Multiple sequence alignment - TraesCS3D01G071900

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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 TraesCS3D01G071900 chr3D 100.000 3909 0 0 1 3909 32145769 32149677 0.000000e+00 7219.0
1 TraesCS3D01G071900 chr3D 88.087 277 27 5 363 636 290864883 290865156 1.350000e-84 324.0
2 TraesCS3D01G071900 chr3D 85.057 174 22 4 1157 1328 560827070 560827241 1.440000e-39 174.0
3 TraesCS3D01G071900 chr3D 80.000 230 38 8 1103 1328 560198818 560198593 3.130000e-36 163.0
4 TraesCS3D01G071900 chr3D 87.500 56 7 0 1435 1490 134963996 134963941 9.070000e-07 65.8
5 TraesCS3D01G071900 chr4D 99.378 3539 21 1 372 3909 35656403 35652865 0.000000e+00 6412.0
6 TraesCS3D01G071900 chr4D 98.833 257 2 1 1 257 35656657 35656402 1.280000e-124 457.0
7 TraesCS3D01G071900 chr4D 86.667 165 21 1 1159 1323 93761213 93761050 8.630000e-42 182.0
8 TraesCS3D01G071900 chr4D 86.538 52 7 0 1435 1486 98015409 98015358 1.520000e-04 58.4
9 TraesCS3D01G071900 chr3A 97.093 3337 31 19 612 3909 44549658 44552967 0.000000e+00 5565.0
10 TraesCS3D01G071900 chr3A 85.632 174 21 4 1157 1328 696290023 696289852 3.100000e-41 180.0
11 TraesCS3D01G071900 chr3A 85.632 174 21 4 1157 1328 696637412 696637583 3.100000e-41 180.0
12 TraesCS3D01G071900 chr3A 90.385 52 4 1 1435 1486 149716650 149716600 2.520000e-07 67.6
13 TraesCS3D01G071900 chr3B 97.976 1729 9 9 2106 3808 54739511 54741239 0.000000e+00 2976.0
14 TraesCS3D01G071900 chr3B 95.806 1383 16 10 718 2087 54738098 54739451 0.000000e+00 2194.0
15 TraesCS3D01G071900 chr3B 96.581 234 4 1 416 645 54737842 54738075 6.130000e-103 385.0
16 TraesCS3D01G071900 chr3B 96.396 222 8 0 1 222 54737613 54737834 2.220000e-97 366.0
17 TraesCS3D01G071900 chr3B 80.519 231 36 9 1103 1328 744340634 744340408 6.720000e-38 169.0
18 TraesCS3D01G071900 chr6D 88.530 279 26 5 361 636 337807480 337807755 2.250000e-87 333.0
19 TraesCS3D01G071900 chr6D 88.087 277 27 5 363 636 191495637 191495364 1.350000e-84 324.0
20 TraesCS3D01G071900 chr6D 87.500 56 7 0 1435 1490 61003321 61003376 9.070000e-07 65.8
21 TraesCS3D01G071900 chr4B 87.814 279 28 5 361 636 531472617 531472892 4.870000e-84 322.0
22 TraesCS3D01G071900 chr4B 86.275 51 5 2 1438 1486 139593650 139593600 2.000000e-03 54.7
23 TraesCS3D01G071900 chr7B 87.108 287 31 6 353 636 683556663 683556946 1.750000e-83 320.0
