Multiple sequence alignment - TraesCS1A01G383500

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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 TraesCS1A01G383500 chr1A 100.000 2513 0 0 1 2513 554060374 554062886 0.000000e+00 4641
1 TraesCS1A01G383500 chr1A 87.755 196 23 1 2219 2414 554062051 554062245 6.990000e-56 228
2 TraesCS1A01G383500 chr1A 87.755 196 23 1 1678 1872 554062592 554062787 6.990000e-56 228
3 TraesCS1A01G383500 chr1D 93.629 1711 82 4 825 2513 462200359 462202064 0.000000e+00 2531
4 TraesCS1A01G383500 chr1D 82.932 457 49 18 65 505 462199465 462199908 3.920000e-103 385
5 TraesCS1A01G383500 chr1D 84.921 252 29 7 458 704 462199934 462200181 1.930000e-61 246
6 TraesCS1A01G383500 chr1D 87.745 204 22 2 2211 2414 462201223 462201423 4.180000e-58 235
7 TraesCS1A01G383500 chr1D 86.700 203 24 2 1673 1872 462201763 462201965 3.250000e-54 222
8 TraesCS1A01G383500 chr1D 90.909 121 11 0 1751 1871 462287257 462287377 2.000000e-36 163
9 TraesCS1A01G383500 chr1B 92.756 1698 85 13 839 2513 636838137 636839819 0.000000e+00 2420
10 TraesCS1A01G383500 chr1B 86.265 648 51 28 60 687 636837402 636838031 0.000000e+00 669
11 TraesCS1A01G383500 chr1B 85.782 211 28 2 2204 2414 636838977 636839185 3.250000e-54 222
12 TraesCS1A01G383500 chr1B 85.784 204 20 5 1673 1872 636839522 636839720 9.110000e-50 207
13 TraesCS1A01G383500 chr1B 85.207 169 24 1 2250 2417 637329284 637329452 3.320000e-39 172
14 TraesCS1A01G383500 chr1B 93.243 74 5 0 1751 1824 637326317 637326390 2.640000e-20 110
15 TraesCS1A01G383500 chrUn 81.841 391 56 13 1001 1383 74596104 74596487 5.220000e-82 315
16 TraesCS1A01G383500 chr7A 81.390 403 58 10 1001 1394 108809303 108808909 1.880000e-81 313
17 TraesCS1A01G383500 chr7D 87.600 250 30 1 1145 1394 104566987 104566739 3.160000e-74 289
18 TraesCS1A01G383500 chr7B 87.200 250 31 1 1145 1394 62687726 62687478 1.470000e-72 283
19 TraesCS1A01G383500 chr3B 87.083 240 29 2 1145 1383 632817480 632817718 1.150000e-68 270
20 TraesCS1A01G383500 chr6B 79.695 394 63 12 1001 1383 651987354 651987741 4.120000e-68 268
21 TraesCS1A01G383500 chr6D 85.156 256 35 3 1131 1383 431846471 431846726 2.480000e-65 259
22 TraesCS1A01G383500 chr3D 82.119 151 22 5 357 503 591009538 591009389 9.440000e-25 124
23 TraesCS1A01G383500 chr5A 77.021 235 37 15 289 517 586315621 586315844 4.390000e-23 119


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 TraesCS1A01G383500 chr1A 554060374 554062886 2512 False 1699.0 4641 91.836667 1 2513 3 chr1A.!!$F1 2512
