Multiple sequence alignment - TraesCS6A01G306500

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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 TraesCS6A01G306500 chr6A 100.000 2415 0 0 801 3215 540146045 540143631 0.000000e+00 4460.0
1 TraesCS6A01G306500 chr6A 100.000 483 0 0 1 483 540146845 540146363 0.000000e+00 893.0
2 TraesCS6A01G306500 chr6D 95.017 2388 81 15 848 3215 393936546 393934177 0.000000e+00 3716.0
3 TraesCS6A01G306500 chr6D 86.270 488 18 28 1 483 393937329 393936886 4.820000e-133 484.0
4 TraesCS6A01G306500 chr6B 93.388 2208 85 21 827 3032 589129603 589127455 0.000000e+00 3212.0
5 TraesCS6A01G306500 chr6B 92.578 256 6 8 3 255 589130730 589130485 3.940000e-94 355.0
6 TraesCS6A01G306500 chr6B 93.301 209 4 1 275 483 589130497 589130299 1.870000e-77 300.0
7 TraesCS6A01G306500 chr6B 90.909 44 3 1 3033 3075 217157830 217157787 1.250000e-04 58.4
8 TraesCS6A01G306500 chr7D 78.133 1157 137 72 972 2085 140232496 140233579 2.110000e-176 628.0
9 TraesCS6A01G306500 chr7D 100.000 32 0 0 3103 3134 562029388 562029419 3.460000e-05 60.2
10 TraesCS6A01G306500 chr7D 86.538 52 4 2 3027 3075 269039019 269038968 2.000000e-03 54.7
11 TraesCS6A01G306500 chr7A 77.498 1151 150 63 973 2085 140536530 140537609 9.930000e-165 590.0
12 TraesCS6A01G306500 chr7B 77.178 1148 143 71 972 2085 105323152 105324214 2.800000e-155 558.0
13 TraesCS6A01G306500 chr7B 91.111 45 3 1 3032 3075 641326219 641326263 3.460000e-05 60.2
14 TraesCS6A01G306500 chr7B 94.595 37 1 1 3103 3138 380502482 380502518 4.480000e-04 56.5
15 TraesCS6A01G306500 chr5D 89.474 209 22 0 1197 1405 205995773 205995981 6.840000e-67 265.0
16 TraesCS6A01G306500 chr5A 89.474 209 22 0 1197 1405 264421493 264421701 6.840000e-67 265.0
17 TraesCS6A01G306500 chr5B 88.995 209 23 0 1197 1405 206102407 206102199 3.180000e-65 259.0
18 TraesCS6A01G306500 chr4D 84.937 239 31 4 1177 1414 65577854 65577620 1.490000e-58 237.0
19 TraesCS6A01G306500 chr4D 96.875 32 1 0 3103 3134 499105485 499105454 2.000000e-03 54.7
20 TraesCS6A01G306500 chr2D 93.478 46 2 1 3026 3070 628933054 628933099 2.070000e-07 67.6
21 TraesCS6A01G306500 chr3A 93.182 44 2 1 3032 3075 23192118 23192160 2.680000e-06 63.9
22 TraesCS6A01G306500 chr3A 94.595 37 1 1 3103 3138 734523182 734523146 4.480000e-04 56.5
23 TraesCS6A01G306500 chr1B 81.707 82 7 5 3002 3075 662552779 662552698 9.630000e-06 62.1
24 TraesCS6A01G306500 chr1B 88.000 50 5 1 3027 3075 29408987 29408938 1.250000e-04 58.4
25 TraesCS6A01G306500 chr1B 96.875 32 1 0 3103 3134 120399849 120399818 2.000000e-03 54.7
26 TraesCS6A01G306500 chr3D 92.500 40 3 0 3036 3075 507041043 507041082 1.250000e-04 58.4
27 TraesCS6A01G306500 chr3D 92.500 40 3 0 3036 3075 550996804 550996843 1.250000e-04 58.4
28 TraesCS6A01G306500 chr1A 94.595 37 1 1 3103 3138 22251324 22251288 4.480000e-04 56.5
29 TraesCS6A01G306500 chr2B 94.286 35 2 0 3103 3137 756567547 756567513 2.000000e-03 54.7