24 TraesCS3D01G071900 chr7B 87.108 287 31 6 353 636 683593171 683593454 1.750000e-83 320.0
25 TraesCS3D01G071900 chr7B 86.806 288 32 5 352 636 200678852 200679136 2.270000e-82 316.0
26 TraesCS3D01G071900 chr6B 87.500 56 7 0 1435 1490 134838679 134838734 9.070000e-07 65.8
27 TraesCS3D01G071900 chr6A 100.000 30 0 0 3776 3805 129336922 129336893 5.460000e-04 56.5
28 TraesCS3D01G071900 chr4A 96.970 33 1 0 3773 3805 649897871 649897903 5.460000e-04 56.5
29 TraesCS3D01G071900 chr5B 100.000 29 0 0 3777 3805 426991482 426991510 2.000000e-03 54.7
30 TraesCS3D01G071900 chr2B 92.308 39 1 1 3769 3805 182707636 182707674 2.000000e-03 54.7
31 TraesCS3D01G071900 chr2B 100.000 28 0 0 3853 3880 53464063 53464090 7.000000e-03 52.8
32 TraesCS3D01G071900 chr1A 92.308 39 2 1 3772 3809 107481943 107481981 2.000000e-03 54.7
33 TraesCS3D01G071900 chr7A 100.000 28 0 0 3778 3805 700786189 700786162 7.000000e-03 52.8
34 TraesCS3D01G071900 chr2D 100.000 28 0 0 3778 3805 558797762 558797789 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 TraesCS3D01G071900 chr3D 32145769 32149677 3908 False 7219.00 7219 100.00000 1 3909 1 chr3D.!!$F1 3908
1 TraesCS3D01G071900 chr4D 35652865 35656657 3792 True 3434.50 6412 99.10550 1 3909 2 chr4D.!!$R3 3908
2 TraesCS3D01G071900 chr3A 44549658 44552967 3309 False 5565.00 5565 97.09300 612 3909 1 chr3A.!!$F1 3297
3 TraesCS3D01G071900 chr3B 54737613 54741239 3626 False 1480.25 2976 96.68975 1 3808 4 chr3B.!!$F1 3807

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
314 315 0.034896 CCCACGCCTCTTGTACAGTT 59.965 55.0 0.00 0.0 0.00 3.16 F
342 343 0.991920 GGAAGGGTCAGATTCCCACA 59.008 55.0 3.79 0.0 46.82 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1420 1463 2.33862 CACGTTGTCTGCGAGGGA 59.661 61.111 0.0 0.0 0.0 4.20 R
3534 3651 5.81308 AGTGATAAATTGGACTTAACGGC 57.187 39.130 0.0 0.0 0.0 5.68 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
253 254 7.262048 GCCAACAATCCCGATAAAGATTTTAA 58.738 34.615 0.00 0.0 30.29 1.52
254 255 7.222031 GCCAACAATCCCGATAAAGATTTTAAC 59.778 37.037 0.00 0.0 30.29 2.01
255 256 8.466798 CCAACAATCCCGATAAAGATTTTAACT 58.533 33.333 0.00 0.0 30.29 2.24
256 257 9.289303 CAACAATCCCGATAAAGATTTTAACTG 57.711 33.333 0.00 0.0 30.29 3.16
257 258 7.480810 ACAATCCCGATAAAGATTTTAACTGC 58.519 34.615 0.00 0.0 30.29 4.40
258 259 7.339466 ACAATCCCGATAAAGATTTTAACTGCT 59.661 33.333 0.00 0.0 30.29 4.24