1 TraesCS1A01G383500 chr1D 462199465 462202064 2599 False 723.8 2531 87.185400 65 2513 5 chr1D.!!$F2 2448
2 TraesCS1A01G383500 chr1B 636837402 636839819 2417 False 879.5 2420 87.646750 60 2513 4 chr1B.!!$F1 2453

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
93 94 0.450184 GGAGCAATTTTTAGGCGCGA 59.55 50.0 12.1 0.0 0.0 5.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1671 1886 0.326808 ATGGGGCCCTTGAATGCATT 60.327 50.0 25.93 12.83 0.0 3.56 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
56 57 6.603940 TTTCTTTAAATGGATGGGTCAAGG 57.396 37.500 0.00 0.00 0.00 3.61
57 58 4.023291 TCTTTAAATGGATGGGTCAAGGC 58.977 43.478 0.00 0.00 0.00 4.35
58 59 3.756082 TTAAATGGATGGGTCAAGGCT 57.244 42.857 0.00 0.00 0.00 4.58
59 60 4.871871 TTAAATGGATGGGTCAAGGCTA 57.128 40.909 0.00 0.00 0.00 3.93
60 61 3.979501 AAATGGATGGGTCAAGGCTAT 57.020 42.857 0.00 0.00 0.00 2.97
61 62 2.965671 ATGGATGGGTCAAGGCTATG 57.034 50.000 0.00 0.00 0.00 2.23
73 74 0.698238 AGGCTATGTGGGTTCTTGCA 59.302 50.000 0.00 0.00 0.00 4.08
93 94 0.450184 GGAGCAATTTTTAGGCGCGA 59.550 50.000 12.10 0.00 0.00 5.87
134 136 2.350057 TCCCGTGTTGGTTTTCATCA 57.650 45.000 0.00 0.00 35.15 3.07
152 155 3.399952 TCAGGGTTTTTGTGGGGTTTA 57.600 42.857 0.00 0.00 0.00 2.01
153 156 3.930035 TCAGGGTTTTTGTGGGGTTTAT 58.070 40.909 0.00 0.00 0.00 1.40
160 163 5.652891 GGTTTTTGTGGGGTTTATGGTTTTT 59.347 36.000 0.00 0.00 0.00 1.94
199 202 7.334858 AGGTTATCTTTGGTCTTCTCATTCTC 58.665 38.462 0.00 0.00 0.00 2.87
203 206 5.090139 TCTTTGGTCTTCTCATTCTCTCCT 58.910 41.667 0.00 0.00 0.00 3.69
204 207 5.545723 TCTTTGGTCTTCTCATTCTCTCCTT 59.454 40.000 0.00 0.00 0.00 3.36
256 270 3.366422 CGGTTTTGTGTGTTGGTTTTCTG 59.634 43.478 0.00 0.00 0.00 3.02
266 280 3.695060 TGTTGGTTTTCTGCGTTCCTTAA 59.305 39.130 0.00 0.00 0.00 1.85
268 282 3.280295 TGGTTTTCTGCGTTCCTTAACA 58.720 40.909 0.00 0.00 35.16 2.41
269 283 3.886505 TGGTTTTCTGCGTTCCTTAACAT 59.113 39.130 0.00 0.00 35.16 2.71
276 290 5.757886 TCTGCGTTCCTTAACATTTTTCTG 58.242 37.500 0.00 0.00 35.16 3.02
322 339 6.456795 TTGTTCACACACATTGTCCATTTA 57.543 33.333 0.00 0.00 35.67 1.40
330 347 9.119418 CACACACATTGTCCATTTATCCTATAA 57.881 33.333 0.00 0.00 35.67 0.98
557 647 9.877178 ACCTGTTAAACATTTTTCAAATACACA 57.123 25.926 0.00 0.00 0.00 3.72
749 912 0.464554 GAGACAGGCTGGCCCATTAC 60.465 60.000 18.80 0.00 36.58 1.89
752 915 1.152881 CAGGCTGGCCCATTACCTC 60.153 63.158 6.61 0.00 36.58 3.85
753 916 1.619363 AGGCTGGCCCATTACCTCA 60.619 57.895 8.11 0.00 36.58 3.86
