Multiple sequence alignment - TraesCS5A01G459200

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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 TraesCS5A01G459200 chr5A 100.000 3280 0 0 1 3280 639308755 639305476 0.000000e+00 6058
1 TraesCS5A01G459200 chr5D 93.044 2099 70 29 756 2808 510976039 510973971 0.000000e+00 2998
2 TraesCS5A01G459200 chr5D 90.707 721 36 13 50 756 510976791 510976088 0.000000e+00 931
3 TraesCS5A01G459200 chr5D 89.963 538 42 7 2753 3280 510973962 510973427 0.000000e+00 684
4 TraesCS5A01G459200 chr5D 83.569 353 36 15 863 1196 482006085 482006434 8.840000e-81 311
5 TraesCS5A01G459200 chr5B 92.727 1925 72 29 756 2629 642274873 642276780 0.000000e+00 2717
6 TraesCS5A01G459200 chr5B 91.908 655 30 7 109 756 642274186 642274824 0.000000e+00 894
7 TraesCS5A01G459200 chr5B 80.055 361 28 22 863 1206 591446680 591447013 9.160000e-56 228


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 TraesCS5A01G459200 chr5A 639305476 639308755 3279 True 6058.000000 6058 100.0000 1 3280 1 chr5A.!!$R1 3279
1 TraesCS5A01G459200 chr5D 510973427 510976791 3364 True 1537.666667 2998 91.2380 50 3280 3 chr5D.!!$R1 3230
2 TraesCS5A01G459200 chr5B 642274186 642276780 2594 False 1805.500000 2717 92.3175 109 2629 2 chr5B.!!$F2 2520

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
311 316 0.175760 GAGATTACGTGCTCTGGCCA 59.824 55.0 4.71 4.71 37.74 5.36 F
1319 1392 0.249657 CTCCTCCGCCATCTACTTGC 60.250 60.0 0.00 0.00 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1966 2074 0.108520 TTCCCGTACAAGCTAAGCCG 60.109 55.0 0.00 0.0 0.0 5.52 R
2477 2601 0.109781 CAACACAGGCGGCACATTAC 60.110 55.0 13.08 0.0 0.0 1.89 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
48 49 2.043248 GCGGTGAGGGGGAGAGTA 60.043 66.667 0.00 0.00 0.00 2.59
49 50 2.128507 GCGGTGAGGGGGAGAGTAG 61.129 68.421 0.00 0.00 0.00 2.57
50 51 1.455959 CGGTGAGGGGGAGAGTAGG 60.456 68.421 0.00 0.00 0.00 3.18
51 52 1.762858 GGTGAGGGGGAGAGTAGGC 60.763 68.421 0.00 0.00 0.00 3.93
52 53 1.001760 GTGAGGGGGAGAGTAGGCA 59.998 63.158 0.00 0.00 0.00 4.75
56 57 2.128507 GGGGGAGAGTAGGCAGACG 61.129 68.421 0.00 0.00 0.00 4.18
59 60 1.385756 GGGAGAGTAGGCAGACGACC 61.386 65.000 0.00 0.00 0.00 4.79
65 66 1.822613 TAGGCAGACGACCGGCTAG 60.823 63.158 0.00 0.00 39.09 3.42
115 116 4.308458 CGCAAGGACCACGTGGGA 62.308 66.667 36.47 0.00 42.57 4.37
