AutoCloner

Multiple sequence alignment - TraesCS5B01G175400

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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	TraesCS5B01G175400	chr5B	100.000	2245	0	0	830	3074	321528104	321525860	0.000000e+00	4146
1	TraesCS5B01G175400	chr5B	86.748	1230	84	31	1766	2957	222726205	222727393	0.000000e+00	1295
2	TraesCS5B01G175400	chr5B	100.000	554	0	0	1	554	321528933	321528380	0.000000e+00	1024
3	TraesCS5B01G175400	chr5B	90.865	624	34	7	838	1461	508618069	508618669	0.000000e+00	815
4	TraesCS5B01G175400	chr5B	85.401	274	36	3	86	359	321419163	321418894	6.490000e-72	281
5	TraesCS5B01G175400	chr5B	93.333	120	7	1	2955	3074	222727605	222727723	3.150000e-40	176
6	TraesCS5B01G175400	chr5B	84.932	146	21	1	1471	1616	222724303	222724447	2.470000e-31	147
7	TraesCS5B01G175400	chr5B	83.750	160	21	2	1604	1763	222724620	222724774	2.470000e-31	147
8	TraesCS5B01G175400	chr3B	96.804	2253	56	5	837	3074	699800149	699797898	0.000000e+00	3747
9	TraesCS5B01G175400	chr3B	86.720	625	44	9	837	1461	480336663	480336078	0.000000e+00	658
10	TraesCS5B01G175400	chr3B	88.654	520	41	7	830	1331	430937753	430937234	4.350000e-173	617
11	TraesCS5B01G175400	chr2D	94.468	1627	58	15	1460	3074	52490229	52491835	0.000000e+00	2477
12	TraesCS5B01G175400	chr1B	93.731	1627	73	12	1460	3074	623628783	623627174	0.000000e+00	2412
13	TraesCS5B01G175400	chr1B	79.888	179	32	3	837	1012	124914777	124914600	8.950000e-26	128
14	TraesCS5B01G175400	chr1B	80.247	162	29	2	837	995	554649489	554649650	5.380000e-23	119
15	TraesCS5B01G175400	chr7D	85.323	1206	104	39	1556	2728	524865631	524864466	0.000000e+00	1179
16	TraesCS5B01G175400	chr7D	96.203	158	6	0	1304	1461	529720028	529720185	3.040000e-65	259
17	TraesCS5B01G175400	chr7A	83.293	1239	110	48	1549	2728	604821741	604820541	0.000000e+00	1051
18	TraesCS5B01G175400	chr7A	89.749	478	42	4	861	1331	586277493	586277016	3.390000e-169	604
19	TraesCS5B01G175400	chr7B	86.383	918	73	22	1560	2451	561078598	561077707	0.000000e+00	955
20	TraesCS5B01G175400	chr7B	88.967	426	20	3	1036	1461	707914923	707914525	4.580000e-138	501
21	TraesCS5B01G175400	chr4A	90.529	718	55	6	2229	2941	204405704	204404995	0.000000e+00	937
22	TraesCS5B01G175400	chr4A	90.350	715	56	8	2229	2938	201125340	201126046	0.000000e+00	926
23	TraesCS5B01G175400	chr4A	90.028	722	58	7	2229	2944	223341729	223342442	0.000000e+00	922
24	TraesCS5B01G175400	chr4A	90.210	715	55	8	2229	2938	373871772	373872476	0.000000e+00	918
25	TraesCS5B01G175400	chr4A	89.930	715	54	9	2229	2938	222619414	222620115	0.000000e+00	905
26	TraesCS5B01G175400	chr4A	93.333	120	8	0	2955	3074	201126272	201126391	8.760000e-41	178
