Multiple sequence alignment - TraesCS6D01G294700

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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 TraesCS6D01G294700 chr6D 100.000 3671 0 0 1 3671 405588619 405584949 0.000000e+00 6780.0
1 TraesCS6D01G294700 chr6D 95.082 61 3 0 3088 3148 413075563 413075623 3.020000e-16 97.1
2 TraesCS6D01G294700 chr6D 97.143 35 0 1 3054 3088 4370830 4370797 1.420000e-04 58.4
3 TraesCS6D01G294700 chr6D 97.059 34 1 0 3054 3087 395533085 395533118 1.420000e-04 58.4
4 TraesCS6D01G294700 chr6B 96.091 2916 79 19 765 3671 609846644 609843755 0.000000e+00 4721.0
5 TraesCS6D01G294700 chr6B 79.863 293 21 17 416 694 609846934 609846666 2.910000e-41 180.0
6 TraesCS6D01G294700 chr6A 95.796 2355 59 13 783 3127 551984559 551982235 0.000000e+00 3764.0
7 TraesCS6D01G294700 chr6A 94.536 549 27 2 3125 3671 551982112 551981565 0.000000e+00 845.0
8 TraesCS6D01G294700 chr6A 83.151 730 64 25 3 675 551986576 551985849 2.420000e-171 612.0
9 TraesCS6D01G294700 chr6A 92.453 106 8 0 310 415 79998470 79998575 6.350000e-33 152.0
10 TraesCS6D01G294700 chr7A 95.327 107 5 0 311 417 736095396 736095290 1.750000e-38 171.0
11 TraesCS6D01G294700 chr5A 90.164 122 12 0 305 426 503510719 503510598 3.790000e-35 159.0
12 TraesCS6D01G294700 chr5A 91.892 111 9 0 310 420 664849601 664849491 4.910000e-34 156.0
13 TraesCS6D01G294700 chr5A 84.884 86 10 1 3062 3147 414416095 414416177 2.350000e-12 84.2
14 TraesCS6D01G294700 chr7B 89.600 125 11 2 303 427 380710000 380709878 1.360000e-34 158.0
15 TraesCS6D01G294700 chr4B 92.661 109 8 0 309 417 79997267 79997159 1.360000e-34 158.0
16 TraesCS6D01G294700 chr4B 92.424 66 5 0 3088 3153 446336629 446336564 1.090000e-15 95.3
17 TraesCS6D01G294700 chr2D 90.000 120 11 1 301 420 423290310 423290428 1.770000e-33 154.0
18 TraesCS6D01G294700 chr2D 95.161 62 2 1 3088 3148 78527713 78527774 3.020000e-16 97.1
19 TraesCS6D01G294700 chr2D 85.915 71 10 0 3056 3126 127777579 127777649 3.930000e-10 76.8
20 TraesCS6D01G294700 chr2D 78.125 96 17 4 509 600 551876938 551877033 1.420000e-04 58.4
21 TraesCS6D01G294700 chr1A 89.431 123 12 1 296 418 502682130 502682009 1.770000e-33 154.0
22 TraesCS6D01G294700 chrUn 88.000 125 14 1 302 426 225570276 225570153 2.950000e-31 147.0
23 TraesCS6D01G294700 chr5D 90.805 87 7 1 3061 3147 233039685 233039600 8.330000e-22 115.0