116 117 2.668550 GCAAGGACCACGTGGGAC 60.669 66.667 36.47 27.48 41.15 4.46
187 189 4.645535 CCCCAAGGTGACATGACATATAG 58.354 47.826 0.00 0.00 0.00 1.31
188 190 4.103153 CCCCAAGGTGACATGACATATAGT 59.897 45.833 0.00 0.00 0.00 2.12
189 191 5.306937 CCCCAAGGTGACATGACATATAGTA 59.693 44.000 0.00 0.00 0.00 1.82
190 192 6.459066 CCCAAGGTGACATGACATATAGTAG 58.541 44.000 0.00 0.00 0.00 2.57
242 244 4.202264 ACTTTCAGCTCGGGTATTCATAGG 60.202 45.833 0.00 0.00 0.00 2.57
270 275 2.698855 GCATCTGCTGGTCCTCTTTA 57.301 50.000 0.00 0.00 38.21 1.85
311 316 0.175760 GAGATTACGTGCTCTGGCCA 59.824 55.000 4.71 4.71 37.74 5.36
356 361 2.669569 GCTGCAAGGAACCTCGCA 60.670 61.111 6.32 6.32 0.00 5.10
445 450 3.923461 CAGTAAACGAAAGGAGCTGAGAG 59.077 47.826 0.00 0.00 0.00 3.20
465 470 5.728471 AGAGACATCAAACATGGTACTCTG 58.272 41.667 0.00 0.00 32.11 3.35
480 489 2.249413 CTCTGCTGTACCTGGCTGGG 62.249 65.000 15.36 5.47 41.11 4.45
627 641 4.142816 GGTTTCAGATTCACAGAATCCACG 60.143 45.833 14.29 5.85 35.41 4.94
721 741 8.847567 CACGAGAATTTCATTTTCTGAATCTTG 58.152 33.333 0.00 0.00 43.30 3.02
743 763 3.520569 CTGCCAAATTTACCCGGAATTG 58.479 45.455 0.73 0.00 0.00 2.32
911 984 2.349755 GCCGGCCACTTACTTGGA 59.650 61.111 18.11 0.00 39.24 3.53
933 1006 4.095400 TCCCCCAGCTCCTCCCTC 62.095 72.222 0.00 0.00 0.00 4.30
935 1008 4.465446 CCCCAGCTCCTCCCTCGA 62.465 72.222 0.00 0.00 0.00 4.04
1307 1380 1.047002 ATTCATCAGCCTCTCCTCCG 58.953 55.000 0.00 0.00 0.00 4.63
1319 1392 0.249657 CTCCTCCGCCATCTACTTGC 60.250 60.000 0.00 0.00 0.00 4.01
1332 1405 6.586344 CCATCTACTTGCTGGAATTCTTCTA 58.414 40.000 5.23 0.00 33.99 2.10
1369 1442 9.369904 TCAATCATCCATATATGTCATGTTACG 57.630 33.333 11.73 4.79 0.00 3.18
1442 1529 9.578439 GAAAGATTCAGATGATTTTGTTTAGGG 57.422 33.333 0.00 0.00 0.00 3.53
1491 1596 2.383368 TGTTGCAGCTTTGTTGCTTT 57.617 40.000 1.17 0.00 41.98 3.51
1496 1601 1.341209 GCAGCTTTGTTGCTTTAGGGT 59.659 47.619 0.00 0.00 41.98 4.34
1679 1787 8.039603 TGGCTCTACAAGTAACAACATATTTG 57.960 34.615 0.00 0.00 0.00 2.32
1839 1947 4.636206 GGAAAGGTATGAACAGATCCACAC 59.364 45.833 0.00 0.00 0.00 3.82
1847 1955 7.283127 GGTATGAACAGATCCACACACATATTT 59.717 37.037 0.00 0.00 0.00 1.40
1891 1999 5.577945 ACAAATTAGCATGCAAAATTCCTCG 59.422 36.000 23.32 16.67 0.00 4.63
1910 2018 8.450578 TTCCTCGCATGAATATATGTTTTCTT 57.549 30.769 0.00 0.00 0.00 2.52
