Multiple sequence alignment - TraesCS3B01G278200

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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 TraesCS3B01G278200 chr3B 100.000 2933 0 0 1 2933 448478142 448481074 0 5417
1 TraesCS3B01G278200 chr3D 94.053 2270 98 23 1 2260 349108402 349110644 0 3410
2 TraesCS3B01G278200 chr3D 92.105 494 26 9 2440 2930 349110905 349111388 0 684
3 TraesCS3B01G278200 chr3A 91.210 2446 141 33 255 2682 467808258 467810647 0 3258


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 TraesCS3B01G278200 chr3B 448478142 448481074 2932 False 5417 5417 100.000 1 2933 1 chr3B.!!$F1 2932
1 TraesCS3B01G278200 chr3D 349108402 349111388 2986 False 2047 3410 93.079 1 2930 2 chr3D.!!$F1 2929
2 TraesCS3B01G278200 chr3A 467808258 467810647 2389 False 3258 3258 91.210 255 2682 1 chr3A.!!$F1 2427

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
74 75 0.182775 ATGGACAAACGGATAGCCCC 59.817 55.0 0.0 0.0 0.0 5.8 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2057 2067 0.24912 TCCGATCAGCAAACCACGAT 59.751 50.0 0.0 0.0 0.0 3.73 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
29 30 2.434359 CGGAGTGGGTTTCTCGGC 60.434 66.667 0.00 0.00 33.26 5.54
32 33 1.079057 GAGTGGGTTTCTCGGCTCC 60.079 63.158 0.00 0.00 0.00 4.70
33 34 2.046217 GTGGGTTTCTCGGCTCCC 60.046 66.667 0.00 0.00 40.26 4.30
34 35 2.528127 TGGGTTTCTCGGCTCCCA 60.528 61.111 0.00 0.00 46.34 4.37
37 38 0.323451 GGGTTTCTCGGCTCCCATTT 60.323 55.000 0.00 0.00 39.68 2.32
38 39 1.095600 GGTTTCTCGGCTCCCATTTC 58.904 55.000 0.00 0.00 0.00 2.17
55 56 5.878116 CCCATTTCGGTTTAATGTCAGTAGA 59.122 40.000 0.00 0.00 32.38 2.59
66 67 3.313012 TGTCAGTAGATGGACAAACGG 57.687 47.619 0.00 0.00 40.80 4.44
67 68 2.894765 TGTCAGTAGATGGACAAACGGA 59.105 45.455 0.00 0.00 40.80 4.69
74 75 0.182775 ATGGACAAACGGATAGCCCC 59.817 55.000 0.00 0.00 0.00 5.80
84 85 0.954452 GGATAGCCCCTTTGAATGCG 59.046 55.000 0.00 0.00 0.00 4.73
85 86 0.954452 GATAGCCCCTTTGAATGCGG 59.046 55.000 0.00 0.00 0.00 5.69
93 94 4.398319 CCCCTTTGAATGCGGTAGATATT 58.602 43.478 0.00 0.00 0.00 1.28
102 103 1.069668 GCGGTAGATATTCACCCCGTT 59.930 52.381 0.00 0.00 37.76 4.44
104 105 2.626743 CGGTAGATATTCACCCCGTTCT 59.373 50.000 0.00 0.00 0.00 3.01
