0 0.00 2.90 F
1361 1893 0.179108 CCTAGCCCAAGCGTGTCTAC 60.179 60.0 0.0 0.0 46.67 2.59 F
1427 1965 0.328258 TCAACTAGCCCAAGCCCTTC 59.672 55.0 0.0 0.0 41.25 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1892 2455 0.031585 CGGTCGTGTTGAGGAGAACA 59.968 55.0 0.0 0.0 33.36 3.18 R
2193 2756 1.097547 CCCTTGGCGTGGAAGCTATG 61.098 60.0 0.0 0.0 37.29 2.23 R
2955 3653 1.594331 GGCGTCCAAGTTTCAGTCTT 58.406 50.0 0.0 0.0 0.00 3.01 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
27 28 2.031857 TCCGTTCGTAACATGGCAAAAC 60.032 45.455 0.00 0.00 0.00 2.43
28 29 2.287069 CCGTTCGTAACATGGCAAAACA 60.287 45.455 0.00 0.00 0.00 2.83
67 68 6.369615 GCAAATTCATTTAAGGTCACATTGCT 59.630 34.615 0.00 0.00 36.33 3.91
129 130 0.321653 ACGACAAAGTGGATCCCTGC 60.322 55.000 9.90 0.00 0.00 4.85
132 133 0.779997 ACAAAGTGGATCCCTGCCTT 59.220 50.000 9.90 3.34 0.00 4.35
133 134 1.147817 ACAAAGTGGATCCCTGCCTTT 59.852 47.619 9.90 9.32 0.00 3.11
135 136 3.011708 ACAAAGTGGATCCCTGCCTTTAT 59.988 43.478 9.90 0.00 0.00 1.40
137 138 2.492025 AGTGGATCCCTGCCTTTATGA 58.508 47.619 9.90 0.00 0.00 2.15
139 140 3.152341 GTGGATCCCTGCCTTTATGATG 58.848 50.000 9.90 0.00 0.00 3.07
140 141 2.165998 GGATCCCTGCCTTTATGATGC 58.834 52.381 0.00 0.00 0.00 3.91
141 142 2.489619 GGATCCCTGCCTTTATGATGCA 60.490 50.000 0.00 0.00 0.00 3.96
145 146 2.486951 CTGCCTTTATGATGCAGTGC 57.513 50.000 8.58 8.58 45.69 4.40
146 147 1.746787 CTGCCTTTATGATGCAGTGCA 59.253 47.619 22.22 22.22 45.69 4.57
152 626 4.418392 CTTTATGATGCAGTGCAGGTTTC 58.582 43.478 24.20 16.05 43.65 2.78
161 635 2.229784 CAGTGCAGGTTTCATTTCTCCC 59.770 50.000 0.00 0.00 0.00 4.30
176 650 2.689658 TCTCCCTTCCTTTGTGTCTGA 58.310 47.619 0.00 0.00 0.00 3.27
203 677 3.118408 ACAATAGGTGTCACGGCATACAT 60.118 43.478 0.00 0.00 34.38 2.29
325 799 0.035881 CACCAGCACTGTCACCATCT 59.964 55.000 0.00 0.00 0.00 2.90
409 894 3.076621 TGACATTTGGAGCTGCTACAAG 58.923 45.455 24.99 17.76 35.56 3.16
487 974 4.261405 GGCTGTACAATGCACTTGTTTACA 60.261 41.667 16.19 14.25 45.98 2.41
488 975 4.675114 GCTGTACAATGCACTTGTTTACAC 59.325 41.667 16.19 10.68 45.98 2.90
489 976 5.731967 GCTGTACAATGCACTTGTTTACACA 60.732 40.000 16.19 13.51 45.98 3.72
490 977 5.574082 TGTACAATGCACTTGTTTACACAC 58.426 37.500 16.19 9.91 45.98 3.82
491 978 4.040445 ACAATGCACTTGTTTACACACC 57.960 40.909 8.21 0.00 45.98 4.16
492 979 3.042189 CAATGCACTTGTTTACACACCG 58.958 45.455 0.00 0.00 30.32 4.94
528 1021 3.799963 CACCGATCAATGCATCCATTTTG 59.200 43.478 0.00 0.00 39.60 2.44