754 917 1.152881 GGCTGGCCCATTACCTCAG 60.153 63.158 0.00 0.00 0.00 3.35
755 918 1.825622 GCTGGCCCATTACCTCAGC 60.826 63.158 0.00 0.00 42.89 4.26
756 919 1.918253 CTGGCCCATTACCTCAGCT 59.082 57.895 0.00 0.00 0.00 4.24
757 920 1.131638 CTGGCCCATTACCTCAGCTA 58.868 55.000 0.00 0.00 0.00 3.32
758 921 1.701847 CTGGCCCATTACCTCAGCTAT 59.298 52.381 0.00 0.00 0.00 2.97
759 922 1.421268 TGGCCCATTACCTCAGCTATG 59.579 52.381 0.00 0.00 0.00 2.23
760 923 1.271597 GGCCCATTACCTCAGCTATGG 60.272 57.143 4.22 4.22 37.79 2.74
761 924 1.884067 GCCCATTACCTCAGCTATGGC 60.884 57.143 5.54 0.00 36.94 4.40
762 925 1.271597 CCCATTACCTCAGCTATGGCC 60.272 57.143 5.54 0.00 36.94 5.36
763 926 1.701847 CCATTACCTCAGCTATGGCCT 59.298 52.381 3.32 0.00 39.73 5.19
764 927 2.906389 CCATTACCTCAGCTATGGCCTA 59.094 50.000 3.32 0.00 39.73 3.93
765 928 3.521126 CCATTACCTCAGCTATGGCCTAT 59.479 47.826 3.32 0.00 39.73 2.57
766 929 4.511527 CATTACCTCAGCTATGGCCTATG 58.488 47.826 3.32 0.00 39.73 2.23
767 930 1.356124 ACCTCAGCTATGGCCTATGG 58.644 55.000 3.32 0.00 39.73 2.74
768 931 1.132721 ACCTCAGCTATGGCCTATGGA 60.133 52.381 3.32 0.00 39.73 3.41
769 932 1.277557 CCTCAGCTATGGCCTATGGAC 59.722 57.143 3.32 0.00 39.73 4.02
788 951 3.454812 GGACCAGCCTTTTATCTACAGGA 59.545 47.826 0.00 0.00 0.00 3.86
789 952 4.080526 GGACCAGCCTTTTATCTACAGGAA 60.081 45.833 0.00 0.00 0.00 3.36
790 953 5.497474 GACCAGCCTTTTATCTACAGGAAA 58.503 41.667 0.00 0.00 0.00 3.13
791 954 6.079712 ACCAGCCTTTTATCTACAGGAAAT 57.920 37.500 0.00 0.00 0.00 2.17
816 996 3.911719 GGTCAAGAAGGCCATGGAT 57.088 52.632 18.40 0.00 43.39 3.41
817 997 2.149973 GGTCAAGAAGGCCATGGATT 57.850 50.000 18.40 9.38 43.39 3.01
818 998 3.297134 GGTCAAGAAGGCCATGGATTA 57.703 47.619 18.40 0.00 43.39 1.75
819 999 2.952310 GGTCAAGAAGGCCATGGATTAC 59.048 50.000 18.40 4.23 43.39 1.89
820 1000 2.952310 GTCAAGAAGGCCATGGATTACC 59.048 50.000 18.40 7.02 0.00 2.85
821 1001 6.701067 GGTCAAGAAGGCCATGGATTACCA 62.701 50.000 18.40 0.00 43.39 3.25
848 1028 2.928334 CTTCTGTGATGGGGATCTTGG 58.072 52.381 0.00 0.00 0.00 3.61
964 1144 2.685380 CACCTCCTCCCGCTTCCT 60.685 66.667 0.00 0.00 0.00 3.36
972 1153 1.306654 TCCCGCTTCCTACCACCAT 60.307 57.895 0.00 0.00 0.00 3.55
978 1159 1.134068 GCTTCCTACCACCATCTTCCC 60.134 57.143 0.00 0.00 0.00 3.97
1100 1281 0.886563 TCCCTTCTCCGTTTCTCGAC 59.113 55.000 0.00 0.00 42.86 4.20
1118 1299 1.300620 CCCGTGCTGTCGTTCAGAA 60.301 57.895 12.77 1.56 46.27 3.02
1441 1632 0.323302 TCGTGCCCTTTGCTGATGTA 59.677 50.000 0.00 0.00 42.00 2.29