1965 2073 2.143925 GCAGAGCGGGTTATGATAACC 58.856 52.381 23.03 23.03 39.56 2.85
1983 2091 1.520787 CCGGCTTAGCTTGTACGGG 60.521 63.158 10.26 1.09 37.80 5.28
2031 2139 3.464907 CAAAACCAATCAACATGCCACA 58.535 40.909 0.00 0.00 0.00 4.17
2078 2186 3.651206 TCCACTAATTTTACGCACGACA 58.349 40.909 0.00 0.00 0.00 4.35
2151 2263 7.816640 TCTGATTTGCTCATGTTTACTTAACC 58.183 34.615 0.00 0.00 35.81 2.85
2281 2395 1.609072 CACGGAGAAGATCGGCTGATA 59.391 52.381 8.35 0.00 34.09 2.15
2282 2396 2.230025 CACGGAGAAGATCGGCTGATAT 59.770 50.000 8.35 1.38 34.09 1.63
2477 2601 0.805614 TTTGTGTTGGTGTCGGTGTG 59.194 50.000 0.00 0.00 0.00 3.82
2695 2830 3.384467 CCACCCCTTATGTAAAAGCCATG 59.616 47.826 0.00 0.00 0.00 3.66
2715 2850 3.071479 TGAGTTGTGGCCGATCTAAAAC 58.929 45.455 0.00 0.00 0.00 2.43
2720 2855 0.609151 TGGCCGATCTAAAACGTCCA 59.391 50.000 0.00 0.00 35.26 4.02
2725 2860 2.093152 CCGATCTAAAACGTCCAAACCG 59.907 50.000 0.00 0.00 0.00 4.44
2728 2863 2.137523 TCTAAAACGTCCAAACCGCTC 58.862 47.619 0.00 0.00 0.00 5.03
2729 2864 0.860533 TAAAACGTCCAAACCGCTCG 59.139 50.000 0.00 0.00 0.00 5.03
2730 2865 1.778027 AAAACGTCCAAACCGCTCGG 61.778 55.000 6.79 6.79 42.03 4.63
2733 2868 3.119096 GTCCAAACCGCTCGGCTC 61.119 66.667 8.41 0.00 39.32 4.70
2737 2872 1.810030 CAAACCGCTCGGCTCTACC 60.810 63.158 8.41 0.00 39.32 3.18
2783 2982 9.891828 GATTGATTCTATGTTTAACACAACACA 57.108 29.630 0.00 0.00 39.48 3.72
2793 2992 8.277490 TGTTTAACACAACACAATACACCTTA 57.723 30.769 0.00 0.00 31.48 2.69
2805 3004 7.118680 ACACAATACACCTTATACCTTTGAACG 59.881 37.037 0.00 0.00 0.00 3.95
2810 3009 6.161381 ACACCTTATACCTTTGAACGTACAG 58.839 40.000 0.00 0.00 0.00 2.74
2821 3020 3.302555 TGAACGTACAGCAAAGTACTCG 58.697 45.455 0.00 0.00 41.65 4.18
2823 3022 3.360249 ACGTACAGCAAAGTACTCGTT 57.640 42.857 0.00 0.00 41.65 3.85
2834 3033 5.061064 GCAAAGTACTCGTTAGTCATGACTG 59.939 44.000 33.76 20.78 42.52 3.51
2843 3042 4.787083 CGTTAGTCATGACTGTCGTTACTC 59.213 45.833 33.76 13.91 42.52 2.59
2844 3043 3.473093 AGTCATGACTGTCGTTACTCG 57.527 47.619 27.37 0.00 40.75 4.18
2847 3046 4.634883 AGTCATGACTGTCGTTACTCGTAT 59.365 41.667 27.37 0.00 40.75 3.06
2850 3049 2.159476 TGACTGTCGTTACTCGTATGGC 60.159 50.000 2.98 0.00 40.80 4.40
2852 3051 2.426024 ACTGTCGTTACTCGTATGGCAT 59.574 45.455 4.88 4.88 40.80 4.40
2853 3052 3.119245 ACTGTCGTTACTCGTATGGCATT 60.119 43.478 4.78 0.00 40.80 3.56