27	TraesCS5B01G175400	chr4A	93.333	120	8	0	2955	3074	203911347	203911466	8.760000e-41	178
28	TraesCS5B01G175400	chr4A	93.333	120	8	0	2955	3074	204662454	204662573	8.760000e-41	178
29	TraesCS5B01G175400	chr4A	93.333	120	8	0	2955	3074	222620341	222620460	8.760000e-41	178
30	TraesCS5B01G175400	chr6A	89.930	715	59	5	2229	2938	359858613	359859319	0.000000e+00	909
31	TraesCS5B01G175400	chr6A	92.500	120	9	0	2955	3074	359859545	359859664	4.080000e-39	172
32	TraesCS5B01G175400	chr3A	89.147	645	48	13	837	1461	424726401	424727043	0.000000e+00	784
33	TraesCS5B01G175400	chr3A	89.022	501	46	5	837	1331	662213259	662212762	2.030000e-171	612
34	TraesCS5B01G175400	chr5D	87.189	523	45	11	3	506	283340553	283340034	2.660000e-160	575
35	TraesCS5B01G175400	chr2B	93.617	329	21	0	1036	1364	57498125	57498453	2.750000e-135	492
36	TraesCS5B01G175400	chr2B	93.009	329	23	0	1036	1364	57496205	57496533	5.960000e-132	481
37	TraesCS5B01G175400	chr2B	90.556	180	16	1	837	1016	103550435	103550257	1.420000e-58	237
38	TraesCS5B01G175400	chr2B	97.297	74	2	0	1388	1461	57496530	57496603	3.220000e-25	126
39	TraesCS5B01G175400	chr2B	97.297	74	2	0	1388	1461	57498450	57498523	3.220000e-25	126
40	TraesCS5B01G175400	chr6B	83.039	283	18	13	1158	1440	653302825	653303077	2.380000e-56	230
41	TraesCS5B01G175400	chr6B	78.212	179	35	3	837	1012	546038665	546038488	9.010000e-21	111

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	TraesCS5B01G175400	chr5B	321525860	321528933	3073	True	2585.00	4146	100.00000	1	3074	2	chr5B.!!$R2	3073
1	TraesCS5B01G175400	chr5B	508618069	508618669	600	False	815.00	815	90.86500	838	1461	1	chr5B.!!$F1	623
2	TraesCS5B01G175400	chr5B	222724303	222727723	3420	False	441.25	1295	87.19075	1471	3074	4	chr5B.!!$F2	1603
3	TraesCS5B01G175400	chr3B	699797898	699800149	2251	True	3747.00	3747	96.80400	837	3074	1	chr3B.!!$R3	2237
4	TraesCS5B01G175400	chr3B	480336078	480336663	585	True	658.00	658	86.72000	837	1461	1	chr3B.!!$R2	624
5	TraesCS5B01G175400	chr3B	430937234	430937753	519	True	617.00	617	88.65400	830	1331	1	chr3B.!!$R1	501
6	TraesCS5B01G175400	chr2D	52490229	52491835	1606	False	2477.00	2477	94.46800	1460	3074	1	chr2D.!!$F1	1614
7	TraesCS5B01G175400	chr1B	623627174	623628783	1609	True	2412.00	2412	93.73100	1460	3074	1	chr1B.!!$R2	1614
8	TraesCS5B01G175400	chr7D	524864466	524865631	1165	True	1179.00	1179	85.32300	1556	2728	1	chr7D.!!$R1	1172
9	TraesCS5B01G175400	chr7A	604820541	604821741	1200	True	1051.00	1051	83.29300	1549	2728	1	chr7A.!!$R2	1179
10	TraesCS5B01G175400	chr7B	561077707	561078598	891	True	955.00	955	86.38300	1560	2451	1	chr7B.!!$R1	891