1443 1634 1.331756 CGTGCCCTTTGCTGATGTATC 59.668 52.381 0.00 0.00 42.00 2.24
1618 1833 5.829924 ACCATGGCCTAATTTGTTATCTCAG 59.170 40.000 13.04 0.00 0.00 3.35
1620 1835 6.718454 CCATGGCCTAATTTGTTATCTCAGAT 59.282 38.462 3.32 0.00 0.00 2.90
1624 1839 7.067372 TGGCCTAATTTGTTATCTCAGATTGTG 59.933 37.037 3.32 0.00 0.00 3.33
1635 1850 9.727627 GTTATCTCAGATTGTGGAAATGATTTC 57.272 33.333 9.36 9.36 38.94 2.17
1669 1884 6.139435 TGTTATACGTTTTGATTGCTGTGTG 58.861 36.000 0.00 0.00 0.00 3.82
1670 1885 1.838913 ACGTTTTGATTGCTGTGTGC 58.161 45.000 0.00 0.00 43.25 4.57
1826 2041 2.347697 TGGTCGATGAGTTTCTCACG 57.652 50.000 1.44 8.07 43.63 4.35
1862 2077 1.460255 CTTGCCTCCAAAGACCCCA 59.540 57.895 0.00 0.00 0.00 4.96
1900 2115 3.140325 ACCCTTATAATCGTGGCATGG 57.860 47.619 6.90 0.00 0.00 3.66
1914 2129 3.056607 GTGGCATGGAAAGTTAGCATGTT 60.057 43.478 0.00 0.00 0.00 2.71
1919 2134 5.396484 CATGGAAAGTTAGCATGTTGTGAG 58.604 41.667 0.00 0.00 0.00 3.51
1946 2161 7.094805 TGGTGAGATTTGTTTGCTGTACTATTC 60.095 37.037 0.00 0.00 0.00 1.75
1997 2212 6.019156 TCCAATCTGCGTTTTTGTTTGATTTC 60.019 34.615 0.00 0.00 0.00 2.17
2067 2282 3.636300 TGTTTCCCTTGTGAACTTGATGG 59.364 43.478 0.00 0.00 0.00 3.51
2071 2286 3.074390 TCCCTTGTGAACTTGATGGATGT 59.926 43.478 0.00 0.00 0.00 3.06
2165 2380 4.558226 TCAGTTCATGCATAGTCAACCT 57.442 40.909 0.00 0.00 0.00 3.50
2174 2389 6.479990 TCATGCATAGTCAACCTTAGAATTCG 59.520 38.462 0.00 0.00 0.00 3.34
2211 2427 6.831727 TTCTGTTTTTGCATCTGATTGTTG 57.168 33.333 0.00 0.00 0.00 3.33
2366 2582 3.745975 TGCTTTGGTTGATGAGTTACTCG 59.254 43.478 7.92 0.00 32.35 4.18
2436 2652 9.135843 TGTTATTTCTTGTTAGTGTATCACTCG 57.864 33.333 5.66 0.00 41.21 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 6.352137 GCCTTGACCCATCCATTTAAAGAAAT 60.352 38.462 0.00 0.00 35.56 2.17
33 34 5.046663 GCCTTGACCCATCCATTTAAAGAAA 60.047 40.000 0.00 0.00 0.00 2.52
34 35 4.466015 GCCTTGACCCATCCATTTAAAGAA 59.534 41.667 0.00 0.00 0.00 2.52
35 36 4.023291 GCCTTGACCCATCCATTTAAAGA 58.977 43.478 0.00 0.00 0.00 2.52
36 37 4.026052 AGCCTTGACCCATCCATTTAAAG 58.974 43.478 0.00 0.00 0.00 1.85
37 38 4.059773 AGCCTTGACCCATCCATTTAAA 57.940 40.909 0.00 0.00 0.00 1.52
38 39 3.756082 AGCCTTGACCCATCCATTTAA 57.244 42.857 0.00 0.00 0.00 1.52
39 40 4.167892 ACATAGCCTTGACCCATCCATTTA 59.832 41.667 0.00 0.00 0.00 1.40
40 41 3.052642 ACATAGCCTTGACCCATCCATTT 60.053 43.478 0.00 0.00 0.00 2.32
41 42 2.515429 ACATAGCCTTGACCCATCCATT 59.485 45.455 0.00 0.00 0.00 3.16
42 43 2.138542 ACATAGCCTTGACCCATCCAT 58.861 47.619 0.00 0.00 0.00 3.41
