Multiple sequence alignment - TraesCS3B01G142700

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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 TraesCS3B01G142700 chr3B 100.000 3239 0 0 1 3239 130648976 130645738 0.000000e+00 5982
1 TraesCS3B01G142700 chr3B 95.823 2801 72 11 463 3239 134276187 134273408 0.000000e+00 4482
2 TraesCS3B01G142700 chr3B 86.282 277 18 11 1 258 134305125 134304850 1.900000e-72 283
3 TraesCS3B01G142700 chr3B 92.899 169 7 3 315 482 134304850 134304686 1.160000e-59 241
4 TraesCS3B01G142700 chr3D 94.164 2947 115 11 315 3239 85063066 85060155 0.000000e+00 4436
5 TraesCS3B01G142700 chr3D 87.050 278 10 13 1 258 85063337 85063066 1.140000e-74 291
6 TraesCS3B01G142700 chr3A 94.621 2175 83 8 330 2479 102117510 102115345 0.000000e+00 3338
7 TraesCS3B01G142700 chr3A 96.301 757 27 1 2483 3239 102110084 102109329 0.000000e+00 1242
8 TraesCS3B01G142700 chr3A 92.216 167 7 4 95 258 102117891 102117728 6.990000e-57 231
9 TraesCS3B01G142700 chr6B 84.537 2147 234 48 326 2438 89694989 89697071 0.000000e+00 2036
10 TraesCS3B01G142700 chrUn 87.685 1348 119 17 677 1994 114263530 114262200 0.000000e+00 1526
11 TraesCS3B01G142700 chr6D 88.058 1231 132 8 1212 2438 38582618 38583837 0.000000e+00 1445
12 TraesCS3B01G142700 chr2B 77.699 1269 246 29 968 2210 760829791 760828534 0.000000e+00 741
13 TraesCS3B01G142700 chr2D 78.870 885 170 15 968 1839 620399240 620398360 1.670000e-162 582
14 TraesCS3B01G142700 chr2D 83.140 344 56 2 1055 1397 17955236 17955578 2.430000e-81 313


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 TraesCS3B01G142700 chr3B 130645738 130648976 3238 True 5982.0 5982 100.0000 1 3239 1 chr3B.!!$R1 3238
1 TraesCS3B01G142700 chr3B 134273408 134276187 2779 True 4482.0 4482 95.8230 463 3239 1 chr3B.!!$R2 2776
2 TraesCS3B01G142700 chr3D 85060155 85063337 3182 True 2363.5 4436 90.6070 1 3239 2 chr3D.!!$R1 3238
3 TraesCS3B01G142700 chr3A 102115345 102117891 2546 True 1784.5 3338 93.4185 95 2479 2 chr3A.!!$R2 2384
4 TraesCS3B01G142700 chr3A 102109329 102110084 755 True 1242.0 1242 96.3010 2483 3239 1 chr3A.!!$R1 756
5 TraesCS3B01G142700 chr6B 89694989 89697071 2082 False 2036.0 2036 84.5370 326 2438 1 chr6B.!!$F1 2112
6 TraesCS3B01G142700 chrUn 114262200 114263530 1330 True 1526.0 1526 87.6850 677 1994 1 chrUn.!!$R1 1317
