Multiple sequence alignment - TraesCS3B01G406400

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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 TraesCS3B01G406400 chr3B 100.000 2357 0 0 1 2357 641989080 641986724 0.000000e+00 4353.0
1 TraesCS3B01G406400 chr3D 95.006 1562 63 8 810 2357 481070471 481068911 0.000000e+00 2438.0
2 TraesCS3B01G406400 chr3D 92.353 170 9 2 476 645 481075459 481075294 3.030000e-59 239.0
3 TraesCS3B01G406400 chr3D 86.099 223 16 5 278 489 481075838 481075620 2.360000e-55 226.0
4 TraesCS3B01G406400 chr3D 89.474 57 4 2 231 286 26323331 26323276 1.170000e-08 71.3
5 TraesCS3B01G406400 chr3A 91.892 962 32 21 653 1588 623823146 623822205 0.000000e+00 1303.0
6 TraesCS3B01G406400 chr3A 87.047 772 48 20 1617 2357 623822205 623821455 0.000000e+00 824.0
7 TraesCS3B01G406400 chr3A 94.043 235 11 3 1 232 623823780 623823546 1.040000e-93 353.0
8 TraesCS3B01G406400 chr3A 86.425 221 13 5 281 489 623823548 623823333 2.360000e-55 226.0
9 TraesCS3B01G406400 chr3A 97.297 37 1 0 256 292 269670742 269670706 1.960000e-06 63.9
10 TraesCS3B01G406400 chr6A 90.000 50 5 0 253 302 596589451 596589500 5.440000e-07 65.8
11 TraesCS3B01G406400 chr5B 87.719 57 6 1 251 307 467384004 467384059 5.440000e-07 65.8
12 TraesCS3B01G406400 chrUn 100.000 34 0 0 253 286 86686238 86686271 1.960000e-06 63.9
13 TraesCS3B01G406400 chr6D 100.000 34 0 0 253 286 355242728 355242695 1.960000e-06 63.9
14 TraesCS3B01G406400 chr6B 100.000 34 0 0 253 286 522424072 522424105 1.960000e-06 63.9
15 TraesCS3B01G406400 chr5D 94.737 38 2 0 253 290 123088817 123088854 2.530000e-05 60.2
16 TraesCS3B01G406400 chr2D 88.000 50 4 2 253 302 646492387 646492340 9.100000e-05 58.4
17 TraesCS3B01G406400 chr7B 94.444 36 2 0 217 252 113136286 113136321 3.270000e-04 56.5
18 TraesCS3B01G406400 chr4A 100.000 30 0 0 223 252 681356492 681356521 3.270000e-04 56.5


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 TraesCS3B01G406400 chr3B 641986724 641989080 2356 True 4353.0 4353 100.00000 1 2357 1 chr3B.!!$R1 2356
1 TraesCS3B01G406400 chr3D 481068911 481070471 1560 True 2438.0 2438 95.00600 810 2357 1 chr3D.!!$R2 1547
2 TraesCS3B01G406400 chr3D 481075294 481075838 544 True 232.5 239 89.22600 278 645 2 chr3D.!!$R3 367
3 TraesCS3B01G406400 chr3A 623821455 623823780 2325 True 676.5 1303 89.85175 1 2357 4 chr3A.!!$R2 2356

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
675 923 0.89327 CGGGTGTGCCTCCATTTTGA 60.893 55.0 0.0 0.0 34.45 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2216 2545 0.107508 ACAGAACCGCATGCATAGCT 60.108 50.0 19.57 6.4 0.0 3.32 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