24 TraesCS6D01G294700 chr5B 95.000 60 3 0 3088 3147 658642881 658642940 1.090000e-15 95.3
25 TraesCS6D01G294700 chr4A 83.333 72 11 1 508 579 466113054 466112984 8.510000e-07 65.8
26 TraesCS6D01G294700 chr7D 100.000 32 0 0 3056 3087 621770655 621770686 3.960000e-05 60.2
27 TraesCS6D01G294700 chr2A 96.774 31 1 0 506 536 692653435 692653465 7.000000e-03 52.8


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 TraesCS6D01G294700 chr6D 405584949 405588619 3670 True 6780.000000 6780 100.000 1 3671 1 chr6D.!!$R2 3670
1 TraesCS6D01G294700 chr6B 609843755 609846934 3179 True 2450.500000 4721 87.977 416 3671 2 chr6B.!!$R1 3255
2 TraesCS6D01G294700 chr6A 551981565 551986576 5011 True 1740.333333 3764 91.161 3 3671 3 chr6A.!!$R1 3668

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
23 24 0.248289 ATAAGACGTGGTTGACCCCG 59.752 55.0 3.47 3.47 34.29 5.73 F
888 2220 0.336737 TCCCCTCCCTCTTCTCAGTC 59.663 60.0 0.00 0.00 0.00 3.51 F
904 2236 0.608640 AGTCGTCAGAACCCACCATC 59.391 55.0 0.00 0.00 0.00 3.51 F
2412 3750 1.011968 GTCGGCGTGCTGTTGATACA 61.012 55.0 6.85 0.00 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1849 3187 0.325933 TCTGGGGTGTGCTTCATCTG 59.674 55.000 0.00 0.0 0.00 2.90 R
2541 3879 1.076192 AAGGTTGCCAGCAGCTGAT 59.924 52.632 24.90 8.9 44.23 2.90 R
2549 3887 1.594194 TATTGCGCCAAGGTTGCCAG 61.594 55.000 4.18 0.0 0.00 4.85 R
3339 4812 2.131776 TGAACCGGTTTTTGGAGTGT 57.868 45.000 23.22 0.0 0.00 3.55 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
22 23 3.615224 TTATAAGACGTGGTTGACCCC 57.385 47.619 0.00 0.00 34.29 4.95
23 24 0.248289 ATAAGACGTGGTTGACCCCG 59.752 55.000 3.47 3.47 34.29 5.73
74 77 1.742268 GGACGCGTAGGACTCTAAGTT 59.258 52.381 13.97 0.00 0.00 2.66
84 87 7.148836 GCGTAGGACTCTAAGTTAGTTGTTTTC 60.149 40.741 9.71 5.30 0.00 2.29
89 92 9.551734 GGACTCTAAGTTAGTTGTTTTCCTTTA 57.448 33.333 9.71 0.00 0.00 1.85
125 128 8.743085 AATATAATCCATGTATGCACCTCATC 57.257 34.615 0.00 0.00 36.63 2.92
192 195 2.224378 GGCCTGATATGCAGCTCAGTTA 60.224 50.000 20.75 0.00 43.50 2.24
194 197 3.683822 GCCTGATATGCAGCTCAGTTATC 59.316 47.826 20.75 9.89 43.50 1.75
196 199 5.170021 CCTGATATGCAGCTCAGTTATCTC 58.830 45.833 20.75 0.00 43.50 2.75
200 203 1.550524 TGCAGCTCAGTTATCTCCGTT 59.449 47.619 0.00 0.00 0.00 4.44
211 214 6.153851 TCAGTTATCTCCGTTGGTTCTATCAA 59.846 38.462 0.00 0.00 0.00 2.57