43 44 1.212688 CACATAGCCTTGACCCATCCA 59.787 52.381 0.00 0.00 0.00 3.41
44 45 1.477558 CCACATAGCCTTGACCCATCC 60.478 57.143 0.00 0.00 0.00 3.51
45 46 1.477558 CCCACATAGCCTTGACCCATC 60.478 57.143 0.00 0.00 0.00 3.51
46 47 0.552848 CCCACATAGCCTTGACCCAT 59.447 55.000 0.00 0.00 0.00 4.00
47 48 0.844661 ACCCACATAGCCTTGACCCA 60.845 55.000 0.00 0.00 0.00 4.51
48 49 0.331616 AACCCACATAGCCTTGACCC 59.668 55.000 0.00 0.00 0.00 4.46
49 50 1.282157 AGAACCCACATAGCCTTGACC 59.718 52.381 0.00 0.00 0.00 4.02
50 51 2.749621 CAAGAACCCACATAGCCTTGAC 59.250 50.000 0.00 0.00 34.57 3.18
51 52 2.879756 GCAAGAACCCACATAGCCTTGA 60.880 50.000 0.00 0.00 34.57 3.02
52 53 1.474077 GCAAGAACCCACATAGCCTTG 59.526 52.381 0.00 0.00 35.44 3.61
53 54 1.075374 TGCAAGAACCCACATAGCCTT 59.925 47.619 0.00 0.00 0.00 4.35
54 55 0.698238 TGCAAGAACCCACATAGCCT 59.302 50.000 0.00 0.00 0.00 4.58
55 56 1.098050 CTGCAAGAACCCACATAGCC 58.902 55.000 0.00 0.00 34.07 3.93
56 57 1.098050 CCTGCAAGAACCCACATAGC 58.902 55.000 0.00 0.00 34.07 2.97
57 58 2.636830 CTCCTGCAAGAACCCACATAG 58.363 52.381 0.00 0.00 34.07 2.23
58 59 1.340017 GCTCCTGCAAGAACCCACATA 60.340 52.381 0.00 0.00 39.41 2.29
59 60 0.610232 GCTCCTGCAAGAACCCACAT 60.610 55.000 0.00 0.00 39.41 3.21
60 61 1.228245 GCTCCTGCAAGAACCCACA 60.228 57.895 0.00 0.00 39.41 4.17
61 62 3.673599 GCTCCTGCAAGAACCCAC 58.326 61.111 0.00 0.00 39.41 4.61
73 74 0.451783 CGCGCCTAAAAATTGCTCCT 59.548 50.000 0.00 0.00 0.00 3.69
80 81 3.636282 AAACAACTCGCGCCTAAAAAT 57.364 38.095 0.00 0.00 0.00 1.82
134 136 2.976185 CCATAAACCCCACAAAAACCCT 59.024 45.455 0.00 0.00 0.00 4.34
152 155 6.382859 ACCTCTAAAGAAACACCAAAAACCAT 59.617 34.615 0.00 0.00 0.00 3.55
153 156 5.717654 ACCTCTAAAGAAACACCAAAAACCA 59.282 36.000 0.00 0.00 0.00 3.67
160 163 7.447238 CCAAAGATAACCTCTAAAGAAACACCA 59.553 37.037 0.00 0.00 32.41 4.17
211 214 8.132995 ACCGAAAGAAAAGAAATAAACAACGAT 58.867 29.630 0.00 0.00 0.00 3.73
241 244 2.182014 GAACGCAGAAAACCAACACAC 58.818 47.619 0.00 0.00 0.00 3.82
256 270 6.822073 AAACAGAAAAATGTTAAGGAACGC 57.178 33.333 0.00 0.00 42.49 4.84
288 304 9.676195 CAATGTGTGTGAACAAAATTAGACATA 57.324 29.630 0.00 0.00 32.81 2.29
301 318 6.071952 AGGATAAATGGACAATGTGTGTGAAC 60.072 38.462 0.00 0.00 41.96 3.18
704 797 8.489489 CCTGTGGGCTATAATCATCAAGTATAT 58.511 37.037 0.00 0.00 0.00 0.86
710 872 4.907269 TCTCCTGTGGGCTATAATCATCAA 59.093 41.667 0.00 0.00 0.00 2.57
717 879 2.398588 CCTGTCTCCTGTGGGCTATAA 58.601 52.381 0.00 0.00 0.00 0.98
749 912 1.277557 GTCCATAGGCCATAGCTGAGG 59.722 57.143 5.01 0.00 39.73 3.86