11	TraesCS5B01G175400	chr4A	204404995	204405704	709	True	937.00	937	90.52900	2229	2941	1	chr4A.!!$R1	712
12	TraesCS5B01G175400	chr4A	223341729	223342442	713	False	922.00	922	90.02800	2229	2944	1	chr4A.!!$F3	715
13	TraesCS5B01G175400	chr4A	373871772	373872476	704	False	918.00	918	90.21000	2229	2938	1	chr4A.!!$F4	709
14	TraesCS5B01G175400	chr4A	201125340	201126391	1051	False	552.00	926	91.84150	2229	3074	2	chr4A.!!$F5	845
15	TraesCS5B01G175400	chr4A	222619414	222620460	1046	False	541.50	905	91.63150	2229	3074	2	chr4A.!!$F6	845
16	TraesCS5B01G175400	chr6A	359858613	359859664	1051	False	540.50	909	91.21500	2229	3074	2	chr6A.!!$F1	845
17	TraesCS5B01G175400	chr3A	424726401	424727043	642	False	784.00	784	89.14700	837	1461	1	chr3A.!!$F1	624
18	TraesCS5B01G175400	chr5D	283340034	283340553	519	True	575.00	575	87.18900	3	506	1	chr5D.!!$R1	503
19	TraesCS5B01G175400	chr2B	57496205	57498523	2318	False	306.25	492	95.30500	1036	1461	4	chr2B.!!$F1	425

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	Hairpin	End Stability	Orientation
316	317	0.107312	CCTCCTCCACCTTCAGCATG	60.107	60.0	0.00	37.54	4.06	F
481	482	0.250295	CAGGAGGCTCGTTTGTCCAA	60.250	55.0	7.04	0.00	3.53	F
482	483	0.250338	AGGAGGCTCGTTTGTCCAAC	60.250	55.0	8.69	0.00	3.77	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1616	2742	1.302752	TGCATGAGCTTGAAGGCGT	60.303	52.632	0.00	42.74	5.68	R
1712	2840	1.618487	TTGATGCTGCACACCAATGA	58.382	45.000	3.57	0.00	2.57	R
2411	5033	6.270927	TGCCAATATAAGCTAGGACTGAAGAT	59.729	38.462	0.00	0.00	2.40	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
26	27	0.251341	AGGTGTTCCATCCCTTGCAC	60.251	55.000	0.00	0.00	35.89	4.57
33	34	1.815003	CATCCCTTGCACGCATCGA	60.815	57.895	0.00	0.00	0.00	3.59
34	35	1.146930	ATCCCTTGCACGCATCGAT	59.853	52.632	0.00	0.00	0.00	3.59
38	39	1.647545	CCTTGCACGCATCGATTGGT	61.648	55.000	0.00	0.00	0.00	3.67
39	40	0.247814	CTTGCACGCATCGATTGGTC	60.248	55.000	0.00	0.00	0.00	4.02
96	97	1.770518	CCACCACCCTCCCCTATCC	60.771	68.421	0.00	0.00	0.00	2.59
101	102	0.900647	CACCCTCCCCTATCCGCTAG	60.901	65.000	0.00	0.00	0.00	3.42
104	105	0.702902	CCTCCCCTATCCGCTAGGTA	59.297	60.000	8.09	0.00	45.05	3.08
109	110	1.959282	CCCTATCCGCTAGGTACGTTT	59.041	52.381	0.00	0.00	45.05	3.60
141	142	2.159379	CCAAGTCGATCGACATGTCTCA	60.159	50.000	40.51	10.29	46.76	3.27
218	219	3.546543	GTGCGATCCCCATCCCGA	61.547	66.667	0.00	0.00	0.00	5.14
296	297	2.951458	CCGAAAAGGCGGTCAACC	59.049	61.111	0.00	0.00	46.07	3.77
299	300	1.228459	GAAAAGGCGGTCAACCCCT	60.228	57.895	4.02	4.02	38.01	4.79
300	301	1.228459	AAAAGGCGGTCAACCCCTC	60.228	57.895	8.97	0.00	36.20	4.30
302	303	4.658786	AGGCGGTCAACCCCTCCT	62.659	66.667	4.02	1.22	33.24	3.69