259 260 6.920569 TCCCGATAAAGATTTTAACTGCTC 57.079 37.500 0.00 0.0 0.00 4.26
260 261 6.650120 TCCCGATAAAGATTTTAACTGCTCT 58.350 36.000 0.00 0.0 0.00 4.09
261 262 6.538742 TCCCGATAAAGATTTTAACTGCTCTG 59.461 38.462 0.00 0.0 0.00 3.35
262 263 6.195165 CCGATAAAGATTTTAACTGCTCTGC 58.805 40.000 0.00 0.0 0.00 4.26
263 264 6.037610 CCGATAAAGATTTTAACTGCTCTGCT 59.962 38.462 0.00 0.0 0.00 4.24
264 265 7.224753 CCGATAAAGATTTTAACTGCTCTGCTA 59.775 37.037 0.00 0.0 0.00 3.49
265 266 8.058915 CGATAAAGATTTTAACTGCTCTGCTAC 58.941 37.037 0.00 0.0 0.00 3.58
266 267 9.103861 GATAAAGATTTTAACTGCTCTGCTACT 57.896 33.333 0.00 0.0 0.00 2.57
267 268 7.751768 AAAGATTTTAACTGCTCTGCTACTT 57.248 32.000 0.00 0.0 0.00 2.24
268 269 6.976636 AGATTTTAACTGCTCTGCTACTTC 57.023 37.500 0.00 0.0 0.00 3.01
269 270 5.877564 AGATTTTAACTGCTCTGCTACTTCC 59.122 40.000 0.00 0.0 0.00 3.46
270 271 2.941453 TAACTGCTCTGCTACTTCCG 57.059 50.000 0.00 0.0 0.00 4.30
271 272 0.969894 AACTGCTCTGCTACTTCCGT 59.030 50.000 0.00 0.0 0.00 4.69
272 273 0.969894 ACTGCTCTGCTACTTCCGTT 59.030 50.000 0.00 0.0 0.00 4.44
273 274 1.337260 ACTGCTCTGCTACTTCCGTTG 60.337 52.381 0.00 0.0 0.00 4.10
274 275 0.670546 TGCTCTGCTACTTCCGTTGC 60.671 55.000 0.00 0.0 41.35 4.17
275 276 0.390472 GCTCTGCTACTTCCGTTGCT 60.390 55.000 0.00 0.0 41.50 3.91
276 277 1.354040 CTCTGCTACTTCCGTTGCTG 58.646 55.000 0.00 0.0 41.50 4.41
277 278 0.670546 TCTGCTACTTCCGTTGCTGC 60.671 55.000 0.00 0.0 41.50 5.25
278 279 0.950555 CTGCTACTTCCGTTGCTGCA 60.951 55.000 0.00 0.0 41.50 4.41
279 280 1.227999 TGCTACTTCCGTTGCTGCAC 61.228 55.000 0.00 0.0 41.50 4.57
280 281 1.912371 GCTACTTCCGTTGCTGCACC 61.912 60.000 0.00 0.0 38.57 5.01
281 282 0.320771 CTACTTCCGTTGCTGCACCT 60.321 55.000 0.00 0.0 0.00 4.00
282 283 0.602638 TACTTCCGTTGCTGCACCTG 60.603 55.000 0.00 0.0 0.00 4.00
283 284 1.893808 CTTCCGTTGCTGCACCTGT 60.894 57.895 0.00 0.0 0.00 4.00
284 285 1.845809 CTTCCGTTGCTGCACCTGTC 61.846 60.000 0.00 0.0 0.00 3.51
285 286 3.716006 CCGTTGCTGCACCTGTCG 61.716 66.667 0.00 2.8 0.00 4.35
286 287 3.716006 CGTTGCTGCACCTGTCGG 61.716 66.667 0.00 0.0 0.00 4.79
287 288 3.357079 GTTGCTGCACCTGTCGGG 61.357 66.667 0.00 0.0 41.89 5.14
288 289 3.555324 TTGCTGCACCTGTCGGGA 61.555 61.111 0.00 0.0 38.76 5.14
289 290 3.825160 TTGCTGCACCTGTCGGGAC 62.825 63.158 0.00 0.0 38.76 4.46
290 291 4.008933 GCTGCACCTGTCGGGACT 62.009 66.667 4.16 0.0 38.76 3.85
