Multiple sequence alignment - TraesCS3B01G361600

Loading Multiple Alignment...

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 TraesCS3B01G361600 chr3B 100.000 3068 0 0 1 3068 572937926 572934859 0.000000e+00 5666
1 TraesCS3B01G361600 chr3D 95.035 2578 72 26 524 3063 437779920 437777361 0.000000e+00 4000
2 TraesCS3B01G361600 chr3D 88.015 267 29 2 292 555 437780186 437779920 2.300000e-81 313
3 TraesCS3B01G361600 chr3D 91.667 72 6 0 470 541 437780254 437780183 1.950000e-17 100
4 TraesCS3B01G361600 chr3A 91.844 2489 92 50 9 2428 575950014 575947568 0.000000e+00 3369
5 TraesCS3B01G361600 chr3A 90.117 597 34 11 2477 3063 575947566 575946985 0.000000e+00 752
6 TraesCS3B01G361600 chr1D 89.368 1091 111 4 997 2086 406973032 406974118 0.000000e+00 1367
7 TraesCS3B01G361600 chr1A 89.368 1091 111 4 997 2086 502677733 502678819 0.000000e+00 1367
8 TraesCS3B01G361600 chr1B 89.583 1056 108 2 1032 2086 547281831 547282885 0.000000e+00 1339
9 TraesCS3B01G361600 chr5A 84.115 938 126 19 1064 1985 308376760 308375830 0.000000e+00 885
10 TraesCS3B01G361600 chr5D 83.721 946 133 16 1055 1985 243219962 243220901 0.000000e+00 874
11 TraesCS3B01G361600 chr5B 83.868 936 130 17 1064 1984 255200455 255199526 0.000000e+00 872


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 TraesCS3B01G361600 chr3B 572934859 572937926 3067 True 5666.0 5666 100.000000 1 3068 1 chr3B.!!$R1 3067
1 TraesCS3B01G361600 chr3D 437777361 437780254 2893 True 1471.0 4000 91.572333 292 3063 3 chr3D.!!$R1 2771
2 TraesCS3B01G361600 chr3A 575946985 575950014 3029 True 2060.5 3369 90.980500 9 3063 2 chr3A.!!$R1 3054
3 TraesCS3B01G361600 chr1D 406973032 406974118 1086 False 1367.0 1367 89.368000 997 2086 1 chr1D.!!$F1 1089
4 TraesCS3B01G361600 chr1A 502677733 502678819 1086 False 1367.0 1367 89.368000 997 2086 1 chr1A.!!$F1 1089
5 TraesCS3B01G361600 chr1B 547281831 547282885 1054 False 1339.0 1339 89.583000 1032 2086 1 chr1B.!!$F1 1054
6 TraesCS3B01G361600 chr5A 308375830 308376760 930 True 885.0 885 84.115000 1064 1985 1 chr5A.!!$R1 921
7 TraesCS3B01G361600 chr5D 243219962 243220901 939 False 874.0 874 83.721000 1055 1985 1 chr5D.!!$F1 930
8 TraesCS3B01G361600 chr5B 255199526 255200455 929 True 872.0 872 83.868000 1064 1984 1 chr5B.!!$R1 920