115 116 2.607635 CACCCCGTTCTATCAAATCACG 59.392 50.000 0.00 0.00 0.00 4.35
122 123 2.716398 TCTATCAAATCACGTCGCTCG 58.284 47.619 0.00 0.00 46.00 5.03
123 124 1.781429 CTATCAAATCACGTCGCTCGG 59.219 52.381 0.00 0.00 44.69 4.63
126 127 1.006825 CAAATCACGTCGCTCGGACA 61.007 55.000 0.00 0.00 46.42 4.02
131 132 1.068402 TCACGTCGCTCGGACATTAAA 60.068 47.619 0.00 0.00 46.42 1.52
135 136 2.285026 CGTCGCTCGGACATTAAACATG 60.285 50.000 0.00 0.00 46.42 3.21
138 139 2.223021 CGCTCGGACATTAAACATGTGG 60.223 50.000 0.00 0.00 31.52 4.17
140 141 3.605634 CTCGGACATTAAACATGTGGGA 58.394 45.455 0.00 0.00 31.52 4.37
147 148 3.773418 TTAAACATGTGGGAAGACCGA 57.227 42.857 0.00 0.00 44.64 4.69
161 163 2.408835 CCGAAACATGATGCGGCC 59.591 61.111 9.77 0.00 37.08 6.13
198 200 1.029408 TGCCGCTTTAATGCCGACAT 61.029 50.000 7.68 0.00 38.49 3.06
217 219 6.481954 GACATTAATGAAAGGTCGTGTCTT 57.518 37.500 22.16 0.00 38.93 3.01
224 227 2.156343 AAGGTCGTGTCTTTCTGAGC 57.844 50.000 0.00 0.00 0.00 4.26
235 238 6.341316 GTGTCTTTCTGAGCCTACATGAATA 58.659 40.000 0.00 0.00 0.00 1.75
239 242 2.054363 CTGAGCCTACATGAATACGCG 58.946 52.381 3.53 3.53 0.00 6.01
241 244 0.750850 AGCCTACATGAATACGCGGT 59.249 50.000 12.47 0.00 0.00 5.68
289 292 0.878523 CGGCAACCACTTCGACTTCA 60.879 55.000 0.00 0.00 0.00 3.02
295 298 4.733523 GCAACCACTTCGACTTCACAAATT 60.734 41.667 0.00 0.00 0.00 1.82
386 389 5.941788 ACAAGATTTAACAGGTCAAGGTCT 58.058 37.500 0.00 0.00 0.00 3.85
389 392 7.607991 ACAAGATTTAACAGGTCAAGGTCTATG 59.392 37.037 0.00 0.00 0.00 2.23
428 431 3.322828 ACTTCTCGTTTGGTACAGGCTAA 59.677 43.478 0.00 0.00 42.39 3.09
442 445 1.064758 AGGCTAACAATTGCGGGATCA 60.065 47.619 5.05 0.00 0.00 2.92
681 685 3.065925 ACTTCAGTTCAGCTGCAAAAGAC 59.934 43.478 9.47 0.73 44.66 3.01
683 687 4.071961 TCAGTTCAGCTGCAAAAGACTA 57.928 40.909 9.47 0.00 44.66 2.59
684 688 4.645535 TCAGTTCAGCTGCAAAAGACTAT 58.354 39.130 9.47 0.00 44.66 2.12
685 689 4.692625 TCAGTTCAGCTGCAAAAGACTATC 59.307 41.667 9.47 0.00 44.66 2.08
686 690 4.694509 CAGTTCAGCTGCAAAAGACTATCT 59.305 41.667 9.47 0.00 38.52 1.98
687 691 4.694509 AGTTCAGCTGCAAAAGACTATCTG 59.305 41.667 9.47 0.00 0.00 2.90
688 692 4.277515 TCAGCTGCAAAAGACTATCTGT 57.722 40.909 9.47 0.00 0.00 3.41