30 TraesCS6A01G306500 chr2A 96.875 32 1 0 3103 3134 749913487 749913456 2.000000e-03 54.7
31 TraesCS6A01G306500 chr1D 100.000 29 0 0 3103 3131 486886604 486886632 2.000000e-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 TraesCS6A01G306500 chr6A 540143631 540146845 3214 True 2676.5 4460 100.0000 1 3215 2 chr6A.!!$R1 3214
1 TraesCS6A01G306500 chr6D 393934177 393937329 3152 True 2100.0 3716 90.6435 1 3215 2 chr6D.!!$R1 3214
2 TraesCS6A01G306500 chr6B 589127455 589130730 3275 True 1289.0 3212 93.0890 3 3032 3 chr6B.!!$R2 3029
3 TraesCS6A01G306500 chr7D 140232496 140233579 1083 False 628.0 628 78.1330 972 2085 1 chr7D.!!$F1 1113
4 TraesCS6A01G306500 chr7A 140536530 140537609 1079 False 590.0 590 77.4980 973 2085 1 chr7A.!!$F1 1112
5 TraesCS6A01G306500 chr7B 105323152 105324214 1062 False 558.0 558 77.1780 972 2085 1 chr7B.!!$F1 1113


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
372 376 0.106217 CCTCCCCCTCTCTGTCTCTC 60.106 65.0 0.0 0.0 0.0 3.2 F
374 378 0.923358 TCCCCCTCTCTGTCTCTCTC 59.077 60.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 2647 1.771746 GATCCCCATCTGCCCCTCA 60.772 63.158 0.00 0.0 0.00 3.86 R
2462 3072 2.253452 GCTGCTGCTGTGTTTCCG 59.747 61.111 8.53 0.0 36.03 4.30 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
170 174 1.757949 GCCTGCCTTATCCTCCTCC 59.242 63.158 0.00 0.00 0.00 4.30
172 176 1.347062 CCTGCCTTATCCTCCTCCTC 58.653 60.000 0.00 0.00 0.00 3.71
173 177 1.347062 CTGCCTTATCCTCCTCCTCC 58.653 60.000 0.00 0.00 0.00 4.30
189 193 4.168291 CCTCCTCCCTTCGCTGCC 62.168 72.222 0.00 0.00 0.00 4.85
190 194 4.168291 CTCCTCCCTTCGCTGCCC 62.168 72.222 0.00 0.00 0.00 5.36
237 241 0.955178 ACCACAGTCTCTGTCACTCG 59.045 55.000 0.00 0.00 43.43 4.18
259 263 2.703007 AGCTCCTCTCTCTCTCTCTCTC 59.297 54.545 0.00 0.00 0.00 3.20
260 264 2.703007 GCTCCTCTCTCTCTCTCTCTCT 59.297 54.545 0.00 0.00 0.00 3.10
261 265 3.244044 GCTCCTCTCTCTCTCTCTCTCTC 60.244 56.522 0.00 0.00 0.00 3.20
262 266 4.222336 CTCCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
263 267 4.219115 TCCTCTCTCTCTCTCTCTCTCTC 58.781 52.174 0.00 0.00 0.00 3.20
264 268 4.078922 TCCTCTCTCTCTCTCTCTCTCTCT 60.079 50.000 0.00 0.00 0.00 3.10
265 269 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
266 270 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
267 271 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
268 272 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
269 273 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
270 274 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
271 275 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
272 276 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
273 277 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
274 278 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
275 279 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
