Multiple sequence alignment - TraesCS2B01G259700

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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 TraesCS2B01G259700 chr2B 100.000 2672 0 0 1 2672 324795726 324793055 0.000000e+00 4935.0
1 TraesCS2B01G259700 chr2B 96.937 2122 59 4 385 2504 485689317 485687200 0.000000e+00 3554.0
2 TraesCS2B01G259700 chr2B 78.986 414 45 14 806 1181 394246045 394246454 7.390000e-61 244.0
3 TraesCS2B01G259700 chr2B 83.636 220 24 5 806 1015 422732469 422732252 2.100000e-46 196.0
4 TraesCS2B01G259700 chr2B 81.646 158 16 9 658 803 410263015 410263171 4.670000e-23 119.0
5 TraesCS2B01G259700 chr1B 97.260 2117 54 4 390 2504 200039303 200037189 0.000000e+00 3585.0
6 TraesCS2B01G259700 chr1B 89.804 255 26 0 390 644 203691590 203691844 7.130000e-86 327.0
7 TraesCS2B01G259700 chr1B 79.369 412 46 12 806 1181 199006563 199006971 1.230000e-63 254.0
8 TraesCS2B01G259700 chr7B 93.548 465 28 2 1 465 195419586 195420048 0.000000e+00 691.0
9 TraesCS2B01G259700 chr7B 90.234 256 23 2 389 644 259606431 259606684 1.530000e-87 333.0
10 TraesCS2B01G259700 chr5B 96.447 394 14 0 1 394 207354395 207354788 0.000000e+00 651.0
11 TraesCS2B01G259700 chr5B 92.674 273 18 1 390 662 22036729 22036459 2.490000e-105 392.0
12 TraesCS2B01G259700 chr5B 87.273 275 31 4 390 662 153061380 153061108 7.180000e-81 311.0
13 TraesCS2B01G259700 chr5B 97.740 177 2 1 2496 2672 69589868 69590042 1.200000e-78 303.0
14 TraesCS2B01G259700 chr5B 81.498 227 23 9 1739 1965 651216194 651216401 4.570000e-38 169.0
15 TraesCS2B01G259700 chr7D 96.447 394 13 1 1 394 262961428 262961036 0.000000e+00 649.0
16 TraesCS2B01G259700 chr7D 97.740 177 2 1 2496 2672 164447914 164448088 1.200000e-78 303.0
17 TraesCS2B01G259700 chr7D 97.740 177 2 1 2496 2672 462971021 462970847 1.200000e-78 303.0
18 TraesCS2B01G259700 chr4D 96.447 394 13 1 1 394 116318105 116317713 0.000000e+00 649.0
19 TraesCS2B01G259700 chr4D 96.193 394 13 2 1 394 146315001 146314610 0.000000e+00 643.0
20 TraesCS2B01G259700 chr4D 96.193 394 14 1 1 394 350086710 350086318 0.000000e+00 643.0
21 TraesCS2B01G259700 chr4D 97.740 177 2 1 2496 2672 116317142 116316968 1.200000e-78 303.0
22 TraesCS2B01G259700 chr2D 96.193 394 15 0 1 394 163615676 163615283 0.000000e+00 645.0
23 TraesCS2B01G259700 chr1D 96.193 394 13 2 1 394 219327616 219327225 0.000000e+00 643.0