752 915 1.002888 CTGGTCCATAGGCCATAGCTG 59.997 57.143 5.01 0.00 39.73 4.24
753 916 1.356124 CTGGTCCATAGGCCATAGCT 58.644 55.000 5.01 0.00 39.73 3.32
754 917 0.322008 GCTGGTCCATAGGCCATAGC 60.322 60.000 5.01 0.00 33.84 2.97
755 918 0.326264 GGCTGGTCCATAGGCCATAG 59.674 60.000 14.34 0.00 43.59 2.23
756 919 0.104462 AGGCTGGTCCATAGGCCATA 60.104 55.000 19.86 0.00 46.23 2.74
757 920 0.995675 AAGGCTGGTCCATAGGCCAT 60.996 55.000 19.86 7.80 46.23 4.40
758 921 1.214305 AAAGGCTGGTCCATAGGCCA 61.214 55.000 19.86 0.00 46.23 5.36
759 922 0.033109 AAAAGGCTGGTCCATAGGCC 60.033 55.000 11.85 11.85 44.38 5.19
760 923 2.729028 TAAAAGGCTGGTCCATAGGC 57.271 50.000 0.00 0.00 40.69 3.93
761 924 4.713792 AGATAAAAGGCTGGTCCATAGG 57.286 45.455 0.00 0.00 37.29 2.57
762 925 6.174720 TGTAGATAAAAGGCTGGTCCATAG 57.825 41.667 0.00 0.00 37.29 2.23
763 926 5.071788 CCTGTAGATAAAAGGCTGGTCCATA 59.928 44.000 0.00 0.00 37.29 2.74
764 927 4.141390 CCTGTAGATAAAAGGCTGGTCCAT 60.141 45.833 0.00 0.00 37.29 3.41
765 928 3.199946 CCTGTAGATAAAAGGCTGGTCCA 59.800 47.826 0.00 0.00 37.29 4.02
766 929 3.454812 TCCTGTAGATAAAAGGCTGGTCC 59.545 47.826 0.00 0.00 0.00 4.46
767 930 4.755266 TCCTGTAGATAAAAGGCTGGTC 57.245 45.455 0.00 0.00 0.00 4.02
768 931 5.514500 TTTCCTGTAGATAAAAGGCTGGT 57.486 39.130 0.00 0.00 0.00 4.00
769 932 8.519799 TTTATTTCCTGTAGATAAAAGGCTGG 57.480 34.615 0.00 0.00 0.00 4.85
799 979 2.952310 GGTAATCCATGGCCTTCTTGAC 59.048 50.000 6.96 0.00 0.00 3.18
804 984 2.689983 CAAGTGGTAATCCATGGCCTTC 59.310 50.000 6.96 0.81 46.20 3.46
812 992 1.992557 AGAAGCCCAAGTGGTAATCCA 59.007 47.619 0.00 0.00 42.05 3.41
813 993 2.290960 ACAGAAGCCCAAGTGGTAATCC 60.291 50.000 0.00 0.00 36.04 3.01
814 994 2.749621 CACAGAAGCCCAAGTGGTAATC 59.250 50.000 0.00 0.00 36.04 1.75
815 995 2.375174 TCACAGAAGCCCAAGTGGTAAT 59.625 45.455 0.00 0.00 36.04 1.89
816 996 1.771854 TCACAGAAGCCCAAGTGGTAA 59.228 47.619 0.00 0.00 36.04 2.85
817 997 1.429930 TCACAGAAGCCCAAGTGGTA 58.570 50.000 0.00 0.00 36.04 3.25
818 998 0.773644 ATCACAGAAGCCCAAGTGGT 59.226 50.000 0.00 0.00 36.04 4.16
819 999 1.171308 CATCACAGAAGCCCAAGTGG 58.829 55.000 0.00 0.00 33.01 4.00
820 1000 1.171308 CCATCACAGAAGCCCAAGTG 58.829 55.000 0.00 0.00 0.00 3.16
821 1001 0.038744 CCCATCACAGAAGCCCAAGT 59.961 55.000 0.00 0.00 0.00 3.16
822 1002 0.682209 CCCCATCACAGAAGCCCAAG 60.682 60.000 0.00 0.00 0.00 3.61
823 1003 1.139498 TCCCCATCACAGAAGCCCAA 61.139 55.000 0.00 0.00 0.00 4.12
848 1028 2.736400 GCATTGGGCTAGTGATTTGTGC 60.736 50.000 0.00 0.00 40.25 4.57