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
126 135 0.179936 CCTCATCCTCAAGCCCACTC 59.82 60.0 0.0 0.0 0.00 3.51 F
510 522 0.389948 AAGGCTCCGTAACTCAAGCG 60.39 55.0 0.0 0.0 35.58 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1719 1814 0.671796 TGCCGAAGACGAAGAAGTCA 59.328 50.0 0.00 0.0 43.24 3.41 R
2457 2575 0.811616 AACATCAAGATCGGCTCCGC 60.812 55.0 2.96 0.0 39.59 5.54 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
36 37 2.034066 CACAACGAGCCCCCACAT 59.966 61.111 0.00 0.00 0.00 3.21
39 40 1.077501 CAACGAGCCCCCACATCAT 60.078 57.895 0.00 0.00 0.00 2.45
62 63 1.610673 ACACGAGCATGTCCTCCCT 60.611 57.895 0.00 0.00 0.00 4.20
63 64 0.324368 ACACGAGCATGTCCTCCCTA 60.324 55.000 0.00 0.00 0.00 3.53
85 86 1.746615 CACAACTCATGGCCTCGGG 60.747 63.158 3.32 0.00 0.00 5.14
123 132 2.683465 GGCCTCATCCTCAAGCCCA 61.683 63.158 0.00 0.00 37.66 5.36
124 133 1.452833 GCCTCATCCTCAAGCCCAC 60.453 63.158 0.00 0.00 0.00 4.61
125 134 1.919600 GCCTCATCCTCAAGCCCACT 61.920 60.000 0.00 0.00 0.00 4.00
126 135 0.179936 CCTCATCCTCAAGCCCACTC 59.820 60.000 0.00 0.00 0.00 3.51
127 136 0.179936 CTCATCCTCAAGCCCACTCC 59.820 60.000 0.00 0.00 0.00 3.85
128 137 0.547471 TCATCCTCAAGCCCACTCCA 60.547 55.000 0.00 0.00 0.00 3.86
129 138 0.393537 CATCCTCAAGCCCACTCCAC 60.394 60.000 0.00 0.00 0.00 4.02
130 139 0.548682 ATCCTCAAGCCCACTCCACT 60.549 55.000 0.00 0.00 0.00 4.00
131 140 1.002868 CCTCAAGCCCACTCCACTG 60.003 63.158 0.00 0.00 0.00 3.66
132 141 1.673665 CTCAAGCCCACTCCACTGC 60.674 63.158 0.00 0.00 0.00 4.40
133 142 2.121992 CTCAAGCCCACTCCACTGCT 62.122 60.000 0.00 0.00 35.08 4.24
134 143 1.970114 CAAGCCCACTCCACTGCTG 60.970 63.158 0.00 0.00 33.59 4.41
135 144 2.455565 AAGCCCACTCCACTGCTGT 61.456 57.895 0.00 0.00 33.59 4.40
136 145 2.359230 GCCCACTCCACTGCTGTC 60.359 66.667 0.00 0.00 0.00 3.51
137 146 3.150949 CCCACTCCACTGCTGTCA 58.849 61.111 0.00 0.00 0.00 3.58
138 147 1.302033 CCCACTCCACTGCTGTCAC 60.302 63.158 0.00 0.00 0.00 3.67
139 148 1.665916 CCACTCCACTGCTGTCACG 60.666 63.158 0.00 0.00 0.00 4.35
140 149 2.029666 ACTCCACTGCTGTCACGC 59.970 61.111 0.00 0.00 0.00 5.34
141 150 2.740055 CTCCACTGCTGTCACGCC 60.740 66.667 0.00 0.00 0.00 5.68
142 151 4.314440 TCCACTGCTGTCACGCCC 62.314 66.667 0.00 0.00 0.00 6.13
160 169 2.729479 CGCTCTCCTCTGTGCCCAT 61.729 63.158 0.00 0.00 0.00 4.00