24 TraesCS2B01G259700 chr1D 96.193 394 14 1 1 394 230159133 230159525 0.000000e+00 643.0
25 TraesCS2B01G259700 chr6B 84.342 562 48 24 656 1189 373764746 373764197 5.100000e-142 514.0
26 TraesCS2B01G259700 chr6B 90.842 273 25 0 390 662 541168518 541168790 1.510000e-97 366.0
27 TraesCS2B01G259700 chr6B 97.740 177 2 1 2496 2672 59682098 59681924 1.200000e-78 303.0
28 TraesCS2B01G259700 chr4B 90.000 280 26 2 385 663 378469308 378469030 7.030000e-96 361.0
29 TraesCS2B01G259700 chr3B 88.973 263 24 5 389 649 514505136 514505395 1.190000e-83 320.0
30 TraesCS2B01G259700 chr5A 98.286 175 3 0 2498 2672 210749850 210749676 9.290000e-80 307.0
31 TraesCS2B01G259700 chrUn 97.740 177 2 1 2496 2672 425511337 425511511 1.200000e-78 303.0
32 TraesCS2B01G259700 chrUn 83.636 220 24 5 806 1015 58971173 58970956 2.100000e-46 196.0
33 TraesCS2B01G259700 chr3D 97.740 177 2 1 2496 2672 475762095 475761921 1.200000e-78 303.0
34 TraesCS2B01G259700 chr3D 97.740 177 2 1 2496 2672 539607569 539607743 1.200000e-78 303.0
35 TraesCS2B01G259700 chr7A 77.475 404 54 17 806 1175 402191360 402191760 9.690000e-50 207.0
36 TraesCS2B01G259700 chr6D 91.837 49 4 0 1693 1741 15676734 15676686 4.770000e-08 69.4
37 TraesCS2B01G259700 chr4A 91.304 46 4 0 1693 1738 323263619 323263664 2.220000e-06 63.9
38 TraesCS2B01G259700 chr4A 89.796 49 5 0 1693 1741 586696690 586696642 2.220000e-06 63.9
39 TraesCS2B01G259700 chr1A 87.755 49 6 0 1693 1741 555839767 555839719 1.030000e-04 58.4


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 TraesCS2B01G259700 chr2B 324793055 324795726 2671 True 4935 4935 100.0000 1 2672 1 chr2B.!!$R1 2671
1 TraesCS2B01G259700 chr2B 485687200 485689317 2117 True 3554 3554 96.9370 385 2504 1 chr2B.!!$R3 2119
2 TraesCS2B01G259700 chr1B 200037189 200039303 2114 True 3585 3585 97.2600 390 2504 1 chr1B.!!$R1 2114
3 TraesCS2B01G259700 chr4D 116316968 116318105 1137 True 476 649 97.0935 1 2672 2 chr4D.!!$R3 2671
4 TraesCS2B01G259700 chr6B 373764197 373764746 549 True 514 514 84.3420 656 1189 1 chr6B.!!$R2 533

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
108 109 0.038166 AGGAGGCGGAAGATTTTGCA 59.962 50.0 0.00 0.0 0.0 4.08 F
274 275 0.176910 TGATGCGCCGATAACTTGGA 59.823 50.0 4.18 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1312 1342 0.876777 TTTCACAACGCGACGACCAT 60.877 50.0 15.93 0.0 0.0 3.55 R
