Multiple sequence alignment - TraesCS1D01G311300

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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 TraesCS1D01G311300 chr1D 100.000 2432 0 0 1 2432 407219487 407221918 0.000000e+00 4492.0
1 TraesCS1D01G311300 chr1D 99.291 282 2 0 1168 1449 203955653 203955934 6.000000e-141 510.0
2 TraesCS1D01G311300 chr1D 98.729 236 2 1 862 1096 203955035 203955270 3.740000e-113 418.0
3 TraesCS1D01G311300 chr1B 94.073 1198 31 10 496 1686 547699466 547700630 0.000000e+00 1783.0
4 TraesCS1D01G311300 chr1B 88.796 714 48 8 1745 2429 547700748 547701458 0.000000e+00 846.0
5 TraesCS1D01G311300 chr1B 88.511 470 37 11 1 456 547698750 547699216 9.830000e-154 553.0
6 TraesCS1D01G311300 chr1A 88.457 1542 89 29 166 1693 502841288 502842754 0.000000e+00 1779.0
7 TraesCS1D01G311300 chr1A 88.235 102 2 3 1745 1836 502842856 502842957 1.980000e-21 113.0
8 TraesCS1D01G311300 chr5D 98.889 270 3 0 1180 1449 446160811 446160542 1.310000e-132 483.0
9 TraesCS1D01G311300 chr5D 97.059 238 5 2 862 1099 446161576 446161341 1.350000e-107 399.0
10 TraesCS1D01G311300 chr7A 87.313 268 24 7 1974 2234 658909584 658909320 5.080000e-77 298.0
11 TraesCS1D01G311300 chr7A 86.940 268 25 7 1974 2234 658958891 658958627 2.370000e-75 292.0
12 TraesCS1D01G311300 chr3A 86.957 230 26 4 2006 2234 120839925 120840151 3.100000e-64 255.0
13 TraesCS1D01G311300 chr3A 90.566 53 4 1 2014 2065 648016610 648016558 4.340000e-08 69.4
14 TraesCS1D01G311300 chr3B 80.220 364 51 11 2089 2432 547561849 547561487 1.120000e-63 254.0
15 TraesCS1D01G311300 chr4D 86.026 229 30 2 2006 2234 28441997 28441771 6.720000e-61 244.0
16 TraesCS1D01G311300 chr4D 88.889 135 13 2 2098 2232 477366931 477367063 5.380000e-37 165.0
17 TraesCS1D01G311300 chr4D 89.600 125 11 2 2108 2232 509223388 509223266 9.000000e-35 158.0
18 TraesCS1D01G311300 chr2D 81.728 301 38 7 1950 2249 59154947 59155231 4.040000e-58 235.0
19 TraesCS1D01G311300 chr2D 89.000 100 10 1 2096 2195 88439704 88439606 3.280000e-24 122.0
20 TraesCS1D01G311300 chr2D 100.000 62 0 0 862 923 620906877 620906816 5.490000e-22 115.0
21 TraesCS1D01G311300 chr2B 86.538 208 26 2 2025 2232 707252935 707253140 6.760000e-56 228.0