529 1022 3.700539 ACCGATCAATGCATCCATTTTGA 59.299 39.130 0.00 0.00 39.60 2.69
533 1026 6.090783 CGATCAATGCATCCATTTTGATAGG 58.909 40.000 10.19 3.73 39.60 2.57
556 1049 7.550712 AGGGAATTTTCTACTTGAATCAATGC 58.449 34.615 0.00 0.00 34.24 3.56
558 1051 7.250569 GGAATTTTCTACTTGAATCAATGCGA 58.749 34.615 0.00 0.00 34.24 5.10
559 1052 7.430502 GGAATTTTCTACTTGAATCAATGCGAG 59.569 37.037 0.00 0.00 34.24 5.03
699 1197 2.555199 CCCATCTAGTTTTCTCCGCAG 58.445 52.381 0.00 0.00 0.00 5.18
928 1431 2.117910 GTCGTAGCTCTTCGCCATTAC 58.882 52.381 0.00 0.00 40.39 1.89
933 1436 1.555075 AGCTCTTCGCCATTACTCCAA 59.445 47.619 0.00 0.00 40.39 3.53
934 1437 1.936547 GCTCTTCGCCATTACTCCAAG 59.063 52.381 0.00 0.00 0.00 3.61
971 1476 6.204075 GCAGATAGCGAATACAGTTACAAG 57.796 41.667 0.00 0.00 0.00 3.16
1125 1651 2.048222 CCGGCGAGCTTGAAGACA 60.048 61.111 9.30 0.00 0.00 3.41
1134 1660 4.434857 GCGAGCTTGAAGACAATCAGTTAC 60.435 45.833 4.70 0.00 35.37 2.50
1140 1666 3.056107 TGAAGACAATCAGTTACCCTCCG 60.056 47.826 0.00 0.00 0.00 4.63
1219 1751 0.927029 TCAGCCTCCTAGTCCTAGCA 59.073 55.000 0.00 0.00 31.95 3.49
1347 1879 2.241160 GAGTACCTTCCTAGCCCTAGC 58.759 57.143 0.00 0.00 40.32 3.42
1361 1893 0.179108 CCTAGCCCAAGCGTGTCTAC 60.179 60.000 0.00 0.00 46.67 2.59
1405 1937 2.559026 CCTGACCCAAGTCCACCTACTA 60.559 54.545 0.00 0.00 42.81 1.82
1408 1940 4.172807 TGACCCAAGTCCACCTACTAATT 58.827 43.478 0.00 0.00 42.81 1.40
1410 1942 4.172807 ACCCAAGTCCACCTACTAATTCA 58.827 43.478 0.00 0.00 0.00 2.57
1411 1943 4.600111 ACCCAAGTCCACCTACTAATTCAA 59.400 41.667 0.00 0.00 0.00 2.69
1416 1954 6.223351 AGTCCACCTACTAATTCAACTAGC 57.777 41.667 0.00 0.00 0.00 3.42
1425 1963 1.002857 ATTCAACTAGCCCAAGCCCT 58.997 50.000 0.00 0.00 41.25 5.19
1427 1965 0.328258 TCAACTAGCCCAAGCCCTTC 59.672 55.000 0.00 0.00 41.25 3.46
1434 1972 4.033776 CCAAGCCCTTCGAGCCCA 62.034 66.667 0.00 0.00 0.00 5.36
1474 2015 2.280079 GCCCAAGCCCTAGCCAAT 59.720 61.111 0.00 0.00 41.25 3.16
1507 2048 1.347707 CTAGCCCAAGCCCGATCAATA 59.652 52.381 0.00 0.00 41.25 1.90
1535 2082 2.002977 CCAATCCTCCCAGCCCAGA 61.003 63.158 0.00 0.00 0.00 3.86
1566 2113 2.140098 ATATTCCAAGCCCTAGCCCT 57.860 50.000 0.00 0.00 41.25 5.19
1695 2257 1.051812 CGGAGGCTATTGTCAGGGAT 58.948 55.000 0.00 0.00 0.00 3.85
1801 2363 2.492019 TAATCCAGACGCTCACATCG 57.508 50.000 0.00 0.00 0.00 3.84
1808 2370 1.678627 AGACGCTCACATCGCTTCTAT 59.321 47.619 0.00 0.00 34.70 1.98