303	304	4.097361	GGCGGTCAACCCCTCCTC	62.097	72.222	0.00	0.00	0.00	3.71
305	306	2.606519	CGGTCAACCCCTCCTCCA	60.607	66.667	0.00	0.00	0.00	3.86
308	309	1.539124	GTCAACCCCTCCTCCACCT	60.539	63.158	0.00	0.00	0.00	4.00
310	311	0.840722	TCAACCCCTCCTCCACCTTC	60.841	60.000	0.00	0.00	0.00	3.46
311	312	1.133809	CAACCCCTCCTCCACCTTCA	61.134	60.000	0.00	0.00	0.00	3.02
312	313	0.842467	AACCCCTCCTCCACCTTCAG	60.842	60.000	0.00	0.00	0.00	3.02
313	314	2.674220	CCCCTCCTCCACCTTCAGC	61.674	68.421	0.00	0.00	0.00	4.26
314	315	1.920325	CCCTCCTCCACCTTCAGCA	60.920	63.158	0.00	0.00	0.00	4.41
316	317	0.107312	CCTCCTCCACCTTCAGCATG	60.107	60.000	0.00	0.00	37.54	4.06
317	318	0.747283	CTCCTCCACCTTCAGCATGC	60.747	60.000	10.51	10.51	34.76	4.06
318	319	1.751927	CCTCCACCTTCAGCATGCC	60.752	63.158	15.66	0.00	34.76	4.40
320	321	2.036098	CCACCTTCAGCATGCCCA	59.964	61.111	15.66	0.00	34.76	5.36
321	322	1.607178	CCACCTTCAGCATGCCCAA	60.607	57.895	15.66	6.40	34.76	4.12
323	324	1.153524	ACCTTCAGCATGCCCAACA	59.846	52.632	15.66	0.00	34.76	3.33
326	327	2.203972	CTTCAGCATGCCCAACACCG	62.204	60.000	15.66	0.00	34.76	4.94
327	328	4.424566	CAGCATGCCCAACACCGC	62.425	66.667	15.66	0.00	0.00	5.68
345	346	0.586802	GCCGCGGAAGAATAATCCAC	59.413	55.000	33.48	1.16	36.74	4.02
346	347	1.810412	GCCGCGGAAGAATAATCCACT	60.810	52.381	33.48	0.00	36.74	4.00
347	348	1.867233	CCGCGGAAGAATAATCCACTG	59.133	52.381	24.07	0.00	36.74	3.66
348	349	2.550978	CGCGGAAGAATAATCCACTGT	58.449	47.619	0.00	0.00	36.74	3.55
350	351	3.738281	CGCGGAAGAATAATCCACTGTCT	60.738	47.826	0.00	0.00	36.74	3.41
351	352	3.557595	GCGGAAGAATAATCCACTGTCTG	59.442	47.826	0.00	0.00	36.74	3.51
352	353	4.759782	CGGAAGAATAATCCACTGTCTGT	58.240	43.478	0.00	0.00	36.74	3.41
353	354	4.806247	CGGAAGAATAATCCACTGTCTGTC	59.194	45.833	0.00	0.00	36.74	3.51
354	355	5.119694	GGAAGAATAATCCACTGTCTGTCC	58.880	45.833	0.00	0.00	36.92	4.02
355	356	5.338381	GGAAGAATAATCCACTGTCTGTCCA	60.338	44.000	0.00	0.00	36.92	4.02
356	357	5.091261	AGAATAATCCACTGTCTGTCCAC	57.909	43.478	0.00	0.00	0.00	4.02
357	358	3.914426	ATAATCCACTGTCTGTCCACC	57.086	47.619	0.00	0.00	0.00	4.61
358	359	0.321671	AATCCACTGTCTGTCCACCG	59.678	55.000	0.00	0.00	0.00	4.94
359	360	0.541998	ATCCACTGTCTGTCCACCGA	60.542	55.000	0.00	0.00	0.00	4.69
360	361	1.179174	TCCACTGTCTGTCCACCGAG	61.179	60.000	0.00	0.00	0.00	4.63
363	364	3.633094	CTGTCTGTCCACCGAGGCG	62.633	68.421	0.00	0.00	37.29	5.52
380	381	3.799755	GGGGCACATGCGTTCGTC	61.800	66.667	0.00	0.00	43.26	4.20
381	382	2.742372	GGGCACATGCGTTCGTCT	60.742	61.111	0.00	0.00	43.26	4.18
382	383	2.325082	GGGCACATGCGTTCGTCTT	61.325	57.895	0.00	0.00	43.26	3.01