22 TraesCS1D01G311300 chr7D 100.000 29 0 0 2036 2064 180852414 180852442 1.000000e-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 TraesCS1D01G311300 chr1D 407219487 407221918 2431 False 4492.000000 4492 100.000 1 2432 1 chr1D.!!$F1 2431
1 TraesCS1D01G311300 chr1D 203955035 203955934 899 False 464.000000 510 99.010 862 1449 2 chr1D.!!$F2 587
2 TraesCS1D01G311300 chr1B 547698750 547701458 2708 False 1060.666667 1783 90.460 1 2429 3 chr1B.!!$F1 2428
3 TraesCS1D01G311300 chr1A 502841288 502842957 1669 False 946.000000 1779 88.346 166 1836 2 chr1A.!!$F1 1670
4 TraesCS1D01G311300 chr5D 446160542 446161576 1034 True 441.000000 483 97.974 862 1449 2 chr5D.!!$R1 587

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
481 582 0.03716 ACCGCCCTATGAAAAACCGT 59.963 50.0 0.0 0.0 0.0 4.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2276 3116 0.394899 GCCCCCTTGTTCCTCAGATG 60.395 60.0 0.0 0.0 0.0 2.9 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
23 24 3.190878 CGGCAAGATGCTGGAACC 58.809 61.111 3.21 0.00 45.66 3.62
38 39 1.336980 GGAACCAGGAGTGACGACTTC 60.337 57.143 0.00 0.00 30.16 3.01
42 43 0.244994 CAGGAGTGACGACTTCCCAG 59.755 60.000 0.00 0.00 30.16 4.45
44 45 1.444553 GAGTGACGACTTCCCAGCG 60.445 63.158 0.00 0.00 30.16 5.18
45 46 2.432628 GTGACGACTTCCCAGCGG 60.433 66.667 0.00 0.00 0.00 5.52
50 51 2.044946 GACTTCCCAGCGGGCATT 60.045 61.111 8.57 0.00 43.94 3.56
53 54 1.216178 CTTCCCAGCGGGCATTTTG 59.784 57.895 8.57 0.00 43.94 2.44
61 62 2.028733 CGGGCATTTTGGCTGCAAC 61.029 57.895 0.50 0.00 42.47 4.17
78 85 3.090952 CAACCATTTTTGCTCGAACCA 57.909 42.857 0.00 0.00 0.00 3.67
87 94 1.080025 GCTCGAACCAACGGCTACT 60.080 57.895 0.00 0.00 0.00 2.57
89 96 1.403249 GCTCGAACCAACGGCTACTAA 60.403 52.381 0.00 0.00 0.00 2.24
90 97 2.927871 GCTCGAACCAACGGCTACTAAA 60.928 50.000 0.00 0.00 0.00 1.85
124 131 4.084223 TCGTAGCAATTTTCTTGTTCGGAC 60.084 41.667 0.00 0.00 0.00 4.79
128 135 0.879090 ATTTTCTTGTTCGGACCGGC 59.121 50.000 15.25 8.22 0.00 6.13
147 154 3.951655 GAGCAATGCGTTGTGGCCG 62.952 63.158 19.49 0.00 37.65 6.13
148 155 4.036804 GCAATGCGTTGTGGCCGA 62.037 61.111 19.49 0.00 37.65 5.54
149 156 2.876955 CAATGCGTTGTGGCCGAT 59.123 55.556 10.65 0.00 0.00 4.18
154 162 2.434884 CGTTGTGGCCGATGAGCT 60.435 61.111 0.00 0.00 0.00 4.09
160 168 2.016318 TGTGGCCGATGAGCTATTTTG 58.984 47.619 0.00 0.00 0.00 2.44