1826 2388 9.123709 CGCTTCTATTTAGTCTGATCAATACTC 57.876 37.037 12.43 0.00 0.00 2.59
1852 2415 9.342308 CTTAATTAGCATTCCTCCATTCTTACA 57.658 33.333 0.00 0.00 0.00 2.41
1871 2434 4.450122 GCTGTGCGTGGCGTGATG 62.450 66.667 0.00 0.00 0.00 3.07
1883 2446 1.374947 CGTGATGGTTCAGGGGTGT 59.625 57.895 0.00 0.00 34.77 4.16
1892 2455 1.067295 TTCAGGGGTGTGATGCTTCT 58.933 50.000 0.88 0.00 0.00 2.85
1961 2524 4.452733 CCGAACCTGACCCTCCGC 62.453 72.222 0.00 0.00 0.00 5.54
2193 2756 2.749441 GCCTCCAGCAGCTCAACC 60.749 66.667 0.00 0.00 42.97 3.77
2195 2758 1.302285 CCTCCAGCAGCTCAACCAT 59.698 57.895 0.00 0.00 0.00 3.55
2287 2850 2.125912 CTGCTCGTCCTTCCACGG 60.126 66.667 0.00 0.00 40.35 4.94
2520 3083 2.443260 TAACGCGCATGTCAGTGGGT 62.443 55.000 5.73 0.00 45.45 4.51
2891 3589 0.536233 TGGTTCTAGCGGCAAAGCAA 60.536 50.000 1.45 0.00 40.15 3.91
2955 3653 9.444600 GGAGTATCATTTTGAACACTTAGGTAA 57.555 33.333 0.00 0.00 36.25 2.85
2974 3672 1.594331 AAGACTGAAACTTGGACGCC 58.406 50.000 0.00 0.00 0.00 5.68
2986 3684 0.464013 TGGACGCCGACTTTTGGAAA 60.464 50.000 0.00 0.00 0.00 3.13
3150 3851 4.775440 TTCTGCGCAAAAATGACAAAAG 57.225 36.364 13.05 0.00 0.00 2.27
3246 3947 6.208599 GGGTGTCATTCCTTAATCAAACTTCA 59.791 38.462 0.00 0.00 0.00 3.02
3249 3950 8.134895 GTGTCATTCCTTAATCAAACTTCACAA 58.865 33.333 0.00 0.00 0.00 3.33
3281 3982 3.178046 TGGTCAGCCTAGTTTGATACCA 58.822 45.455 0.00 0.00 35.27 3.25
3284 3985 4.564821 GGTCAGCCTAGTTTGATACCACAA 60.565 45.833 0.00 0.00 0.00 3.33
3367 4072 5.441718 ACCATGTTCACCTCAATGTATCT 57.558 39.130 0.00 0.00 0.00 1.98
3440 4161 1.269958 TGTAGGAGAGCTGCATGTGT 58.730 50.000 1.02 0.00 0.00 3.72
3453 4174 4.635765 GCTGCATGTGTTTACCATAGAAGA 59.364 41.667 0.00 0.00 0.00 2.87
3515 4236 1.985159 ACCCACACATAGAAAGGCAGA 59.015 47.619 0.00 0.00 0.00 4.26
3518 4239 2.744202 CCACACATAGAAAGGCAGACAC 59.256 50.000 0.00 0.00 0.00 3.67
3526 4247 3.087031 AGAAAGGCAGACACATCCAATG 58.913 45.455 0.00 0.00 0.00 2.82
3582 4303 9.849607 CTTGACGTACAATATATAGCACAAAAG 57.150 33.333 0.00 0.00 37.88 2.27
3583 4304 8.936070 TGACGTACAATATATAGCACAAAAGT 57.064 30.769 0.00 0.00 0.00 2.66
3601 4324 9.474920 CACAAAAGTTAATTCTTAAGGCATGAA 57.525 29.630 1.85 0.00 0.00 2.57
3621 4344 4.097135 TGAAAAATTGAGCGTCTCCAACAA 59.903 37.500 4.73 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.224784 GCCATGTTACGAACGGAAAACT 59.775 45.455 0.00 0.00 0.00 2.66
2 3 2.031857 TGCCATGTTACGAACGGAAAAC 60.032 45.455 0.00 0.00 0.00 2.43