2856 3055 1.784856 CGTTACTCGTATGGCATTCCG 59.215 52.381 4.78 9.13 32.76 4.30
2860 3059 0.809636 CTCGTATGGCATTCCGCACA 60.810 55.000 4.78 0.00 45.17 4.57
2870 3069 2.223144 GCATTCCGCACAATTCGCTATA 59.777 45.455 0.00 0.00 41.79 1.31
2883 3082 9.340695 CACAATTCGCTATAAGAAATTTGTTGA 57.659 29.630 10.65 0.00 32.04 3.18
2903 3102 7.825681 TGTTGATATATGACAGGTTTTTGGTG 58.174 34.615 0.00 0.00 0.00 4.17
2909 3108 4.647424 TGACAGGTTTTTGGTGATGTTC 57.353 40.909 0.00 0.00 0.00 3.18
2910 3109 4.277476 TGACAGGTTTTTGGTGATGTTCT 58.723 39.130 0.00 0.00 0.00 3.01
2939 3138 8.470002 GGAAACATCATATAATGGCCTAAATCC 58.530 37.037 3.32 0.00 0.00 3.01
2948 3147 2.164338 TGGCCTAAATCCGGTTTCAAC 58.836 47.619 3.32 0.00 0.00 3.18
2981 3180 0.109723 TCAAAAGCGGGCTAACCAGT 59.890 50.000 0.00 0.00 40.22 4.00
2988 3187 0.034477 CGGGCTAACCAGTCCCAATT 60.034 55.000 0.00 0.00 44.40 2.32
3026 3225 8.692110 TTTATGTTGAAATGATGATTGCTGTC 57.308 30.769 0.00 0.00 0.00 3.51
3033 3232 7.871853 TGAAATGATGATTGCTGTCATAGATG 58.128 34.615 4.70 0.00 38.88 2.90
3037 3236 6.819284 TGATGATTGCTGTCATAGATGTACA 58.181 36.000 0.00 0.00 38.88 2.90
3047 3246 9.186323 GCTGTCATAGATGTACAAGTAACATAG 57.814 37.037 0.00 0.00 37.69 2.23
3093 3294 3.492102 TCATGCTTTAGATGCTACCCC 57.508 47.619 0.00 0.00 0.00 4.95
3094 3295 2.106511 TCATGCTTTAGATGCTACCCCC 59.893 50.000 0.00 0.00 0.00 5.40
3101 3302 1.898863 AGATGCTACCCCCACTCAAT 58.101 50.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 3.674050 TACTCTCCCCCTCACCGCC 62.674 68.421 0.00 0.00 0.00 6.13
31 32 2.043248 TACTCTCCCCCTCACCGC 60.043 66.667 0.00 0.00 0.00 5.68
32 33 1.455959 CCTACTCTCCCCCTCACCG 60.456 68.421 0.00 0.00 0.00 4.94
33 34 1.762858 GCCTACTCTCCCCCTCACC 60.763 68.421 0.00 0.00 0.00 4.02
34 35 1.001760 TGCCTACTCTCCCCCTCAC 59.998 63.158 0.00 0.00 0.00 3.51
35 36 1.221909 TCTGCCTACTCTCCCCCTCA 61.222 60.000 0.00 0.00 0.00 3.86
36 37 0.757561 GTCTGCCTACTCTCCCCCTC 60.758 65.000 0.00 0.00 0.00 4.30
37 38 1.311747 GTCTGCCTACTCTCCCCCT 59.688 63.158 0.00 0.00 0.00 4.79
38 39 2.128507 CGTCTGCCTACTCTCCCCC 61.129 68.421 0.00 0.00 0.00 5.40
39 40 1.076923 TCGTCTGCCTACTCTCCCC 60.077 63.158 0.00 0.00 0.00 4.81
40 41 1.385756 GGTCGTCTGCCTACTCTCCC 61.386 65.000 0.00 0.00 0.00 4.30
41 42 1.716826 CGGTCGTCTGCCTACTCTCC 61.717 65.000 0.00 0.00 0.00 3.71
42 43 1.716826 CCGGTCGTCTGCCTACTCTC 61.717 65.000 0.00 0.00 0.00 3.20