164 172 2.682856 GGCCGATGAGCTATTTTGTTGA 59.317 45.455 0.00 0.00 0.00 3.18
178 186 1.305201 TGTTGAAACCAGCGACTTCC 58.695 50.000 0.00 0.00 0.00 3.46
185 193 1.629043 ACCAGCGACTTCCAGAGTTA 58.371 50.000 0.00 0.00 39.19 2.24
190 198 1.719780 GCGACTTCCAGAGTTACAACG 59.280 52.381 0.00 0.00 39.19 4.10
270 306 4.498520 CATCTCACGACCGCGGCT 62.499 66.667 28.58 13.18 43.17 5.52
363 403 6.262273 AGGACGCTGACAGATTTTTCTTTTTA 59.738 34.615 6.65 0.00 0.00 1.52
367 407 6.087291 CGCTGACAGATTTTTCTTTTTAGCAG 59.913 38.462 6.65 0.00 0.00 4.24
372 412 5.570589 CAGATTTTTCTTTTTAGCAGAGCCG 59.429 40.000 0.00 0.00 0.00 5.52
386 426 2.583593 GCCGTGCGAGATGAGGAC 60.584 66.667 0.00 0.00 0.00 3.85
404 444 4.243383 TGACACACAGATCGCACG 57.757 55.556 0.00 0.00 0.00 5.34
405 445 1.657556 TGACACACAGATCGCACGA 59.342 52.632 0.00 0.00 0.00 4.35
472 573 1.367840 GTCCTAGCACCGCCCTATG 59.632 63.158 0.00 0.00 0.00 2.23
476 577 1.134220 CCTAGCACCGCCCTATGAAAA 60.134 52.381 0.00 0.00 0.00 2.29
477 578 2.639065 CTAGCACCGCCCTATGAAAAA 58.361 47.619 0.00 0.00 0.00 1.94
478 579 1.173913 AGCACCGCCCTATGAAAAAC 58.826 50.000 0.00 0.00 0.00 2.43
481 582 0.037160 ACCGCCCTATGAAAAACCGT 59.963 50.000 0.00 0.00 0.00 4.83
482 583 1.278699 ACCGCCCTATGAAAAACCGTA 59.721 47.619 0.00 0.00 0.00 4.02
523 780 2.158559 CCACGTGTTCATGATTTCCCA 58.841 47.619 15.65 0.00 0.00 4.37
558 815 1.196127 GTAACCACCGTTTGCTAGCAC 59.804 52.381 19.17 6.03 33.17 4.40
625 882 1.337260 CGTAAGCACTTCTCAGCCAGT 60.337 52.381 0.00 0.00 0.00 4.00
629 886 1.297456 GCACTTCTCAGCCAGTCAGC 61.297 60.000 0.00 0.00 0.00 4.26
646 903 3.372206 GTCAGCCAGCACAACAGTATAAG 59.628 47.826 0.00 0.00 0.00 1.73
1455 2172 3.775654 CAGCAGAGGGGTCCCGTC 61.776 72.222 21.13 21.13 41.95 4.79
1457 2174 2.043248 GCAGAGGGGTCCCGTCTA 60.043 66.667 28.73 0.00 45.48 2.59
1534 2251 1.862806 GTTGGACAGAGCACTTCGC 59.137 57.895 0.00 0.00 42.91 4.70
1542 2259 1.078759 AGAGCACTTCGCCGATTTCG 61.079 55.000 0.00 0.00 44.04 3.46
1605 2326 4.446371 CTCCCTTGTACATCAGTGAATCC 58.554 47.826 0.00 0.00 0.00 3.01
1837 2653 5.505654 CGGTTACAAAGATTGTATGGCATCC 60.506 44.000 1.65 0.00 44.85 3.51
1859 2675 0.322546 AAACAAGATCCGTGGGAGCC 60.323 55.000 0.00 0.00 39.17 4.70
1874 2690 2.124942 GCCCCCGAGCTCTTTCAG 60.125 66.667 12.85 0.00 0.00 3.02