214 217 8.047310 AGTTATCTCCGTTGGTTCTATCAATTT 58.953 33.333 0.00 0.00 0.00 1.82
283 286 8.121305 TGTTTTGAGGAACTATACAATTGCAT 57.879 30.769 5.05 0.00 41.55 3.96
284 287 8.028354 TGTTTTGAGGAACTATACAATTGCATG 58.972 33.333 5.05 0.00 41.55 4.06
287 290 5.066375 TGAGGAACTATACAATTGCATGTGC 59.934 40.000 5.05 0.00 41.55 4.57
317 320 7.628234 CAATGAGGCATAAATATCTACTCCCT 58.372 38.462 0.00 0.00 0.00 4.20
318 321 7.821134 ATGAGGCATAAATATCTACTCCCTT 57.179 36.000 0.00 0.00 0.00 3.95
319 322 7.246171 TGAGGCATAAATATCTACTCCCTTC 57.754 40.000 0.00 0.00 0.00 3.46
320 323 6.071334 TGAGGCATAAATATCTACTCCCTTCG 60.071 42.308 0.00 0.00 0.00 3.79
323 326 6.590677 GGCATAAATATCTACTCCCTTCGTTC 59.409 42.308 0.00 0.00 0.00 3.95
324 327 6.590677 GCATAAATATCTACTCCCTTCGTTCC 59.409 42.308 0.00 0.00 0.00 3.62
327 330 6.555463 AATATCTACTCCCTTCGTTCCAAA 57.445 37.500 0.00 0.00 0.00 3.28
329 332 4.903045 TCTACTCCCTTCGTTCCAAATT 57.097 40.909 0.00 0.00 0.00 1.82
330 333 6.555463 ATCTACTCCCTTCGTTCCAAATTA 57.445 37.500 0.00 0.00 0.00 1.40
331 334 5.727434 TCTACTCCCTTCGTTCCAAATTAC 58.273 41.667 0.00 0.00 0.00 1.89
333 336 4.576879 ACTCCCTTCGTTCCAAATTACTC 58.423 43.478 0.00 0.00 0.00 2.59
334 337 4.041198 ACTCCCTTCGTTCCAAATTACTCA 59.959 41.667 0.00 0.00 0.00 3.41
335 338 5.174037 TCCCTTCGTTCCAAATTACTCAT 57.826 39.130 0.00 0.00 0.00 2.90
337 340 4.034048 CCCTTCGTTCCAAATTACTCATCG 59.966 45.833 0.00 0.00 0.00 3.84
338 341 4.494199 CCTTCGTTCCAAATTACTCATCGC 60.494 45.833 0.00 0.00 0.00 4.58
340 343 3.616821 TCGTTCCAAATTACTCATCGCAG 59.383 43.478 0.00 0.00 0.00 5.18
341 344 3.616821 CGTTCCAAATTACTCATCGCAGA 59.383 43.478 0.00 0.00 45.75 4.26
342 345 4.092821 CGTTCCAAATTACTCATCGCAGAA 59.907 41.667 0.00 0.00 43.58 3.02
343 346 5.390461 CGTTCCAAATTACTCATCGCAGAAA 60.390 40.000 0.00 0.00 43.58 2.52
344 347 6.555315 GTTCCAAATTACTCATCGCAGAAAT 58.445 36.000 0.00 0.00 43.58 2.17
345 348 7.465379 CGTTCCAAATTACTCATCGCAGAAATA 60.465 37.037 0.00 0.00 43.58 1.40
349 361 8.013947 CCAAATTACTCATCGCAGAAATAGATG 58.986 37.037 0.00 0.00 43.58 2.90
353 365 8.972262 TTACTCATCGCAGAAATAGATGTATC 57.028 34.615 4.85 0.00 43.58 2.24
358 370 9.014297 TCATCGCAGAAATAGATGTATCTAGAA 57.986 33.333 0.00 0.00 43.58 2.10
359 371 9.071221 CATCGCAGAAATAGATGTATCTAGAAC 57.929 37.037 0.00 0.00 43.58 3.01
360 372 8.397575 TCGCAGAAATAGATGTATCTAGAACT 57.602 34.615 0.00 4.12 42.20 3.01