2118 2148 2.476854 GCAAGCCGAGCATCTGTTTTAG 60.477 50.0 0.00 0.0 0.0 1.85 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
27 28 4.817517 CGGTATTGTAACTGTTGGTCTCT 58.182 43.478 2.69 0.00 0.00 3.10
98 99 3.617284 GGAAATTTTAGAAGGAGGCGGA 58.383 45.455 0.00 0.00 0.00 5.54
108 109 0.038166 AGGAGGCGGAAGATTTTGCA 59.962 50.000 0.00 0.00 0.00 4.08
172 173 0.975556 TGCTAGCGGGAAGGTCATGA 60.976 55.000 10.77 0.00 0.00 3.07
188 189 4.095932 GGTCATGATAGACTGTGTACACGA 59.904 45.833 20.61 9.35 38.57 4.35
230 231 2.032071 GGTGTGAAGTCCACCCCG 59.968 66.667 0.00 0.00 45.43 5.73
232 233 2.122769 TGTGAAGTCCACCCCGGA 60.123 61.111 0.73 0.00 45.09 5.14
259 260 6.683974 AAAAGACAATAACTCGGGATGATG 57.316 37.500 0.00 0.00 0.00 3.07
260 261 3.733337 AGACAATAACTCGGGATGATGC 58.267 45.455 0.00 0.00 0.00 3.91
261 262 2.476619 GACAATAACTCGGGATGATGCG 59.523 50.000 0.00 0.00 0.00 4.73
262 263 1.195448 CAATAACTCGGGATGATGCGC 59.805 52.381 0.00 0.00 0.00 6.09
263 264 0.320771 ATAACTCGGGATGATGCGCC 60.321 55.000 4.18 0.00 0.00 6.53
264 265 2.693250 TAACTCGGGATGATGCGCCG 62.693 60.000 4.18 0.00 0.00 6.46
265 266 4.284860 CTCGGGATGATGCGCCGA 62.285 66.667 4.18 3.37 32.42 5.54
266 267 3.580100 CTCGGGATGATGCGCCGAT 62.580 63.158 4.18 0.00 32.76 4.18
267 268 2.212900 CTCGGGATGATGCGCCGATA 62.213 60.000 4.18 0.00 32.76 2.92
268 269 1.374125 CGGGATGATGCGCCGATAA 60.374 57.895 4.18 0.00 0.00 1.75
269 270 1.626654 CGGGATGATGCGCCGATAAC 61.627 60.000 4.18 0.00 0.00 1.89
270 271 0.320771 GGGATGATGCGCCGATAACT 60.321 55.000 4.18 0.00 0.00 2.24
271 272 1.512926 GGATGATGCGCCGATAACTT 58.487 50.000 4.18 0.00 0.00 2.66
272 273 1.195448 GGATGATGCGCCGATAACTTG 59.805 52.381 4.18 0.00 0.00 3.16
273 274 1.195448 GATGATGCGCCGATAACTTGG 59.805 52.381 4.18 0.00 0.00 3.61
274 275 0.176910 TGATGCGCCGATAACTTGGA 59.823 50.000 4.18 0.00 0.00 3.53
275 276 0.582005 GATGCGCCGATAACTTGGAC 59.418 55.000 4.18 0.00 0.00 4.02
276 277 1.151777 ATGCGCCGATAACTTGGACG 61.152 55.000 4.18 0.00 0.00 4.79
277 278 1.808390 GCGCCGATAACTTGGACGT 60.808 57.895 0.00 0.00 31.79 4.34
278 279 1.356527 GCGCCGATAACTTGGACGTT 61.357 55.000 0.00 0.00 31.79 3.99
279 280 0.643820 CGCCGATAACTTGGACGTTC 59.356 55.000 0.00 0.00 0.00 3.95
280 281 1.717194 GCCGATAACTTGGACGTTCA 58.283 50.000 0.00 0.00 0.00 3.18
281 282 1.392510 GCCGATAACTTGGACGTTCAC 59.607 52.381 0.00 0.00 0.00 3.18
282 283 1.652124 CCGATAACTTGGACGTTCACG 59.348 52.381 0.00 0.00 46.33 4.35