162 171 1.153208 CTCTCCTCTGTGCCCATGC 60.153 63.158 0.00 0.00 38.26 4.06
182 191 1.597854 TTGCACCGAAGCTCCACAG 60.598 57.895 0.00 0.00 34.99 3.66
234 244 0.471617 CCCTGATCTGGCCGAAATCT 59.528 55.000 13.02 0.00 0.00 2.40
237 247 0.530650 TGATCTGGCCGAAATCTCGC 60.531 55.000 11.69 0.00 44.04 5.03
240 250 2.817423 CTGGCCGAAATCTCGCTGC 61.817 63.158 0.00 0.00 44.04 5.25
244 254 3.929948 CGAAATCTCGCTGCCGCC 61.930 66.667 0.00 0.00 38.45 6.13
253 263 2.359230 GCTGCCGCCTCTCTTTGT 60.359 61.111 0.00 0.00 0.00 2.83
254 264 1.079127 GCTGCCGCCTCTCTTTGTA 60.079 57.895 0.00 0.00 0.00 2.41
297 307 1.830477 GGCAGAGGAGATGAGTGAGTT 59.170 52.381 0.00 0.00 0.00 3.01
306 316 4.233789 GAGATGAGTGAGTTGACTGTGAC 58.766 47.826 0.00 0.00 0.00 3.67
308 318 2.021457 TGAGTGAGTTGACTGTGACGA 58.979 47.619 0.00 0.00 0.00 4.20
337 347 4.856607 GAGCTCGTTCGCCCCTCG 62.857 72.222 0.00 0.00 40.15 4.63
439 451 0.931202 CGCCGGGAAACACGAAAAAC 60.931 55.000 2.18 0.00 0.00 2.43
448 460 0.877213 ACACGAAAAACCCGAGGTCG 60.877 55.000 0.00 0.00 33.12 4.79
468 480 4.004982 TCGGCTAGTTAACATTTCCCAAC 58.995 43.478 8.61 0.00 0.00 3.77
488 500 6.264744 CCCAACTAGAATCTGTAGAATCCGTA 59.735 42.308 0.00 0.00 0.00 4.02
491 503 9.582431 CAACTAGAATCTGTAGAATCCGTAAAA 57.418 33.333 0.00 0.00 0.00 1.52
509 521 1.809684 AAAGGCTCCGTAACTCAAGC 58.190 50.000 0.00 0.00 0.00 4.01
510 522 0.389948 AAGGCTCCGTAACTCAAGCG 60.390 55.000 0.00 0.00 35.58 4.68
626 669 2.798148 GAACCCATCCCGTTGCTCGT 62.798 60.000 1.89 0.00 37.94 4.18
627 670 1.546589 AACCCATCCCGTTGCTCGTA 61.547 55.000 1.89 0.00 37.94 3.43
628 671 1.520787 CCCATCCCGTTGCTCGTAC 60.521 63.158 1.89 0.00 37.94 3.67
632 678 1.030457 ATCCCGTTGCTCGTACTAGG 58.970 55.000 0.00 0.00 37.94 3.02
639 685 3.060020 GCTCGTACTAGGCCGCACA 62.060 63.158 0.00 0.00 0.00 4.57
818 866 4.767255 CAGGTGACAGGAGCCGGC 62.767 72.222 21.89 21.89 0.00 6.13
921 986 2.444706 CCTCCCAGATCCGCCTCA 60.445 66.667 0.00 0.00 0.00 3.86
1407 1493 1.162181 CCGTCGCCGTCTACTCCATA 61.162 60.000 0.00 0.00 0.00 2.74
1443 1529 1.380650 GGAGACCTTCCGCTCCTCT 60.381 63.158 0.00 0.00 45.72 3.69
1755 1850 3.241530 ACCAACTCCCTCTGCGCA 61.242 61.111 10.98 10.98 0.00 6.09
2186 2297 4.880886 TCCTTACATGTTTGATGATGCG 57.119 40.909 2.30 0.00 0.00 4.73
2414 2532 0.528466 GAGATGTGGCGATCGAGCAA 60.528 55.000 21.57 0.89 39.27 3.91