5 6 1.880271 TTGCCATGTTACGAACGGAA 58.120 45.000 0.00 0.00 0.00 4.30
6 7 1.880271 TTTGCCATGTTACGAACGGA 58.120 45.000 0.00 0.00 0.00 4.69
7 8 2.287069 TGTTTTGCCATGTTACGAACGG 60.287 45.455 0.00 0.00 0.00 4.44
13 14 5.525378 TGACCAAATTGTTTTGCCATGTTAC 59.475 36.000 0.00 0.00 40.77 2.50
27 28 7.795482 ATGAATTTGCCATATGACCAAATTG 57.205 32.000 30.40 8.60 44.55 2.32
28 29 8.810990 AAATGAATTTGCCATATGACCAAATT 57.189 26.923 28.10 28.10 46.15 1.82
129 130 2.372264 ACCTGCACTGCATCATAAAGG 58.628 47.619 3.64 2.94 38.13 3.11
132 133 3.419943 TGAAACCTGCACTGCATCATAA 58.580 40.909 3.64 0.00 38.13 1.90
133 134 3.070476 TGAAACCTGCACTGCATCATA 57.930 42.857 3.64 0.00 38.13 2.15
135 136 1.913778 ATGAAACCTGCACTGCATCA 58.086 45.000 3.64 5.84 38.13 3.07
137 138 2.895404 AGAAATGAAACCTGCACTGCAT 59.105 40.909 3.64 0.00 38.13 3.96
139 140 2.352127 GGAGAAATGAAACCTGCACTGC 60.352 50.000 0.00 0.00 0.00 4.40
140 141 2.229784 GGGAGAAATGAAACCTGCACTG 59.770 50.000 0.00 0.00 0.00 3.66
141 142 2.108952 AGGGAGAAATGAAACCTGCACT 59.891 45.455 0.00 0.00 0.00 4.40
142 143 2.519013 AGGGAGAAATGAAACCTGCAC 58.481 47.619 0.00 0.00 0.00 4.57
144 145 2.493675 GGAAGGGAGAAATGAAACCTGC 59.506 50.000 0.00 0.00 0.00 4.85
145 146 4.039603 AGGAAGGGAGAAATGAAACCTG 57.960 45.455 0.00 0.00 0.00 4.00
146 147 4.749048 AAGGAAGGGAGAAATGAAACCT 57.251 40.909 0.00 0.00 0.00 3.50
152 626 4.217118 CAGACACAAAGGAAGGGAGAAATG 59.783 45.833 0.00 0.00 0.00 2.32
161 635 4.129380 TGTGATGTCAGACACAAAGGAAG 58.871 43.478 5.05 0.00 42.72 3.46
191 665 4.517832 ACGAGTAAGATATGTATGCCGTGA 59.482 41.667 0.00 0.00 0.00 4.35
196 670 6.366332 CCCAAAGACGAGTAAGATATGTATGC 59.634 42.308 0.00 0.00 0.00 3.14
203 677 3.767673 ACTGCCCAAAGACGAGTAAGATA 59.232 43.478 0.00 0.00 0.00 1.98
235 709 3.467119 GCCACACTCGTGTACGCG 61.467 66.667 22.43 22.43 42.83 6.01
238 712 1.001048 TGTACTGCCACACTCGTGTAC 60.001 52.381 1.90 0.00 42.83 2.90
252 726 5.182001 CCCCTGTTTTCATCTTCTTGTACTG 59.818 44.000 0.00 0.00 0.00 2.74
325 799 2.695359 CTTAGCGTAGTTTTGGCCTGA 58.305 47.619 3.32 0.00 0.00 3.86
372 857 6.250819 CAAATGTCATAGTAGTGGCTTTTCG 58.749 40.000 0.00 0.00 31.30 3.46
373 858 6.374333 TCCAAATGTCATAGTAGTGGCTTTTC 59.626 38.462 0.00 0.00 31.30 2.29
382 867 4.701765 AGCAGCTCCAAATGTCATAGTAG 58.298 43.478 0.00 0.00 0.00 2.57
487 974 4.274700 CGGTGTCGGTGTCGGTGT 62.275 66.667 0.00 0.00 36.95 4.16
488 975 3.968568 TCGGTGTCGGTGTCGGTG 61.969 66.667 0.00 0.00 36.95 4.94