689 693 3.999001 TCAGCTGCAAAAGACTATCTGTG 59.001 43.478 9.47 0.00 0.00 3.66
690 694 2.746362 AGCTGCAAAAGACTATCTGTGC 59.254 45.455 1.02 7.49 38.27 4.57
691 695 2.485426 GCTGCAAAAGACTATCTGTGCA 59.515 45.455 13.74 13.74 42.48 4.57
693 697 2.485426 TGCAAAAGACTATCTGTGCAGC 59.515 45.455 11.47 0.00 40.93 5.25
694 698 2.475187 GCAAAAGACTATCTGTGCAGCG 60.475 50.000 8.97 0.00 37.91 5.18
695 699 2.015736 AAAGACTATCTGTGCAGCGG 57.984 50.000 0.00 0.00 0.00 5.52
907 913 4.823989 CACTCTTTGAGGAAACATCCAAGT 59.176 41.667 0.00 0.00 33.35 3.16
925 931 1.198713 GTGCTCCCTCCATCTCAAGA 58.801 55.000 0.00 0.00 0.00 3.02
948 954 3.548818 GGCGACGTACGATTATACAAGGT 60.549 47.826 24.41 0.00 45.77 3.50
1122 1128 2.526873 ACGGTGGAGGACCTGCTT 60.527 61.111 14.77 0.00 43.55 3.91
1140 1146 1.626356 TTCCCCTGCTGATCCCTTCG 61.626 60.000 0.00 0.00 0.00 3.79
1413 1419 1.592669 GATCCGCATCCTGGTGACG 60.593 63.158 0.00 0.00 0.00 4.35
1997 2003 8.704234 GGACGAGATAATGTTCATAATCTTCAC 58.296 37.037 0.00 0.00 0.00 3.18
2057 2067 1.742831 GCTGTAAATTCCACATGGCGA 59.257 47.619 0.00 0.00 34.44 5.54
2097 2107 2.998493 CCAAGAGCTGGGACCTACT 58.002 57.895 0.00 0.00 42.17 2.57
2098 2108 1.280457 CCAAGAGCTGGGACCTACTT 58.720 55.000 0.00 0.00 42.17 2.24
2099 2109 2.467880 CCAAGAGCTGGGACCTACTTA 58.532 52.381 0.00 0.00 42.17 2.24
2254 2268 1.267121 TCTCCTTCCCCGTCTCTTTG 58.733 55.000 0.00 0.00 0.00 2.77
2255 2269 0.391793 CTCCTTCCCCGTCTCTTTGC 60.392 60.000 0.00 0.00 0.00 3.68
2256 2270 0.836400 TCCTTCCCCGTCTCTTTGCT 60.836 55.000 0.00 0.00 0.00 3.91
2271 2285 3.488310 TCTTTGCTCTACGTCGTTGTTTC 59.512 43.478 1.78 0.00 0.00 2.78
2275 2289 2.097056 GCTCTACGTCGTTGTTTCAACC 60.097 50.000 1.78 0.00 0.00 3.77
2288 2508 6.412653 CGTTGTTTCAACCAATTACACACTAC 59.587 38.462 6.98 0.00 0.00 2.73
2300 2520 1.681793 ACACACTACAGCTCACGACTT 59.318 47.619 0.00 0.00 0.00 3.01
2301 2521 2.054363 CACACTACAGCTCACGACTTG 58.946 52.381 0.00 0.00 0.00 3.16
2304 2524 0.888619 CTACAGCTCACGACTTGGGA 59.111 55.000 0.00 0.00 0.00 4.37
2306 2526 1.115930 ACAGCTCACGACTTGGGAGT 61.116 55.000 0.00 0.00 39.32 3.85
2308 2528 1.135257 CAGCTCACGACTTGGGAGTAG 60.135 57.143 0.00 0.00 35.88 2.57
2310 2530 1.751924 GCTCACGACTTGGGAGTAGAT 59.248 52.381 0.00 0.00 35.88 1.98
2312 2532 3.570550 GCTCACGACTTGGGAGTAGATAT 59.429 47.826 0.00 0.00 35.88 1.63
