Multiple sequence alignment - TraesCS1D01G122700

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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 TraesCS1D01G122700 chr1D 100.000 3437 0 0 1 3437 123697930 123701366 0.000000e+00 6348.0
1 TraesCS1D01G122700 chr1A 96.093 3097 84 10 353 3437 135966431 135969502 0.000000e+00 5014.0
2 TraesCS1D01G122700 chr1A 83.761 351 31 15 1 334 135966104 135966445 3.330000e-80 309.0
3 TraesCS1D01G122700 chr1B 95.883 3085 81 12 372 3434 188260105 188263165 0.000000e+00 4951.0
4 TraesCS1D01G122700 chr2D 85.064 1011 129 8 1336 2337 43284097 43285094 0.000000e+00 1011.0
5 TraesCS1D01G122700 chr2B 80.648 987 148 28 1374 2346 68149781 68150738 0.000000e+00 725.0
6 TraesCS1D01G122700 chr3A 74.053 898 196 28 1403 2277 77411061 77410178 1.980000e-87 333.0
7 TraesCS1D01G122700 chr2A 82.095 296 43 6 1560 1846 44849736 44850030 9.530000e-61 244.0
8 TraesCS1D01G122700 chr3D 72.414 841 195 27 1460 2277 66310396 66311222 2.060000e-57 233.0
9 TraesCS1D01G122700 chr5B 89.333 75 3 4 105 174 213479765 213479691 4.720000e-14 89.8
10 TraesCS1D01G122700 chr7A 92.857 42 1 2 169 208 102290928 102290887 3.700000e-05 60.2


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 TraesCS1D01G122700 chr1D 123697930 123701366 3436 False 6348.0 6348 100.000 1 3437 1 chr1D.!!$F1 3436
1 TraesCS1D01G122700 chr1A 135966104 135969502 3398 False 2661.5 5014 89.927 1 3437 2 chr1A.!!$F1 3436
2 TraesCS1D01G122700 chr1B 188260105 188263165 3060 False 4951.0 4951 95.883 372 3434 1 chr1B.!!$F1 3062
3 TraesCS1D01G122700 chr2D 43284097 43285094 997 False 1011.0 1011 85.064 1336 2337 1 chr2D.!!$F1 1001
4 TraesCS1D01G122700 chr2B 68149781 68150738 957 False 725.0 725 80.648 1374 2346 1 chr2B.!!$F1 972
5 TraesCS1D01G122700 chr3A 77410178 77411061 883 True 333.0 333 74.053 1403 2277 1 chr3A.!!$R1 874
6 TraesCS1D01G122700 chr3D 66310396 66311222 826 False 233.0 233 72.414 1460 2277 1 chr3D.!!$F1 817

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
869 893 0.178935 CCATCTCCTCCTCCTCCTCC 60.179 65.0 0.0 0.0 0.0 4.30 F
882 906 0.179043 CTCCTCCTCCTCGTCGATCA 60.179 60.0 0.0 0.0 0.0 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2293 2338 0.178944 TGGGAGAGTTCGGACTGGAA 60.179 55.0 0.0 0.0 35.88 3.53 R
2525 2570 2.158957 TCCCATCCGAAAGCTGTATGTC 60.159 50.0 0.0 0.0 0.00 3.06 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
33 34 5.761234 GTGTGTGACACCCTGTTTTTAGATA 59.239 40.000 13.85 0.00 43.05 1.98
62 63 3.806316 GTGTGATTTTACACTGGGACG 57.194 47.619 0.00 0.00 45.70 4.79
63 64 3.395639 GTGTGATTTTACACTGGGACGA 58.604 45.455 0.00 0.00 45.70 4.20