121 124 6.071463 GCAAAACATGTTGTCGTAGTCTAAG 58.929 40.000 12.82 0.00 0.00 2.18
123 126 7.095940 GCAAAACATGTTGTCGTAGTCTAAGTA 60.096 37.037 12.82 0.00 0.00 2.24
239 243 9.232473 ACATTTTAGAAAAGATGTACTCCCTTC 57.768 33.333 0.00 0.00 38.33 3.46
240 244 7.900782 TTTTAGAAAAGATGTACTCCCTTCG 57.099 36.000 0.00 0.00 0.00 3.79
241 245 6.600882 TTAGAAAAGATGTACTCCCTTCGT 57.399 37.500 0.00 0.00 0.00 3.85
242 246 5.074584 AGAAAAGATGTACTCCCTTCGTC 57.925 43.478 0.00 0.00 0.00 4.20
243 247 3.889520 AAAGATGTACTCCCTTCGTCC 57.110 47.619 0.00 0.00 0.00 4.79
244 248 1.777941 AGATGTACTCCCTTCGTCCC 58.222 55.000 0.00 0.00 0.00 4.46
245 249 1.006758 AGATGTACTCCCTTCGTCCCA 59.993 52.381 0.00 0.00 0.00 4.37
246 250 1.829222 GATGTACTCCCTTCGTCCCAA 59.171 52.381 0.00 0.00 0.00 4.12
247 251 1.719529 TGTACTCCCTTCGTCCCAAA 58.280 50.000 0.00 0.00 0.00 3.28
248 252 2.048601 TGTACTCCCTTCGTCCCAAAA 58.951 47.619 0.00 0.00 0.00 2.44
249 253 2.640826 TGTACTCCCTTCGTCCCAAAAT 59.359 45.455 0.00 0.00 0.00 1.82
250 254 3.839490 TGTACTCCCTTCGTCCCAAAATA 59.161 43.478 0.00 0.00 0.00 1.40
251 255 4.286549 TGTACTCCCTTCGTCCCAAAATAA 59.713 41.667 0.00 0.00 0.00 1.40
252 256 4.586306 ACTCCCTTCGTCCCAAAATAAT 57.414 40.909 0.00 0.00 0.00 1.28
253 257 4.930696 ACTCCCTTCGTCCCAAAATAATT 58.069 39.130 0.00 0.00 0.00 1.40
254 258 4.705023 ACTCCCTTCGTCCCAAAATAATTG 59.295 41.667 0.00 0.00 0.00 2.32
255 259 4.924625 TCCCTTCGTCCCAAAATAATTGA 58.075 39.130 0.00 0.00 0.00 2.57
256 260 4.947388 TCCCTTCGTCCCAAAATAATTGAG 59.053 41.667 0.00 0.00 0.00 3.02
257 261 4.947388 CCCTTCGTCCCAAAATAATTGAGA 59.053 41.667 0.00 0.00 0.00 3.27
258 262 5.163652 CCCTTCGTCCCAAAATAATTGAGAC 60.164 44.000 0.00 0.00 0.00 3.36
259 263 5.414454 CCTTCGTCCCAAAATAATTGAGACA 59.586 40.000 4.19 0.00 0.00 3.41
260 264 5.873179 TCGTCCCAAAATAATTGAGACAC 57.127 39.130 4.19 0.00 0.00 3.67
261 265 5.556915 TCGTCCCAAAATAATTGAGACACT 58.443 37.500 4.19 0.00 0.00 3.55
262 266 6.001460 TCGTCCCAAAATAATTGAGACACTT 58.999 36.000 4.19 0.00 0.00 3.16
263 267 7.162761 TCGTCCCAAAATAATTGAGACACTTA 58.837 34.615 4.19 0.00 0.00 2.24
264 268 7.827236 TCGTCCCAAAATAATTGAGACACTTAT 59.173 33.333 4.19 0.00 0.00 1.73
265 269 8.458843 CGTCCCAAAATAATTGAGACACTTATT 58.541 33.333 4.19 0.00 32.99 1.40
273 277 5.880054 ATTGAGACACTTATTTTGGGACG 57.120 39.130 0.00 0.00 0.00 4.79
274 278 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
275 279 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
276 280 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
277 281 3.581332 AGACACTTATTTTGGGACGGAGA 59.419 43.478 0.00 0.00 0.00 3.71
278 282 3.933332 GACACTTATTTTGGGACGGAGAG 59.067 47.826 0.00 0.00 0.00 3.20