291 292 2.047844 CTGCACCTGTCGGGACTG 60.048 66.667 4.16 0.0 38.76 3.51
292 293 2.523168 TGCACCTGTCGGGACTGA 60.523 61.111 4.16 0.0 38.76 3.41
293 294 1.892819 CTGCACCTGTCGGGACTGAT 61.893 60.000 4.16 0.0 38.76 2.90
294 295 1.296715 GCACCTGTCGGGACTGATT 59.703 57.895 4.16 0.0 38.76 2.57
295 296 0.741221 GCACCTGTCGGGACTGATTC 60.741 60.000 4.16 0.0 38.76 2.52
296 297 0.108138 CACCTGTCGGGACTGATTCC 60.108 60.000 4.16 0.0 45.00 3.01
303 304 2.990479 GGACTGATTCCCACGCCT 59.010 61.111 0.00 0.0 38.70 5.52
304 305 1.153349 GGACTGATTCCCACGCCTC 60.153 63.158 0.00 0.0 38.70 4.70
305 306 1.617947 GGACTGATTCCCACGCCTCT 61.618 60.000 0.00 0.0 38.70 3.69
306 307 0.250513 GACTGATTCCCACGCCTCTT 59.749 55.000 0.00 0.0 0.00 2.85
307 308 0.036010 ACTGATTCCCACGCCTCTTG 60.036 55.000 0.00 0.0 0.00 3.02
308 309 0.036010 CTGATTCCCACGCCTCTTGT 60.036 55.000 0.00 0.0 0.00 3.16
309 310 1.207089 CTGATTCCCACGCCTCTTGTA 59.793 52.381 0.00 0.0 0.00 2.41
310 311 1.066430 TGATTCCCACGCCTCTTGTAC 60.066 52.381 0.00 0.0 0.00 2.90
311 312 0.981183 ATTCCCACGCCTCTTGTACA 59.019 50.000 0.00 0.0 0.00 2.90
312 313 0.320374 TTCCCACGCCTCTTGTACAG 59.680 55.000 0.00 0.0 0.00 2.74
313 314 0.830444 TCCCACGCCTCTTGTACAGT 60.830 55.000 0.00 0.0 0.00 3.55
314 315 0.034896 CCCACGCCTCTTGTACAGTT 59.965 55.000 0.00 0.0 0.00 3.16
315 316 1.148310 CCACGCCTCTTGTACAGTTG 58.852 55.000 0.00 0.0 0.00 3.16
316 317 1.540363 CCACGCCTCTTGTACAGTTGT 60.540 52.381 0.00 0.0 0.00 3.32
317 318 1.792949 CACGCCTCTTGTACAGTTGTC 59.207 52.381 0.00 0.0 0.00 3.18
318 319 1.270147 ACGCCTCTTGTACAGTTGTCC 60.270 52.381 0.00 0.0 0.00 4.02
319 320 1.429463 GCCTCTTGTACAGTTGTCCG 58.571 55.000 0.00 0.0 0.00 4.79
320 321 1.000506 GCCTCTTGTACAGTTGTCCGA 59.999 52.381 0.00 0.0 0.00 4.55
321 322 2.547218 GCCTCTTGTACAGTTGTCCGAA 60.547 50.000 0.00 0.0 0.00 4.30
322 323 3.318017 CCTCTTGTACAGTTGTCCGAAG 58.682 50.000 0.00 0.0 0.00 3.79
337 338 2.317530 CGAAGGGAAGGGTCAGATTC 57.682 55.000 0.00 0.0 0.00 2.52
338 339 1.134371 CGAAGGGAAGGGTCAGATTCC 60.134 57.143 0.00 0.0 43.60 3.01
341 342 3.884226 GGAAGGGTCAGATTCCCAC 57.116 57.895 3.79 0.0 46.82 4.61
342 343 0.991920 GGAAGGGTCAGATTCCCACA 59.008 55.000 3.79 0.0 46.82 4.17
343 344 1.566231 GGAAGGGTCAGATTCCCACAT 59.434 52.381 3.79 0.0 46.82 3.21
344 345 2.422093 GGAAGGGTCAGATTCCCACATC 60.422 54.545 3.79 0.0 46.82 3.06