71 72 6.642707 TTTTACACTGGGACGATCATTTTT 57.357 33.333 0.00 0.00 0.00 1.94
116 117 1.639298 GCCAGCATCCGTCAACTCAC 61.639 60.000 0.00 0.00 0.00 3.51
126 127 1.202651 CGTCAACTCACCAGGACCTTT 60.203 52.381 0.00 0.00 0.00 3.11
127 128 2.222027 GTCAACTCACCAGGACCTTTG 58.778 52.381 0.00 0.00 0.00 2.77
142 143 1.216941 CTTTGTTGCGCCTTTGCTGG 61.217 55.000 4.18 0.00 35.36 4.85
150 151 1.010419 CGCCTTTGCTGGTTCATTGC 61.010 55.000 0.00 0.00 34.43 3.56
151 152 0.319405 GCCTTTGCTGGTTCATTGCT 59.681 50.000 0.00 0.00 33.53 3.91
152 153 1.670967 GCCTTTGCTGGTTCATTGCTC 60.671 52.381 0.00 0.00 33.53 4.26
153 154 1.891150 CCTTTGCTGGTTCATTGCTCT 59.109 47.619 0.00 0.00 0.00 4.09
172 178 5.047377 TGCTCTTTTGAGGTGAAGTTTGTTT 60.047 36.000 0.00 0.00 46.30 2.83
210 216 4.373527 ACGCACTGACATTTGTGTTAGTA 58.626 39.130 5.80 0.00 36.66 1.82
211 217 4.447724 ACGCACTGACATTTGTGTTAGTAG 59.552 41.667 5.80 6.26 36.66 2.57
212 218 4.447724 CGCACTGACATTTGTGTTAGTAGT 59.552 41.667 5.80 0.00 36.66 2.73
213 219 5.050363 CGCACTGACATTTGTGTTAGTAGTT 60.050 40.000 5.80 0.00 36.66 2.24
214 220 6.144886 CGCACTGACATTTGTGTTAGTAGTTA 59.855 38.462 5.80 0.00 36.66 2.24
215 221 7.306925 CGCACTGACATTTGTGTTAGTAGTTAA 60.307 37.037 5.80 0.00 36.66 2.01
216 222 8.339714 GCACTGACATTTGTGTTAGTAGTTAAA 58.660 33.333 5.80 0.00 36.66 1.52
245 251 1.001378 AGAGCATGCCGTCACAAAAAC 60.001 47.619 15.66 0.00 0.00 2.43
260 266 4.092675 CACAAAAACTTGACCGCAACATTT 59.907 37.500 0.00 0.00 0.00 2.32
262 268 5.180304 ACAAAAACTTGACCGCAACATTTTT 59.820 32.000 0.00 0.00 37.52 1.94
310 321 4.809958 GGTAATCCGCTTCTTTCTAGAACC 59.190 45.833 4.18 0.00 35.49 3.62
314 325 3.070446 TCCGCTTCTTTCTAGAACCACAA 59.930 43.478 4.18 0.00 35.49 3.33
317 328 3.189495 GCTTCTTTCTAGAACCACAAGGC 59.811 47.826 4.18 0.51 35.49 4.35
319 330 2.631062 TCTTTCTAGAACCACAAGGCGA 59.369 45.455 4.18 0.00 39.06 5.54
320 331 2.743636 TTCTAGAACCACAAGGCGAG 57.256 50.000 0.00 0.00 39.06 5.03
321 332 1.629043 TCTAGAACCACAAGGCGAGT 58.371 50.000 0.00 0.00 39.06 4.18
322 333 2.799017 TCTAGAACCACAAGGCGAGTA 58.201 47.619 0.00 0.00 39.06 2.59
323 334 2.753452 TCTAGAACCACAAGGCGAGTAG 59.247 50.000 0.00 0.00 39.06 2.57
325 336 1.692519 AGAACCACAAGGCGAGTAGTT 59.307 47.619 0.00 0.00 39.06 2.24
326 337 2.104281 AGAACCACAAGGCGAGTAGTTT 59.896 45.455 0.00 0.00 39.06 2.66
327 338 2.632987 ACCACAAGGCGAGTAGTTTT 57.367 45.000 0.00 0.00 39.06 2.43
328 339 2.218603 ACCACAAGGCGAGTAGTTTTG 58.781 47.619 0.00 0.00 39.06 2.44
329 340 2.218603 CCACAAGGCGAGTAGTTTTGT 58.781 47.619 0.00 0.00 32.60 2.83
330 341 3.181463 ACCACAAGGCGAGTAGTTTTGTA 60.181 43.478 0.00 0.00 39.06 2.41