1896 2712 3.262420 CGATTTGGAAGATCTGACCGTT 58.738 45.455 12.56 2.79 0.00 4.44
1920 2737 4.849926 CGTTTGTTTGCTTGATGAGATCTG 59.150 41.667 0.00 0.00 0.00 2.90
1921 2738 4.430137 TTGTTTGCTTGATGAGATCTGC 57.570 40.909 0.00 0.00 0.00 4.26
1922 2739 3.682696 TGTTTGCTTGATGAGATCTGCT 58.317 40.909 0.00 0.00 33.20 4.24
1923 2740 3.439129 TGTTTGCTTGATGAGATCTGCTG 59.561 43.478 0.00 0.00 33.20 4.41
1995 2814 7.182817 TCCTGTAGCAATGAATAGTTACACT 57.817 36.000 0.00 0.00 30.12 3.55
2002 2821 5.755861 GCAATGAATAGTTACACTCTCCTCC 59.244 44.000 0.00 0.00 0.00 4.30
2013 2832 3.892588 ACACTCTCCTCCGGAAATATCTC 59.107 47.826 5.23 0.00 0.00 2.75
2014 2833 3.891977 CACTCTCCTCCGGAAATATCTCA 59.108 47.826 5.23 0.00 0.00 3.27
2022 2841 2.487086 CCGGAAATATCTCATGCCACCA 60.487 50.000 0.00 0.00 0.00 4.17
2023 2842 3.415212 CGGAAATATCTCATGCCACCAT 58.585 45.455 0.00 0.00 0.00 3.55
2056 2875 3.713963 CCGCCGAGGGTATTTTCG 58.286 61.111 0.00 0.00 35.97 3.46
2065 2884 4.201783 CCGAGGGTATTTTCGTCATTTCAC 60.202 45.833 0.00 0.00 35.14 3.18
2066 2885 4.201783 CGAGGGTATTTTCGTCATTTCACC 60.202 45.833 0.00 0.00 32.44 4.02
2075 2894 1.327303 GTCATTTCACCTGTTGGCCA 58.673 50.000 0.00 0.00 36.63 5.36
2093 2933 0.880278 CACTGACGTGTTGGTCCCTG 60.880 60.000 0.00 0.00 36.07 4.45
2120 2960 1.473965 CCGTGGTTGGATGAGATGAGG 60.474 57.143 0.00 0.00 0.00 3.86
2128 2968 1.074926 ATGAGATGAGGGAGGGCGT 60.075 57.895 0.00 0.00 0.00 5.68
2156 2996 1.490574 CCTCTTCGTCCTCCCATTCT 58.509 55.000 0.00 0.00 0.00 2.40
2234 3074 3.436028 CTCCCCTCCCCTCCCGTA 61.436 72.222 0.00 0.00 0.00 4.02
2247 3087 3.152400 CCGTACCCTTCCCTCCCG 61.152 72.222 0.00 0.00 0.00 5.14
2262 3102 4.143333 CCGTCGCCCGAATCACCT 62.143 66.667 0.00 0.00 39.56 4.00
2271 3111 0.877649 CCGAATCACCTGCTCATCGG 60.878 60.000 0.00 0.00 43.08 4.18
2276 3116 4.148825 ACCTGCTCATCGGTCGGC 62.149 66.667 0.00 0.00 0.00 5.54
2277 3117 4.147449 CCTGCTCATCGGTCGGCA 62.147 66.667 0.00 0.00 0.00 5.69
2278 3118 2.107750 CTGCTCATCGGTCGGCAT 59.892 61.111 0.00 0.00 34.12 4.40
2288 3128 1.596934 GGTCGGCATCTGAGGAACA 59.403 57.895 0.00 0.00 0.00 3.18
2291 3131 0.250234 TCGGCATCTGAGGAACAAGG 59.750 55.000 0.00 0.00 0.00 3.61
2317 3157 2.614259 AGAATAGAGATGGCGGTGGAT 58.386 47.619 0.00 0.00 0.00 3.41
2319 3159 0.979665 ATAGAGATGGCGGTGGATGG 59.020 55.000 0.00 0.00 0.00 3.51