2424 2542 2.794981 GCGATCGAGCAACAGCTAGTAA 60.795 50.000 21.57 0.00 39.10 2.24
2428 2546 5.685954 CGATCGAGCAACAGCTAGTAATAAA 59.314 40.000 10.26 0.00 39.10 1.40
2430 2548 6.887376 TCGAGCAACAGCTAGTAATAAAAG 57.113 37.500 0.00 0.00 39.10 2.27
2432 2550 7.265673 TCGAGCAACAGCTAGTAATAAAAGAT 58.734 34.615 0.00 0.00 39.10 2.40
2433 2551 7.764443 TCGAGCAACAGCTAGTAATAAAAGATT 59.236 33.333 0.00 0.00 39.10 2.40
2434 2552 8.058915 CGAGCAACAGCTAGTAATAAAAGATTC 58.941 37.037 0.00 0.00 39.10 2.52
2435 2553 8.792830 AGCAACAGCTAGTAATAAAAGATTCA 57.207 30.769 0.00 0.00 36.70 2.57
2436 2554 8.887717 AGCAACAGCTAGTAATAAAAGATTCAG 58.112 33.333 0.00 0.00 36.70 3.02
2457 2575 6.486248 TCAGTTCAATTTTCGAAACTGTCTG 58.514 36.000 19.53 21.27 0.00 3.51
2458 2576 5.172053 CAGTTCAATTTTCGAAACTGTCTGC 59.828 40.000 10.79 0.00 0.00 4.26
2459 2577 3.872354 TCAATTTTCGAAACTGTCTGCG 58.128 40.909 10.79 0.00 0.00 5.18
2462 2580 1.497991 TTTCGAAACTGTCTGCGGAG 58.502 50.000 6.47 0.00 0.00 4.63
2558 2676 5.385509 TCACTGCTTGGGTAAATTTAAGC 57.614 39.130 13.98 13.98 44.26 3.09
2565 2683 5.863935 GCTTGGGTAAATTTAAGCAAGTCTG 59.136 40.000 15.38 0.00 43.65 3.51
2627 2747 0.667184 GCGCCTTGTTTCCATTGGTG 60.667 55.000 0.00 0.00 0.00 4.17
2652 2772 2.893637 CTTGGATCCAGACGAATCGTT 58.106 47.619 15.53 0.00 41.37 3.85
2661 2781 7.849515 GGATCCAGACGAATCGTTTAATTAAAC 59.150 37.037 24.95 24.95 41.37 2.01
2744 2873 3.135348 CAGATCTACCTGCTGGAATGGAA 59.865 47.826 17.64 0.00 37.04 3.53
2824 2953 2.703007 AGAGCCCGAGATCTGCTAATTT 59.297 45.455 0.00 0.00 37.36 1.82
2838 2967 7.584122 TCTGCTAATTTAGTGTAGGACTAGG 57.416 40.000 5.38 0.00 38.45 3.02
2840 2969 6.437755 TGCTAATTTAGTGTAGGACTAGGGA 58.562 40.000 5.38 0.00 38.45 4.20
2842 2971 7.400915 TGCTAATTTAGTGTAGGACTAGGGAAA 59.599 37.037 5.38 0.00 38.45 3.13
2843 2972 7.927092 GCTAATTTAGTGTAGGACTAGGGAAAG 59.073 40.741 5.38 0.00 38.45 2.62
2844 2973 7.809880 AATTTAGTGTAGGACTAGGGAAAGT 57.190 36.000 0.00 0.00 38.45 2.66
2853 2982 4.664150 GACTAGGGAAAGTCCTGAGATG 57.336 50.000 0.00 0.00 40.06 2.90
2854 2983 2.769095 ACTAGGGAAAGTCCTGAGATGC 59.231 50.000 0.00 0.00 37.75 3.91
2855 2984 1.661463 AGGGAAAGTCCTGAGATGCA 58.339 50.000 0.00 0.00 36.57 3.96
2856 2985 1.988107 AGGGAAAGTCCTGAGATGCAA 59.012 47.619 0.00 0.00 36.57 4.08