7 TraesCS3B01G142700 chr6D 38582618 38583837 1219 False 1445.0 1445 88.0580 1212 2438 1 chr6D.!!$F1 1226
8 TraesCS3B01G142700 chr2B 760828534 760829791 1257 True 741.0 741 77.6990 968 2210 1 chr2B.!!$R1 1242
9 TraesCS3B01G142700 chr2D 620398360 620399240 880 True 582.0 582 78.8700 968 1839 1 chr2D.!!$R1 871

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
277 300 0.032813 ATCCTTCCAAGGCCCACATG 60.033 55.0 0.0 0.0 46.06 3.21 F
280 303 0.251297 CTTCCAAGGCCCACATGTCA 60.251 55.0 0.0 0.0 0.00 3.58 F
281 304 0.409092 TTCCAAGGCCCACATGTCAT 59.591 50.0 0.0 0.0 0.00 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1623 1902 0.326264 GCCAGGTCCACTTGTCATCT 59.674 55.00 0.00 0.0 0.0 2.90 R
2150 2434 1.492993 GGACCAAAGCTGAGGGGAGT 61.493 60.00 9.31 0.0 0.0 3.85 R
2267 2552 9.944376 ATTTTCATTATATCTGCTATACACGGT 57.056 29.63 0.00 0.0 0.0 4.83 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 29 1.396996 GGGCTATAGTGTTGTTGTGCG 59.603 52.381 0.84 0.00 0.00 5.34
61 64 7.931578 TTTTTACATTATCTGTTGGATCGGT 57.068 32.000 0.00 0.00 39.39 4.69
83 86 0.392461 TCGTGTGGCTGCCCTATTTC 60.392 55.000 17.53 0.53 0.00 2.17
85 88 1.767759 GTGTGGCTGCCCTATTTCAT 58.232 50.000 17.53 0.00 0.00 2.57
93 96 4.576463 GGCTGCCCTATTTCATATTATCGG 59.424 45.833 7.66 0.00 0.00 4.18
258 281 1.008403 AGGCACTCCTCCTACCTGTA 58.992 55.000 0.00 0.00 38.72 2.74
259 282 1.576272 AGGCACTCCTCCTACCTGTAT 59.424 52.381 0.00 0.00 38.72 2.29
261 284 1.964933 GCACTCCTCCTACCTGTATCC 59.035 57.143 0.00 0.00 0.00 2.59
262 285 2.425102 GCACTCCTCCTACCTGTATCCT 60.425 54.545 0.00 0.00 0.00 3.24
263 286 3.917300 CACTCCTCCTACCTGTATCCTT 58.083 50.000 0.00 0.00 0.00 3.36
266 289 2.863238 TCCTCCTACCTGTATCCTTCCA 59.137 50.000 0.00 0.00 0.00 3.53
267 290 3.273886 TCCTCCTACCTGTATCCTTCCAA 59.726 47.826 0.00 0.00 0.00 3.53
268 291 3.643792 CCTCCTACCTGTATCCTTCCAAG 59.356 52.174 0.00 0.00 0.00 3.61
270 293 2.104963 CCTACCTGTATCCTTCCAAGGC 59.895 54.545 0.00 0.00 46.06 4.35
271 294 0.919710 ACCTGTATCCTTCCAAGGCC 59.080 55.000 0.00 0.00 46.06 5.19
272 295 0.183731 CCTGTATCCTTCCAAGGCCC 59.816 60.000 0.00 0.00 46.06 5.80
273 296 0.918983 CTGTATCCTTCCAAGGCCCA 59.081 55.000 0.00 0.00 46.06 5.36
274 297 0.623723 TGTATCCTTCCAAGGCCCAC 59.376 55.000 0.00 0.00 46.06 4.61
275 298 0.623723 GTATCCTTCCAAGGCCCACA 59.376 55.000 0.00 0.00 46.06 4.17