43 44 1.749638 CCGGTCGTCTGCCTACTCT 60.750 63.158 0.00 0.00 0.00 3.24
44 45 2.799371 CCGGTCGTCTGCCTACTC 59.201 66.667 0.00 0.00 0.00 2.59
45 46 2.547640 TAGCCGGTCGTCTGCCTACT 62.548 60.000 1.90 0.00 0.00 2.57
46 47 2.061182 CTAGCCGGTCGTCTGCCTAC 62.061 65.000 1.90 0.00 0.00 3.18
47 48 1.822613 CTAGCCGGTCGTCTGCCTA 60.823 63.158 1.90 0.00 0.00 3.93
48 49 3.141488 CTAGCCGGTCGTCTGCCT 61.141 66.667 1.90 0.00 0.00 4.75
49 50 2.707849 TTCTAGCCGGTCGTCTGCC 61.708 63.158 1.90 0.00 0.00 4.85
50 51 1.516603 GTTCTAGCCGGTCGTCTGC 60.517 63.158 1.90 0.00 0.00 4.26
51 52 1.226323 CGTTCTAGCCGGTCGTCTG 60.226 63.158 1.90 0.00 0.00 3.51
52 53 2.404995 CCGTTCTAGCCGGTCGTCT 61.405 63.158 1.90 0.00 40.59 4.18
65 66 2.082366 CACAATTGCTGCGCCGTTC 61.082 57.895 4.18 0.00 0.00 3.95
94 95 4.619227 ACGTGGTCCTTGCGGGTG 62.619 66.667 0.00 0.00 36.25 4.61
95 96 4.619227 CACGTGGTCCTTGCGGGT 62.619 66.667 7.95 0.00 36.25 5.28
102 103 4.608774 TCGGTCCCACGTGGTCCT 62.609 66.667 31.80 0.00 39.93 3.85
104 105 1.666872 CTTTCGGTCCCACGTGGTC 60.667 63.158 31.80 23.01 34.77 4.02
105 106 1.688269 TTCTTTCGGTCCCACGTGGT 61.688 55.000 31.80 0.00 34.77 4.16
106 107 0.949105 CTTCTTTCGGTCCCACGTGG 60.949 60.000 28.26 28.26 34.94 4.94
107 108 0.249741 ACTTCTTTCGGTCCCACGTG 60.250 55.000 9.08 9.08 34.94 4.49
115 116 4.120589 GACTTTCAGTCACTTCTTTCGGT 58.879 43.478 0.00 0.00 44.45 4.69
116 117 3.495001 GGACTTTCAGTCACTTCTTTCGG 59.505 47.826 6.25 0.00 46.79 4.30
230 232 4.254492 GCTCGGATTTCCTATGAATACCC 58.746 47.826 0.00 0.00 0.00 3.69
264 269 5.740290 TCCAAGGAGTACAAGGTAAAGAG 57.260 43.478 0.00 0.00 0.00 2.85
266 271 5.469084 GTGTTCCAAGGAGTACAAGGTAAAG 59.531 44.000 0.00 0.00 0.00 1.85
270 275 2.105993 GGTGTTCCAAGGAGTACAAGGT 59.894 50.000 0.00 0.00 0.00 3.50
311 316 2.356313 CACAACTCGTCGGCAGCT 60.356 61.111 0.00 0.00 0.00 4.24
445 450 4.093998 CAGCAGAGTACCATGTTTGATGTC 59.906 45.833 0.00 0.00 0.00 3.06
465 470 2.586792 CTCCCAGCCAGGTACAGC 59.413 66.667 0.00 0.00 34.66 4.40
480 489 4.813296 ACAACGTGTCTGATTTTTCCTC 57.187 40.909 0.00 0.00 0.00 3.71
721 741 0.892063 TTCCGGGTAAATTTGGCAGC 59.108 50.000 0.00 0.00 0.00 5.25
743 763 4.262036 GGGAAAACCCACTGAAGATTCAAC 60.262 45.833 0.00 0.00 34.84 3.18
855 928 3.426568 GAACTGCTGCTGGGTCGC 61.427 66.667 11.29 0.00 0.00 5.19
911 984 3.933542 GAGGAGCTGGGGGAGGTGT 62.934 68.421 0.00 0.00 30.42 4.16
1119 1192 1.526917 AGCAAACAGGCTCGTGCTT 60.527 52.632 9.61 0.00 44.79 3.91