283 284 1.058695 CGATAACTTGGACGTTCACGC 59.941 52.381 0.00 0.00 44.43 5.34
284 285 1.058695 GATAACTTGGACGTTCACGCG 59.941 52.381 3.53 3.53 44.43 6.01
285 286 0.940519 TAACTTGGACGTTCACGCGG 60.941 55.000 12.47 0.00 44.43 6.46
286 287 3.411351 CTTGGACGTTCACGCGGG 61.411 66.667 12.47 6.51 44.43 6.13
303 304 2.052237 GCGCGGCCAATCATAACG 60.052 61.111 8.83 0.00 0.00 3.18
304 305 2.631428 CGCGGCCAATCATAACGG 59.369 61.111 2.24 0.00 0.00 4.44
305 306 2.177580 CGCGGCCAATCATAACGGT 61.178 57.895 2.24 0.00 0.00 4.83
306 307 1.355210 GCGGCCAATCATAACGGTG 59.645 57.895 2.24 0.00 0.00 4.94
307 308 1.373590 GCGGCCAATCATAACGGTGT 61.374 55.000 2.24 0.00 0.00 4.16
308 309 1.942677 CGGCCAATCATAACGGTGTA 58.057 50.000 2.24 0.00 0.00 2.90
309 310 1.864711 CGGCCAATCATAACGGTGTAG 59.135 52.381 2.24 0.00 0.00 2.74
310 311 2.740580 CGGCCAATCATAACGGTGTAGT 60.741 50.000 2.24 0.00 0.00 2.73
311 312 2.612212 GGCCAATCATAACGGTGTAGTG 59.388 50.000 0.00 0.00 0.00 2.74
312 313 2.612212 GCCAATCATAACGGTGTAGTGG 59.388 50.000 0.00 0.00 0.00 4.00
313 314 2.612212 CCAATCATAACGGTGTAGTGGC 59.388 50.000 0.00 0.00 0.00 5.01
314 315 2.218953 ATCATAACGGTGTAGTGGCG 57.781 50.000 0.00 0.00 0.00 5.69
315 316 0.458889 TCATAACGGTGTAGTGGCGC 60.459 55.000 0.00 0.00 0.00 6.53
316 317 1.517694 ATAACGGTGTAGTGGCGCG 60.518 57.895 0.00 0.00 0.00 6.86
317 318 2.216750 ATAACGGTGTAGTGGCGCGT 62.217 55.000 8.43 0.00 0.00 6.01
318 319 2.419057 TAACGGTGTAGTGGCGCGTT 62.419 55.000 8.43 0.00 0.00 4.84
319 320 3.475774 CGGTGTAGTGGCGCGTTC 61.476 66.667 8.43 0.58 0.00 3.95
320 321 2.356553 GGTGTAGTGGCGCGTTCA 60.357 61.111 8.43 3.77 0.00 3.18
321 322 2.664436 GGTGTAGTGGCGCGTTCAC 61.664 63.158 21.22 21.22 35.51 3.18
322 323 1.952133 GTGTAGTGGCGCGTTCACA 60.952 57.895 27.07 14.50 37.58 3.58
323 324 1.227292 TGTAGTGGCGCGTTCACAA 60.227 52.632 27.07 14.94 37.58 3.33
324 325 0.810426 TGTAGTGGCGCGTTCACAAA 60.810 50.000 27.07 16.66 37.58 2.83
325 326 0.305313 GTAGTGGCGCGTTCACAAAA 59.695 50.000 27.07 14.82 37.58 2.44
326 327 1.015109 TAGTGGCGCGTTCACAAAAA 58.985 45.000 27.07 12.99 37.58 1.94
346 347 3.881937 AAAGGAATCAAATGCTCAGCC 57.118 42.857 0.00 0.00 0.00 4.85
347 348 2.822707 AGGAATCAAATGCTCAGCCT 57.177 45.000 0.00 0.00 0.00 4.58
348 349 3.939740 AGGAATCAAATGCTCAGCCTA 57.060 42.857 0.00 0.00 0.00 3.93
349 350 4.450305 AGGAATCAAATGCTCAGCCTAT 57.550 40.909 0.00 0.00 0.00 2.57