2313 2533 4.760715 GCTCACGACTTGGGAGTAGATATA 59.239 45.833 0.00 0.00 35.88 0.86
2380 2606 2.111043 CCTGTTGTGGACACCGCT 59.889 61.111 0.00 0.00 34.70 5.52
2419 2645 0.746659 CAATCGGCCCATTTCTTCCC 59.253 55.000 0.00 0.00 0.00 3.97
2437 2663 2.158623 TCCCTGCAAGTCTCAAACACAT 60.159 45.455 0.00 0.00 0.00 3.21
2489 2718 2.293318 TGGGGCTGAGCTGTAGGTG 61.293 63.158 3.72 0.00 0.00 4.00
2519 2748 0.605319 CACCGAGCAAAGCAAGGGTA 60.605 55.000 7.47 0.00 33.10 3.69
2548 2777 7.436430 TGTAGATCAGCGTTAGATTAGGTAG 57.564 40.000 0.00 0.00 0.00 3.18
2613 2845 2.617250 TGACGCAAAGTGCAATCATC 57.383 45.000 0.61 0.00 45.36 2.92
2632 2864 5.363101 TCATCCAATCATAGTCAAGTCTGC 58.637 41.667 0.00 0.00 0.00 4.26
2637 2869 5.525378 CCAATCATAGTCAAGTCTGCCTTAC 59.475 44.000 0.00 0.00 0.00 2.34
2639 2871 5.939764 TCATAGTCAAGTCTGCCTTACAT 57.060 39.130 0.00 0.00 0.00 2.29
2674 2909 2.851263 TCCGATATCATTTTCCCGGG 57.149 50.000 16.85 16.85 37.72 5.73
2694 2930 3.190874 GGAGAAAGTAGATTGCTGACCG 58.809 50.000 0.00 0.00 0.00 4.79
2700 2936 1.138266 GTAGATTGCTGACCGCCCTTA 59.862 52.381 0.00 0.00 38.05 2.69
2711 2947 4.510571 TGACCGCCCTTAGATTCTTAAAC 58.489 43.478 0.00 0.00 0.00 2.01
2712 2948 4.020039 TGACCGCCCTTAGATTCTTAAACA 60.020 41.667 0.00 0.00 0.00 2.83
2713 2949 4.913784 ACCGCCCTTAGATTCTTAAACAA 58.086 39.130 0.00 0.00 0.00 2.83
2714 2950 4.698780 ACCGCCCTTAGATTCTTAAACAAC 59.301 41.667 0.00 0.00 0.00 3.32
2715 2951 4.201783 CCGCCCTTAGATTCTTAAACAACG 60.202 45.833 0.00 0.00 0.00 4.10
2716 2952 4.659088 GCCCTTAGATTCTTAAACAACGC 58.341 43.478 0.00 0.00 0.00 4.84
2717 2953 4.155280 GCCCTTAGATTCTTAAACAACGCA 59.845 41.667 0.00 0.00 0.00 5.24
2718 2954 5.335348 GCCCTTAGATTCTTAAACAACGCAA 60.335 40.000 0.00 0.00 0.00 4.85
2722 2958 8.237267 CCTTAGATTCTTAAACAACGCAAGAAT 58.763 33.333 8.17 8.17 46.50 2.40
2750 2986 1.269051 CCGGAGAAAACAACAACCTGC 60.269 52.381 0.00 0.00 0.00 4.85
2753 2989 0.814457 AGAAAACAACAACCTGCGCA 59.186 45.000 10.98 10.98 0.00 6.09
2788 3024 4.025647 GGTGTACGAGCTCTGCATTAAATC 60.026 45.833 12.85 0.00 0.00 2.17
2791 3027 3.866651 ACGAGCTCTGCATTAAATCAGT 58.133 40.909 12.85 0.00 0.00 3.41
2799 3035 6.245115 TCTGCATTAAATCAGTCACAACAG 57.755 37.500 0.00 0.00 0.00 3.16