276 280 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
277 281 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
278 282 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
279 283 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
280 284 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
281 285 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
282 286 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
283 287 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
284 288 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
285 289 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
286 290 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
367 371 0.793617 TTCTTCCTCCCCCTCTCTGT 59.206 55.000 0.00 0.00 0.00 3.41
368 372 0.336737 TCTTCCTCCCCCTCTCTGTC 59.663 60.000 0.00 0.00 0.00 3.51
369 373 0.338120 CTTCCTCCCCCTCTCTGTCT 59.662 60.000 0.00 0.00 0.00 3.41
370 374 0.336737 TTCCTCCCCCTCTCTGTCTC 59.663 60.000 0.00 0.00 0.00 3.36
371 375 0.553862 TCCTCCCCCTCTCTGTCTCT 60.554 60.000 0.00 0.00 0.00 3.10
372 376 0.106217 CCTCCCCCTCTCTGTCTCTC 60.106 65.000 0.00 0.00 0.00 3.20
373 377 0.926293 CTCCCCCTCTCTGTCTCTCT 59.074 60.000 0.00 0.00 0.00 3.10
374 378 0.923358 TCCCCCTCTCTGTCTCTCTC 59.077 60.000 0.00 0.00 0.00 3.20
466 470 3.368427 CGCAGATGAACCTTACCAGAAGA 60.368 47.826 0.00 0.00 0.00 2.87
828 1192 1.212935 AGCTCCTGGACTCTCTCTCTC 59.787 57.143 0.00 0.00 0.00 3.20
829 1193 1.212935 GCTCCTGGACTCTCTCTCTCT 59.787 57.143 0.00 0.00 0.00 3.10
830 1194 2.746472 GCTCCTGGACTCTCTCTCTCTC 60.746 59.091 0.00 0.00 0.00 3.20
831 1195 2.774234 CTCCTGGACTCTCTCTCTCTCT 59.226 54.545 0.00 0.00 0.00 3.10
832 1196 2.771943 TCCTGGACTCTCTCTCTCTCTC 59.228 54.545 0.00 0.00 0.00 3.20
833 1197 2.774234 CCTGGACTCTCTCTCTCTCTCT 59.226 54.545 0.00 0.00 0.00 3.10
834 1198 3.181461 CCTGGACTCTCTCTCTCTCTCTC 60.181 56.522 0.00 0.00 0.00 3.20
835 1199 3.708631 CTGGACTCTCTCTCTCTCTCTCT 59.291 52.174 0.00 0.00 0.00 3.10
860 1404 1.471287 TCGTCTCCATCACACCTAACG 59.529 52.381 0.00 0.00 0.00 3.18
933 1477 1.795170 CTCCTGCAAACAACCACCCG 61.795 60.000 0.00 0.00 0.00 5.28
966 1510 4.084171 CCAAAGCATATACACGCAGAGATG 60.084 45.833 0.00 0.00 0.00 2.90
968 1512 2.630098 AGCATATACACGCAGAGATGGT 59.370 45.455 0.00 0.00 0.00 3.55
1593 2167 1.371558 GCTCAACTTCCACTCGGGT 59.628 57.895 0.00 0.00 38.11 5.28
1617 2191 2.280797 GGTCTTGACGTGCAGCCA 60.281 61.111 0.00 0.00 0.00 4.75
1713 2287 2.390938 CAGCAGCAACAACAACATCAG 58.609 47.619 0.00 0.00 0.00 2.90
1966 2567 5.437060 GGCTACATTTCATGAACTTCCCTA 58.563 41.667 7.89 0.00 0.00 3.53
2462 3072 1.003580 TGTGCCATTGGAGAAGAGGAC 59.996 52.381 6.95 0.00 0.00 3.85
2472 3082 2.610727 GGAGAAGAGGACGGAAACACAG 60.611 54.545 0.00 0.00 0.00 3.66
2607 3218 5.678483 GTGATCGATCGATGGTTCATTTTTG 59.322 40.000 33.86 0.00 34.60 2.44
2671 3282 0.040942 TACACCATGCAGGGCCATTT 59.959 50.000 19.26 0.00 43.89 2.32