489 976 3.969802 GTCGGTGTCGGTGTCGGT 61.970 66.667 0.00 0.00 36.95 4.69
490 977 3.968568 TGTCGGTGTCGGTGTCGG 61.969 66.667 0.00 0.00 36.95 4.79
491 978 2.728383 GTGTCGGTGTCGGTGTCG 60.728 66.667 0.00 0.00 36.95 4.35
492 979 2.355481 GGTGTCGGTGTCGGTGTC 60.355 66.667 0.00 0.00 36.95 3.67
533 1026 7.250569 TCGCATTGATTCAAGTAGAAAATTCC 58.749 34.615 5.21 0.00 40.22 3.01
556 1049 2.746277 CCGGCCAAGGTTTCCTCG 60.746 66.667 2.24 0.00 30.89 4.63
616 1110 6.037830 ACGCATGTACAAAATTAGGATGGTAC 59.962 38.462 0.00 0.00 33.53 3.34
617 1111 6.116806 ACGCATGTACAAAATTAGGATGGTA 58.883 36.000 0.00 0.00 0.00 3.25
666 1161 5.091261 ACTAGATGGGGAATAATCATCGC 57.909 43.478 0.00 0.00 41.35 4.58
699 1197 2.410469 GGCTGGCACGCAATCATC 59.590 61.111 10.33 0.00 0.00 2.92
895 1398 5.743117 AGAGCTACGACCGTCCTATATATT 58.257 41.667 0.00 0.00 0.00 1.28
928 1431 2.801063 CAACAACTTGTGTGCTTGGAG 58.199 47.619 0.00 0.00 40.60 3.86
933 1436 1.462616 TCTGCAACAACTTGTGTGCT 58.537 45.000 20.24 0.00 40.60 4.40
934 1437 2.497107 ATCTGCAACAACTTGTGTGC 57.503 45.000 16.10 16.10 40.60 4.57
969 1474 0.540454 TGCTATCTCTGCTGCTGCTT 59.460 50.000 17.00 0.00 40.48 3.91
971 1476 0.179078 ACTGCTATCTCTGCTGCTGC 60.179 55.000 8.89 8.89 40.20 5.25
994 1499 0.529555 GCGAGCTTGACCATCTCTCC 60.530 60.000 4.70 0.00 0.00 3.71
1053 1558 1.896220 GTGAGCCATTGTCACCTTGA 58.104 50.000 0.00 0.00 38.75 3.02
1173 1699 1.598130 GCTCGGGCTCAACACAACT 60.598 57.895 0.00 0.00 35.22 3.16
1174 1700 2.617274 GGCTCGGGCTCAACACAAC 61.617 63.158 7.48 0.00 38.73 3.32
1219 1751 3.900892 CGGTGCGCCTAGGTCGAT 61.901 66.667 23.94 0.00 0.00 3.59
1347 1879 1.798813 GTTTGAGTAGACACGCTTGGG 59.201 52.381 0.00 0.00 0.00 4.12
1361 1893 2.826674 ATATGTGGGTGGGGTTTGAG 57.173 50.000 0.00 0.00 0.00 3.02
1405 1937 1.359130 AGGGCTTGGGCTAGTTGAATT 59.641 47.619 0.00 0.00 38.73 2.17
1408 1940 0.328258 GAAGGGCTTGGGCTAGTTGA 59.672 55.000 0.00 0.00 38.73 3.18
1410 1942 1.198759 TCGAAGGGCTTGGGCTAGTT 61.199 55.000 0.00 0.00 38.73 2.24
1411 1943 1.612442 TCGAAGGGCTTGGGCTAGT 60.612 57.895 0.00 0.00 38.73 2.57
1416 1954 4.803908 GGGCTCGAAGGGCTTGGG 62.804 72.222 0.00 0.00 0.00 4.12
1425 1963 0.597568 CAATTGTGCTTGGGCTCGAA 59.402 50.000 0.00 0.00 39.59 3.71
1427 1965 4.874534 CAATTGTGCTTGGGCTCG 57.125 55.556 0.00 0.00 39.59 5.03
1474 2015 1.507742 TGGGCTAGGAGGATATGTGGA 59.492 52.381 0.00 0.00 0.00 4.02
1507 2048 1.075536 GGGAGGATTGGGTTGTCTTGT 59.924 52.381 0.00 0.00 0.00 3.16