2845 3081 0.657840 CCGGATTTTGACTGCGATCC 59.342 55.000 0.00 0.00 35.73 3.36
2879 3115 1.227527 CTGTGGGTGTTCAGCGTCA 60.228 57.895 0.00 0.00 0.00 4.35
2880 3116 0.603707 CTGTGGGTGTTCAGCGTCAT 60.604 55.000 0.00 0.00 0.00 3.06
2881 3117 0.179032 TGTGGGTGTTCAGCGTCATT 60.179 50.000 0.00 0.00 0.00 2.57
2882 3118 0.238289 GTGGGTGTTCAGCGTCATTG 59.762 55.000 0.00 0.00 0.00 2.82
2883 3119 0.179032 TGGGTGTTCAGCGTCATTGT 60.179 50.000 0.00 0.00 0.00 2.71
2891 3127 0.798776 CAGCGTCATTGTCTTGTCCC 59.201 55.000 0.00 0.00 0.00 4.46
2930 3172 2.358737 GTCCAGACCCAAGCCACG 60.359 66.667 0.00 0.00 0.00 4.94
2931 3173 4.329545 TCCAGACCCAAGCCACGC 62.330 66.667 0.00 0.00 0.00 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 2.758423 ACATTAAACCGAAATGGGAGCC 59.242 45.455 0.00 0.00 44.64 4.70
29 30 4.700213 ACTGACATTAAACCGAAATGGGAG 59.300 41.667 0.00 0.00 44.64 4.30
32 33 6.978343 TCTACTGACATTAAACCGAAATGG 57.022 37.500 0.00 0.00 46.41 3.16
33 34 7.279981 TCCATCTACTGACATTAAACCGAAATG 59.720 37.037 0.00 0.00 39.68 2.32
34 35 7.280205 GTCCATCTACTGACATTAAACCGAAAT 59.720 37.037 0.00 0.00 0.00 2.17
37 38 5.186215 TGTCCATCTACTGACATTAAACCGA 59.814 40.000 0.00 0.00 36.62 4.69
38 39 5.416083 TGTCCATCTACTGACATTAAACCG 58.584 41.667 0.00 0.00 36.62 4.44
55 56 0.182775 GGGGCTATCCGTTTGTCCAT 59.817 55.000 0.00 0.00 36.01 3.41
66 67 0.954452 CCGCATTCAAAGGGGCTATC 59.046 55.000 0.00 0.00 32.05 2.08
67 68 0.258774 ACCGCATTCAAAGGGGCTAT 59.741 50.000 0.00 0.00 42.37 2.97
74 75 5.049405 GGGTGAATATCTACCGCATTCAAAG 60.049 44.000 0.00 0.00 39.63 2.77
84 85 5.479375 TGATAGAACGGGGTGAATATCTACC 59.521 44.000 0.75 0.75 36.21 3.18
85 86 6.585695 TGATAGAACGGGGTGAATATCTAC 57.414 41.667 0.00 0.00 0.00 2.59
93 94 3.677700 CGTGATTTGATAGAACGGGGTGA 60.678 47.826 0.00 0.00 0.00 4.02
102 103 2.540973 CCGAGCGACGTGATTTGATAGA 60.541 50.000 0.00 0.00 40.78 1.98
104 105 1.402613 TCCGAGCGACGTGATTTGATA 59.597 47.619 0.00 0.00 40.78 2.15
115 116 2.671396 ACATGTTTAATGTCCGAGCGAC 59.329 45.455 0.00 0.00 42.33 5.19
122 123 4.157840 GGTCTTCCCACATGTTTAATGTCC 59.842 45.833 0.00 0.00 0.00 4.02
123 124 4.142687 CGGTCTTCCCACATGTTTAATGTC 60.143 45.833 0.00 0.00 0.00 3.06
126 127 4.295141 TCGGTCTTCCCACATGTTTAAT 57.705 40.909 0.00 0.00 0.00 1.40