2381 3221 2.749441 GTGAGCAGCCCCTCTTGC 60.749 66.667 3.27 0.00 33.02 4.01
2393 3233 4.441695 TCTTGCTGAGCGCCGAGG 62.442 66.667 2.29 0.00 38.05 4.63
2410 3250 3.256960 GGGGTGGGGAGAAGCACA 61.257 66.667 0.00 0.00 0.00 4.57
2425 3265 1.687493 CACAGTCCTCTCCTCCCCC 60.687 68.421 0.00 0.00 0.00 5.40
2429 3269 4.124943 TCCTCTCCTCCCCCGACG 62.125 72.222 0.00 0.00 0.00 5.12
2430 3270 4.124943 CCTCTCCTCCCCCGACGA 62.125 72.222 0.00 0.00 0.00 4.20
2431 3271 2.829458 CTCTCCTCCCCCGACGAC 60.829 72.222 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.802051 TCCAGCATCTTGCCGGCC 62.802 66.667 26.77 7.06 46.52 6.13
23 24 0.244994 CTGGGAAGTCGTCACTCCTG 59.755 60.000 0.00 0.00 29.93 3.86
42 43 3.880162 TTGCAGCCAAAATGCCCGC 62.880 57.895 0.00 0.00 43.18 6.13
44 45 1.672030 GGTTGCAGCCAAAATGCCC 60.672 57.895 15.64 0.00 43.18 5.36
45 46 0.321830 ATGGTTGCAGCCAAAATGCC 60.322 50.000 26.96 0.00 43.18 4.40
58 59 3.090952 TGGTTCGAGCAAAAATGGTTG 57.909 42.857 0.53 0.00 0.00 3.77
61 62 2.050691 CGTTGGTTCGAGCAAAAATGG 58.949 47.619 0.53 0.00 37.34 3.16
72 79 1.392510 GCTTTAGTAGCCGTTGGTTCG 59.607 52.381 0.00 0.00 44.48 3.95
96 103 6.031417 CGAACAAGAAAATTGCTACGATTGTC 59.969 38.462 0.00 0.00 0.00 3.18
104 111 3.187637 CGGTCCGAACAAGAAAATTGCTA 59.812 43.478 4.91 0.00 0.00 3.49
124 131 4.817063 CAACGCATTGCTCGCCGG 62.817 66.667 7.12 0.00 0.00 6.13
128 135 2.502510 GCCACAACGCATTGCTCG 60.503 61.111 7.12 0.00 39.66 5.03
147 154 5.574443 GCTGGTTTCAACAAAATAGCTCATC 59.426 40.000 0.00 0.00 37.15 2.92
148 155 5.473039 GCTGGTTTCAACAAAATAGCTCAT 58.527 37.500 0.00 0.00 37.15 2.90
149 156 4.556501 CGCTGGTTTCAACAAAATAGCTCA 60.557 41.667 0.00 0.00 37.58 4.26
154 162 5.506649 GGAAGTCGCTGGTTTCAACAAAATA 60.507 40.000 0.00 0.00 0.00 1.40
160 168 1.264288 CTGGAAGTCGCTGGTTTCAAC 59.736 52.381 0.00 0.00 0.00 3.18
164 172 0.759346 ACTCTGGAAGTCGCTGGTTT 59.241 50.000 0.00 0.00 30.02 3.27
178 186 3.050619 GTGACTCACCGTTGTAACTCTG 58.949 50.000 0.00 0.00 0.00 3.35
185 193 3.078837 ACAAAAAGTGACTCACCGTTGT 58.921 40.909 13.28 13.28 34.49 3.32
190 198 3.192633 ACCACAACAAAAAGTGACTCACC 59.807 43.478 5.51 0.00 37.97 4.02
246 282 0.170339 CGGTCGTGAGATGTAGCACA 59.830 55.000 0.00 0.00 45.19 4.57
363 403 3.456365 ATCTCGCACGGCTCTGCT 61.456 61.111 4.90 0.00 34.77 4.24