276 299 1.215423 GTATCCTTCCAAGGCCCACAT 59.785 52.381 0.00 0.00 46.06 3.21
277 300 0.032813 ATCCTTCCAAGGCCCACATG 60.033 55.000 0.00 0.00 46.06 3.21
278 301 1.077265 CCTTCCAAGGCCCACATGT 59.923 57.895 0.00 0.00 39.76 3.21
279 302 0.967380 CCTTCCAAGGCCCACATGTC 60.967 60.000 0.00 0.00 39.76 3.06
280 303 0.251297 CTTCCAAGGCCCACATGTCA 60.251 55.000 0.00 0.00 0.00 3.58
281 304 0.409092 TTCCAAGGCCCACATGTCAT 59.591 50.000 0.00 0.00 0.00 3.06
282 305 1.294041 TCCAAGGCCCACATGTCATA 58.706 50.000 0.00 0.00 0.00 2.15
283 306 1.212688 TCCAAGGCCCACATGTCATAG 59.787 52.381 0.00 0.00 0.00 2.23
284 307 1.212688 CCAAGGCCCACATGTCATAGA 59.787 52.381 0.00 0.00 0.00 1.98
285 308 2.292267 CAAGGCCCACATGTCATAGAC 58.708 52.381 0.00 0.00 0.00 2.59
286 309 1.583556 AGGCCCACATGTCATAGACA 58.416 50.000 0.00 1.95 46.90 3.41
299 322 5.419542 TGTCATAGACATAAAGACAGGTGC 58.580 41.667 0.00 0.00 37.67 5.01
300 323 4.811557 GTCATAGACATAAAGACAGGTGCC 59.188 45.833 0.00 0.00 32.09 5.01
301 324 4.716784 TCATAGACATAAAGACAGGTGCCT 59.283 41.667 0.00 0.00 0.00 4.75
302 325 5.189736 TCATAGACATAAAGACAGGTGCCTT 59.810 40.000 0.00 0.00 0.00 4.35
303 326 6.382859 TCATAGACATAAAGACAGGTGCCTTA 59.617 38.462 0.00 0.00 0.00 2.69
304 327 5.499004 AGACATAAAGACAGGTGCCTTAA 57.501 39.130 0.00 0.00 0.00 1.85
305 328 5.876357 AGACATAAAGACAGGTGCCTTAAA 58.124 37.500 0.00 0.00 0.00 1.52
306 329 6.485171 AGACATAAAGACAGGTGCCTTAAAT 58.515 36.000 0.00 0.00 0.00 1.40
307 330 6.948309 AGACATAAAGACAGGTGCCTTAAATT 59.052 34.615 0.00 0.00 0.00 1.82
308 331 6.924111 ACATAAAGACAGGTGCCTTAAATTG 58.076 36.000 0.00 0.00 0.00 2.32
309 332 6.493458 ACATAAAGACAGGTGCCTTAAATTGT 59.507 34.615 0.00 0.00 0.00 2.71
310 333 5.453567 AAAGACAGGTGCCTTAAATTGTC 57.546 39.130 0.00 0.00 36.17 3.18
311 334 3.421844 AGACAGGTGCCTTAAATTGTCC 58.578 45.455 0.00 0.00 36.49 4.02
312 335 2.492088 GACAGGTGCCTTAAATTGTCCC 59.508 50.000 0.00 0.00 31.23 4.46
313 336 1.824852 CAGGTGCCTTAAATTGTCCCC 59.175 52.381 0.00 0.00 0.00 4.81
314 337 1.716503 AGGTGCCTTAAATTGTCCCCT 59.283 47.619 0.00 0.00 0.00 4.79
315 338 2.100197 GGTGCCTTAAATTGTCCCCTC 58.900 52.381 0.00 0.00 0.00 4.30
316 339 2.100197 GTGCCTTAAATTGTCCCCTCC 58.900 52.381 0.00 0.00 0.00 4.30
317 340 1.006639 TGCCTTAAATTGTCCCCTCCC 59.993 52.381 0.00 0.00 0.00 4.30
318 341 1.006639 GCCTTAAATTGTCCCCTCCCA 59.993 52.381 0.00 0.00 0.00 4.37