131 132 1.142060 TGTTTCGGTCTTCCCACATGT 59.858 47.619 0.00 0.00 0.00 3.21
135 136 2.178912 TCATGTTTCGGTCTTCCCAC 57.821 50.000 0.00 0.00 0.00 4.61
138 139 1.062587 CGCATCATGTTTCGGTCTTCC 59.937 52.381 0.00 0.00 0.00 3.46
140 141 1.086696 CCGCATCATGTTTCGGTCTT 58.913 50.000 6.68 0.00 37.33 3.01
147 148 1.729276 CATCGGCCGCATCATGTTT 59.271 52.632 23.51 0.00 0.00 2.83
187 189 5.007234 CGACCTTTCATTAATGTCGGCATTA 59.993 40.000 18.19 18.19 45.37 1.90
203 205 2.476997 GCTCAGAAAGACACGACCTTTC 59.523 50.000 15.64 15.64 45.91 2.62
207 209 0.318762 AGGCTCAGAAAGACACGACC 59.681 55.000 0.00 0.00 34.25 4.79
217 219 3.717707 GCGTATTCATGTAGGCTCAGAA 58.282 45.455 0.00 0.00 33.81 3.02
224 227 0.859232 GCACCGCGTATTCATGTAGG 59.141 55.000 4.92 0.00 0.00 3.18
252 255 1.446791 GATCAGGGCTGCTCCAGAG 59.553 63.158 0.00 0.00 36.21 3.35
253 256 2.429767 CGATCAGGGCTGCTCCAGA 61.430 63.158 0.00 0.05 36.21 3.86
278 281 4.215613 GGCCTTAATTTGTGAAGTCGAAGT 59.784 41.667 0.00 0.00 0.00 3.01
289 292 1.463674 CGCTCAGGGCCTTAATTTGT 58.536 50.000 1.32 0.00 37.74 2.83
314 317 3.678056 ACGATTACAGAAGTGGAAGCA 57.322 42.857 0.00 0.00 31.79 3.91
386 389 3.013921 GTGGAAGGCGTTGGATTTCATA 58.986 45.455 0.00 0.00 0.00 2.15
389 392 1.534729 AGTGGAAGGCGTTGGATTTC 58.465 50.000 0.00 0.00 0.00 2.17
428 431 1.113788 CCCAATGATCCCGCAATTGT 58.886 50.000 7.40 0.00 0.00 2.71
442 445 6.131264 TGATGTTTAATCAGCTGATCCCAAT 58.869 36.000 28.83 17.97 32.75 3.16
510 513 6.845302 TGAAAGCTATTTACATGTGCTCAAG 58.155 36.000 9.11 0.80 33.10 3.02
511 514 6.654582 TCTGAAAGCTATTTACATGTGCTCAA 59.345 34.615 9.11 0.00 33.10 3.02
512 515 6.172630 TCTGAAAGCTATTTACATGTGCTCA 58.827 36.000 9.11 3.06 33.10 4.26
513 516 6.668541 TCTGAAAGCTATTTACATGTGCTC 57.331 37.500 9.11 0.00 33.10 4.26
515 518 8.023128 TCTTTTCTGAAAGCTATTTACATGTGC 58.977 33.333 9.11 2.37 41.63 4.57
601 604 6.479884 AGCTGAGGATCACAAAATTAAGTCT 58.520 36.000 0.00 0.00 42.56 3.24
604 607 6.317140 TGCTAGCTGAGGATCACAAAATTAAG 59.683 38.462 17.23 0.00 42.56 1.85
681 685 1.227764 ATGGCCGCTGCACAGATAG 60.228 57.895 1.55 0.00 40.13 2.08
683 687 2.827190 CATGGCCGCTGCACAGAT 60.827 61.111 1.55 0.00 40.13 2.90
684 688 4.019312 TCATGGCCGCTGCACAGA 62.019 61.111 1.55 0.00 40.13 3.41
685 689 3.807538 GTCATGGCCGCTGCACAG 61.808 66.667 1.55 0.00 40.13 3.66