1282 1355 3.390639 AGGAGAGGCTGATGAATTACCAG 59.609 47.826 0.00 0.00 0.00 4.00
1366 1439 3.560453 CCAAGAAATTCCCCAAGGTCGTA 60.560 47.826 0.00 0.00 0.00 3.43
1367 1440 2.514803 CAAGAAATTCCCCAAGGTCGT 58.485 47.619 0.00 0.00 0.00 4.34
1368 1441 1.818674 CCAAGAAATTCCCCAAGGTCG 59.181 52.381 0.00 0.00 0.00 4.79
1369 1442 3.169512 TCCAAGAAATTCCCCAAGGTC 57.830 47.619 0.00 0.00 0.00 3.85
1466 1569 3.181508 GCAACAAAGCTGCAACAACAATT 60.182 39.130 1.02 0.00 39.69 2.32
1467 1570 2.352342 GCAACAAAGCTGCAACAACAAT 59.648 40.909 1.02 0.00 39.69 2.71
1470 1573 1.643880 AGCAACAAAGCTGCAACAAC 58.356 45.000 1.02 0.00 44.66 3.32
1472 1575 2.383368 AAAGCAACAAAGCTGCAACA 57.617 40.000 1.02 0.00 45.89 3.33
1679 1787 9.912634 CTAGAATTTTCATACTGGAGAGAGATC 57.087 37.037 0.00 0.00 0.00 2.75
1839 1947 7.568134 GCAGTGCAAGAAGAACAAAAATATGTG 60.568 37.037 11.09 0.00 32.81 3.21
1847 1955 3.944650 TGTAGCAGTGCAAGAAGAACAAA 59.055 39.130 19.20 0.00 0.00 2.83
1878 1986 3.872511 ATTCATGCGAGGAATTTTGCA 57.127 38.095 0.00 0.00 41.48 4.08
1891 1999 9.525409 AGAGCAAAAGAAAACATATATTCATGC 57.475 29.630 0.00 0.00 34.72 4.06
1910 2018 3.550820 TCCTGCAAGTTACAAGAGCAAA 58.449 40.909 0.00 0.00 34.45 3.68
1953 2061 3.072211 GCTAAGCCGGGTTATCATAACC 58.928 50.000 25.35 17.37 39.56 2.85
1956 2064 3.389983 ACAAGCTAAGCCGGGTTATCATA 59.610 43.478 25.35 6.09 0.00 2.15
1965 2073 1.520787 CCCGTACAAGCTAAGCCGG 60.521 63.158 0.00 0.00 35.32 6.13
1966 2074 0.108520 TTCCCGTACAAGCTAAGCCG 60.109 55.000 0.00 0.00 0.00 5.52
2014 2122 4.354893 AATTTGTGGCATGTTGATTGGT 57.645 36.364 0.00 0.00 0.00 3.67
2031 2139 6.072452 TGTTTTTCCTTTTGCGGTGAAAATTT 60.072 30.769 0.00 0.00 36.79 1.82
2123 2235 7.458409 AAGTAAACATGAGCAAATCAGATGT 57.542 32.000 0.00 0.00 42.53 3.06
2151 2263 0.110056 GCGTGGTCACATTTCTGCAG 60.110 55.000 7.63 7.63 0.00 4.41
2281 2395 4.082300 TGAAATTACTGAAACCGCATGCAT 60.082 37.500 19.57 1.32 0.00 3.96
2282 2396 3.254411 TGAAATTACTGAAACCGCATGCA 59.746 39.130 19.57 0.00 0.00 3.96
2477 2601 0.109781 CAACACAGGCGGCACATTAC 60.110 55.000 13.08 0.00 0.00 1.89
2695 2830 2.093783 CGTTTTAGATCGGCCACAACTC 59.906 50.000 2.24 0.00 0.00 3.01
2720 2855 1.614241 ATGGTAGAGCCGAGCGGTTT 61.614 55.000 10.94 0.00 41.21 3.27
2725 2860 0.533755 ATGCAATGGTAGAGCCGAGC 60.534 55.000 0.00 0.00 41.21 5.03
2728 2863 2.016318 TCAAATGCAATGGTAGAGCCG 58.984 47.619 0.00 0.00 41.21 5.52