2994 3123 1.277842 TCTTGCATTGCCTTCGACCTA 59.722 47.619 6.12 0.00 0.00 3.08
3011 3140 1.540363 CCTACCGACAGTTGCACACTT 60.540 52.381 0.00 0.00 30.92 3.16
3063 3192 2.915463 CGTCATTATTCGGGCGTCTATC 59.085 50.000 0.00 0.00 0.00 2.08
3064 3193 3.251571 GTCATTATTCGGGCGTCTATCC 58.748 50.000 0.00 0.00 0.00 2.59
3065 3194 2.894765 TCATTATTCGGGCGTCTATCCA 59.105 45.455 0.00 0.00 0.00 3.41
3066 3195 3.056821 TCATTATTCGGGCGTCTATCCAG 60.057 47.826 0.00 0.00 0.00 3.86
3067 3196 1.254026 TATTCGGGCGTCTATCCAGG 58.746 55.000 0.00 0.00 0.00 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.945434 GATGGCGGCACATGCGAG 61.945 66.667 16.34 0.00 43.26 5.03
36 37 2.270923 GACATGCTCGTGTGCTTATGA 58.729 47.619 0.00 0.00 31.16 2.15
39 40 0.608130 AGGACATGCTCGTGTGCTTA 59.392 50.000 9.94 0.00 46.79 3.09
62 63 1.003118 GAGGCCATGAGTTGTGGTGTA 59.997 52.381 5.01 0.00 39.01 2.90
63 64 0.250901 GAGGCCATGAGTTGTGGTGT 60.251 55.000 5.01 0.00 39.01 4.16
85 86 1.522569 CCTCCATCCTTCACCGACC 59.477 63.158 0.00 0.00 0.00 4.79
113 122 1.002868 CAGTGGAGTGGGCTTGAGG 60.003 63.158 0.00 0.00 0.00 3.86
115 124 2.149383 AGCAGTGGAGTGGGCTTGA 61.149 57.895 0.00 0.00 31.34 3.02
123 132 2.029666 GCGTGACAGCAGTGGAGT 59.970 61.111 0.00 0.00 37.05 3.85
124 133 2.740055 GGCGTGACAGCAGTGGAG 60.740 66.667 0.00 0.00 39.27 3.86
125 134 4.314440 GGGCGTGACAGCAGTGGA 62.314 66.667 0.00 0.00 39.27 4.02
132 141 4.803426 GGAGAGCGGGCGTGACAG 62.803 72.222 0.00 0.00 0.00 3.51
134 143 4.500116 GAGGAGAGCGGGCGTGAC 62.500 72.222 0.00 0.00 0.00 3.67
135 144 4.742649 AGAGGAGAGCGGGCGTGA 62.743 66.667 0.00 0.00 0.00 4.35
136 145 4.504916 CAGAGGAGAGCGGGCGTG 62.505 72.222 0.00 0.00 0.00 5.34
138 147 4.504916 CACAGAGGAGAGCGGGCG 62.505 72.222 0.00 0.00 0.00 6.13
139 148 4.828925 GCACAGAGGAGAGCGGGC 62.829 72.222 0.00 0.00 0.00 6.13
140 149 4.154347 GGCACAGAGGAGAGCGGG 62.154 72.222 0.00 0.00 0.00 6.13
141 150 4.154347 GGGCACAGAGGAGAGCGG 62.154 72.222 0.00 0.00 0.00 5.52
142 151 2.729479 ATGGGCACAGAGGAGAGCG 61.729 63.158 0.00 0.00 0.00 5.03
160 169 3.345808 GAGCTTCGGTGCAACGCA 61.346 61.111 21.87 8.14 38.12 5.24
162 171 2.664851 TGGAGCTTCGGTGCAACG 60.665 61.111 20.47 20.47 38.12 4.10
225 235 3.929948 CGGCAGCGAGATTTCGGC 61.930 66.667 7.84 3.20 46.76 5.54
229 239 2.512515 GAGGCGGCAGCGAGATTT 60.513 61.111 13.08 0.00 46.35 2.17