386	387	2.350007	GGCACATGCGTTCGTCTTTTTA	60.350	45.455	0.00	0.00	43.26	1.52
387	388	3.293262	GCACATGCGTTCGTCTTTTTAA	58.707	40.909	0.00	0.00	0.00	1.52
388	389	3.726730	GCACATGCGTTCGTCTTTTTAAA	59.273	39.130	0.00	0.00	0.00	1.52
389	390	4.205385	GCACATGCGTTCGTCTTTTTAAAA	59.795	37.500	0.00	0.00	0.00	1.52
416	417	9.905713	AAAGACCATTATGACTAGCTTTATTGA	57.094	29.630	0.00	0.00	0.00	2.57
417	418	9.905713	AAGACCATTATGACTAGCTTTATTGAA	57.094	29.630	0.00	0.00	0.00	2.69
445	446	5.515797	CAAGAATTGCATCATCCATCAGT	57.484	39.130	0.00	0.00	40.39	3.41
447	448	6.338146	CAAGAATTGCATCATCCATCAGTTT	58.662	36.000	0.00	0.00	40.39	2.66
448	449	6.145338	AGAATTGCATCATCCATCAGTTTC	57.855	37.500	0.00	0.00	0.00	2.78
450	451	3.264998	TGCATCATCCATCAGTTTCGA	57.735	42.857	0.00	0.00	0.00	3.71
451	452	3.200483	TGCATCATCCATCAGTTTCGAG	58.800	45.455	0.00	0.00	0.00	4.04
452	453	3.118665	TGCATCATCCATCAGTTTCGAGA	60.119	43.478	0.00	0.00	0.00	4.04
453	454	3.247173	GCATCATCCATCAGTTTCGAGAC	59.753	47.826	0.00	0.00	0.00	3.36
454	455	4.691175	CATCATCCATCAGTTTCGAGACT	58.309	43.478	2.13	2.13	0.00	3.24
455	456	5.737349	GCATCATCCATCAGTTTCGAGACTA	60.737	44.000	8.47	0.00	0.00	2.59
457	458	5.651530	TCATCCATCAGTTTCGAGACTAAC	58.348	41.667	8.47	0.00	0.00	2.34
460	461	4.082190	TCCATCAGTTTCGAGACTAACCAG	60.082	45.833	8.47	0.00	0.00	4.00
461	462	4.322049	CCATCAGTTTCGAGACTAACCAGT	60.322	45.833	8.47	0.00	37.87	4.00
471	472	1.562783	ACTAACCAGTCAGGAGGCTC	58.437	55.000	5.78	5.78	41.22	4.70
472	473	0.457851	CTAACCAGTCAGGAGGCTCG	59.542	60.000	8.69	0.00	41.22	5.03
473	474	0.251653	TAACCAGTCAGGAGGCTCGT	60.252	55.000	8.69	6.08	41.22	4.18
474	475	1.122019	AACCAGTCAGGAGGCTCGTT	61.122	55.000	7.04	1.39	41.22	3.85
478	479	0.318762	AGTCAGGAGGCTCGTTTGTC	59.681	55.000	7.04	4.47	0.00	3.18
480	481	1.118965	TCAGGAGGCTCGTTTGTCCA	61.119	55.000	7.04	0.00	0.00	4.02
481	482	0.250295	CAGGAGGCTCGTTTGTCCAA	60.250	55.000	7.04	0.00	0.00	3.53
482	483	0.250338	AGGAGGCTCGTTTGTCCAAC	60.250	55.000	8.69	0.00	0.00	3.77
484	485	1.001633	GGAGGCTCGTTTGTCCAACTA	59.998	52.381	8.69	0.00	32.53	2.24
485	486	2.067013	GAGGCTCGTTTGTCCAACTAC	58.933	52.381	0.00	0.00	32.53	2.73
486	487	1.692519	AGGCTCGTTTGTCCAACTACT	59.307	47.619	0.00	0.00	32.53	2.57
488	489	3.056749	AGGCTCGTTTGTCCAACTACTAG	60.057	47.826	0.00	0.00	32.53	2.57
492	493	5.770417	CTCGTTTGTCCAACTACTAGTCTT	58.230	41.667	0.00	0.00	32.53	3.01
494	495	6.211515	TCGTTTGTCCAACTACTAGTCTTTC	58.788	40.000	0.00	0.00	32.53	2.62
495	496	5.404667	CGTTTGTCCAACTACTAGTCTTTCC	59.595	44.000	0.00	0.00	32.53	3.13
497	498	4.748701	TGTCCAACTACTAGTCTTTCCCT	58.251	43.478	0.00	0.00	0.00	4.20
498	499	5.895807	TGTCCAACTACTAGTCTTTCCCTA	58.104	41.667	0.00	0.00	0.00	3.53