361 373 9.503399 TCGCAGAAATAGATGTATCTAGAACTA 57.497 33.333 0.00 0.00 42.20 2.24
390 402 7.658179 ACATTTAGATACATCCATACAAGCG 57.342 36.000 0.00 0.00 0.00 4.68
391 403 7.441836 ACATTTAGATACATCCATACAAGCGA 58.558 34.615 0.00 0.00 0.00 4.93
392 404 7.385205 ACATTTAGATACATCCATACAAGCGAC 59.615 37.037 0.00 0.00 0.00 5.19
395 407 5.670485 AGATACATCCATACAAGCGACAAA 58.330 37.500 0.00 0.00 0.00 2.83
396 408 6.291377 AGATACATCCATACAAGCGACAAAT 58.709 36.000 0.00 0.00 0.00 2.32
397 409 7.441836 AGATACATCCATACAAGCGACAAATA 58.558 34.615 0.00 0.00 0.00 1.40
398 410 5.991328 ACATCCATACAAGCGACAAATAG 57.009 39.130 0.00 0.00 0.00 1.73
399 411 5.428253 ACATCCATACAAGCGACAAATAGT 58.572 37.500 0.00 0.00 0.00 2.12
400 412 5.880332 ACATCCATACAAGCGACAAATAGTT 59.120 36.000 0.00 0.00 0.00 2.24
401 413 6.037172 ACATCCATACAAGCGACAAATAGTTC 59.963 38.462 0.00 0.00 0.00 3.01
402 414 5.483811 TCCATACAAGCGACAAATAGTTCA 58.516 37.500 0.00 0.00 0.00 3.18
445 467 1.669265 GCCCGTAATTTACCTGCTCAC 59.331 52.381 1.04 0.00 0.00 3.51
448 470 3.312421 CCCGTAATTTACCTGCTCACATG 59.688 47.826 1.04 0.00 0.00 3.21
524 548 4.575885 AGCGCTTATTGACTTACCAAAGA 58.424 39.130 2.64 0.00 36.50 2.52
625 694 2.291043 GCGAGAGGGAGGGGAAACA 61.291 63.158 0.00 0.00 0.00 2.83
806 2136 6.322456 TGGAAAAATGTGTGTAATGAGTCCAA 59.678 34.615 0.00 0.00 0.00 3.53
875 2207 2.124411 TGTTAGGCCTACAATCCCCTC 58.876 52.381 13.46 0.00 0.00 4.30
878 2210 1.386057 GGCCTACAATCCCCTCCCT 60.386 63.158 0.00 0.00 0.00 4.20
879 2211 1.419720 GGCCTACAATCCCCTCCCTC 61.420 65.000 0.00 0.00 0.00 4.30
880 2212 0.400670 GCCTACAATCCCCTCCCTCT 60.401 60.000 0.00 0.00 0.00 3.69
882 2214 2.050918 CCTACAATCCCCTCCCTCTTC 58.949 57.143 0.00 0.00 0.00 2.87
883 2215 2.360854 CCTACAATCCCCTCCCTCTTCT 60.361 54.545 0.00 0.00 0.00 2.85
884 2216 1.886422 ACAATCCCCTCCCTCTTCTC 58.114 55.000 0.00 0.00 0.00 2.87
885 2217 1.081174 ACAATCCCCTCCCTCTTCTCA 59.919 52.381 0.00 0.00 0.00 3.27
886 2218 1.767681 CAATCCCCTCCCTCTTCTCAG 59.232 57.143 0.00 0.00 0.00 3.35
887 2219 1.022903 ATCCCCTCCCTCTTCTCAGT 58.977 55.000 0.00 0.00 0.00 3.41
888 2220 0.336737 TCCCCTCCCTCTTCTCAGTC 59.663 60.000 0.00 0.00 0.00 3.51
889 2221 1.040339 CCCCTCCCTCTTCTCAGTCG 61.040 65.000 0.00 0.00 0.00 4.18
904 2236 0.608640 AGTCGTCAGAACCCACCATC 59.391 55.000 0.00 0.00 0.00 3.51
1626 2964 1.073722 CAACCTCAGGAAGCTGGCA 59.926 57.895 0.00 0.00 0.00 4.92