279 283 3.581332 ACACTTATTTTGGGACGGAGAGA 59.419 43.478 0.00 0.00 0.00 3.10
280 284 4.184629 CACTTATTTTGGGACGGAGAGAG 58.815 47.826 0.00 0.00 0.00 3.20
281 285 3.838903 ACTTATTTTGGGACGGAGAGAGT 59.161 43.478 0.00 0.00 0.00 3.24
427 443 1.162800 CCCAGCTTAATCCAGCGAGC 61.163 60.000 0.00 0.00 45.24 5.03
468 484 5.472137 GTGGATCAACAGTGGTTAGCTTTTA 59.528 40.000 0.00 0.00 34.87 1.52
573 762 3.647590 ACAACAATTCAAAGGGGCTGATT 59.352 39.130 0.00 0.00 0.00 2.57
574 763 4.102996 ACAACAATTCAAAGGGGCTGATTT 59.897 37.500 0.00 0.00 0.00 2.17
575 764 5.306678 ACAACAATTCAAAGGGGCTGATTTA 59.693 36.000 0.00 0.00 0.00 1.40
614 803 9.657419 ACCATCATTTCAAATTTCAACTATTCC 57.343 29.630 0.00 0.00 0.00 3.01
675 923 0.893270 CGGGTGTGCCTCCATTTTGA 60.893 55.000 0.00 0.00 34.45 2.69
711 959 4.976540 AGCCTAAGTATTGTACATCCCC 57.023 45.455 0.00 0.00 0.00 4.81
744 992 5.716703 AGCATCTAAGTATTTTTGGCTTGGT 59.283 36.000 0.00 0.00 0.00 3.67
762 1010 3.868757 GGTTATGGACCTGCCTTTTTC 57.131 47.619 0.00 0.00 45.55 2.29
764 1012 3.431415 GTTATGGACCTGCCTTTTTCCT 58.569 45.455 0.00 0.00 37.63 3.36
766 1014 3.825908 ATGGACCTGCCTTTTTCCTTA 57.174 42.857 0.00 0.00 37.63 2.69
853 1106 4.853924 ATCATGGACGCAATATTTTCCC 57.146 40.909 0.00 0.00 0.00 3.97
854 1107 3.897239 TCATGGACGCAATATTTTCCCT 58.103 40.909 0.00 0.00 0.00 4.20
892 1145 1.968050 ATGTAGCCCAGCCCACGTAC 61.968 60.000 0.00 0.00 0.00 3.67
1290 1550 4.785453 CAGGCCGCTTCCACTCCC 62.785 72.222 0.00 0.00 0.00 4.30
1525 1797 8.846211 CAAAAAGTTGGAAGGTAGAATTCTGTA 58.154 33.333 18.47 0.00 0.00 2.74
1590 1892 9.411189 TGTTATTAATGTATGTTTACCCTTCCC 57.589 33.333 0.00 0.00 0.00 3.97
1591 1893 9.411189 GTTATTAATGTATGTTTACCCTTCCCA 57.589 33.333 0.00 0.00 0.00 4.37
1592 1894 7.891498 ATTAATGTATGTTTACCCTTCCCAC 57.109 36.000 0.00 0.00 0.00 4.61
1593 1895 5.530176 AATGTATGTTTACCCTTCCCACT 57.470 39.130 0.00 0.00 0.00 4.00
1594 1896 6.645884 AATGTATGTTTACCCTTCCCACTA 57.354 37.500 0.00 0.00 0.00 2.74
1595 1897 5.687166 TGTATGTTTACCCTTCCCACTAG 57.313 43.478 0.00 0.00 0.00 2.57
1596 1898 4.472108 TGTATGTTTACCCTTCCCACTAGG 59.528 45.833 0.00 0.00 0.00 3.02
1610 1912 2.747446 CCACTAGGGAATTTTGTCACCG 59.253 50.000 0.00 0.00 40.01 4.94
1611 1913 3.408634 CACTAGGGAATTTTGTCACCGT 58.591 45.455 0.00 0.00 0.00 4.83
1612 1914 3.188460 CACTAGGGAATTTTGTCACCGTG 59.812 47.826 0.00 0.00 0.00 4.94
1613 1915 2.649531 AGGGAATTTTGTCACCGTGA 57.350 45.000 0.00 0.00 0.00 4.35
1615 1917 1.268625 GGGAATTTTGTCACCGTGACC 59.731 52.381 25.39 10.67 46.40 4.02
1654 1956 4.318071 CACATCGTATTTGTTGCGTTTCTG 59.682 41.667 0.00 0.00 34.75 3.02
1770 2072 2.159627 CCTGTTGAACTATCACCGTTGC 59.840 50.000 0.00 0.00 34.61 4.17
1821 2125 7.757624 AGAATTTGATAGAGAAGTCTGAACGAC 59.242 37.037 0.00 0.00 43.17 4.34