345 346 1.971149 AGGGTCAGATTCCCACATCA 58.029 50.000 3.79 0.0 46.82 3.07
346 347 1.561542 AGGGTCAGATTCCCACATCAC 59.438 52.381 3.79 0.0 46.82 3.06
347 348 1.408822 GGGTCAGATTCCCACATCACC 60.409 57.143 0.00 0.0 44.05 4.02
348 349 1.561542 GGTCAGATTCCCACATCACCT 59.438 52.381 0.00 0.0 0.00 4.00
349 350 2.420687 GGTCAGATTCCCACATCACCTC 60.421 54.545 0.00 0.0 0.00 3.85
350 351 2.237143 GTCAGATTCCCACATCACCTCA 59.763 50.000 0.00 0.0 0.00 3.86
351 352 3.117745 TCAGATTCCCACATCACCTCAT 58.882 45.455 0.00 0.0 0.00 2.90
352 353 4.101585 GTCAGATTCCCACATCACCTCATA 59.898 45.833 0.00 0.0 0.00 2.15
353 354 4.909695 TCAGATTCCCACATCACCTCATAT 59.090 41.667 0.00 0.0 0.00 1.78
354 355 5.370584 TCAGATTCCCACATCACCTCATATT 59.629 40.000 0.00 0.0 0.00 1.28
355 356 6.066690 CAGATTCCCACATCACCTCATATTT 58.933 40.000 0.00 0.0 0.00 1.40
356 357 7.072328 TCAGATTCCCACATCACCTCATATTTA 59.928 37.037 0.00 0.0 0.00 1.40
357 358 7.720957 CAGATTCCCACATCACCTCATATTTAA 59.279 37.037 0.00 0.0 0.00 1.52
358 359 7.941238 AGATTCCCACATCACCTCATATTTAAG 59.059 37.037 0.00 0.0 0.00 1.85
359 360 5.940617 TCCCACATCACCTCATATTTAAGG 58.059 41.667 0.00 0.0 38.70 2.69
360 361 5.431731 TCCCACATCACCTCATATTTAAGGT 59.568 40.000 0.00 0.0 46.94 3.50
361 362 6.617784 TCCCACATCACCTCATATTTAAGGTA 59.382 38.462 1.77 0.0 44.13 3.08
362 363 7.128109 TCCCACATCACCTCATATTTAAGGTAA 59.872 37.037 1.77 0.0 44.13 2.85
363 364 7.445402 CCCACATCACCTCATATTTAAGGTAAG 59.555 40.741 1.77 0.0 44.13 2.34
364 365 7.445402 CCACATCACCTCATATTTAAGGTAAGG 59.555 40.741 1.77 0.0 44.13 2.69
365 366 7.445402 CACATCACCTCATATTTAAGGTAAGGG 59.555 40.741 1.77 0.0 44.13 3.95
366 367 7.349859 ACATCACCTCATATTTAAGGTAAGGGA 59.650 37.037 1.77 0.0 44.13 4.20
367 368 7.947782 TCACCTCATATTTAAGGTAAGGGAT 57.052 36.000 1.77 0.0 44.13 3.85
368 369 9.629649 ATCACCTCATATTTAAGGTAAGGGATA 57.370 33.333 1.77 0.0 44.13 2.59
369 370 9.455144 TCACCTCATATTTAAGGTAAGGGATAA 57.545 33.333 1.77 0.0 44.13 1.75
411 412 2.631062 TGGTCACACTCGACTGGTTTAT 59.369 45.455 0.00 0.0 36.12 1.40
497 498 6.438259 TTTGACCGTTTGATTGTCACTTTA 57.562 33.333 0.00 0.0 38.64 1.85
694 700 6.930722 CCCACAGCTTCATTTTCATTAAACTT 59.069 34.615 0.00 0.0 0.00 2.66
1821 1867 1.047596 AGCTCATGATCGCCAGAGGT 61.048 55.000 0.00 0.0 34.33 3.85
3718 3836 3.582208 TGGTGCCATGCTTTCCTTTAAAT 59.418 39.130 0.00 0.0 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