331 342 3.432252 CCACAAGGCGAGTAGTTTTGTAG 59.568 47.826 0.00 0.00 31.34 2.74
332 343 4.056050 CACAAGGCGAGTAGTTTTGTAGT 58.944 43.478 0.00 0.00 31.34 2.73
333 344 4.056050 ACAAGGCGAGTAGTTTTGTAGTG 58.944 43.478 0.00 0.00 30.79 2.74
334 345 4.056050 CAAGGCGAGTAGTTTTGTAGTGT 58.944 43.478 0.00 0.00 0.00 3.55
335 346 4.332428 AGGCGAGTAGTTTTGTAGTGTT 57.668 40.909 0.00 0.00 0.00 3.32
336 347 4.304939 AGGCGAGTAGTTTTGTAGTGTTC 58.695 43.478 0.00 0.00 0.00 3.18
337 348 3.431233 GGCGAGTAGTTTTGTAGTGTTCC 59.569 47.826 0.00 0.00 0.00 3.62
338 349 3.431233 GCGAGTAGTTTTGTAGTGTTCCC 59.569 47.826 0.00 0.00 0.00 3.97
339 350 3.671928 CGAGTAGTTTTGTAGTGTTCCCG 59.328 47.826 0.00 0.00 0.00 5.14
340 351 3.396560 AGTAGTTTTGTAGTGTTCCCGC 58.603 45.455 0.00 0.00 0.00 6.13
341 352 2.335316 AGTTTTGTAGTGTTCCCGCA 57.665 45.000 0.00 0.00 0.00 5.69
342 353 2.645802 AGTTTTGTAGTGTTCCCGCAA 58.354 42.857 0.00 0.00 0.00 4.85
343 354 3.018149 AGTTTTGTAGTGTTCCCGCAAA 58.982 40.909 0.00 0.00 0.00 3.68
344 355 3.444388 AGTTTTGTAGTGTTCCCGCAAAA 59.556 39.130 0.00 0.00 36.90 2.44
345 356 4.082136 AGTTTTGTAGTGTTCCCGCAAAAA 60.082 37.500 0.00 0.00 39.63 1.94
427 438 1.424638 AGACTAGCCGGCCATACAAT 58.575 50.000 26.15 4.77 0.00 2.71
428 439 1.344763 AGACTAGCCGGCCATACAATC 59.655 52.381 26.15 11.46 0.00 2.67
561 572 4.935808 ACACCACAGACGATATTTTCCTTC 59.064 41.667 0.00 0.00 0.00 3.46
592 606 4.596212 CCCCTCTATAATAGAACCCCGTTT 59.404 45.833 0.00 0.00 33.75 3.60
634 648 1.220206 CAGCCCACCACTCTAGCAG 59.780 63.158 0.00 0.00 0.00 4.24
668 682 2.269241 CACTCGCTTTCCTCCCCC 59.731 66.667 0.00 0.00 0.00 5.40
776 796 0.387622 TTTTAGTCTCCCGTCACGCG 60.388 55.000 3.53 3.53 40.95 6.01
866 890 1.127343 CAACCATCTCCTCCTCCTCC 58.873 60.000 0.00 0.00 0.00 4.30
869 893 0.178935 CCATCTCCTCCTCCTCCTCC 60.179 65.000 0.00 0.00 0.00 4.30
872 896 0.996762 TCTCCTCCTCCTCCTCCTCC 60.997 65.000 0.00 0.00 0.00 4.30
873 897 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
874 898 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
875 899 1.150536 CTCCTCCTCCTCCTCCTCG 59.849 68.421 0.00 0.00 0.00 4.63
876 900 1.619975 TCCTCCTCCTCCTCCTCGT 60.620 63.158 0.00 0.00 0.00 4.18
877 901 1.152839 CCTCCTCCTCCTCCTCGTC 60.153 68.421 0.00 0.00 0.00 4.20
878 902 1.525077 CTCCTCCTCCTCCTCGTCG 60.525 68.421 0.00 0.00 0.00 5.12
879 903 1.973816 CTCCTCCTCCTCCTCGTCGA 61.974 65.000 0.00 0.00 0.00 4.20
880 904 1.149627 CCTCCTCCTCCTCGTCGAT 59.850 63.158 0.00 0.00 0.00 3.59
881 905 0.887387 CCTCCTCCTCCTCGTCGATC 60.887 65.000 0.00 0.00 0.00 3.69
882 906 0.179043 CTCCTCCTCCTCGTCGATCA 60.179 60.000 0.00 0.00 0.00 2.92