895 1075 3.495453 GGGGTTTTAAAAGTTTCTGGCCC 60.495 47.826 0.00 5.73 0.00 5.80
958 1138 1.134068 GGGAAGATGGTGGTAGGAAGC 60.134 57.143 0.00 0.00 0.00 3.86
964 1144 2.372074 GCCGGGGAAGATGGTGGTA 61.372 63.158 2.18 0.00 0.00 3.25
1100 1281 1.284982 CTTCTGAACGACAGCACGGG 61.285 60.000 8.88 0.00 45.38 5.28
1114 1295 4.734695 GCAAAACCAGGTGAGAAACTTCTG 60.735 45.833 0.00 0.00 37.73 3.02
1118 1299 1.676006 CGCAAAACCAGGTGAGAAACT 59.324 47.619 0.00 0.00 0.00 2.66
1399 1590 3.033909 AGATCACGATGATGTGGGAAGA 58.966 45.455 5.41 0.00 37.20 2.87
1441 1632 3.244561 ACAAGAATCACCGGACAACAGAT 60.245 43.478 9.46 0.00 0.00 2.90
1443 1634 2.494059 ACAAGAATCACCGGACAACAG 58.506 47.619 9.46 0.00 0.00 3.16
1669 1884 1.153309 GGGCCCTTGAATGCATTGC 60.153 57.895 18.59 13.29 0.00 3.56
1670 1885 1.266160 TGGGGCCCTTGAATGCATTG 61.266 55.000 25.93 2.71 0.00 2.82
1671 1886 0.326808 ATGGGGCCCTTGAATGCATT 60.327 50.000 25.93 12.83 0.00 3.56
1672 1887 1.052124 CATGGGGCCCTTGAATGCAT 61.052 55.000 29.73 11.92 31.33 3.96
1673 1888 1.686455 CATGGGGCCCTTGAATGCA 60.686 57.895 29.73 9.74 31.33 3.96
1826 2041 2.035442 GGCTGCGAGAAACTGGTCC 61.035 63.158 0.00 0.00 0.00 4.46
1900 2115 4.275936 ACCACTCACAACATGCTAACTTTC 59.724 41.667 0.00 0.00 0.00 2.62
1914 2129 3.066621 GCAAACAAATCTCACCACTCACA 59.933 43.478 0.00 0.00 0.00 3.58
1919 2134 3.715628 ACAGCAAACAAATCTCACCAC 57.284 42.857 0.00 0.00 0.00 4.16
1962 2177 4.481368 ACGCAGATTGGAGTAAATGGTA 57.519 40.909 0.00 0.00 0.00 3.25
1964 2179 4.701956 AAACGCAGATTGGAGTAAATGG 57.298 40.909 0.00 0.00 0.00 3.16
1968 2183 5.508200 AACAAAAACGCAGATTGGAGTAA 57.492 34.783 0.00 0.00 0.00 2.24
1997 2212 3.735237 ATACATCACCAAGAGCTACCG 57.265 47.619 0.00 0.00 0.00 4.02
2067 2282 5.104900 ACAGGGTTATCTGGTTCAGTACATC 60.105 44.000 0.00 0.00 38.98 3.06
2071 2286 4.019681 CCAACAGGGTTATCTGGTTCAGTA 60.020 45.833 0.00 0.00 38.98 2.74
2152 2367 5.972935 TCGAATTCTAAGGTTGACTATGCA 58.027 37.500 3.52 0.00 0.00 3.96
2165 2380 7.987458 AGAAATAGTTCATGCCTCGAATTCTAA 59.013 33.333 5.62 0.00 36.09 2.10
2174 2389 6.089954 GCAAAAACAGAAATAGTTCATGCCTC 59.910 38.462 5.62 0.00 35.86 4.70
2211 2427 3.670377 GGGCCCTTGAACGTGCAC 61.670 66.667 17.04 6.82 0.00 4.57
2366 2582 1.464997 GGCTGTGAAGAATTGGTCGAC 59.535 52.381 7.13 7.13 0.00 4.20
2420 2636 3.254903 ACTGCACGAGTGATACACTAACA 59.745 43.478 7.50 1.24 45.44 2.41
2436 2652 5.464168 ACAAGCAAATCAATCTTACTGCAC 58.536 37.500 0.00 0.00 32.21 4.57


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

AutoCloner maintained by Alex Coulton.