234 244 3.695606 AAAGAGAGGCGGCAGCGA 61.696 61.111 13.08 0.00 46.35 4.93
237 247 1.293924 CATACAAAGAGAGGCGGCAG 58.706 55.000 13.08 0.00 0.00 4.85
240 250 2.002586 CACACATACAAAGAGAGGCGG 58.997 52.381 0.00 0.00 0.00 6.13
244 254 5.089970 TCCCATCACACATACAAAGAGAG 57.910 43.478 0.00 0.00 0.00 3.20
253 263 6.377996 CCTCATTTCTTTTCCCATCACACATA 59.622 38.462 0.00 0.00 0.00 2.29
254 264 5.186409 CCTCATTTCTTTTCCCATCACACAT 59.814 40.000 0.00 0.00 0.00 3.21
297 307 4.066646 TCTCCATTTTTCGTCACAGTCA 57.933 40.909 0.00 0.00 0.00 3.41
306 316 2.932614 ACGAGCTCATCTCCATTTTTCG 59.067 45.455 15.40 0.00 38.62 3.46
308 318 3.372206 CGAACGAGCTCATCTCCATTTTT 59.628 43.478 15.40 0.00 38.62 1.94
353 363 4.471904 TCTACTGTTGCCACCTCTTATG 57.528 45.455 0.00 0.00 0.00 1.90
355 365 3.369471 GCATCTACTGTTGCCACCTCTTA 60.369 47.826 0.00 0.00 33.94 2.10
378 390 2.511600 GGTTGCACGGATCTCGGG 60.512 66.667 8.20 5.23 46.82 5.14
423 435 3.555401 GGGTTTTTCGTGTTTCCCG 57.445 52.632 0.00 0.00 0.00 5.14
448 460 6.412214 TCTAGTTGGGAAATGTTAACTAGCC 58.588 40.000 14.80 3.33 46.06 3.93
468 480 9.250624 CCTTTTTACGGATTCTACAGATTCTAG 57.749 37.037 0.00 0.00 0.00 2.43
488 500 2.552743 GCTTGAGTTACGGAGCCTTTTT 59.447 45.455 0.00 0.00 0.00 1.94
491 503 0.389948 CGCTTGAGTTACGGAGCCTT 60.390 55.000 0.00 0.00 0.00 4.35
509 521 4.863131 AGTGCCTAATTTTCTCGACTAACG 59.137 41.667 0.00 0.00 44.09 3.18
510 522 5.063564 CCAGTGCCTAATTTTCTCGACTAAC 59.936 44.000 0.00 0.00 0.00 2.34
626 669 0.386476 CCGTTATGTGCGGCCTAGTA 59.614 55.000 0.00 0.00 42.82 1.82
627 670 1.143183 CCGTTATGTGCGGCCTAGT 59.857 57.895 0.00 0.00 42.82 2.57
628 671 4.027755 CCGTTATGTGCGGCCTAG 57.972 61.111 0.00 0.00 42.82 3.02
639 685 1.458064 CGTTTCGTGTTGCTCCGTTAT 59.542 47.619 0.00 0.00 0.00 1.89
818 866 2.443016 CGGAGAGGAGGGAGTGGG 60.443 72.222 0.00 0.00 0.00 4.61
1407 1493 0.695347 CCTTCTTGAAGAGCACCCCT 59.305 55.000 11.53 0.00 0.00 4.79
1719 1814 0.671796 TGCCGAAGACGAAGAAGTCA 59.328 50.000 0.00 0.00 43.24 3.41
1755 1850 3.127533 GCCAGGTTGAGCGCGAAT 61.128 61.111 12.10 0.00 0.00 3.34
1827 1922 1.372683 GAGCAGCCAGTCCTTGACA 59.627 57.895 0.00 0.00 34.60 3.58
2186 2297 8.992835 ATTAAGGCAAGAAATGAACAGATTTC 57.007 30.769 0.00 0.00 41.02 2.17
2414 2532 9.944376 TGAACTGAATCTTTTATTACTAGCTGT 57.056 29.630 0.00 0.00 0.00 4.40