350 351 4.142790 AGGAATCAAATGCTCAGCCTATG 58.857 43.478 0.00 0.00 0.00 2.23
351 352 3.887716 GGAATCAAATGCTCAGCCTATGT 59.112 43.478 0.00 0.00 0.00 2.29
352 353 5.065914 GGAATCAAATGCTCAGCCTATGTA 58.934 41.667 0.00 0.00 0.00 2.29
353 354 5.709164 GGAATCAAATGCTCAGCCTATGTAT 59.291 40.000 0.00 0.00 0.00 2.29
354 355 6.208204 GGAATCAAATGCTCAGCCTATGTATT 59.792 38.462 0.00 0.00 0.00 1.89
355 356 7.255730 GGAATCAAATGCTCAGCCTATGTATTT 60.256 37.037 0.00 0.00 0.00 1.40
356 357 6.624352 TCAAATGCTCAGCCTATGTATTTC 57.376 37.500 0.00 0.00 0.00 2.17
357 358 6.359804 TCAAATGCTCAGCCTATGTATTTCT 58.640 36.000 0.00 0.00 0.00 2.52
358 359 6.484643 TCAAATGCTCAGCCTATGTATTTCTC 59.515 38.462 0.00 0.00 0.00 2.87
359 360 3.982475 TGCTCAGCCTATGTATTTCTCG 58.018 45.455 0.00 0.00 0.00 4.04
360 361 3.384789 TGCTCAGCCTATGTATTTCTCGT 59.615 43.478 0.00 0.00 0.00 4.18
361 362 3.738282 GCTCAGCCTATGTATTTCTCGTG 59.262 47.826 0.00 0.00 0.00 4.35
362 363 4.737946 GCTCAGCCTATGTATTTCTCGTGT 60.738 45.833 0.00 0.00 0.00 4.49
363 364 5.507482 GCTCAGCCTATGTATTTCTCGTGTA 60.507 44.000 0.00 0.00 0.00 2.90
364 365 6.459670 TCAGCCTATGTATTTCTCGTGTAA 57.540 37.500 0.00 0.00 0.00 2.41
365 366 6.869695 TCAGCCTATGTATTTCTCGTGTAAA 58.130 36.000 0.00 0.00 0.00 2.01
366 367 7.497595 TCAGCCTATGTATTTCTCGTGTAAAT 58.502 34.615 0.00 0.00 0.00 1.40
367 368 8.635328 TCAGCCTATGTATTTCTCGTGTAAATA 58.365 33.333 0.00 0.00 0.00 1.40
368 369 8.916654 CAGCCTATGTATTTCTCGTGTAAATAG 58.083 37.037 0.00 0.00 31.27 1.73
369 370 8.857098 AGCCTATGTATTTCTCGTGTAAATAGA 58.143 33.333 0.00 0.00 31.27 1.98
370 371 9.640963 GCCTATGTATTTCTCGTGTAAATAGAT 57.359 33.333 11.28 11.28 36.94 1.98
404 405 8.956426 TGCCATTGGTTATTTAAAACAAAACAA 58.044 25.926 4.26 11.74 0.00 2.83
409 410 8.794335 TGGTTATTTAAAACAAAACAAAGGCT 57.206 26.923 0.00 0.00 0.00 4.58
426 427 3.565214 TGGGCAACTCGCTCCCAA 61.565 61.111 0.00 0.00 46.35 4.12
446 447 3.099170 AGCTCCCCCGATGGCATT 61.099 61.111 0.00 0.00 0.00 3.56
451 452 1.893808 CCCCCGATGGCATTCTTCG 60.894 63.158 0.00 0.55 41.09 3.79
478 479 0.461870 TTCGATCGGCATTGACCAGG 60.462 55.000 16.41 0.00 0.00 4.45
528 529 1.878775 GCTGGAATTCTGCGCACTT 59.121 52.632 5.66 0.00 0.00 3.16
564 565 1.668294 GATCGTGGCGAGGGATGAT 59.332 57.895 0.00 0.00 39.91 2.45
572 573 1.907739 CGAGGGATGATGTGTGGGT 59.092 57.895 0.00 0.00 0.00 4.51
705 709 2.639327 GCACTGTGCCCAATCCCAC 61.639 63.158 21.78 0.00 37.42 4.61