319 342 2.950418 GCCTTAAATTGTCCCCTCCCAG 60.950 54.545 0.00 0.00 0.00 4.45
320 343 2.358195 CCTTAAATTGTCCCCTCCCAGG 60.358 54.545 0.00 0.00 34.30 4.45
321 344 0.629058 TAAATTGTCCCCTCCCAGGC 59.371 55.000 0.00 0.00 32.73 4.85
322 345 2.168272 AAATTGTCCCCTCCCAGGCC 62.168 60.000 0.00 0.00 32.73 5.19
323 346 3.603330 ATTGTCCCCTCCCAGGCCT 62.603 63.158 0.00 0.00 32.73 5.19
448 676 2.277737 CACATGCCCTCCAGCCAT 59.722 61.111 0.00 0.00 0.00 4.40
510 747 2.202932 CGAGCGAATCCCCACCTG 60.203 66.667 0.00 0.00 0.00 4.00
522 759 4.431131 CACCTGCCCGCCATCCTT 62.431 66.667 0.00 0.00 0.00 3.36
657 894 0.472471 TCGGAGTTCTTTGGGCAACT 59.528 50.000 0.00 0.00 35.48 3.16
685 922 6.494842 TCGATTCAAAGTCTGAACCTTTTTG 58.505 36.000 0.00 0.00 46.80 2.44
731 968 0.532573 TCCGTCACAGAATCAGCTCC 59.467 55.000 0.00 0.00 0.00 4.70
763 1006 1.209621 GGAGGCCACCCATAAGTACA 58.790 55.000 8.25 0.00 0.00 2.90
812 1055 3.854582 TGGCCCATCCAGGATTGT 58.145 55.556 0.00 0.00 40.72 2.71
966 1230 1.103803 CCTAAGCTGCTAGGTCGACA 58.896 55.000 18.91 0.00 34.75 4.35
980 1244 4.461198 AGGTCGACAAAATTCCTCAAAGT 58.539 39.130 18.91 0.00 0.00 2.66
1375 1644 4.637091 CCATCACATGTGAACAGATTGCTA 59.363 41.667 31.00 5.27 43.58 3.49
1448 1717 7.048512 AGAGGTGCCTTATGTAAGTACATTTC 58.951 38.462 9.15 0.00 43.99 2.17
1573 1852 2.235650 GCATCTGCAGGAGGCTATATCA 59.764 50.000 15.13 0.00 46.73 2.15
1623 1902 3.009473 AGCTCTCATTTGCTTGGTTAGGA 59.991 43.478 0.00 0.00 35.86 2.94
2028 2309 5.698545 ACTTTGTCTCAGTGCTGAAGAATAC 59.301 40.000 3.36 0.00 39.39 1.89
2043 2324 2.092323 GAATACCCACAGTTGAAGGCC 58.908 52.381 0.00 0.00 0.00 5.19
2128 2412 2.849880 TGCAGCTTTTGACTTGACAC 57.150 45.000 0.00 0.00 0.00 3.67
2150 2434 6.041637 ACACATAACAGTAGTGAGGAACTTGA 59.958 38.462 4.09 0.00 41.55 3.02
2261 2546 8.272545 TGAGTTTTCTTCATGTCCAGATAATG 57.727 34.615 0.00 0.00 0.00 1.90
2269 2554 9.778741 TCTTCATGTCCAGATAATGTAATTACC 57.221 33.333 13.01 0.00 42.43 2.85
2270 2555 8.601845 TTCATGTCCAGATAATGTAATTACCG 57.398 34.615 13.01 0.00 42.43 4.02
2368 2657 4.452733 GTTGGCGAGAGTCGGGGG 62.453 72.222 0.00 0.00 40.84 5.40
2451 2740 4.210331 GGTGGCATGGAGAAGATAAATGT 58.790 43.478 0.00 0.00 0.00 2.71
2453 2742 4.037208 GTGGCATGGAGAAGATAAATGTGG 59.963 45.833 0.00 0.00 0.00 4.17
2766 3057 0.179029 GTGGGCTTATGTATGGCGGT 60.179 55.000 0.00 0.00 0.00 5.68