1849 3187 2.911484 AGGTGCTCGAGGAAATGATTC 58.089 47.619 15.58 0.00 34.66 2.52
2037 3375 1.303309 CCAAAGCTGATCGGATGGAC 58.697 55.000 5.48 0.00 0.00 4.02
2262 3600 1.131883 GCTGATGATGCGCTCAAACTT 59.868 47.619 9.73 0.00 37.44 2.66
2323 3661 9.045223 GTGTTCATACTTACAATATGCTGATGA 57.955 33.333 0.00 0.00 31.26 2.92
2397 3735 1.186200 TGGACAAGAGAGGATGTCGG 58.814 55.000 0.00 0.00 45.39 4.79
2412 3750 1.011968 GTCGGCGTGCTGTTGATACA 61.012 55.000 6.85 0.00 0.00 2.29
2541 3879 6.707608 AGTTCGATTCTATCATGCTGCAATTA 59.292 34.615 6.36 0.00 0.00 1.40
2773 4115 7.177921 TGCCAACTATTAGTAGCCGTATTAGAT 59.822 37.037 13.38 0.00 29.42 1.98
2774 4116 8.680903 GCCAACTATTAGTAGCCGTATTAGATA 58.319 37.037 0.00 0.00 0.00 1.98
2825 4167 8.604890 GTCATCAGTACTTATTTTGCCTACTTC 58.395 37.037 0.00 0.00 0.00 3.01
3072 4415 6.391947 TCCCTCATATATATTACTCCCTCCGA 59.608 42.308 0.00 0.00 0.00 4.55
3121 4467 8.693120 ACATCCGTATCTAGACAAATCTAAGA 57.307 34.615 0.00 0.00 36.98 2.10
3127 4598 9.790389 CGTATCTAGACAAATCTAAGACAAGTT 57.210 33.333 0.00 0.00 36.98 2.66
3225 4698 6.656314 TTCAATAACCTATGCAACAGTACG 57.344 37.500 0.00 0.00 0.00 3.67
3339 4812 2.039348 GGTTTGCAGTCCTACCTTACCA 59.961 50.000 2.56 0.00 0.00 3.25
3353 4826 2.292292 CCTTACCACACTCCAAAAACCG 59.708 50.000 0.00 0.00 0.00 4.44
3359 4832 2.360801 CACACTCCAAAAACCGGTTCAT 59.639 45.455 22.53 10.24 0.00 2.57
3384 4857 4.022503 GCCTGAAAGAAATGCAGAGAAACT 60.023 41.667 0.00 0.00 34.07 2.66
3477 4950 6.867519 TGATGTAAATACTCTGGAACCTGA 57.132 37.500 0.00 0.00 0.00 3.86
3478 4951 6.878317 TGATGTAAATACTCTGGAACCTGAG 58.122 40.000 20.70 20.70 44.27 3.35
3524 4997 8.971073 ACTGAAATATGAAAATCCCTTACTTGG 58.029 33.333 0.00 0.00 0.00 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.875134 GGGGTCAACCACGTCTTATAATG 59.125 47.826 0.89 0.00 42.91 1.90
1 2 4.146745 GGGGTCAACCACGTCTTATAAT 57.853 45.455 0.89 0.00 42.91 1.28
11 12 2.282180 ATGTGCGGGGTCAACCAC 60.282 61.111 0.89 0.00 42.91 4.16
22 23 9.599322 GTTCTCCTAATTTATAATTCATGTGCG 57.401 33.333 0.00 0.00 0.00 5.34
56 59 3.604582 ACTAACTTAGAGTCCTACGCGT 58.395 45.455 19.17 19.17 0.00 6.01
106 109 4.442401 TTGATGAGGTGCATACATGGAT 57.558 40.909 0.00 0.00 37.34 3.41
111 114 8.347004 TCTTTTTAATTGATGAGGTGCATACA 57.653 30.769 0.00 0.00 37.34 2.29
192 195 7.112779 AGAAAATTGATAGAACCAACGGAGAT 58.887 34.615 0.00 0.00 0.00 2.75
194 197 6.743575 AGAAAATTGATAGAACCAACGGAG 57.256 37.500 0.00 0.00 0.00 4.63