883 907 0.474614 TCCTCCTCCTCGTCGATCAT 59.525 55.000 0.00 0.00 0.00 2.45
884 908 1.697982 TCCTCCTCCTCGTCGATCATA 59.302 52.381 0.00 0.00 0.00 2.15
885 909 2.306219 TCCTCCTCCTCGTCGATCATAT 59.694 50.000 0.00 0.00 0.00 1.78
2322 2367 1.536943 AACTCTCCCAGCAGGACGAC 61.537 60.000 0.00 0.00 40.93 4.34
2482 2527 2.868583 CGGGCTTCTGTAATGTGATGAG 59.131 50.000 0.00 0.00 0.00 2.90
2553 2598 2.982488 AGCTTTCGGATGGGATTAGGAT 59.018 45.455 0.00 0.00 0.00 3.24
2740 2786 8.207545 ACAGACCAAATTGGCTAACATTTTAAA 58.792 29.630 12.67 0.00 42.67 1.52
2748 2794 6.107901 TGGCTAACATTTTAAATGCCAGTT 57.892 33.333 16.57 6.97 43.09 3.16
2915 2961 5.531287 GTGAGGTGTGTTCTAGTTGGAAATT 59.469 40.000 0.00 0.00 0.00 1.82
2929 2975 5.888161 AGTTGGAAATTTGACTCTCACTTGT 59.112 36.000 0.00 0.00 0.00 3.16
2953 2999 2.970609 CACTTGTGTAAATTCCAACGCG 59.029 45.455 3.53 3.53 0.00 6.01
3026 3072 3.474600 GTGTAGCTGATTCCTGCATCAT 58.525 45.455 0.00 0.00 39.38 2.45
3035 3081 0.994247 TCCTGCATCATGGTCAAGGT 59.006 50.000 3.84 0.00 0.00 3.50
3068 3114 1.134371 TGTGTTGTCGGACAATGGACA 60.134 47.619 24.81 22.14 40.59 4.02
3153 3209 8.283291 GCAACATTATAAAGTCATAGTAGGTGC 58.717 37.037 0.00 0.00 0.00 5.01
3243 3299 6.156775 TCTCATGTCAAAGAGATGGGAATGTA 59.843 38.462 4.44 0.00 39.37 2.29
3280 3336 5.714047 TGTGGACATAATATGCTCGAGATC 58.286 41.667 18.75 0.00 0.00 2.75
3282 3338 4.772100 TGGACATAATATGCTCGAGATCCA 59.228 41.667 18.75 4.98 0.00 3.41
3367 3423 4.729227 TCAACTATAACATCAGACCGCA 57.271 40.909 0.00 0.00 0.00 5.69
3381 3437 1.404035 GACCGCACTTTTGACACCTTT 59.596 47.619 0.00 0.00 0.00 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 0.325671 CCAGGGGTAGAGCCAGAGAA 60.326 60.000 0.00 0.00 39.65 2.87
79 80 2.370445 CCAGTGGCCAGGGGTAGAG 61.370 68.421 5.11 0.00 0.00 2.43
99 100 0.320683 TGGTGAGTTGACGGATGCTG 60.321 55.000 0.00 0.00 0.00 4.41
116 117 2.644992 GCGCAACAAAGGTCCTGG 59.355 61.111 0.30 0.00 0.00 4.45
142 143 4.836125 TCACCTCAAAAGAGCAATGAAC 57.164 40.909 0.00 0.00 0.00 3.18
150 151 7.889589 AAAAACAAACTTCACCTCAAAAGAG 57.110 32.000 0.00 0.00 0.00 2.85
210 216 7.029563 CGGCATGCTCTTCTTTTTATTTAACT 58.970 34.615 18.92 0.00 0.00 2.24
211 217 6.806739 ACGGCATGCTCTTCTTTTTATTTAAC 59.193 34.615 18.92 0.00 0.00 2.01
212 218 6.919721 ACGGCATGCTCTTCTTTTTATTTAA 58.080 32.000 18.92 0.00 0.00 1.52
213 219 6.150307 TGACGGCATGCTCTTCTTTTTATTTA 59.850 34.615 18.92 0.00 0.00 1.40
214 220 5.048083 TGACGGCATGCTCTTCTTTTTATTT 60.048 36.000 18.92 0.00 0.00 1.40
215 221 4.458989 TGACGGCATGCTCTTCTTTTTATT 59.541 37.500 18.92 0.00 0.00 1.40
216 222 4.009675 TGACGGCATGCTCTTCTTTTTAT 58.990 39.130 18.92 0.00 0.00 1.40