253 254 2.659800 ACGGAAGTAGCAGAGCAGT 58.340 52.632 0.00 0.00 46.88 4.40
265 266 1.845809 GACAGGTGCAGCAACGGAAG 61.846 60.000 18.30 5.67 0.00 3.46
266 267 1.891919 GACAGGTGCAGCAACGGAA 60.892 57.895 18.30 0.00 0.00 4.30
267 268 2.280797 GACAGGTGCAGCAACGGA 60.281 61.111 18.30 0.00 0.00 4.69
268 269 3.716006 CGACAGGTGCAGCAACGG 61.716 66.667 19.63 9.29 0.00 4.44
269 270 3.716006 CCGACAGGTGCAGCAACG 61.716 66.667 19.63 18.35 0.00 4.10
270 271 3.357079 CCCGACAGGTGCAGCAAC 61.357 66.667 19.63 0.57 35.12 4.17
271 272 3.555324 TCCCGACAGGTGCAGCAA 61.555 61.111 19.63 0.00 36.75 3.91
272 273 4.314440 GTCCCGACAGGTGCAGCA 62.314 66.667 19.63 0.00 36.75 4.41
273 274 4.008933 AGTCCCGACAGGTGCAGC 62.009 66.667 8.11 8.11 36.75 5.25
274 275 1.892819 ATCAGTCCCGACAGGTGCAG 61.893 60.000 0.00 0.00 36.75 4.41
275 276 1.480212 AATCAGTCCCGACAGGTGCA 61.480 55.000 0.00 0.00 36.75 4.57
276 277 0.741221 GAATCAGTCCCGACAGGTGC 60.741 60.000 0.00 0.00 36.75 5.01
277 278 0.108138 GGAATCAGTCCCGACAGGTG 60.108 60.000 0.00 0.00 41.10 4.00
278 279 2.287829 GGAATCAGTCCCGACAGGT 58.712 57.895 0.00 0.00 41.10 4.00
287 288 0.250513 AAGAGGCGTGGGAATCAGTC 59.749 55.000 0.00 0.00 0.00 3.51
288 289 0.036010 CAAGAGGCGTGGGAATCAGT 60.036 55.000 0.00 0.00 0.00 3.41
289 290 0.036010 ACAAGAGGCGTGGGAATCAG 60.036 55.000 0.00 0.00 0.00 2.90
290 291 1.066430 GTACAAGAGGCGTGGGAATCA 60.066 52.381 0.00 0.00 0.00 2.57
291 292 1.066430 TGTACAAGAGGCGTGGGAATC 60.066 52.381 0.00 0.00 0.00 2.52
292 293 0.981183 TGTACAAGAGGCGTGGGAAT 59.019 50.000 0.00 0.00 0.00 3.01
293 294 0.320374 CTGTACAAGAGGCGTGGGAA 59.680 55.000 0.00 0.00 0.00 3.97
294 295 0.830444 ACTGTACAAGAGGCGTGGGA 60.830 55.000 0.00 0.00 0.00 4.37
295 296 0.034896 AACTGTACAAGAGGCGTGGG 59.965 55.000 0.00 0.00 0.00 4.61
296 297 1.148310 CAACTGTACAAGAGGCGTGG 58.852 55.000 0.00 0.00 0.00 4.94
297 298 1.792949 GACAACTGTACAAGAGGCGTG 59.207 52.381 0.00 0.00 0.00 5.34
298 299 1.270147 GGACAACTGTACAAGAGGCGT 60.270 52.381 0.00 0.00 0.00 5.68
299 300 1.429463 GGACAACTGTACAAGAGGCG 58.571 55.000 0.00 0.00 0.00 5.52
300 301 1.000506 TCGGACAACTGTACAAGAGGC 59.999 52.381 0.00 0.00 0.00 4.70
301 302 3.318017 CTTCGGACAACTGTACAAGAGG 58.682 50.000 0.00 0.00 0.00 3.69
302 303 3.318017 CCTTCGGACAACTGTACAAGAG 58.682 50.000 0.00 0.00 0.00 2.85
303 304 2.036733 CCCTTCGGACAACTGTACAAGA 59.963 50.000 0.00 0.00 0.00 3.02