2771 3382 0.879090 GATCCGCCAACGTCCTTTTT 59.121 50.000 0.00 0.00 37.70 1.94
2816 3427 1.228063 ATCATGCCTGATCCACCGC 60.228 57.895 0.00 0.00 37.58 5.68
2831 3442 6.589523 TGATCCACCGCAAATAAAATTCTTTG 59.410 34.615 0.00 1.01 35.84 2.77
2842 3453 1.047801 AATTCTTTGGCGGGCACTTT 58.952 45.000 2.73 0.00 0.00 2.66
2846 3457 1.866853 CTTTGGCGGGCACTTTCTCC 61.867 60.000 2.73 0.00 0.00 3.71
2861 3472 2.018542 TCTCCGTCCGGCTTTATTTG 57.981 50.000 0.00 0.00 34.68 2.32
2864 3475 1.276989 TCCGTCCGGCTTTATTTGTCT 59.723 47.619 0.00 0.00 34.68 3.41
2910 3521 7.597743 CGAGCTTTGACCTTAGTTTTAACTAGA 59.402 37.037 0.00 0.00 42.04 2.43
2954 3565 8.430063 CACAAAATTAGTGTCATTTGAATGCTC 58.570 33.333 4.30 0.00 36.52 4.26
2957 3568 6.741992 ATTAGTGTCATTTGAATGCTCGAA 57.258 33.333 0.00 0.67 36.36 3.71
3012 3624 8.316214 ACGGTTTTTATAATGTACTTCCTCTGA 58.684 33.333 0.00 0.00 0.00 3.27
3082 3703 8.575649 TTTCTTTCCAAAGAGAGTTTGTACTT 57.424 30.769 2.13 0.00 45.01 2.24
3083 3704 9.675464 TTTCTTTCCAAAGAGAGTTTGTACTTA 57.325 29.630 2.13 0.00 45.01 2.24
3084 3705 9.847224 TTCTTTCCAAAGAGAGTTTGTACTTAT 57.153 29.630 2.13 0.00 45.01 1.73
3105 3726 7.804129 ACTTATATTTGCTAGTCGAGTCGAATC 59.196 37.037 19.91 6.92 37.72 2.52
3118 3741 7.923344 AGTCGAGTCGAATCTATGATCAAAATT 59.077 33.333 18.42 0.00 37.72 1.82
3120 3743 8.542953 TCGAGTCGAATCTATGATCAAAATTTG 58.457 33.333 13.98 0.00 31.06 2.32
3136 3759 8.830201 TCAAAATTTGACACAAAATATGAGGG 57.170 30.769 4.03 0.00 34.08 4.30
3137 3760 7.877097 TCAAAATTTGACACAAAATATGAGGGG 59.123 33.333 4.03 0.00 34.08 4.79
3138 3761 6.933514 AATTTGACACAAAATATGAGGGGT 57.066 33.333 0.00 0.00 0.00 4.95
3139 3762 5.720371 TTTGACACAAAATATGAGGGGTG 57.280 39.130 0.00 0.00 0.00 4.61
3171 3800 2.102252 GGATGGAGGAAGAGCTACACAG 59.898 54.545 0.00 0.00 0.00 3.66
3210 3839 2.396601 GACAATTGGTGTACGTCGTCA 58.603 47.619 10.83 0.00 41.96 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 105 2.202987 CATGGCGTGGCTCTCTCC 60.203 66.667 0.00 0.00 0.00 3.71
170 174 3.087666 GCAGCGAAGGGAGGAGGAG 62.088 68.421 0.00 0.00 0.00 3.69
172 176 4.168291 GGCAGCGAAGGGAGGAGG 62.168 72.222 0.00 0.00 0.00 4.30
173 177 4.168291 GGGCAGCGAAGGGAGGAG 62.168 72.222 0.00 0.00 0.00 3.69
204 208 0.037697 TGTGGTCGTGTACATGGAGC 60.038 55.000 15.02 16.34 0.00 4.70
237 241 2.703007 AGAGAGAGAGAGAGAGGAGCTC 59.297 54.545 4.71 4.71 44.29 4.09
259 263 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
260 264 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
261 265 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
262 266 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
263 267 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
264 268 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
265 269 5.830457 TGTAGAGAGAGAGAGAGAGAGAGAG 59.170 48.000 0.00 0.00 0.00 3.20
266 270 5.766590 TGTAGAGAGAGAGAGAGAGAGAGA 58.233 45.833 0.00 0.00 0.00 3.10
267 271 6.266330 TGATGTAGAGAGAGAGAGAGAGAGAG 59.734 46.154 0.00 0.00 0.00 3.20