500	501	6.958192	TGTCCAACTACTAGTCTTTCCCTAAT	59.042	38.462	0.00	0.00	0.00	1.73
501	502	8.117956	TGTCCAACTACTAGTCTTTCCCTAATA	58.882	37.037	0.00	0.00	0.00	0.98
502	503	8.975295	GTCCAACTACTAGTCTTTCCCTAATAA	58.025	37.037	0.00	0.00	0.00	1.40
912	913	4.671766	CGCAATCCCTGTTTTAGTAAGTGC	60.672	45.833	0.00	0.00	31.00	4.40
1712	2840	1.043022	CCTTCCTGCCACTTTGCTTT	58.957	50.000	0.00	0.00	0.00	3.51
1842	4398	2.609459	CAGGTATTCACATGCTCGGTTC	59.391	50.000	0.00	0.00	28.40	3.62
1945	4533	4.149598	TCTACCGGCAAAGCTATCATCTA	58.850	43.478	0.00	0.00	0.00	1.98
2069	4682	1.913951	ATCTGCAACCGATGGCTCCA	61.914	55.000	0.00	0.00	0.00	3.86
2310	4932	2.089980	AGCTTGCATTGCTAGACAAGG	58.910	47.619	21.72	0.36	42.87	3.61
2374	4996	7.523293	TTCTTACTTTGCTTTGGATGATTGA	57.477	32.000	0.00	0.00	0.00	2.57
2411	5033	6.169800	TCATGATATGGACGAGTTTGTTCAA	58.830	36.000	0.00	0.00	29.38	2.69
2456	5078	5.125417	TGGCAGTTGGTATAATTTTCTCTGC	59.875	40.000	0.00	0.00	42.99	4.26
2611	5236	4.513442	TCGGTGCAATAGCTTCTTTGTAT	58.487	39.130	0.00	0.00	42.74	2.29
2938	5577	3.639094	CCCGAAGTTCATCTCTCTACCAT	59.361	47.826	3.32	0.00	0.00	3.55
3019	5869	6.250819	CCACAACTAAGATATGTTTGCTTCG	58.749	40.000	0.00	0.00	0.00	3.79

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
33	34	4.567959	GGTTTTATACTGTACGCGACCAAT	59.432	41.667	15.93	0.17	0.00	3.16
34	35	3.925913	GGTTTTATACTGTACGCGACCAA	59.074	43.478	15.93	0.00	0.00	3.67
38	39	2.163412	ACGGGTTTTATACTGTACGCGA	59.837	45.455	15.93	0.00	45.90	5.87
84	85	1.305381	CCTAGCGGATAGGGGAGGG	60.305	68.421	11.51	0.00	46.63	4.30
96	97	0.168788	TGGACGAAACGTACCTAGCG	59.831	55.000	4.09	0.00	40.39	4.26
109	110	1.034356	TCGACTTGGAGTTTGGACGA	58.966	50.000	0.00	0.00	0.00	4.20
202	203	3.233980	CTCGGGATGGGGATCGCA	61.234	66.667	12.32	0.00	33.67	5.10
211	212	4.918201	GCGGCTTCCCTCGGGATG	62.918	72.222	5.34	9.42	44.74	3.51
288	289	2.606519	TGGAGGAGGGGTTGACCG	60.607	66.667	0.00	0.00	41.60	4.79
289	290	2.603652	GGTGGAGGAGGGGTTGACC	61.604	68.421	0.00	0.00	39.11	4.02
290	291	1.134438	AAGGTGGAGGAGGGGTTGAC	61.134	60.000	0.00	0.00	0.00	3.18
293	294	0.842467	CTGAAGGTGGAGGAGGGGTT	60.842	60.000	0.00	0.00	0.00	4.11
294	295	1.229658	CTGAAGGTGGAGGAGGGGT	60.230	63.158	0.00	0.00	0.00	4.95
296	297	1.277580	ATGCTGAAGGTGGAGGAGGG	61.278	60.000	0.00	0.00	0.00	4.30
299	300	1.300963	GCATGCTGAAGGTGGAGGA	59.699	57.895	11.37	0.00	0.00	3.71
300	301	1.751927	GGCATGCTGAAGGTGGAGG	60.752	63.158	18.92	0.00	0.00	4.30
302	303	2.079088	TTGGGCATGCTGAAGGTGGA	62.079	55.000	18.92	0.00	0.00	4.02
303	304	1.607178	TTGGGCATGCTGAAGGTGG	60.607	57.895	18.92	0.00	0.00	4.61
305	306	1.153524	TGTTGGGCATGCTGAAGGT	59.846	52.632	18.92	0.00	0.00	3.50