304 305 2.036733 TCCCTTCGGACAACTGTACAAG 59.963 50.000 0.00 0.00 31.13 3.16
305 306 2.040939 TCCCTTCGGACAACTGTACAA 58.959 47.619 0.00 0.00 31.13 2.41
306 307 1.707106 TCCCTTCGGACAACTGTACA 58.293 50.000 0.00 0.00 31.13 2.90
307 308 2.612221 CCTTCCCTTCGGACAACTGTAC 60.612 54.545 0.00 0.00 38.14 2.90
308 309 1.621814 CCTTCCCTTCGGACAACTGTA 59.378 52.381 0.00 0.00 38.14 2.74
309 310 0.396811 CCTTCCCTTCGGACAACTGT 59.603 55.000 0.00 0.00 38.14 3.55
310 311 0.321653 CCCTTCCCTTCGGACAACTG 60.322 60.000 0.00 0.00 38.14 3.16
311 312 0.767060 ACCCTTCCCTTCGGACAACT 60.767 55.000 0.00 0.00 38.14 3.16
312 313 0.321387 GACCCTTCCCTTCGGACAAC 60.321 60.000 0.00 0.00 38.14 3.32
313 314 0.765135 TGACCCTTCCCTTCGGACAA 60.765 55.000 0.00 0.00 38.14 3.18
314 315 1.152204 TGACCCTTCCCTTCGGACA 60.152 57.895 0.00 0.00 38.14 4.02
315 316 0.903454 TCTGACCCTTCCCTTCGGAC 60.903 60.000 0.00 0.00 38.14 4.79
316 317 0.042731 ATCTGACCCTTCCCTTCGGA 59.957 55.000 0.00 0.00 35.88 4.55
317 318 0.912486 AATCTGACCCTTCCCTTCGG 59.088 55.000 0.00 0.00 0.00 4.30
318 319 1.134371 GGAATCTGACCCTTCCCTTCG 60.134 57.143 0.00 0.00 35.83 3.79
319 320 2.719531 GGAATCTGACCCTTCCCTTC 57.280 55.000 0.00 0.00 35.83 3.46
323 324 0.991920 TGTGGGAATCTGACCCTTCC 59.008 55.000 0.00 2.92 46.82 3.46
324 325 2.239654 TGATGTGGGAATCTGACCCTTC 59.760 50.000 0.00 0.00 46.82 3.46
325 326 2.025887 GTGATGTGGGAATCTGACCCTT 60.026 50.000 0.00 0.00 46.82 3.95
326 327 1.561542 GTGATGTGGGAATCTGACCCT 59.438 52.381 0.00 0.00 46.82 4.34
327 328 1.408822 GGTGATGTGGGAATCTGACCC 60.409 57.143 0.00 0.00 46.87 4.46
328 329 1.561542 AGGTGATGTGGGAATCTGACC 59.438 52.381 0.00 0.00 0.00 4.02
329 330 2.237143 TGAGGTGATGTGGGAATCTGAC 59.763 50.000 0.00 0.00 0.00 3.51
330 331 2.550175 TGAGGTGATGTGGGAATCTGA 58.450 47.619 0.00 0.00 0.00 3.27
331 332 3.572632 ATGAGGTGATGTGGGAATCTG 57.427 47.619 0.00 0.00 0.00 2.90
332 333 5.919348 AATATGAGGTGATGTGGGAATCT 57.081 39.130 0.00 0.00 0.00 2.40
333 334 7.175641 CCTTAAATATGAGGTGATGTGGGAATC 59.824 40.741 0.00 0.00 0.00 2.52
334 335 7.006509 CCTTAAATATGAGGTGATGTGGGAAT 58.993 38.462 0.00 0.00 0.00 3.01
335 336 6.069088 ACCTTAAATATGAGGTGATGTGGGAA 60.069 38.462 5.21 0.00 43.50 3.97
336 337 5.431731 ACCTTAAATATGAGGTGATGTGGGA 59.568 40.000 5.21 0.00 43.50 4.37
337 338 5.694995 ACCTTAAATATGAGGTGATGTGGG 58.305 41.667 5.21 0.00 43.50 4.61
338 339 7.445402 CCTTACCTTAAATATGAGGTGATGTGG 59.555 40.741 13.30 3.21 44.70 4.17