268 272 6.136155 TGATGTAGAGAGAGAGAGAGAGAGA 58.864 44.000 0.00 0.00 0.00 3.10
269 273 6.410942 TGATGTAGAGAGAGAGAGAGAGAG 57.589 45.833 0.00 0.00 0.00 3.20
270 274 6.611236 TCTTGATGTAGAGAGAGAGAGAGAGA 59.389 42.308 0.00 0.00 0.00 3.10
271 275 6.820335 TCTTGATGTAGAGAGAGAGAGAGAG 58.180 44.000 0.00 0.00 0.00 3.20
272 276 6.806668 TCTTGATGTAGAGAGAGAGAGAGA 57.193 41.667 0.00 0.00 0.00 3.10
273 277 7.201732 GGTTTCTTGATGTAGAGAGAGAGAGAG 60.202 44.444 0.00 0.00 0.00 3.20
274 278 6.601613 GGTTTCTTGATGTAGAGAGAGAGAGA 59.398 42.308 0.00 0.00 0.00 3.10
275 279 6.376864 TGGTTTCTTGATGTAGAGAGAGAGAG 59.623 42.308 0.00 0.00 0.00 3.20
276 280 6.249192 TGGTTTCTTGATGTAGAGAGAGAGA 58.751 40.000 0.00 0.00 0.00 3.10
277 281 6.522625 TGGTTTCTTGATGTAGAGAGAGAG 57.477 41.667 0.00 0.00 0.00 3.20
278 282 7.487822 AATGGTTTCTTGATGTAGAGAGAGA 57.512 36.000 0.00 0.00 0.00 3.10
279 283 9.658799 TTAAATGGTTTCTTGATGTAGAGAGAG 57.341 33.333 0.00 0.00 0.00 3.20
367 371 4.078922 AGGAGAGAGAGAGAGAGAGAGAGA 60.079 50.000 0.00 0.00 0.00 3.10
368 372 4.222336 AGGAGAGAGAGAGAGAGAGAGAG 58.778 52.174 0.00 0.00 0.00 3.20
369 373 4.271807 AGGAGAGAGAGAGAGAGAGAGA 57.728 50.000 0.00 0.00 0.00 3.10
370 374 4.653341 AGAAGGAGAGAGAGAGAGAGAGAG 59.347 50.000 0.00 0.00 0.00 3.20
371 375 4.624913 AGAAGGAGAGAGAGAGAGAGAGA 58.375 47.826 0.00 0.00 0.00 3.10
372 376 4.202305 GGAGAAGGAGAGAGAGAGAGAGAG 60.202 54.167 0.00 0.00 0.00 3.20
373 377 3.711704 GGAGAAGGAGAGAGAGAGAGAGA 59.288 52.174 0.00 0.00 0.00 3.10
374 378 3.713764 AGGAGAAGGAGAGAGAGAGAGAG 59.286 52.174 0.00 0.00 0.00 3.20
828 1192 1.134759 TGGAGACGACGGTAGAGAGAG 60.135 57.143 0.00 0.00 0.00 3.20
829 1193 0.900421 TGGAGACGACGGTAGAGAGA 59.100 55.000 0.00 0.00 0.00 3.10
830 1194 1.868498 GATGGAGACGACGGTAGAGAG 59.132 57.143 0.00 0.00 0.00 3.20
831 1195 1.208776 TGATGGAGACGACGGTAGAGA 59.791 52.381 0.00 0.00 0.00 3.10
832 1196 1.331138 GTGATGGAGACGACGGTAGAG 59.669 57.143 0.00 0.00 0.00 2.43
833 1197 1.339342 TGTGATGGAGACGACGGTAGA 60.339 52.381 0.00 0.00 0.00 2.59
834 1198 1.092348 TGTGATGGAGACGACGGTAG 58.908 55.000 0.00 0.00 0.00 3.18
835 1199 0.806868 GTGTGATGGAGACGACGGTA 59.193 55.000 0.00 0.00 0.00 4.02
860 1404 2.025155 TGTGGGTCTAGCTCGAGATTC 58.975 52.381 18.75 4.14 0.00 2.52
933 1477 1.465794 TATGCTTTGGCCGGGTAAAC 58.534 50.000 2.18 0.00 37.74 2.01
966 1510 5.220970 GGCCATGTTATATACACACACAACC 60.221 44.000 0.00 0.00 40.19 3.77
968 1512 5.750524 AGGCCATGTTATATACACACACAA 58.249 37.500 5.01 0.00 40.19 3.33
1260 1810 3.241530 AGCTGGAACACCCTCGCA 61.242 61.111 0.00 0.00 35.47 5.10
2038 2642 2.750657 CCATCTGCCCCTCACTCCC 61.751 68.421 0.00 0.00 0.00 4.30
2039 2643 2.750657 CCCATCTGCCCCTCACTCC 61.751 68.421 0.00 0.00 0.00 3.85
2040 2644 2.750657 CCCCATCTGCCCCTCACTC 61.751 68.421 0.00 0.00 0.00 3.51
2041 2645 2.574195 ATCCCCATCTGCCCCTCACT 62.574 60.000 0.00 0.00 0.00 3.41
2042 2646 2.061790 GATCCCCATCTGCCCCTCAC 62.062 65.000 0.00 0.00 0.00 3.51