1851 2158 5.825679 TGTATTATGCATTGTTGGGGTAGTC 59.174 40.000 3.54 0.00 0.00 2.59
1882 2189 6.331369 TGAATTGGATTTGGAAGAGAACAC 57.669 37.500 0.00 0.00 0.00 3.32
2039 2346 4.067896 GCTCATCAAAGAGTTCACTCCAA 58.932 43.478 3.20 0.00 43.88 3.53
2057 2364 2.525055 CAACGACATTTTTATGCGGGG 58.475 47.619 0.00 0.00 0.00 5.73
2200 2508 9.434420 CCTGAAACCAATTAATTGCTAATTTCA 57.566 29.630 26.06 26.06 38.00 2.69
2216 2545 6.014925 GCTAATTTCACCCAAAGTCCCTTTTA 60.015 38.462 0.00 0.00 30.60 1.52
2228 2557 2.031682 GTCCCTTTTAGCTATGCATGCG 60.032 50.000 14.09 1.07 35.28 4.73
2262 2591 1.202806 TCTGAACCTTGGCTGTTGAGG 60.203 52.381 0.00 0.00 36.62 3.86
2292 2621 5.293569 GTGAATATTTCGACCGGAAACATCT 59.706 40.000 9.46 0.00 46.81 2.90
2294 2623 6.477688 TGAATATTTCGACCGGAAACATCTAC 59.522 38.462 9.46 0.00 46.81 2.59
2300 2629 5.909477 TCGACCGGAAACATCTACATATTT 58.091 37.500 9.46 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 88 6.202570 ACAACATGTTTTGCAATTCATGTACC 59.797 34.615 31.25 2.47 46.33 3.34
226 230 1.481871 TGGGACGAAGGGAGTACATC 58.518 55.000 0.00 0.00 0.00 3.06
231 235 4.586306 ATTATTTTGGGACGAAGGGAGT 57.414 40.909 0.00 0.00 0.00 3.85
232 236 4.947388 TCAATTATTTTGGGACGAAGGGAG 59.053 41.667 0.00 0.00 0.00 4.30
233 237 4.924625 TCAATTATTTTGGGACGAAGGGA 58.075 39.130 0.00 0.00 0.00 4.20
234 238 4.947388 TCTCAATTATTTTGGGACGAAGGG 59.053 41.667 0.00 0.00 0.00 3.95
235 239 5.880341 GTCTCAATTATTTTGGGACGAAGG 58.120 41.667 2.85 0.00 39.74 3.46
247 251 8.458843 CGTCCCAAAATAAGTGTCTCAATTATT 58.541 33.333 8.64 8.64 43.33 1.40
248 252 7.067008 CCGTCCCAAAATAAGTGTCTCAATTAT 59.933 37.037 0.00 0.00 36.41 1.28
249 253 6.373216 CCGTCCCAAAATAAGTGTCTCAATTA 59.627 38.462 0.00 0.00 0.00 1.40
250 254 5.183140 CCGTCCCAAAATAAGTGTCTCAATT 59.817 40.000 0.00 0.00 0.00 2.32
251 255 4.700213 CCGTCCCAAAATAAGTGTCTCAAT 59.300 41.667 0.00 0.00 0.00 2.57
252 256 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
253 257 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
254 258 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
255 259 3.581332 TCTCCGTCCCAAAATAAGTGTCT 59.419 43.478 0.00 0.00 0.00 3.41
256 260 3.933332 CTCTCCGTCCCAAAATAAGTGTC 59.067 47.826 0.00 0.00 0.00 3.67
257 261 3.581332 TCTCTCCGTCCCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
258 262 4.184629 CTCTCTCCGTCCCAAAATAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
259 263 3.838903 ACTCTCTCCGTCCCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
260 264 4.473477 ACTCTCTCCGTCCCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
261 265 6.555463 ATTACTCTCTCCGTCCCAAAATAA 57.445 37.500 0.00 0.00 0.00 1.40