308	309	2.267351	CGGTGTTGGGCATGCTGAA	61.267	57.895	18.92	7.74	0.00	3.02
310	311	4.424566	GCGGTGTTGGGCATGCTG	62.425	66.667	18.92	0.00	0.00	4.41
326	327	0.586802	GTGGATTATTCTTCCGCGGC	59.413	55.000	23.51	2.01	35.94	6.53
327	328	1.867233	CAGTGGATTATTCTTCCGCGG	59.133	52.381	22.12	22.12	46.23	6.46
330	331	4.759782	ACAGACAGTGGATTATTCTTCCG	58.240	43.478	0.00	0.00	35.94	4.30
331	332	5.119694	GGACAGACAGTGGATTATTCTTCC	58.880	45.833	0.00	0.00	0.00	3.46
332	333	5.582665	GTGGACAGACAGTGGATTATTCTTC	59.417	44.000	0.00	0.00	0.00	2.87
333	334	5.491982	GTGGACAGACAGTGGATTATTCTT	58.508	41.667	0.00	0.00	0.00	2.52
334	335	4.080863	GGTGGACAGACAGTGGATTATTCT	60.081	45.833	0.00	0.00	0.00	2.40
335	336	4.192317	GGTGGACAGACAGTGGATTATTC	58.808	47.826	0.00	0.00	0.00	1.75
336	337	3.369471	CGGTGGACAGACAGTGGATTATT	60.369	47.826	0.00	0.00	0.00	1.40
337	338	2.168521	CGGTGGACAGACAGTGGATTAT	59.831	50.000	0.00	0.00	0.00	1.28
338	339	1.548719	CGGTGGACAGACAGTGGATTA	59.451	52.381	0.00	0.00	0.00	1.75
339	340	0.321671	CGGTGGACAGACAGTGGATT	59.678	55.000	0.00	0.00	0.00	3.01
340	341	0.541998	TCGGTGGACAGACAGTGGAT	60.542	55.000	0.00	0.00	0.00	3.41
341	342	1.152631	TCGGTGGACAGACAGTGGA	60.153	57.895	0.00	0.00	0.00	4.02
345	346	2.262915	GCCTCGGTGGACAGACAG	59.737	66.667	0.00	0.00	38.35	3.51
346	347	3.680786	CGCCTCGGTGGACAGACA	61.681	66.667	0.00	0.00	38.35	3.41
363	364	3.799755	GACGAACGCATGTGCCCC	61.800	66.667	6.08	0.00	37.91	5.80
364	365	1.852067	AAAGACGAACGCATGTGCCC	61.852	55.000	6.08	0.00	37.91	5.36
365	366	0.040425	AAAAGACGAACGCATGTGCC	60.040	50.000	6.08	0.00	37.91	5.01
366	367	1.753956	AAAAAGACGAACGCATGTGC	58.246	45.000	6.08	0.00	37.78	4.57
367	368	5.858159	TTTTAAAAAGACGAACGCATGTG	57.142	34.783	4.30	4.30	0.00	3.21
391	392	9.905713	TTCAATAAAGCTAGTCATAATGGTCTT	57.094	29.630	0.00	0.00	0.00	3.01
413	414	9.153721	GGATGATGCAATTCTTGTTTTATTCAA	57.846	29.630	0.00	0.00	0.00	2.69
415	416	8.706492	TGGATGATGCAATTCTTGTTTTATTC	57.294	30.769	0.00	0.00	0.00	1.75
416	417	9.321562	GATGGATGATGCAATTCTTGTTTTATT	57.678	29.630	0.00	0.00	0.00	1.40
417	418	8.479689	TGATGGATGATGCAATTCTTGTTTTAT	58.520	29.630	0.00	0.00	0.00	1.40
418	419	7.838884	TGATGGATGATGCAATTCTTGTTTTA	58.161	30.769	0.00	0.00	0.00	1.52
419	420	6.703319	TGATGGATGATGCAATTCTTGTTTT	58.297	32.000	0.00	0.00	0.00	2.43
420	421	6.070995	ACTGATGGATGATGCAATTCTTGTTT	60.071	34.615	0.00	0.00	0.00	2.83
421	422	5.421056	ACTGATGGATGATGCAATTCTTGTT	59.579	36.000	0.00	0.00	0.00	2.83
422	423	4.954202	ACTGATGGATGATGCAATTCTTGT	59.046	37.500	0.00	0.00	0.00	3.16
424	425	6.540438	AAACTGATGGATGATGCAATTCTT	57.460	33.333	0.00	0.00	0.00	2.52
425	426	5.220989	CGAAACTGATGGATGATGCAATTCT	60.221	40.000	0.00	0.00	0.00	2.40