2043 2647 1.771746 GATCCCCATCTGCCCCTCA 60.772 63.158 0.00 0.00 0.00 3.86
2462 3072 2.253452 GCTGCTGCTGTGTTTCCG 59.747 61.111 8.53 0.00 36.03 4.30
2487 3097 9.468532 AGAACAAAAATAAACAATCTCTCTTGC 57.531 29.630 0.00 0.00 0.00 4.01
2607 3218 1.665169 CAAAGCTTGGTGGCAAACAAC 59.335 47.619 0.00 0.00 37.28 3.32
2771 3382 4.111577 AGTTGGATACCATGGGAGAAAGA 58.888 43.478 18.09 0.00 31.53 2.52
2816 3427 3.999663 TGCCCGCCAAAGAATTTTATTTG 59.000 39.130 3.93 3.93 35.03 2.32
2831 3442 4.699522 ACGGAGAAAGTGCCCGCC 62.700 66.667 0.00 0.00 46.54 6.13
2842 3453 1.276989 ACAAATAAAGCCGGACGGAGA 59.723 47.619 15.99 0.00 37.50 3.71
2846 3457 2.073816 ACAGACAAATAAAGCCGGACG 58.926 47.619 5.05 0.00 0.00 4.79
2873 3484 6.575162 AGGTCAAAGCTCGACAAAAATATT 57.425 33.333 15.82 0.00 34.97 1.28
2885 3496 8.828688 TCTAGTTAAAACTAAGGTCAAAGCTC 57.171 34.615 4.27 0.00 40.70 4.09
2940 3551 8.452989 AATAAGTTTTCGAGCATTCAAATGAC 57.547 30.769 6.91 0.00 38.70 3.06
2954 3565 9.549509 TGGATTCGTATTCAAAATAAGTTTTCG 57.450 29.630 0.00 0.00 35.41 3.46
3005 3617 9.667107 AACGATTGTATATTTCTTTTCAGAGGA 57.333 29.630 0.00 0.00 0.00 3.71
3064 3685 9.774742 GCAAATATAAGTACAAACTCTCTTTGG 57.225 33.333 0.00 0.00 33.75 3.28
3070 3691 9.517609 CGACTAGCAAATATAAGTACAAACTCT 57.482 33.333 0.00 0.00 33.75 3.24
3075 3696 7.854422 CGACTCGACTAGCAAATATAAGTACAA 59.146 37.037 0.00 0.00 0.00 2.41
3076 3697 7.225341 TCGACTCGACTAGCAAATATAAGTACA 59.775 37.037 0.00 0.00 0.00 2.90
3077 3698 7.571026 TCGACTCGACTAGCAAATATAAGTAC 58.429 38.462 0.00 0.00 0.00 2.73
3078 3699 7.719778 TCGACTCGACTAGCAAATATAAGTA 57.280 36.000 0.00 0.00 0.00 2.24
3079 3700 6.615264 TCGACTCGACTAGCAAATATAAGT 57.385 37.500 0.00 0.00 0.00 2.24
3080 3701 8.018520 AGATTCGACTCGACTAGCAAATATAAG 58.981 37.037 0.00 0.00 34.89 1.73
3082 3703 7.436430 AGATTCGACTCGACTAGCAAATATA 57.564 36.000 0.00 0.00 34.89 0.86
3083 3704 6.320494 AGATTCGACTCGACTAGCAAATAT 57.680 37.500 0.00 0.00 34.89 1.28
3084 3705 5.752892 AGATTCGACTCGACTAGCAAATA 57.247 39.130 0.00 0.00 34.89 1.40
3085 3706 4.640789 AGATTCGACTCGACTAGCAAAT 57.359 40.909 0.00 0.00 34.89 2.32
3118 3741 4.085733 CCACCCCTCATATTTTGTGTCAA 58.914 43.478 0.00 0.00 0.00 3.18
3120 3743 3.023832 CCCACCCCTCATATTTTGTGTC 58.976 50.000 0.00 0.00 0.00 3.67
3131 3754 0.766674 CGGATTATCCCCACCCCTCA 60.767 60.000 5.56 0.00 31.13 3.86
3135 3758 0.328258 CATCCGGATTATCCCCACCC 59.672 60.000 16.19 0.00 31.13 4.61
3136 3759 0.328258 CCATCCGGATTATCCCCACC 59.672 60.000 16.19 0.00 31.13 4.61
3137 3760 1.279271 CTCCATCCGGATTATCCCCAC 59.721 57.143 16.19 0.00 41.79 4.61
3138 3761 1.656587 CTCCATCCGGATTATCCCCA 58.343 55.000 16.19 0.00 41.79 4.96
3139 3762 0.912486 CCTCCATCCGGATTATCCCC 59.088 60.000 16.19 0.00 41.79 4.81
3171 3800 0.532115 CCCAAAATGTACTGCCCAGC 59.468 55.000 0.00 0.00 0.00 4.85



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

AutoCloner maintained by Alex Coulton.