2818 3109 4.389374 ACACACAACTAGTTTGGAGATGG 58.611 43.478 5.07 0.00 39.84 3.51
2990 3281 9.588096 ACCCTATTTTCTGTTATCTTTCACTTT 57.412 29.630 0.00 0.00 0.00 2.66
2999 3290 5.241285 TGTTATCTTTCACTTTGCTGCATCA 59.759 36.000 1.84 0.00 0.00 3.07
3123 3414 4.243007 ACGGCTGAATTTCTTGAAAAGG 57.757 40.909 0.00 0.00 46.24 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 60 2.279851 CAGCCACACGACAACCGA 60.280 61.111 0.00 0.00 41.76 4.69
61 64 1.836999 ATAGGGCAGCCACACGACAA 61.837 55.000 15.19 0.00 0.00 3.18
170 191 2.615912 GTGCCAATCCTCATTAGAGCAC 59.384 50.000 0.00 0.00 40.68 4.40
261 284 0.251297 TGACATGTGGGCCTTGGAAG 60.251 55.000 1.15 0.00 0.00 3.46
262 285 0.409092 ATGACATGTGGGCCTTGGAA 59.591 50.000 1.15 0.00 0.00 3.53
263 286 1.212688 CTATGACATGTGGGCCTTGGA 59.787 52.381 1.15 0.00 0.00 3.53
266 289 1.915489 TGTCTATGACATGTGGGCCTT 59.085 47.619 1.15 0.00 37.67 4.35
267 290 1.583556 TGTCTATGACATGTGGGCCT 58.416 50.000 1.15 0.00 37.67 5.19
276 299 5.419542 GCACCTGTCTTTATGTCTATGACA 58.580 41.667 2.77 2.77 46.90 3.58
277 300 4.811557 GGCACCTGTCTTTATGTCTATGAC 59.188 45.833 0.00 0.00 0.00 3.06
278 301 4.716784 AGGCACCTGTCTTTATGTCTATGA 59.283 41.667 0.00 0.00 0.00 2.15
279 302 5.028549 AGGCACCTGTCTTTATGTCTATG 57.971 43.478 0.00 0.00 0.00 2.23
280 303 5.700402 AAGGCACCTGTCTTTATGTCTAT 57.300 39.130 0.00 0.00 36.42 1.98
281 304 6.614694 TTAAGGCACCTGTCTTTATGTCTA 57.385 37.500 0.00 0.00 40.86 2.59
282 305 5.499004 TTAAGGCACCTGTCTTTATGTCT 57.501 39.130 0.00 0.00 40.86 3.41
283 306 6.759497 ATTTAAGGCACCTGTCTTTATGTC 57.241 37.500 0.00 0.00 40.86 3.06
284 307 6.493458 ACAATTTAAGGCACCTGTCTTTATGT 59.507 34.615 0.00 0.00 40.86 2.29
285 308 6.924111 ACAATTTAAGGCACCTGTCTTTATG 58.076 36.000 0.00 0.00 40.86 1.90
286 309 6.152831 GGACAATTTAAGGCACCTGTCTTTAT 59.847 38.462 0.00 0.00 40.86 1.40
287 310 5.475564 GGACAATTTAAGGCACCTGTCTTTA 59.524 40.000 0.00 0.00 40.86 1.85
288 311 4.280929 GGACAATTTAAGGCACCTGTCTTT 59.719 41.667 0.00 0.00 40.86 2.52
289 312 3.826729 GGACAATTTAAGGCACCTGTCTT 59.173 43.478 0.00 0.00 43.26 3.01
290 313 3.421844 GGACAATTTAAGGCACCTGTCT 58.578 45.455 0.00 0.00 34.85 3.41
291 314 2.492088 GGGACAATTTAAGGCACCTGTC 59.508 50.000 0.00 0.00 33.92 3.51
292 315 2.525368 GGGACAATTTAAGGCACCTGT 58.475 47.619 0.00 0.00 0.00 4.00
293 316 1.824852 GGGGACAATTTAAGGCACCTG 59.175 52.381 0.00 0.00 0.00 4.00