367 407 2.279120 CCTCATCTCGCACGGCTC 60.279 66.667 0.00 0.00 0.00 4.70
372 412 0.528017 TGTCAGTCCTCATCTCGCAC 59.472 55.000 0.00 0.00 0.00 5.34
386 426 0.387239 TCGTGCGATCTGTGTGTCAG 60.387 55.000 0.00 0.00 44.85 3.51
476 577 3.907894 ATGTCGCAAAAACATACGGTT 57.092 38.095 0.00 0.00 42.98 4.44
477 578 4.330740 GTATGTCGCAAAAACATACGGT 57.669 40.909 9.80 0.00 45.48 4.83
481 582 3.997276 CGCAGTATGTCGCAAAAACATA 58.003 40.909 0.00 0.00 38.31 2.29
482 583 2.850321 CGCAGTATGTCGCAAAAACAT 58.150 42.857 0.00 0.00 40.37 2.71
493 594 1.289109 GAACACGTGGCGCAGTATGT 61.289 55.000 21.57 5.13 39.31 2.29
503 760 2.158559 TGGGAAATCATGAACACGTGG 58.841 47.619 21.57 0.90 0.00 4.94
523 780 5.278758 CGGTGGTTACATGTTTCTCCATTTT 60.279 40.000 2.30 0.00 0.00 1.82
558 815 2.673043 GCCATTGACATTCCAGCTTGTG 60.673 50.000 0.00 0.00 0.00 3.33
625 882 3.260632 TCTTATACTGTTGTGCTGGCTGA 59.739 43.478 0.00 0.00 0.00 4.26
629 886 2.930040 CCGTCTTATACTGTTGTGCTGG 59.070 50.000 0.00 0.00 0.00 4.85
646 903 3.245315 CGATCAACCGTCGCCGTC 61.245 66.667 0.00 0.00 31.85 4.79
663 920 4.084888 CCCGTTTTCTGTCGCGGC 62.085 66.667 2.29 2.29 42.54 6.53
826 1087 4.936248 CTCTCGCGCTCGCTCTCG 62.936 72.222 5.56 0.00 39.32 4.04
932 1197 1.923148 GGATTTTTCTCTCCCTCCCCA 59.077 52.381 0.00 0.00 0.00 4.96
933 1198 1.215673 GGGATTTTTCTCTCCCTCCCC 59.784 57.143 0.24 0.00 46.55 4.81
934 1199 2.738587 GGGATTTTTCTCTCCCTCCC 57.261 55.000 0.24 0.00 46.55 4.30
1449 2166 1.179152 TCAAGCAATCGTAGACGGGA 58.821 50.000 1.67 0.00 42.51 5.14
1450 2167 2.225068 ATCAAGCAATCGTAGACGGG 57.775 50.000 1.67 0.00 42.51 5.28
1451 2168 4.092821 TCAAAATCAAGCAATCGTAGACGG 59.907 41.667 1.67 0.00 42.51 4.79
1452 2169 5.163953 ACTCAAAATCAAGCAATCGTAGACG 60.164 40.000 0.00 0.00 42.51 4.18
1453 2170 6.170675 ACTCAAAATCAAGCAATCGTAGAC 57.829 37.500 0.00 0.00 42.51 2.59
1454 2171 6.801539 AACTCAAAATCAAGCAATCGTAGA 57.198 33.333 0.00 0.00 45.75 2.59
1455 2172 7.182761 CCTAACTCAAAATCAAGCAATCGTAG 58.817 38.462 0.00 0.00 0.00 3.51
1456 2173 6.403200 GCCTAACTCAAAATCAAGCAATCGTA 60.403 38.462 0.00 0.00 0.00 3.43
1457 2174 5.619981 GCCTAACTCAAAATCAAGCAATCGT 60.620 40.000 0.00 0.00 0.00 3.73
1534 2251 2.224549 TGGTAAACACAAGCGAAATCGG 59.775 45.455 4.84 0.00 40.23 4.18
1605 2326 4.895224 TCGTATCAGTACAAGGCTACAG 57.105 45.455 0.00 0.00 0.00 2.74