196 199 7.145932 AGAAGAAAATTGATAGAACCAACGG 57.854 36.000 0.00 0.00 0.00 4.44
245 248 4.927425 TCCTCAAAACAAGTATAGACACGC 59.073 41.667 0.00 0.00 0.00 5.34
283 286 1.525718 ATGCCTCATTGCAACGCACA 61.526 50.000 0.00 0.00 45.84 4.57
284 287 0.451383 TATGCCTCATTGCAACGCAC 59.549 50.000 0.00 0.00 45.84 5.34
287 290 6.005583 AGATATTTATGCCTCATTGCAACG 57.994 37.500 0.00 0.00 45.84 4.10
295 298 6.071334 CGAAGGGAGTAGATATTTATGCCTCA 60.071 42.308 0.00 0.00 29.44 3.86
317 320 3.997681 TGCGATGAGTAATTTGGAACGAA 59.002 39.130 0.00 0.00 0.00 3.85
318 321 3.591023 TGCGATGAGTAATTTGGAACGA 58.409 40.909 0.00 0.00 0.00 3.85
319 322 3.616821 TCTGCGATGAGTAATTTGGAACG 59.383 43.478 0.00 0.00 0.00 3.95
320 323 5.545658 TTCTGCGATGAGTAATTTGGAAC 57.454 39.130 0.00 0.00 0.00 3.62
323 326 7.482654 TCTATTTCTGCGATGAGTAATTTGG 57.517 36.000 0.00 0.00 0.00 3.28
324 327 8.554528 ACATCTATTTCTGCGATGAGTAATTTG 58.445 33.333 5.59 0.00 38.27 2.32
327 330 9.579768 GATACATCTATTTCTGCGATGAGTAAT 57.420 33.333 5.59 0.00 38.27 1.89
329 332 8.341892 AGATACATCTATTTCTGCGATGAGTA 57.658 34.615 5.59 0.00 38.27 2.59
330 333 7.225784 AGATACATCTATTTCTGCGATGAGT 57.774 36.000 5.59 0.00 38.27 3.41
331 334 8.672815 TCTAGATACATCTATTTCTGCGATGAG 58.327 37.037 5.59 0.00 38.60 2.90
333 336 9.071221 GTTCTAGATACATCTATTTCTGCGATG 57.929 37.037 0.00 0.00 38.60 3.84
334 337 9.019656 AGTTCTAGATACATCTATTTCTGCGAT 57.980 33.333 0.00 0.00 38.60 4.58
335 338 8.397575 AGTTCTAGATACATCTATTTCTGCGA 57.602 34.615 0.00 0.00 38.60 5.10
364 376 9.371136 CGCTTGTATGGATGTATCTAAATGTAT 57.629 33.333 0.00 0.00 0.00 2.29
367 379 7.384932 TGTCGCTTGTATGGATGTATCTAAATG 59.615 37.037 0.00 0.00 0.00 2.32
368 380 7.441836 TGTCGCTTGTATGGATGTATCTAAAT 58.558 34.615 0.00 0.00 0.00 1.40
369 381 6.811954 TGTCGCTTGTATGGATGTATCTAAA 58.188 36.000 0.00 0.00 0.00 1.85
375 387 6.578944 ACTATTTGTCGCTTGTATGGATGTA 58.421 36.000 0.00 0.00 0.00 2.29
378 390 6.112734 TGAACTATTTGTCGCTTGTATGGAT 58.887 36.000 0.00 0.00 0.00 3.41
382 394 6.183360 CGTTCTGAACTATTTGTCGCTTGTAT 60.183 38.462 17.60 0.00 0.00 2.29
385 397 4.386230 CGTTCTGAACTATTTGTCGCTTG 58.614 43.478 17.60 0.00 0.00 4.01
386 398 3.432252 CCGTTCTGAACTATTTGTCGCTT 59.568 43.478 17.60 0.00 0.00 4.68
387 399 2.993899 CCGTTCTGAACTATTTGTCGCT 59.006 45.455 17.60 0.00 0.00 4.93
388 400 2.991190 TCCGTTCTGAACTATTTGTCGC 59.009 45.455 17.60 0.00 0.00 5.19