294 317 1.716503 AGGGGACAATTTAAGGCACCT 59.283 47.619 0.00 0.00 0.00 4.00
295 318 2.100197 GAGGGGACAATTTAAGGCACC 58.900 52.381 0.00 0.00 0.00 5.01
296 319 2.100197 GGAGGGGACAATTTAAGGCAC 58.900 52.381 0.00 0.00 0.00 5.01
297 320 1.006639 GGGAGGGGACAATTTAAGGCA 59.993 52.381 0.00 0.00 0.00 4.75
298 321 1.006639 TGGGAGGGGACAATTTAAGGC 59.993 52.381 0.00 0.00 0.00 4.35
299 322 2.358195 CCTGGGAGGGGACAATTTAAGG 60.358 54.545 0.00 0.00 0.00 2.69
300 323 2.950418 GCCTGGGAGGGGACAATTTAAG 60.950 54.545 0.00 0.00 35.37 1.85
301 324 1.006639 GCCTGGGAGGGGACAATTTAA 59.993 52.381 0.00 0.00 35.37 1.52
302 325 0.629058 GCCTGGGAGGGGACAATTTA 59.371 55.000 0.00 0.00 35.37 1.40
303 326 1.388133 GCCTGGGAGGGGACAATTT 59.612 57.895 0.00 0.00 35.37 1.82
304 327 2.626467 GGCCTGGGAGGGGACAATT 61.626 63.158 0.00 0.00 35.37 2.32
305 328 3.023735 GGCCTGGGAGGGGACAAT 61.024 66.667 0.00 0.00 35.37 2.71
306 329 4.285790 AGGCCTGGGAGGGGACAA 62.286 66.667 3.11 0.00 35.37 3.18
308 331 2.916553 ATACAGGCCTGGGAGGGGAC 62.917 65.000 35.42 0.00 35.37 4.46
309 332 2.208562 AATACAGGCCTGGGAGGGGA 62.209 60.000 35.42 12.34 35.37 4.81
310 333 0.401395 TAATACAGGCCTGGGAGGGG 60.401 60.000 35.42 10.23 35.37 4.79
311 334 1.143073 GTTAATACAGGCCTGGGAGGG 59.857 57.143 35.42 11.04 35.37 4.30
312 335 1.143073 GGTTAATACAGGCCTGGGAGG 59.857 57.143 35.42 11.85 38.80 4.30
313 336 1.843851 TGGTTAATACAGGCCTGGGAG 59.156 52.381 35.42 12.27 34.19 4.30
314 337 1.974028 TGGTTAATACAGGCCTGGGA 58.026 50.000 35.42 23.52 34.19 4.37
315 338 2.758423 GTTTGGTTAATACAGGCCTGGG 59.242 50.000 35.42 13.50 34.19 4.45
316 339 2.758423 GGTTTGGTTAATACAGGCCTGG 59.242 50.000 35.42 18.18 34.19 4.45
317 340 3.192633 GTGGTTTGGTTAATACAGGCCTG 59.807 47.826 31.60 31.60 0.00 4.85
318 341 3.427573 GTGGTTTGGTTAATACAGGCCT 58.572 45.455 0.00 0.00 0.00 5.19
319 342 2.494471 GGTGGTTTGGTTAATACAGGCC 59.506 50.000 0.00 0.00 0.00 5.19
320 343 2.494471 GGGTGGTTTGGTTAATACAGGC 59.506 50.000 0.00 0.00 0.00 4.85
321 344 3.761752 CTGGGTGGTTTGGTTAATACAGG 59.238 47.826 0.00 0.00 0.00 4.00
322 345 3.192633 GCTGGGTGGTTTGGTTAATACAG 59.807 47.826 0.00 0.00 0.00 2.74
323 346 3.158676 GCTGGGTGGTTTGGTTAATACA 58.841 45.455 0.00 0.00 0.00 2.29
324 347 3.158676 TGCTGGGTGGTTTGGTTAATAC 58.841 45.455 0.00 0.00 0.00 1.89
374 602 2.582436 GGGATTCGTCGGAGGCAA 59.418 61.111 0.00 0.00 0.00 4.52