339 340 7.445402 CCCTTACCTTAAATATGAGGTGATGTG 59.555 40.741 13.30 1.72 44.70 3.21
340 341 7.349859 TCCCTTACCTTAAATATGAGGTGATGT 59.650 37.037 13.30 0.00 44.70 3.06
341 342 7.745717 TCCCTTACCTTAAATATGAGGTGATG 58.254 38.462 13.30 5.24 44.70 3.07
342 343 7.947782 TCCCTTACCTTAAATATGAGGTGAT 57.052 36.000 13.30 0.00 44.70 3.06
343 344 7.947782 ATCCCTTACCTTAAATATGAGGTGA 57.052 36.000 13.30 6.69 44.70 4.02
354 355 9.176460 CGTAAAACCAATTATCCCTTACCTTAA 57.824 33.333 0.00 0.00 0.00 1.85
355 356 7.282901 GCGTAAAACCAATTATCCCTTACCTTA 59.717 37.037 0.00 0.00 0.00 2.69
356 357 6.095860 GCGTAAAACCAATTATCCCTTACCTT 59.904 38.462 0.00 0.00 0.00 3.50
357 358 5.591472 GCGTAAAACCAATTATCCCTTACCT 59.409 40.000 0.00 0.00 0.00 3.08
358 359 5.221106 GGCGTAAAACCAATTATCCCTTACC 60.221 44.000 0.00 0.00 0.00 2.85
359 360 5.221106 GGGCGTAAAACCAATTATCCCTTAC 60.221 44.000 0.00 0.00 32.29 2.34
360 361 4.888823 GGGCGTAAAACCAATTATCCCTTA 59.111 41.667 0.00 0.00 32.29 2.69
361 362 3.702548 GGGCGTAAAACCAATTATCCCTT 59.297 43.478 0.00 0.00 32.29 3.95
362 363 3.293337 GGGCGTAAAACCAATTATCCCT 58.707 45.455 0.00 0.00 32.29 4.20
363 364 2.363038 GGGGCGTAAAACCAATTATCCC 59.637 50.000 0.00 0.00 33.32 3.85
364 365 3.293337 AGGGGCGTAAAACCAATTATCC 58.707 45.455 0.00 0.00 0.00 2.59
365 366 5.128205 ACTAGGGGCGTAAAACCAATTATC 58.872 41.667 0.00 0.00 0.00 1.75
366 367 5.120054 ACTAGGGGCGTAAAACCAATTAT 57.880 39.130 0.00 0.00 0.00 1.28
367 368 4.573021 ACTAGGGGCGTAAAACCAATTA 57.427 40.909 0.00 0.00 0.00 1.40
368 369 3.444792 ACTAGGGGCGTAAAACCAATT 57.555 42.857 0.00 0.00 0.00 2.32
369 370 3.444792 AACTAGGGGCGTAAAACCAAT 57.555 42.857 0.00 0.00 0.00 3.16
370 371 2.885894 CAAACTAGGGGCGTAAAACCAA 59.114 45.455 0.00 0.00 0.00 3.67
379 380 0.953960 GTGTGACCAAACTAGGGGCG 60.954 60.000 0.00 0.00 35.62 6.13
411 412 3.304794 CGCGTGTTTTTGGAAATTAGGGA 60.305 43.478 0.00 0.00 0.00 4.20
694 700 2.094390 GCACGTACTCCATCTGTTACCA 60.094 50.000 0.00 0.00 0.00 3.25
851 866 2.102420 GGGTTTTGGTTCCTTCCTTGTG 59.898 50.000 0.00 0.00 0.00 3.33
1420 1463 2.338620 CACGTTGTCTGCGAGGGA 59.661 61.111 0.00 0.00 0.00 4.20
3534 3651 5.813080 AGTGATAAATTGGACTTAACGGC 57.187 39.130 0.00 0.00 0.00 5.68
3718 3836 6.183361 TGGGTAGAAAGGACCTTAATTCACAA 60.183 38.462 7.30 0.00 37.13 3.33


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

AutoCloner maintained by Alex Coulton.