217 223 3.188460 GTGACGGCATGCTCTTCTTTTTA 59.812 43.478 18.92 0.00 0.00 1.52
218 224 2.030805 GTGACGGCATGCTCTTCTTTTT 60.031 45.455 18.92 0.00 0.00 1.94
223 229 0.874390 TTTGTGACGGCATGCTCTTC 59.126 50.000 18.92 11.75 0.00 2.87
230 236 2.223711 GGTCAAGTTTTTGTGACGGCAT 60.224 45.455 0.00 0.00 44.19 4.40
262 268 7.808856 CCGTAATGTTTTTCTTTTCCGGATTAA 59.191 33.333 4.15 1.67 33.09 1.40
263 269 7.040548 ACCGTAATGTTTTTCTTTTCCGGATTA 60.041 33.333 4.15 0.00 34.21 1.75
264 270 6.153756 CCGTAATGTTTTTCTTTTCCGGATT 58.846 36.000 4.15 0.00 33.09 3.01
266 272 4.579753 ACCGTAATGTTTTTCTTTTCCGGA 59.420 37.500 0.00 0.00 34.21 5.14
267 273 4.862350 ACCGTAATGTTTTTCTTTTCCGG 58.138 39.130 0.00 0.00 35.15 5.14
269 275 8.456904 GGATTACCGTAATGTTTTTCTTTTCC 57.543 34.615 8.55 0.00 0.00 3.13
286 297 6.468109 GGTTCTAGAAAGAAGCGGATTACCG 61.468 48.000 6.78 4.21 46.84 4.02
310 321 4.056050 ACTACAAAACTACTCGCCTTGTG 58.944 43.478 0.00 0.00 32.69 3.33
314 325 4.304939 GAACACTACAAAACTACTCGCCT 58.695 43.478 0.00 0.00 0.00 5.52
317 328 3.671928 CGGGAACACTACAAAACTACTCG 59.328 47.826 0.00 0.00 0.00 4.18
319 330 3.181463 TGCGGGAACACTACAAAACTACT 60.181 43.478 0.00 0.00 0.00 2.57
320 331 3.132925 TGCGGGAACACTACAAAACTAC 58.867 45.455 0.00 0.00 0.00 2.73
321 332 3.472283 TGCGGGAACACTACAAAACTA 57.528 42.857 0.00 0.00 0.00 2.24
322 333 2.335316 TGCGGGAACACTACAAAACT 57.665 45.000 0.00 0.00 0.00 2.66
323 334 3.423996 TTTGCGGGAACACTACAAAAC 57.576 42.857 0.00 0.00 0.00 2.43
346 357 6.457799 CCGTGCACTACAAAACTACTCTTTTT 60.458 38.462 16.19 0.00 0.00 1.94
347 358 5.007332 CCGTGCACTACAAAACTACTCTTTT 59.993 40.000 16.19 0.00 0.00 2.27
348 359 4.510340 CCGTGCACTACAAAACTACTCTTT 59.490 41.667 16.19 0.00 0.00 2.52
349 360 4.056050 CCGTGCACTACAAAACTACTCTT 58.944 43.478 16.19 0.00 0.00 2.85
350 361 3.069158 ACCGTGCACTACAAAACTACTCT 59.931 43.478 16.19 0.00 0.00 3.24
351 362 3.183775 CACCGTGCACTACAAAACTACTC 59.816 47.826 16.19 0.00 0.00 2.59
427 438 0.107831 CTTTTGTCACGACCCCTGGA 59.892 55.000 0.00 0.00 0.00 3.86
428 439 0.107831 TCTTTTGTCACGACCCCTGG 59.892 55.000 0.00 0.00 0.00 4.45
561 572 7.175797 GGTTCTATTATAGAGGGGAAAATGGG 58.824 42.308 2.00 0.00 35.96 4.00
634 648 4.273257 GGCCGAGCCGAGTAGAGC 62.273 72.222 0.00 0.00 39.62 4.09
668 682 3.400054 GGGTGGGGAGAACGGAGG 61.400 72.222 0.00 0.00 0.00 4.30
776 796 4.509737 GAGCTGGGGACGCGGTAC 62.510 72.222 12.47 0.71 35.50 3.34
836 860 2.237143 GGAGATGGTTGAGGTGTGATGA 59.763 50.000 0.00 0.00 0.00 2.92
866 890 4.513692 GGATATATGATCGACGAGGAGGAG 59.486 50.000 3.01 0.00 0.00 3.69
869 893 4.513692 GGAGGATATATGATCGACGAGGAG 59.486 50.000 3.01 0.00 0.00 3.69