448 676 0.828022 AACCGGGAATGATACAGCGA 59.172 50.000 6.32 0.00 0.00 4.93
510 747 4.162690 AGACGAAGGATGGCGGGC 62.163 66.667 0.00 0.00 0.00 6.13
522 759 2.974489 GCGAACCACGAGGAGACGA 61.974 63.158 5.68 0.00 45.77 4.20
657 894 4.253685 GGTTCAGACTTTGAATCGATCCA 58.746 43.478 0.00 0.00 46.85 3.41
685 922 2.108362 CCGATTACGCCACTCCCC 59.892 66.667 0.00 0.00 38.29 4.81
731 968 2.767496 CCTCCCCTCCTCTGCTGG 60.767 72.222 0.00 0.00 0.00 4.85
763 1006 3.655211 CCAGGCAGGCTCTTGGGT 61.655 66.667 0.00 0.00 0.00 4.51
980 1244 4.709886 CCATCGGTGGTCCATGTATATCTA 59.290 45.833 6.53 0.00 40.83 1.98
987 1254 1.626356 CCTCCATCGGTGGTCCATGT 61.626 60.000 15.92 0.00 46.16 3.21
1207 1474 1.450312 GGCTGTAGAGGCACGCAAT 60.450 57.895 8.73 0.00 44.34 3.56
1375 1644 3.217231 GGTGATCACCGACGGGAT 58.783 61.111 28.52 17.16 42.29 3.85
1448 1717 2.126307 CCGCTGTGTCACGAGAGG 60.126 66.667 9.53 9.53 0.00 3.69
1514 1792 3.117663 TGCCTTTTTCTGGAGGTAGTGTT 60.118 43.478 0.00 0.00 35.42 3.32
1573 1852 4.858850 TCTGGATTGTGAATAAGCACCAT 58.141 39.130 0.00 0.00 37.99 3.55
1623 1902 0.326264 GCCAGGTCCACTTGTCATCT 59.674 55.000 0.00 0.00 0.00 2.90
1934 2215 3.838565 TCCATAACCTTTTCAGCCACAA 58.161 40.909 0.00 0.00 0.00 3.33
1936 2217 4.864704 TTTCCATAACCTTTTCAGCCAC 57.135 40.909 0.00 0.00 0.00 5.01
2028 2309 4.597032 TTGGCCTTCAACTGTGGG 57.403 55.556 3.32 0.00 0.00 4.61
2128 2412 6.692486 AGTCAAGTTCCTCACTACTGTTATG 58.308 40.000 0.00 0.00 32.94 1.90
2150 2434 1.492993 GGACCAAAGCTGAGGGGAGT 61.493 60.000 9.31 0.00 0.00 3.85
2267 2552 9.944376 ATTTTCATTATATCTGCTATACACGGT 57.056 29.630 0.00 0.00 0.00 4.83
2516 2807 9.905713 CCCCACTATAATATACATAAACATGCT 57.094 33.333 0.00 0.00 0.00 3.79
2614 2905 5.733676 ACCCCAAAAATAAGATCATTGTGC 58.266 37.500 0.00 0.00 0.00 4.57
2693 2984 0.853530 AAGGAAAGGTTGGCCTGACT 59.146 50.000 3.32 0.00 46.33 3.41
2818 3109 3.620488 TGGCCATTTATGTGAAGACCTC 58.380 45.455 0.00 0.00 0.00 3.85
2849 3140 6.540438 AGATGCCAAAAACATCATGATCTT 57.460 33.333 4.86 0.00 45.19 2.40
2944 3235 3.434984 GGTGCTGCTAGAGTCAAAAGAAG 59.565 47.826 0.00 0.00 0.00 2.85
2999 3290 2.236146 TGCTCACCGTGGATCATTAACT 59.764 45.455 0.00 0.00 0.00 2.24
3123 3414 9.803315 GGTTAATGAAGTGAAAAGATAATTCCC 57.197 33.333 0.00 0.00 0.00 3.97
3200 3491 5.706447 AGGTGCCTCTGTTACATCTATCTA 58.294 41.667 0.00 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.