1535 2082 5.259632 GGCTTGGAATATAAGATGCTGGAT 58.740 41.667 0.00 0.00 0.00 3.41
1566 2113 2.772622 GGGCTTGGGCTAGGGCTA 60.773 66.667 6.49 0.00 38.73 3.93
1749 2311 0.605589 AGCAGTCGTGGAAGAAGAGG 59.394 55.000 0.00 0.00 0.00 3.69
1773 2335 1.529865 GCGTCTGGATTATTTACCCGC 59.470 52.381 0.00 0.00 0.00 6.13
1826 2388 9.342308 TGTAAGAATGGAGGAATGCTAATTAAG 57.658 33.333 0.00 0.00 0.00 1.85
1852 2415 4.986645 TCACGCCACGCACAGCAT 62.987 61.111 0.00 0.00 0.00 3.79
1864 2427 2.040544 CACCCCTGAACCATCACGC 61.041 63.158 0.00 0.00 0.00 5.34
1871 2434 0.251341 AAGCATCACACCCCTGAACC 60.251 55.000 0.00 0.00 0.00 3.62
1883 2446 3.071457 TGTTGAGGAGAACAGAAGCATCA 59.929 43.478 0.00 0.00 32.05 3.07
1892 2455 0.031585 CGGTCGTGTTGAGGAGAACA 59.968 55.000 0.00 0.00 33.36 3.18
2174 2737 2.932194 TTGAGCTGCTGGAGGCCT 60.932 61.111 3.86 3.86 40.92 5.19
2193 2756 1.097547 CCCTTGGCGTGGAAGCTATG 61.098 60.000 0.00 0.00 37.29 2.23
2195 2758 2.668632 CCCTTGGCGTGGAAGCTA 59.331 61.111 0.00 0.00 37.29 3.32
2219 2782 2.579878 GGTGACCATGTCCTCGAGA 58.420 57.895 15.71 0.00 0.00 4.04
2520 3083 1.946768 CGCAAACTTCTTCTCCCACAA 59.053 47.619 0.00 0.00 0.00 3.33
2663 3226 4.518217 GCATCGAACAATTAATGAGACCG 58.482 43.478 0.00 0.00 0.00 4.79
2672 3235 3.064682 CCGAATGTGGCATCGAACAATTA 59.935 43.478 10.35 0.00 41.43 1.40
2891 3589 8.201242 ACAAACAAGGTTGGAATATTATGGTT 57.799 30.769 2.59 0.00 32.50 3.67
2955 3653 1.594331 GGCGTCCAAGTTTCAGTCTT 58.406 50.000 0.00 0.00 0.00 3.01
2974 3672 5.635549 GTGAAACCATTTTCCAAAAGTCG 57.364 39.130 0.00 0.00 40.55 4.18
2998 3696 8.664669 AATTTACTATTCATGACTGGGGTTTT 57.335 30.769 0.00 0.00 0.00 2.43
3001 3699 7.213178 AGAATTTACTATTCATGACTGGGGT 57.787 36.000 0.00 0.00 0.00 4.95
3246 3947 3.307059 GGCTGACCATTCTACTCACTTGT 60.307 47.826 0.00 0.00 35.26 3.16
3249 3950 2.826488 AGGCTGACCATTCTACTCACT 58.174 47.619 0.00 0.00 39.06 3.41
3315 4020 5.126779 TGCGCCCATGTGAATAGTAAAATA 58.873 37.500 4.18 0.00 0.00 1.40
3367 4072 7.018826 CGATTGCTAAAACCGAGTATTTCAAA 58.981 34.615 0.00 0.00 0.00 2.69
3515 4236 1.683365 GGGCAGCCATTGGATGTGT 60.683 57.895 21.27 0.00 41.69 3.72
3518 4239 2.005370 AATAGGGCAGCCATTGGATG 57.995 50.000 16.64 16.64 42.66 3.51
3589 4312 5.163513 ACGCTCAATTTTTCATGCCTTAAG 58.836 37.500 0.00 0.00 0.00 1.85
3601 4324 3.632145 AGTTGTTGGAGACGCTCAATTTT 59.368 39.130 8.71 0.00 31.08 1.82


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

AutoCloner maintained by Alex Coulton.