711 715 0.329596 GTGCCCAATCCCACTCTCTT 59.670 55.000 0.00 0.00 0.00 2.85
742 746 3.663176 CACCAGCCGCCACACAAG 61.663 66.667 0.00 0.00 0.00 3.16
782 786 4.748798 CCCACAGCCCCTCCCTCT 62.749 72.222 0.00 0.00 0.00 3.69
1312 1342 1.117150 GGTGAACGAGGGTATGCCTA 58.883 55.000 0.00 0.00 34.45 3.93
1384 1414 1.978712 CTCGCCTCAACGACGAGCTA 61.979 60.000 0.00 0.00 45.67 3.32
1665 1695 2.289257 TGTGGATCGATGGCATGATCTC 60.289 50.000 25.26 20.79 40.63 2.75
1668 1698 2.740981 GGATCGATGGCATGATCTCAAC 59.259 50.000 25.26 13.82 40.63 3.18
1790 1820 8.958119 TTATCATGTTATCCAGTTCTTACCAC 57.042 34.615 0.00 0.00 0.00 4.16
2118 2148 6.402226 GCCTTGCTACTTTGATGTGTACTTAC 60.402 42.308 0.00 0.00 0.00 2.34
2492 2522 5.689383 ACCAGTGTGTTGTGAATATGAAC 57.311 39.130 0.00 0.00 0.00 3.18
2493 2523 5.129634 ACCAGTGTGTTGTGAATATGAACA 58.870 37.500 0.00 0.00 0.00 3.18
2537 2568 4.262808 GCTCTCTATGTCTAACATGCCCAT 60.263 45.833 2.88 0.00 39.53 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.110442 CCTTTTGTCCTTGGTGCACA 58.890 50.000 20.43 1.62 0.00 4.57
98 99 2.568090 CGCGGGCTGCAAAATCTT 59.432 55.556 19.92 0.00 46.97 2.40
172 173 2.163815 GTGCCTCGTGTACACAGTCTAT 59.836 50.000 24.98 0.00 34.43 1.98
188 189 2.709125 TTAACTGCTGACGCGTGCCT 62.709 55.000 20.70 4.80 39.65 4.75
259 260 1.356527 AACGTCCAAGTTATCGGCGC 61.357 55.000 0.00 0.00 31.74 6.53
260 261 0.643820 GAACGTCCAAGTTATCGGCG 59.356 55.000 0.00 0.00 34.00 6.46
261 262 1.392510 GTGAACGTCCAAGTTATCGGC 59.607 52.381 0.00 0.00 34.00 5.54
262 263 1.652124 CGTGAACGTCCAAGTTATCGG 59.348 52.381 0.00 0.00 34.00 4.18
263 264 1.058695 GCGTGAACGTCCAAGTTATCG 59.941 52.381 4.59 0.00 42.22 2.92
264 265 1.058695 CGCGTGAACGTCCAAGTTATC 59.941 52.381 0.00 0.00 42.22 1.75
265 266 1.065358 CGCGTGAACGTCCAAGTTAT 58.935 50.000 0.00 0.00 42.22 1.89
266 267 0.940519 CCGCGTGAACGTCCAAGTTA 60.941 55.000 4.92 0.00 42.22 2.24
267 268 2.241880 CCGCGTGAACGTCCAAGTT 61.242 57.895 4.92 0.00 42.22 2.66
268 269 2.660552 CCGCGTGAACGTCCAAGT 60.661 61.111 4.92 0.00 42.22 3.16
269 270 3.411351 CCCGCGTGAACGTCCAAG 61.411 66.667 4.92 0.00 42.22 3.61
286 287 2.052237 CGTTATGATTGGCCGCGC 60.052 61.111 0.00 0.00 0.00 6.86
287 288 2.177580 ACCGTTATGATTGGCCGCG 61.178 57.895 0.00 0.00 0.00 6.46
288 289 1.355210 CACCGTTATGATTGGCCGC 59.645 57.895 0.00 0.00 0.00 6.53
289 290 1.864711 CTACACCGTTATGATTGGCCG 59.135 52.381 0.00 0.00 0.00 6.13