389 401 3.612860 CCTCCGTTCTGAACTATTTGTCG 59.387 47.826 17.60 2.81 0.00 4.35
390 402 3.933332 CCCTCCGTTCTGAACTATTTGTC 59.067 47.826 17.60 0.00 0.00 3.18
391 403 3.581332 TCCCTCCGTTCTGAACTATTTGT 59.419 43.478 17.60 0.00 0.00 2.83
392 404 4.184629 CTCCCTCCGTTCTGAACTATTTG 58.815 47.826 17.60 2.63 0.00 2.32
395 407 3.103080 ACTCCCTCCGTTCTGAACTAT 57.897 47.619 17.60 0.00 0.00 2.12
396 408 2.599408 ACTCCCTCCGTTCTGAACTA 57.401 50.000 17.60 5.76 0.00 2.24
397 409 2.225066 ACTACTCCCTCCGTTCTGAACT 60.225 50.000 17.60 0.05 0.00 3.01
398 410 2.169330 ACTACTCCCTCCGTTCTGAAC 58.831 52.381 10.48 10.48 0.00 3.18
399 411 2.599408 ACTACTCCCTCCGTTCTGAA 57.401 50.000 0.00 0.00 0.00 3.02
400 412 2.092538 CCTACTACTCCCTCCGTTCTGA 60.093 54.545 0.00 0.00 0.00 3.27
401 413 2.299521 CCTACTACTCCCTCCGTTCTG 58.700 57.143 0.00 0.00 0.00 3.02
402 414 1.921748 ACCTACTACTCCCTCCGTTCT 59.078 52.381 0.00 0.00 0.00 3.01
625 694 2.034812 GTCGTCCGCTTCTCCTTCATAT 59.965 50.000 0.00 0.00 0.00 1.78
770 2069 7.569240 ACACACATTTTTCCAATCCCTAAAAA 58.431 30.769 0.00 0.00 36.74 1.94
771 2070 7.130681 ACACACATTTTTCCAATCCCTAAAA 57.869 32.000 0.00 0.00 0.00 1.52
772 2071 6.739331 ACACACATTTTTCCAATCCCTAAA 57.261 33.333 0.00 0.00 0.00 1.85
773 2072 7.841282 TTACACACATTTTTCCAATCCCTAA 57.159 32.000 0.00 0.00 0.00 2.69
774 2073 7.671819 TCATTACACACATTTTTCCAATCCCTA 59.328 33.333 0.00 0.00 0.00 3.53
775 2074 6.496565 TCATTACACACATTTTTCCAATCCCT 59.503 34.615 0.00 0.00 0.00 4.20
776 2075 6.696411 TCATTACACACATTTTTCCAATCCC 58.304 36.000 0.00 0.00 0.00 3.85
777 2076 7.378181 ACTCATTACACACATTTTTCCAATCC 58.622 34.615 0.00 0.00 0.00 3.01
778 2077 7.542130 GGACTCATTACACACATTTTTCCAATC 59.458 37.037 0.00 0.00 0.00 2.67
779 2078 7.015098 TGGACTCATTACACACATTTTTCCAAT 59.985 33.333 0.00 0.00 0.00 3.16
780 2079 6.322456 TGGACTCATTACACACATTTTTCCAA 59.678 34.615 0.00 0.00 0.00 3.53
781 2080 5.830457 TGGACTCATTACACACATTTTTCCA 59.170 36.000 0.00 0.00 0.00 3.53
806 2136 1.433837 GCGGGCCGAACGTAATGAAT 61.434 55.000 33.44 0.00 0.00 2.57
875 2207 1.827681 TCTGACGACTGAGAAGAGGG 58.172 55.000 0.00 0.00 0.00 4.30
878 2210 1.887198 GGGTTCTGACGACTGAGAAGA 59.113 52.381 0.00 0.00 0.00 2.87
879 2211 1.613925 TGGGTTCTGACGACTGAGAAG 59.386 52.381 0.00 0.00 0.00 2.85
880 2212 1.340248 GTGGGTTCTGACGACTGAGAA 59.660 52.381 0.00 0.00 0.00 2.87
882 2214 0.038159 GGTGGGTTCTGACGACTGAG 60.038 60.000 0.00 0.00 0.00 3.35