686 690 4.639906 TGTCATGGCCGCTGCACA 62.640 61.111 1.55 2.65 40.13 4.57
687 691 4.107051 GTGTCATGGCCGCTGCAC 62.107 66.667 1.55 7.48 40.13 4.57
690 694 3.490759 GACGTGTCATGGCCGCTG 61.491 66.667 7.90 0.00 0.00 5.18
691 695 4.760047 GGACGTGTCATGGCCGCT 62.760 66.667 0.00 0.00 0.00 5.52
693 697 2.815211 CTGGACGTGTCATGGCCG 60.815 66.667 12.50 3.60 0.00 6.13
694 698 3.127533 GCTGGACGTGTCATGGCC 61.128 66.667 10.35 10.35 0.00 5.36
695 699 3.490759 CGCTGGACGTGTCATGGC 61.491 66.667 0.00 0.00 36.87 4.40
907 913 1.493861 CTCTTGAGATGGAGGGAGCA 58.506 55.000 0.00 0.00 0.00 4.26
925 931 3.304257 CCTTGTATAATCGTACGTCGCCT 60.304 47.826 16.05 0.55 39.67 5.52
1122 1128 2.066393 CGAAGGGATCAGCAGGGGA 61.066 63.158 0.00 0.00 0.00 4.81
1450 1456 4.827087 CAGGAGCGATGCCAGCGT 62.827 66.667 3.63 0.00 40.04 5.07
1482 1488 4.393778 GGGAGGAGGTCGTGGGGA 62.394 72.222 0.00 0.00 0.00 4.81
1711 1717 4.424566 GTACGCCGCGGACTCCAA 62.425 66.667 33.48 3.86 37.76 3.53
2057 2067 0.249120 TCCGATCAGCAAACCACGAT 59.751 50.000 0.00 0.00 0.00 3.73
2098 2108 9.679661 ACACACATGAATACAAGAATGGTAATA 57.320 29.630 0.00 0.00 0.00 0.98
2099 2109 8.579850 ACACACATGAATACAAGAATGGTAAT 57.420 30.769 0.00 0.00 0.00 1.89
2254 2268 2.097056 GGTTGAAACAACGACGTAGAGC 60.097 50.000 0.00 0.00 0.00 4.09
2255 2269 3.117794 TGGTTGAAACAACGACGTAGAG 58.882 45.455 0.00 0.00 0.00 2.43
2256 2270 3.162202 TGGTTGAAACAACGACGTAGA 57.838 42.857 0.00 0.00 0.00 2.59
2271 2285 4.754618 TGAGCTGTAGTGTGTAATTGGTTG 59.245 41.667 0.00 0.00 0.00 3.77
2275 2289 4.090066 GTCGTGAGCTGTAGTGTGTAATTG 59.910 45.833 0.00 0.00 0.00 2.32
2288 2508 0.888619 TACTCCCAAGTCGTGAGCTG 59.111 55.000 0.00 0.00 36.92 4.24
2353 2573 4.954970 ACAACAGGCCCCGCAGTG 62.955 66.667 0.00 0.00 0.00 3.66
2358 2578 4.263572 TGTCCACAACAGGCCCCG 62.264 66.667 0.00 0.00 32.81 5.73
2359 2579 2.597510 GTGTCCACAACAGGCCCC 60.598 66.667 0.00 0.00 38.97 5.80
2360 2580 2.597510 GGTGTCCACAACAGGCCC 60.598 66.667 0.00 0.00 38.97 5.80
2361 2581 2.978010 CGGTGTCCACAACAGGCC 60.978 66.667 0.00 0.00 38.97 5.19
2362 2582 3.660111 GCGGTGTCCACAACAGGC 61.660 66.667 0.00 0.00 38.97 4.85
2402 2628 0.106519 CAGGGAAGAAATGGGCCGAT 60.107 55.000 0.00 0.00 0.00 4.18