2729 2864 2.223340 CGTCAAATGCAATGGTAGAGCC 60.223 50.000 0.00 0.00 37.90 4.70
2730 2865 2.223340 CCGTCAAATGCAATGGTAGAGC 60.223 50.000 0.00 0.00 0.00 4.09
2731 2866 3.009723 ACCGTCAAATGCAATGGTAGAG 58.990 45.455 0.00 0.00 32.96 2.43
2732 2867 3.006940 GACCGTCAAATGCAATGGTAGA 58.993 45.455 0.00 0.00 34.90 2.59
2733 2868 2.097466 GGACCGTCAAATGCAATGGTAG 59.903 50.000 0.00 0.00 34.90 3.18
2737 2872 3.270027 TCTAGGACCGTCAAATGCAATG 58.730 45.455 0.00 0.00 0.00 2.82
2783 2982 8.313292 TGTACGTTCAAAGGTATAAGGTGTATT 58.687 33.333 0.00 0.00 32.65 1.89
2793 2992 5.061179 ACTTTGCTGTACGTTCAAAGGTAT 58.939 37.500 24.86 11.48 46.45 2.73
2805 3004 5.455392 TGACTAACGAGTACTTTGCTGTAC 58.545 41.667 0.00 6.99 42.09 2.90
2810 3009 5.061064 CAGTCATGACTAACGAGTACTTTGC 59.939 44.000 27.44 0.00 40.20 3.68
2821 3020 4.787083 CGAGTAACGACAGTCATGACTAAC 59.213 45.833 27.44 21.03 45.77 2.34
2823 3022 3.999001 ACGAGTAACGACAGTCATGACTA 59.001 43.478 27.44 8.86 45.77 2.59
2834 3033 2.793232 GGAATGCCATACGAGTAACGAC 59.207 50.000 0.00 0.00 45.77 4.34
2843 3042 0.662619 ATTGTGCGGAATGCCATACG 59.337 50.000 0.00 0.00 45.60 3.06
2844 3043 2.731217 GAATTGTGCGGAATGCCATAC 58.269 47.619 0.00 0.00 45.60 2.39
2847 3046 1.505807 CGAATTGTGCGGAATGCCA 59.494 52.632 0.00 0.00 45.60 4.92
2850 3049 4.211164 TCTTATAGCGAATTGTGCGGAATG 59.789 41.667 0.00 0.00 37.44 2.67
2852 3051 3.787785 TCTTATAGCGAATTGTGCGGAA 58.212 40.909 0.00 0.00 37.44 4.30
2853 3052 3.446310 TCTTATAGCGAATTGTGCGGA 57.554 42.857 0.00 0.00 37.44 5.54
2856 3055 7.740519 ACAAATTTCTTATAGCGAATTGTGC 57.259 32.000 0.00 0.00 28.17 4.57
2883 3082 8.593945 AACATCACCAAAAACCTGTCATATAT 57.406 30.769 0.00 0.00 0.00 0.86
2889 3088 4.918810 AGAACATCACCAAAAACCTGTC 57.081 40.909 0.00 0.00 0.00 3.51
2909 3108 7.294017 AGGCCATTATATGATGTTTCCAAAG 57.706 36.000 5.01 0.00 0.00 2.77
2910 3109 8.774546 TTAGGCCATTATATGATGTTTCCAAA 57.225 30.769 5.01 0.00 0.00 3.28
2939 3138 3.625764 TCACTGAAGGAAAGTTGAAACCG 59.374 43.478 0.00 0.00 0.00 4.44
2948 3147 4.470462 CGCTTTTGATCACTGAAGGAAAG 58.530 43.478 0.00 2.06 0.00 2.62
2988 3187 5.042463 TCAACATAAAGAAGTGTCACCCA 57.958 39.130 0.00 0.00 0.00 4.51
3021 3220 9.186323 CTATGTTACTTGTACATCTATGACAGC 57.814 37.037 0.00 0.00 37.42 4.40
3068 3269 5.049129 GGGTAGCATCTAAAGCATGAACATC 60.049 44.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.