872 896 5.119694 TGAGGAGGATATATGATCGACGAG 58.880 45.833 3.01 0.00 0.00 4.18
873 897 5.099042 TGAGGAGGATATATGATCGACGA 57.901 43.478 0.00 0.00 0.00 4.20
874 898 5.049060 GGATGAGGAGGATATATGATCGACG 60.049 48.000 0.00 0.00 0.00 5.12
875 899 5.242838 GGGATGAGGAGGATATATGATCGAC 59.757 48.000 0.00 0.00 0.00 4.20
876 900 5.389520 GGGATGAGGAGGATATATGATCGA 58.610 45.833 0.00 0.00 0.00 3.59
877 901 4.217334 CGGGATGAGGAGGATATATGATCG 59.783 50.000 0.00 0.00 0.00 3.69
878 902 4.021544 GCGGGATGAGGAGGATATATGATC 60.022 50.000 0.00 0.00 0.00 2.92
879 903 3.900601 GCGGGATGAGGAGGATATATGAT 59.099 47.826 0.00 0.00 0.00 2.45
880 904 3.300388 GCGGGATGAGGAGGATATATGA 58.700 50.000 0.00 0.00 0.00 2.15
881 905 2.035193 CGCGGGATGAGGAGGATATATG 59.965 54.545 0.00 0.00 0.00 1.78
882 906 2.311463 CGCGGGATGAGGAGGATATAT 58.689 52.381 0.00 0.00 0.00 0.86
883 907 1.005569 ACGCGGGATGAGGAGGATATA 59.994 52.381 12.47 0.00 0.00 0.86
884 908 0.251832 ACGCGGGATGAGGAGGATAT 60.252 55.000 12.47 0.00 0.00 1.63
885 909 0.894184 GACGCGGGATGAGGAGGATA 60.894 60.000 12.47 0.00 0.00 2.59
1124 1148 1.669999 GCCGCCGTAGTAAGGGAAGA 61.670 60.000 4.19 0.00 31.98 2.87
1283 1307 4.148825 CCTTCCTCCTGACCGCCG 62.149 72.222 0.00 0.00 0.00 6.46
1629 1653 2.725312 GCAGGTGGAGATGCCGAGA 61.725 63.158 0.00 0.00 40.66 4.04
2293 2338 0.178944 TGGGAGAGTTCGGACTGGAA 60.179 55.000 0.00 0.00 35.88 3.53
2482 2527 4.194640 TGCTTTCATGGAAGATCAGTAGC 58.805 43.478 18.45 0.16 0.00 3.58
2525 2570 2.158957 TCCCATCCGAAAGCTGTATGTC 60.159 50.000 0.00 0.00 0.00 3.06
2915 2961 5.580691 CACAAGTGTAACAAGTGAGAGTCAA 59.419 40.000 0.00 0.00 43.60 3.18
2953 2999 0.739813 CACGAGACCCGGATGGAAAC 60.740 60.000 0.73 0.00 43.93 2.78
3026 3072 2.684943 TGACCTTCTACACCTTGACCA 58.315 47.619 0.00 0.00 0.00 4.02
3035 3081 4.055360 CGACAACACAATGACCTTCTACA 58.945 43.478 0.00 0.00 0.00 2.74
3095 3141 6.912203 TTTGCAATTCATTATGCTGGATTG 57.088 33.333 0.00 1.22 42.63 2.67
3153 3209 2.858344 CTCTTAGTTGACATTACCGCGG 59.142 50.000 26.86 26.86 0.00 6.46
3187 3243 6.533730 AGACTCACTGTTCCATGTTTTATGA 58.466 36.000 0.00 0.00 0.00 2.15
3243 3299 2.371841 TGTCCACATGACTTTAGCACCT 59.628 45.455 0.00 0.00 44.75 4.00
3264 3320 9.979578 GATTTCTATGGATCTCGAGCATATTAT 57.020 33.333 7.81 0.00 0.00 1.28
3280 3336 7.636150 AAGACTGGTCAATTGATTTCTATGG 57.364 36.000 12.12 0.00 0.00 2.74
3367 3423 7.386059 AGAAATTGTTGAAAGGTGTCAAAAGT 58.614 30.769 0.00 0.00 39.18 2.66
3412 3468 2.106511 CTCTGGAAAAACCTGTCCTGGA 59.893 50.000 0.00 0.00 39.86 3.86


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

AutoCloner maintained by Alex Coulton.