290 291 2.612212 CACTACACCGTTATGATTGGCC 59.388 50.000 0.00 0.00 0.00 5.36
291 292 2.612212 CCACTACACCGTTATGATTGGC 59.388 50.000 0.00 0.00 0.00 4.52
292 293 2.612212 GCCACTACACCGTTATGATTGG 59.388 50.000 0.00 0.00 0.00 3.16
293 294 2.284150 CGCCACTACACCGTTATGATTG 59.716 50.000 0.00 0.00 0.00 2.67
294 295 2.546778 CGCCACTACACCGTTATGATT 58.453 47.619 0.00 0.00 0.00 2.57
295 296 1.805120 GCGCCACTACACCGTTATGAT 60.805 52.381 0.00 0.00 0.00 2.45
296 297 0.458889 GCGCCACTACACCGTTATGA 60.459 55.000 0.00 0.00 0.00 2.15
297 298 1.748647 CGCGCCACTACACCGTTATG 61.749 60.000 0.00 0.00 0.00 1.90
298 299 1.517694 CGCGCCACTACACCGTTAT 60.518 57.895 0.00 0.00 0.00 1.89
299 300 2.126385 CGCGCCACTACACCGTTA 60.126 61.111 0.00 0.00 0.00 3.18
300 301 3.795499 AACGCGCCACTACACCGTT 62.795 57.895 5.73 0.00 37.31 4.44
301 302 4.289245 AACGCGCCACTACACCGT 62.289 61.111 5.73 0.00 0.00 4.83
302 303 3.475774 GAACGCGCCACTACACCG 61.476 66.667 5.73 0.00 0.00 4.94
303 304 2.356553 TGAACGCGCCACTACACC 60.357 61.111 5.73 0.00 0.00 4.16
304 305 1.492319 TTGTGAACGCGCCACTACAC 61.492 55.000 25.54 17.54 35.66 2.90
305 306 0.810426 TTTGTGAACGCGCCACTACA 60.810 50.000 25.54 13.84 35.66 2.74
306 307 0.305313 TTTTGTGAACGCGCCACTAC 59.695 50.000 25.54 11.75 35.66 2.73
307 308 1.015109 TTTTTGTGAACGCGCCACTA 58.985 45.000 25.54 18.68 35.66 2.74
308 309 1.803943 TTTTTGTGAACGCGCCACT 59.196 47.368 25.54 2.35 35.66 4.00
309 310 4.386245 TTTTTGTGAACGCGCCAC 57.614 50.000 20.88 20.88 35.23 5.01
324 325 4.285260 AGGCTGAGCATTTGATTCCTTTTT 59.715 37.500 6.82 0.00 0.00 1.94
325 326 3.836562 AGGCTGAGCATTTGATTCCTTTT 59.163 39.130 6.82 0.00 0.00 2.27
326 327 3.438183 AGGCTGAGCATTTGATTCCTTT 58.562 40.909 6.82 0.00 0.00 3.11
327 328 3.097342 AGGCTGAGCATTTGATTCCTT 57.903 42.857 6.82 0.00 0.00 3.36
328 329 2.822707 AGGCTGAGCATTTGATTCCT 57.177 45.000 6.82 0.00 0.00 3.36
329 330 3.887716 ACATAGGCTGAGCATTTGATTCC 59.112 43.478 15.84 0.00 0.00 3.01
330 331 6.814506 ATACATAGGCTGAGCATTTGATTC 57.185 37.500 15.84 0.00 0.00 2.52
331 332 7.504911 AGAAATACATAGGCTGAGCATTTGATT 59.495 33.333 15.84 8.43 0.00 2.57
332 333 7.002879 AGAAATACATAGGCTGAGCATTTGAT 58.997 34.615 15.84 3.27 0.00 2.57
333 334 6.359804 AGAAATACATAGGCTGAGCATTTGA 58.640 36.000 15.84 1.12 0.00 2.69
334 335 6.565435 CGAGAAATACATAGGCTGAGCATTTG 60.565 42.308 6.82 7.46 0.00 2.32
335 336 5.468072 CGAGAAATACATAGGCTGAGCATTT 59.532 40.000 6.82 2.07 0.00 2.32