883 2215 0.757561 TGGTGGGTTCTGACGACTGA 60.758 55.000 0.00 0.00 0.00 3.41
884 2216 0.321671 ATGGTGGGTTCTGACGACTG 59.678 55.000 0.00 0.00 0.00 3.51
885 2217 0.608640 GATGGTGGGTTCTGACGACT 59.391 55.000 0.00 0.00 0.00 4.18
886 2218 0.736325 CGATGGTGGGTTCTGACGAC 60.736 60.000 0.00 0.00 0.00 4.34
887 2219 0.896479 TCGATGGTGGGTTCTGACGA 60.896 55.000 0.00 0.00 0.00 4.20
888 2220 0.037697 TTCGATGGTGGGTTCTGACG 60.038 55.000 0.00 0.00 0.00 4.35
889 2221 1.804748 GTTTCGATGGTGGGTTCTGAC 59.195 52.381 0.00 0.00 0.00 3.51
904 2236 2.966309 GCGGAGGGTGCTTGTTTCG 61.966 63.158 0.00 0.00 0.00 3.46
1557 2895 4.135153 CCCAGCAGGTCCTCGACG 62.135 72.222 0.00 0.00 32.65 5.12
1849 3187 0.325933 TCTGGGGTGTGCTTCATCTG 59.674 55.000 0.00 0.00 0.00 2.90
2037 3375 2.481568 TGAAATCAGCTCAAAGCACTCG 59.518 45.455 1.29 0.00 45.56 4.18
2262 3600 1.615883 GCTTCTATCATCCTCTCGGCA 59.384 52.381 0.00 0.00 0.00 5.69
2397 3735 2.190161 TCGTATGTATCAACAGCACGC 58.810 47.619 9.36 0.00 42.91 5.34
2412 3750 6.716628 ACAGCCCATCAATCATTATTTCGTAT 59.283 34.615 0.00 0.00 0.00 3.06
2541 3879 1.076192 AAGGTTGCCAGCAGCTGAT 59.924 52.632 24.90 8.90 44.23 2.90
2549 3887 1.594194 TATTGCGCCAAGGTTGCCAG 61.594 55.000 4.18 0.00 0.00 4.85
2773 4115 4.206477 ACTGTACAGAATGCAGCACATA 57.794 40.909 29.30 0.00 44.44 2.29
2774 4116 3.063510 ACTGTACAGAATGCAGCACAT 57.936 42.857 29.30 0.00 44.44 3.21
2962 4304 4.023536 ACAGTATTGTAGCAACCGTTTTGG 60.024 41.667 0.00 0.00 38.88 3.28
3059 4402 6.503944 AGTAATATGGATCGGAGGGAGTAAT 58.496 40.000 0.00 0.00 0.00 1.89
3121 4467 5.672194 ACTCCCTCCAATCCATATAACTTGT 59.328 40.000 0.00 0.00 0.00 3.16
3127 4598 4.777896 GTGCTACTCCCTCCAATCCATATA 59.222 45.833 0.00 0.00 0.00 0.86
3136 4607 1.267121 GACAAGTGCTACTCCCTCCA 58.733 55.000 0.00 0.00 0.00 3.86
3164 4635 5.714047 CAAACTGATTTTTAGAGAAGGGGC 58.286 41.667 0.00 0.00 0.00 5.80
3248 4721 3.303461 CGATTGAAACACGCTGGTTTGTA 60.303 43.478 7.25 0.00 40.85 2.41
3288 4761 4.494350 CCAGCAAATGCAGGTATGATAC 57.506 45.455 8.28 0.00 42.05 2.24
3339 4812 2.131776 TGAACCGGTTTTTGGAGTGT 57.868 45.000 23.22 0.00 0.00 3.55
3359 4832 3.489355 TCTCTGCATTTCTTTCAGGCAA 58.511 40.909 0.00 0.00 33.58 4.52
3449 4922 6.651225 GGTTCCAGAGTATTTACATCATAGCC 59.349 42.308 0.00 0.00 0.00 3.93
3524 4997 7.378728 ACAGAAAGCGTTTAAAATAGAAGCAAC 59.621 33.333 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.