427	428	4.641541	TCGAAACTGATGGATGATGCAATT	59.358	37.500	0.00	0.00	0.00	2.32
428	429	4.201657	TCGAAACTGATGGATGATGCAAT	58.798	39.130	0.00	0.00	0.00	3.56
429	430	3.608796	TCGAAACTGATGGATGATGCAA	58.391	40.909	0.00	0.00	0.00	4.08
430	431	3.118665	TCTCGAAACTGATGGATGATGCA	60.119	43.478	0.00	0.00	0.00	3.96
433	434	6.276847	GTTAGTCTCGAAACTGATGGATGAT	58.723	40.000	0.46	0.00	0.00	2.45
434	435	5.394224	GGTTAGTCTCGAAACTGATGGATGA	60.394	44.000	0.46	0.00	0.00	2.92
435	436	4.806247	GGTTAGTCTCGAAACTGATGGATG	59.194	45.833	0.46	0.00	0.00	3.51
437	438	3.830178	TGGTTAGTCTCGAAACTGATGGA	59.170	43.478	0.46	0.00	0.00	3.41
452	453	1.562783	GAGCCTCCTGACTGGTTAGT	58.437	55.000	0.00	0.00	40.66	2.24
453	454	0.457851	CGAGCCTCCTGACTGGTTAG	59.542	60.000	0.00	0.00	37.07	2.34
454	455	0.251653	ACGAGCCTCCTGACTGGTTA	60.252	55.000	0.00	0.00	37.07	2.85
455	456	1.122019	AACGAGCCTCCTGACTGGTT	61.122	55.000	0.00	0.00	37.07	3.67
457	458	0.671781	CAAACGAGCCTCCTGACTGG	60.672	60.000	0.00	0.00	37.10	4.00
460	461	0.670854	GGACAAACGAGCCTCCTGAC	60.671	60.000	0.00	0.00	0.00	3.51
461	462	1.118965	TGGACAAACGAGCCTCCTGA	61.119	55.000	0.00	0.00	0.00	3.86
464	465	0.250338	AGTTGGACAAACGAGCCTCC	60.250	55.000	0.00	0.00	44.04	4.30
465	466	2.067013	GTAGTTGGACAAACGAGCCTC	58.933	52.381	0.00	0.00	44.04	4.70
466	467	1.692519	AGTAGTTGGACAAACGAGCCT	59.307	47.619	0.00	0.00	44.04	4.58
467	468	2.165319	AGTAGTTGGACAAACGAGCC	57.835	50.000	0.00	0.00	44.04	4.70
468	469	3.910648	ACTAGTAGTTGGACAAACGAGC	58.089	45.455	0.00	0.00	44.04	5.03
469	470	5.373981	AGACTAGTAGTTGGACAAACGAG	57.626	43.478	3.85	0.00	44.04	4.18
471	472	5.404667	GGAAAGACTAGTAGTTGGACAAACG	59.595	44.000	3.85	0.00	44.04	3.60
472	473	5.699915	GGGAAAGACTAGTAGTTGGACAAAC	59.300	44.000	3.85	0.00	39.24	2.93
473	474	5.605488	AGGGAAAGACTAGTAGTTGGACAAA	59.395	40.000	3.85	0.00	0.00	2.83
474	475	5.152934	AGGGAAAGACTAGTAGTTGGACAA	58.847	41.667	3.85	0.00	0.00	3.18
834	835	0.806102	AAATCATGAGCGACGACGGG	60.806	55.000	9.67	0.00	40.15	5.28
835	836	0.999406	AAAATCATGAGCGACGACGG	59.001	50.000	9.67	0.00	40.15	4.79
1616	2742	1.302752	TGCATGAGCTTGAAGGCGT	60.303	52.632	0.00	0.00	42.74	5.68
1712	2840	1.618487	TTGATGCTGCACACCAATGA	58.382	45.000	3.57	0.00	0.00	2.57
2069	4682	6.823689	CCTGCACTTGTATAACACCTTCTATT	59.176	38.462	0.00	0.00	0.00	1.73
2374	4996	7.275920	GTCCATATCATGAAGTCCAGTAACTT	58.724	38.462	0.00	0.00	42.10	2.66
2411	5033	6.270927	TGCCAATATAAGCTAGGACTGAAGAT	59.729	38.462	0.00	0.00	0.00	2.40
2938	5577	9.654417	GTATTTAAAAGTACTGAACAAAGCGAA	57.346	29.630	0.00	0.00	0.00	4.70
3019	5869	3.377172	AGGCGGATTACAAACATTAGTGC	59.623	43.478	0.00	0.00	0.00	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.