336 337 4.993584 CGAGAAATACATAGGCTGAGCATT 59.006 41.667 6.82 0.00 0.00 3.56
337 338 4.039730 ACGAGAAATACATAGGCTGAGCAT 59.960 41.667 6.82 0.11 0.00 3.79
338 339 3.384789 ACGAGAAATACATAGGCTGAGCA 59.615 43.478 6.82 0.00 0.00 4.26
339 340 3.738282 CACGAGAAATACATAGGCTGAGC 59.262 47.826 0.00 0.00 0.00 4.26
340 341 4.938080 ACACGAGAAATACATAGGCTGAG 58.062 43.478 0.00 0.00 0.00 3.35
341 342 6.459670 TTACACGAGAAATACATAGGCTGA 57.540 37.500 0.00 0.00 0.00 4.26
342 343 7.715265 ATTTACACGAGAAATACATAGGCTG 57.285 36.000 0.00 0.00 0.00 4.85
343 344 8.857098 TCTATTTACACGAGAAATACATAGGCT 58.143 33.333 0.00 0.00 0.00 4.58
344 345 9.640963 ATCTATTTACACGAGAAATACATAGGC 57.359 33.333 0.00 0.00 0.00 3.93
376 377 9.958234 GTTTTGTTTTAAATAACCAATGGCATT 57.042 25.926 6.96 6.96 0.00 3.56
377 378 9.125026 TGTTTTGTTTTAAATAACCAATGGCAT 57.875 25.926 0.00 0.00 0.00 4.40
378 379 8.506168 TGTTTTGTTTTAAATAACCAATGGCA 57.494 26.923 0.00 0.00 0.00 4.92
379 380 9.788960 TTTGTTTTGTTTTAAATAACCAATGGC 57.211 25.926 0.00 0.00 0.00 4.40
383 384 9.232473 AGCCTTTGTTTTGTTTTAAATAACCAA 57.768 25.926 0.00 0.00 0.00 3.67
388 389 6.261158 GCCCAGCCTTTGTTTTGTTTTAAATA 59.739 34.615 0.00 0.00 0.00 1.40
492 493 1.138047 GCGACGATCGAACGACCAAT 61.138 55.000 30.25 6.27 43.74 3.16
564 565 3.475494 ACAGCACCGACCCACACA 61.475 61.111 0.00 0.00 0.00 3.72
572 573 3.872603 AAGTGGCCACAGCACCGA 61.873 61.111 36.39 0.00 42.56 4.69
742 746 1.757949 GATGAGGAAGGGGCTAGGC 59.242 63.158 8.00 8.00 0.00 3.93
782 786 2.646175 CCTGGCGAGGAACGAGGAA 61.646 63.158 9.58 0.00 42.93 3.36
934 938 3.957586 CTGCACCCCACCAGAGCA 61.958 66.667 0.00 0.00 0.00 4.26
1198 1228 1.394266 CCATTGCCCAATTCCTCGGG 61.394 60.000 0.00 0.00 46.15 5.14
1312 1342 0.876777 TTTCACAACGCGACGACCAT 60.877 50.000 15.93 0.00 0.00 3.55
1665 1695 4.385825 TGTCACCTTTGCTTACCTAGTTG 58.614 43.478 0.00 0.00 0.00 3.16
1668 1698 5.003804 ACAATGTCACCTTTGCTTACCTAG 58.996 41.667 0.00 0.00 30.83 3.02
2118 2148 2.476854 GCAAGCCGAGCATCTGTTTTAG 60.477 50.000 0.00 0.00 0.00 1.85
2456 2486 6.182507 ACACACTGGTTGAATAAGTTCCTA 57.817 37.500 0.00 0.00 33.26 2.94
2492 2522 2.853594 GTGTGTGTTTCAATGTGTGCTG 59.146 45.455 0.00 0.00 0.00 4.41
2493 2523 2.477694 CGTGTGTGTTTCAATGTGTGCT 60.478 45.455 0.00 0.00 0.00 4.40
2537 2568 0.033894 GGTGGGCGGAATTAAAGGGA 60.034 55.000 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.