262 266 7.343833 ACTTATTACTCTCTCCGTCCCAAAATA 59.656 37.037 0.00 0.00 0.00 1.40
263 267 6.156429 ACTTATTACTCTCTCCGTCCCAAAAT 59.844 38.462 0.00 0.00 0.00 1.82
264 268 5.482878 ACTTATTACTCTCTCCGTCCCAAAA 59.517 40.000 0.00 0.00 0.00 2.44
265 269 5.021458 ACTTATTACTCTCTCCGTCCCAAA 58.979 41.667 0.00 0.00 0.00 3.28
266 270 4.607239 ACTTATTACTCTCTCCGTCCCAA 58.393 43.478 0.00 0.00 0.00 4.12
267 271 4.246712 ACTTATTACTCTCTCCGTCCCA 57.753 45.455 0.00 0.00 0.00 4.37
268 272 6.060788 TCTTACTTATTACTCTCTCCGTCCC 58.939 44.000 0.00 0.00 0.00 4.46
269 273 7.565323 TTCTTACTTATTACTCTCTCCGTCC 57.435 40.000 0.00 0.00 0.00 4.79
270 274 9.453325 CATTTCTTACTTATTACTCTCTCCGTC 57.547 37.037 0.00 0.00 0.00 4.79
271 275 9.186837 TCATTTCTTACTTATTACTCTCTCCGT 57.813 33.333 0.00 0.00 0.00 4.69
414 430 6.147821 GCTAAATTATCAGCTCGCTGGATTAA 59.852 38.462 17.93 13.32 43.75 1.40
560 749 6.966534 AGATGTAATAAATCAGCCCCTTTG 57.033 37.500 0.00 0.00 0.00 2.77
573 762 9.571816 TGAAATGATGGTGCATAGATGTAATAA 57.428 29.630 0.00 0.00 0.00 1.40
574 763 9.571816 TTGAAATGATGGTGCATAGATGTAATA 57.428 29.630 0.00 0.00 0.00 0.98
575 764 8.467963 TTGAAATGATGGTGCATAGATGTAAT 57.532 30.769 0.00 0.00 0.00 1.89
614 803 6.422776 ACTTAGGCTATGTTTTGAATGACG 57.577 37.500 7.21 0.00 0.00 4.35
649 838 1.074084 TGGAGGCACACCCGATAAAAA 59.926 47.619 0.00 0.00 38.71 1.94
675 923 3.713902 GGCTATGTGGCTATGTGCT 57.286 52.632 0.00 0.00 42.39 4.40
718 966 7.396055 ACCAAGCCAAAAATACTTAGATGCTAA 59.604 33.333 0.00 0.00 0.00 3.09
719 967 6.889722 ACCAAGCCAAAAATACTTAGATGCTA 59.110 34.615 0.00 0.00 0.00 3.49
721 969 5.965922 ACCAAGCCAAAAATACTTAGATGC 58.034 37.500 0.00 0.00 0.00 3.91
722 970 9.520204 CATAACCAAGCCAAAAATACTTAGATG 57.480 33.333 0.00 0.00 0.00 2.90
723 971 8.695456 CCATAACCAAGCCAAAAATACTTAGAT 58.305 33.333 0.00 0.00 0.00 1.98
724 972 7.891183 TCCATAACCAAGCCAAAAATACTTAGA 59.109 33.333 0.00 0.00 0.00 2.10
726 974 7.832769 GTCCATAACCAAGCCAAAAATACTTA 58.167 34.615 0.00 0.00 0.00 2.24
728 976 6.280855 GTCCATAACCAAGCCAAAAATACT 57.719 37.500 0.00 0.00 0.00 2.12
744 992 3.825908 AGGAAAAAGGCAGGTCCATAA 57.174 42.857 0.00 0.00 37.29 1.90
853 1106 4.935808 ACATCGTGGGCTTAAACTTCTTAG 59.064 41.667 0.00 0.00 0.00 2.18
854 1107 4.901868 ACATCGTGGGCTTAAACTTCTTA 58.098 39.130 0.00 0.00 0.00 2.10
892 1145 2.975851 GTCTTTTGTCTCGCTTTGCATG 59.024 45.455 0.00 0.00 0.00 4.06
1066 1326 2.459442 GCTTCGCGATCAAGCTGCT 61.459 57.895 21.00 0.00 42.63 4.24
1128 1388 3.376078 GAGCCCCACACGTACGGA 61.376 66.667 21.06 0.00 0.00 4.69
1290 1550 1.152008 GGGAGGAGATGGGGTAGGG 60.152 68.421 0.00 0.00 0.00 3.53
1525 1797 6.786461 TCTCCAGAATGATCTCCAGTATGAAT 59.214 38.462 0.00 0.00 36.43 2.57