1837 2653 2.350522 CTCCCACGGATCTTGTTTCTG 58.649 52.381 0.00 0.00 0.00 3.02
1859 2675 2.303549 ATCGCTGAAAGAGCTCGGGG 62.304 60.000 8.37 6.29 46.64 5.73
1870 2686 3.935203 GTCAGATCTTCCAAATCGCTGAA 59.065 43.478 0.00 0.00 33.31 3.02
1874 2690 1.594862 CGGTCAGATCTTCCAAATCGC 59.405 52.381 12.47 0.00 0.00 4.58
1875 2691 2.893637 ACGGTCAGATCTTCCAAATCG 58.106 47.619 12.47 3.22 0.00 3.34
1896 2712 4.756642 AGATCTCATCAAGCAAACAAACGA 59.243 37.500 0.00 0.00 0.00 3.85
2002 2821 2.849942 TGGTGGCATGAGATATTTCCG 58.150 47.619 0.00 0.00 0.00 4.30
2013 2832 1.608590 GGGAATAACGATGGTGGCATG 59.391 52.381 0.00 0.00 0.00 4.06
2014 2833 1.813862 CGGGAATAACGATGGTGGCAT 60.814 52.381 0.00 0.00 0.00 4.40
2022 2841 1.147600 GGGGCACGGGAATAACGAT 59.852 57.895 0.00 0.00 34.93 3.73
2023 2842 2.585698 GGGGCACGGGAATAACGA 59.414 61.111 0.00 0.00 34.93 3.85
2056 2875 1.000274 GTGGCCAACAGGTGAAATGAC 60.000 52.381 7.24 0.00 0.00 3.06
2065 2884 2.111043 ACGTCAGTGGCCAACAGG 59.889 61.111 7.24 2.10 0.00 4.00
2066 2885 3.333414 CACGTCAGTGGCCAACAG 58.667 61.111 7.24 0.00 44.34 3.16
2075 2894 1.445942 CAGGGACCAACACGTCAGT 59.554 57.895 0.00 0.00 34.24 3.41
2093 2933 3.879180 ATCCAACCACGGGCCAACC 62.879 63.158 4.39 0.00 0.00 3.77
2128 2968 2.676822 ACGAAGAGGCGAGGCAGA 60.677 61.111 0.00 0.00 34.83 4.26
2135 2975 1.961180 AATGGGAGGACGAAGAGGCG 61.961 60.000 0.00 0.00 37.29 5.52
2156 2996 2.367202 GCGGGGAAGATGAGGTGGA 61.367 63.158 0.00 0.00 0.00 4.02
2232 3072 2.421399 CGACGGGAGGGAAGGGTAC 61.421 68.421 0.00 0.00 0.00 3.34
2247 3087 3.195698 GCAGGTGATTCGGGCGAC 61.196 66.667 0.00 0.00 0.00 5.19
2262 3102 2.106938 GATGCCGACCGATGAGCA 59.893 61.111 0.00 0.00 40.00 4.26
2271 3111 1.363744 CTTGTTCCTCAGATGCCGAC 58.636 55.000 0.00 0.00 0.00 4.79
2276 3116 0.394899 GCCCCCTTGTTCCTCAGATG 60.395 60.000 0.00 0.00 0.00 2.90
2277 3117 0.846427 TGCCCCCTTGTTCCTCAGAT 60.846 55.000 0.00 0.00 0.00 2.90
2278 3118 1.065410 TTGCCCCCTTGTTCCTCAGA 61.065 55.000 0.00 0.00 0.00 3.27
2288 3128 2.444766 CCATCTCTATTCTTGCCCCCTT 59.555 50.000 0.00 0.00 0.00 3.95
2291 3131 1.879796 CGCCATCTCTATTCTTGCCCC 60.880 57.143 0.00 0.00 0.00 5.80
2393 3233 3.256960 TGTGCTTCTCCCCACCCC 61.257 66.667 0.00 0.00 0.00 4.95
2410 3250 2.617538 TCGGGGGAGGAGAGGACT 60.618 66.667 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.