2428 2546 8.190784 ACAGTTTCGAAAATTGAACTGAATCTT 58.809 29.630 24.76 6.17 33.09 2.40
2430 2548 7.857885 AGACAGTTTCGAAAATTGAACTGAATC 59.142 33.333 24.76 15.74 33.09 2.52
2432 2550 6.966632 CAGACAGTTTCGAAAATTGAACTGAA 59.033 34.615 24.76 0.00 33.09 3.02
2433 2551 6.486248 CAGACAGTTTCGAAAATTGAACTGA 58.514 36.000 24.76 0.00 33.09 3.41
2434 2552 5.172053 GCAGACAGTTTCGAAAATTGAACTG 59.828 40.000 26.28 26.28 34.05 3.16
2435 2553 5.273944 GCAGACAGTTTCGAAAATTGAACT 58.726 37.500 23.03 18.44 0.00 3.01
2436 2554 4.144731 CGCAGACAGTTTCGAAAATTGAAC 59.855 41.667 23.03 17.14 0.00 3.18
2457 2575 0.811616 AACATCAAGATCGGCTCCGC 60.812 55.000 2.96 0.00 39.59 5.54
2458 2576 1.656652 AAACATCAAGATCGGCTCCG 58.343 50.000 1.14 1.14 41.35 4.63
2459 2577 5.757850 AAATAAACATCAAGATCGGCTCC 57.242 39.130 0.00 0.00 0.00 4.70
2462 2580 6.483640 AGGAGTAAATAAACATCAAGATCGGC 59.516 38.462 0.00 0.00 0.00 5.54
2463 2581 7.171678 GGAGGAGTAAATAAACATCAAGATCGG 59.828 40.741 0.00 0.00 0.00 4.18
2464 2582 7.928706 AGGAGGAGTAAATAAACATCAAGATCG 59.071 37.037 0.00 0.00 0.00 3.69
2465 2583 9.267084 GAGGAGGAGTAAATAAACATCAAGATC 57.733 37.037 0.00 0.00 0.00 2.75
2558 2676 1.208614 GAAAGCAGCCGCAGACTTG 59.791 57.895 0.00 0.00 42.27 3.16
2559 2677 2.320587 CGAAAGCAGCCGCAGACTT 61.321 57.895 0.00 0.00 42.27 3.01
2627 2747 1.144936 CGTCTGGATCCAAGCTCCC 59.855 63.158 17.00 0.00 31.32 4.30
2652 2772 7.546667 CGTTGCAGGGACTAGTAGTTTAATTAA 59.453 37.037 3.85 0.00 36.02 1.40
2661 2781 0.530744 TGCGTTGCAGGGACTAGTAG 59.469 55.000 0.00 0.00 36.02 2.57
2744 2873 2.908817 CCGTAACAGCGGTGTTTCT 58.091 52.632 34.77 16.40 45.00 2.52
2764 2893 3.876914 CACTGGAAAAACTGTCACTAGCA 59.123 43.478 0.00 0.00 0.00 3.49
2838 2967 2.746362 CACTTGCATCTCAGGACTTTCC 59.254 50.000 0.00 0.00 36.58 3.13
2840 2969 2.157738 GCACTTGCATCTCAGGACTTT 58.842 47.619 0.00 0.00 41.59 2.66
2842 2971 3.547567 GCACTTGCATCTCAGGACT 57.452 52.632 0.00 0.00 41.59 3.85
2994 3123 2.393557 CAAGTGTGCAACTGTCGGT 58.606 52.632 0.00 0.00 39.81 4.69
3011 3140 0.981183 AGGGTTGATTCCGTAGTGCA 59.019 50.000 0.00 0.00 0.00 4.57
3038 3167 0.575390 CGCCCGAATAATGACGTGTC 59.425 55.000 0.00 0.00 0.00 3.67
3039 3168 0.108520 ACGCCCGAATAATGACGTGT 60.109 50.000 0.00 0.00 31.71 4.49


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

AutoCloner maintained by Alex Coulton.