1589 1891 2.747446 CGGTGACAAAATTCCCTAGTGG 59.253 50.000 0.00 0.00 0.00 4.00
1590 1892 3.188460 CACGGTGACAAAATTCCCTAGTG 59.812 47.826 0.74 0.00 0.00 2.74
1591 1893 3.071892 TCACGGTGACAAAATTCCCTAGT 59.928 43.478 6.76 0.00 0.00 2.57
1592 1894 3.435671 GTCACGGTGACAAAATTCCCTAG 59.564 47.826 30.78 0.00 46.22 3.02
1593 1895 3.404899 GTCACGGTGACAAAATTCCCTA 58.595 45.455 30.78 0.00 46.22 3.53
1594 1896 2.227194 GTCACGGTGACAAAATTCCCT 58.773 47.619 30.78 0.00 46.22 4.20
1595 1897 2.699251 GTCACGGTGACAAAATTCCC 57.301 50.000 30.78 5.25 46.22 3.97
1604 1906 2.479275 GCTAGAAAAAGGTCACGGTGAC 59.521 50.000 28.65 28.65 46.23 3.67
1605 1907 2.549349 GGCTAGAAAAAGGTCACGGTGA 60.549 50.000 6.76 6.76 0.00 4.02
1606 1908 1.804748 GGCTAGAAAAAGGTCACGGTG 59.195 52.381 0.56 0.56 0.00 4.94
1607 1909 1.418637 TGGCTAGAAAAAGGTCACGGT 59.581 47.619 0.00 0.00 0.00 4.83
1608 1910 2.178912 TGGCTAGAAAAAGGTCACGG 57.821 50.000 0.00 0.00 0.00 4.94
1609 1911 3.127030 GGAATGGCTAGAAAAAGGTCACG 59.873 47.826 0.00 0.00 0.00 4.35
1610 1912 4.079253 TGGAATGGCTAGAAAAAGGTCAC 58.921 43.478 0.00 0.00 0.00 3.67
1611 1913 4.079253 GTGGAATGGCTAGAAAAAGGTCA 58.921 43.478 0.00 0.00 0.00 4.02
1612 1914 4.079253 TGTGGAATGGCTAGAAAAAGGTC 58.921 43.478 0.00 0.00 0.00 3.85
1613 1915 4.112634 TGTGGAATGGCTAGAAAAAGGT 57.887 40.909 0.00 0.00 0.00 3.50
1614 1916 4.201950 CGATGTGGAATGGCTAGAAAAAGG 60.202 45.833 0.00 0.00 0.00 3.11
1615 1917 4.396166 ACGATGTGGAATGGCTAGAAAAAG 59.604 41.667 0.00 0.00 0.00 2.27
1654 1956 5.073311 TGTATCTGTTTAGACCAGCAGTC 57.927 43.478 0.00 0.00 46.71 3.51
1749 2051 2.159627 GCAACGGTGATAGTTCAACAGG 59.840 50.000 3.55 0.00 39.72 4.00
1770 2072 3.728076 ACAGTGCATACTATACCACCG 57.272 47.619 0.00 0.00 34.74 4.94
1774 2076 5.902681 TCTCACAACAGTGCATACTATACC 58.097 41.667 0.00 0.00 34.74 2.73
1779 2081 5.764686 TCAAATTCTCACAACAGTGCATACT 59.235 36.000 0.00 0.00 37.75 2.12
1838 2145 1.278127 GCAGCTAGACTACCCCAACAA 59.722 52.381 0.00 0.00 0.00 2.83
1851 2158 3.949754 TCCAAATCCAATTCAGCAGCTAG 59.050 43.478 0.00 0.00 0.00 3.42
1882 2189 2.082231 CTGTTTCAGAGGACCATGCTG 58.918 52.381 0.00 0.00 32.44 4.41
1984 2291 5.825593 TCCTACCACCATCATTTAGGATC 57.174 43.478 0.00 0.00 34.61 3.36
2039 2346 2.116827 TCCCCGCATAAAAATGTCGT 57.883 45.000 0.00 0.00 0.00 4.34
2057 2364 7.468141 AAGGGAAGTTTGATAATGGACTTTC 57.532 36.000 0.00 0.00 32.85 2.62
2092 2400 3.517296 TTTGGGAGGAACAATGCTACA 57.483 42.857 0.00 0.00 26.97 2.74
2174 2482 9.434420 TGAAATTAGCAATTAATTGGTTTCAGG 57.566 29.630 31.34 5.96 45.24 3.86
2216 2545 0.107508 ACAGAACCGCATGCATAGCT 60.108 50.000 19.57 6.40 0.00 3.32
2262 2591 5.691815 TCCGGTCGAAATATTCACAAAAAC 58.308 37.500 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.