2404 2630 2.418083 GCAGGGAAGAAATGGGCCG 61.418 63.158 0.00 0.00 0.00 6.13
2411 2637 3.576078 TTGAGACTTGCAGGGAAGAAA 57.424 42.857 7.57 0.00 0.00 2.52
2414 2640 2.291741 GTGTTTGAGACTTGCAGGGAAG 59.708 50.000 0.00 0.00 0.00 3.46
2419 2645 4.668431 CGATCATGTGTTTGAGACTTGCAG 60.668 45.833 0.00 0.00 0.00 4.41
2489 2718 2.038837 GCTCGGTGGCAACTAACCC 61.039 63.158 0.00 0.00 32.44 4.11
2548 2777 4.629527 GTGATTGCACGTTTGGATTTTC 57.370 40.909 0.00 0.00 34.94 2.29
2613 2845 4.148128 AGGCAGACTTGACTATGATTGG 57.852 45.455 0.00 0.00 42.31 3.16
2632 2864 7.411912 CGGAATTGCTACGATATTCATGTAAGG 60.412 40.741 0.00 0.00 31.47 2.69
2637 2869 6.653273 ATCGGAATTGCTACGATATTCATG 57.347 37.500 0.00 0.00 44.55 3.07
2694 2930 4.155280 TGCGTTGTTTAAGAATCTAAGGGC 59.845 41.667 0.00 0.00 0.00 5.19
2700 2936 7.041098 ACTCATTCTTGCGTTGTTTAAGAATCT 60.041 33.333 8.10 0.00 44.78 2.40
2711 2947 1.197721 GGGACACTCATTCTTGCGTTG 59.802 52.381 0.00 0.00 0.00 4.10
2712 2948 1.523758 GGGACACTCATTCTTGCGTT 58.476 50.000 0.00 0.00 0.00 4.84
2713 2949 0.670546 CGGGACACTCATTCTTGCGT 60.671 55.000 0.00 0.00 0.00 5.24
2714 2950 1.361668 CCGGGACACTCATTCTTGCG 61.362 60.000 0.00 0.00 0.00 4.85
2715 2951 0.036388 TCCGGGACACTCATTCTTGC 60.036 55.000 0.00 0.00 0.00 4.01
2716 2952 1.550524 TCTCCGGGACACTCATTCTTG 59.449 52.381 0.00 0.00 0.00 3.02
2717 2953 1.938585 TCTCCGGGACACTCATTCTT 58.061 50.000 0.00 0.00 0.00 2.52
2718 2954 1.938585 TTCTCCGGGACACTCATTCT 58.061 50.000 0.00 0.00 0.00 2.40
2722 2958 1.124780 TGTTTTCTCCGGGACACTCA 58.875 50.000 0.00 0.00 0.00 3.41
2753 2989 3.127203 GCTCGTACACCATCGCTATCTAT 59.873 47.826 0.00 0.00 0.00 1.98
2788 3024 7.471721 TGTTTAAGAAATGTCTGTTGTGACTG 58.528 34.615 0.00 0.00 37.79 3.51
2791 3027 9.868277 AATTTGTTTAAGAAATGTCTGTTGTGA 57.132 25.926 0.83 0.00 33.05 3.58
2799 3035 7.598493 TGGCTGCTAATTTGTTTAAGAAATGTC 59.402 33.333 0.83 0.00 0.00 3.06
2845 3081 1.938577 CACAGCCGAGATCAAAGATGG 59.061 52.381 0.00 0.00 0.00 3.51
2879 3115 2.358039 TCCGTCGGGACAAGACAAT 58.642 52.632 12.29 0.00 37.43 2.71
2880 3116 3.859221 TCCGTCGGGACAAGACAA 58.141 55.556 12.29 0.00 37.43 3.18
2891 3127 2.540101 GCAGAATCATTTAGGTCCGTCG 59.460 50.000 0.00 0.00 0.00 5.12


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

AutoCloner maintained by Alex Coulton.