AutoCloner

Multiple sequence alignment - TraesCS3B01G498000

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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	TraesCS3B01G498000	chr3B	100.000	3012	0	0	921	3932	741601056	741604067	0.000000e+00	5563
1	TraesCS3B01G498000	chr3B	85.153	1145	116	18	1810	2951	741713576	741714669	0.000000e+00	1123
2	TraesCS3B01G498000	chr3B	100.000	594	0	0	1	594	741600136	741600729	0.000000e+00	1098
3	TraesCS3B01G498000	chr3B	83.357	709	107	7	1470	2170	742691886	742691181	0.000000e+00	645
4	TraesCS3B01G498000	chr3B	87.310	394	44	2	1392	1779	741713185	741713578	2.790000e-121	446
5	TraesCS3B01G498000	chr3B	84.833	389	52	5	1574	1961	742553869	742553487	6.160000e-103	385
6	TraesCS3B01G498000	chr3B	84.896	384	55	2	2574	2954	742712806	742712423	6.160000e-103	385
7	TraesCS3B01G498000	chr3B	84.375	384	57	2	2574	2954	742550822	742550439	1.330000e-99	374
8	TraesCS3B01G498000	chr3B	85.933	327	43	2	2631	2954	742672308	742671982	2.910000e-91	346
9	TraesCS3B01G498000	chr3D	94.542	2785	121	14	1161	3932	558784441	558787207	0.000000e+00	4272
10	TraesCS3B01G498000	chr3D	84.917	1147	123	22	1809	2951	558938755	558939855	0.000000e+00	1114
11	TraesCS3B01G498000	chr3D	93.450	229	14	1	948	1176	558784293	558784520	4.870000e-89	339
12	TraesCS3B01G498000	chr3D	91.964	224	10	3	163	383	558783788	558784006	1.370000e-79	307
13	TraesCS3B01G498000	chr3D	86.081	273	38	0	1898	2170	559567712	559567440	1.070000e-75	294
14	TraesCS3B01G498000	chr3D	86.339	183	9	2	381	547	558784039	558784221	6.710000e-43	185
15	TraesCS3B01G498000	chr3D	82.716	162	10	3	19	162	558783524	558783685	1.150000e-25	128
16	TraesCS3B01G498000	chr3A	93.169	2752	139	26	1161	3886	695130447	695133175	0.000000e+00	3995
17	TraesCS3B01G498000	chr3A	81.019	569	60	15	1809	2377	695224148	695224668	3.660000e-110	409
18	TraesCS3B01G498000	chr3A	86.970	330	40	2	2625	2951	695239597	695239926	6.210000e-98	368
19	TraesCS3B01G498000	chr3A	88.679	265	25	3	2359	2621	695225732	695225993	6.340000e-83	318
20	TraesCS3B01G498000	chr3A	90.441	136	8	4	194	329	695129542	695129672	1.450000e-39	174
21	TraesCS3B01G498000	chr4A	80.140	1712	268	45	1244	2934	113331788	113330128	0.000000e+00	1212
22	TraesCS3B01G498000	chr4D	79.526	1729	275	50	1235	2934	352118429	352120107	0.000000e+00	1158
23	TraesCS3B01G498000	chr7B	86.667	675	87	2	3258	3932	552790860	552790189	0.000000e+00	745
24	TraesCS3B01G498000	chr7B	86.310	672	87	4	3262	3932	552735209	552734542	0.000000e+00	726
25	TraesCS3B01G498000	chr7B	86.310	672	87	4	3262	3932	552776261	552775594	0.000000e+00	726
26	TraesCS3B01G498000	chr7B	85.565	672	91	5	3258	3929	553058509	553057844	0.000000e+00	699
27	TraesCS3B01G498000	chr7B	87.168	452	51	4	3360	3807	10206981	10207429	1.260000e-139	507
28	TraesCS3B01G498000	chr7A	85.736	673	88	7	3262	3932	595306701	595306035	0.000000e+00	704
29	TraesCS3B01G498000	chr7D	85.172	553	75	4	3382	3932	519677436	519676889	9.540000e-156	560
30	TraesCS3B01G498000	chr1D	78.338	794	153	15	1392	2174	22625530	22624745	2.730000e-136	496
31	TraesCS3B01G498000	chr1B	79.315	672	127	11	1510	2174	38832656	38833322	9.960000e-126	460
32	TraesCS3B01G498000	chr1A	83.784	185	28	2	2737	2920	23817962	23818145	1.450000e-39	174

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	TraesCS3B01G498000	chr3B	741600136	741604067	3931	False	3330.5	5563	100.0000	1	3932	2	chr3B.!!$F1	3931
1	TraesCS3B01G498000	chr3B	741713185	741714669	1484	False	784.5	1123	86.2315	1392	2951	2	chr3B.!!$F2	1559
2	TraesCS3B01G498000	chr3B	742691181	742691886	705	True	645.0	645	83.3570	1470	2170	1	chr3B.!!$R2	700
3	TraesCS3B01G498000	chr3B	742550439	742553869	3430	True	379.5	385	84.6040	1574	2954	2	chr3B.!!$R4	1380
4	TraesCS3B01G498000	chr3D	558938755	558939855	1100	False	1114.0	1114	84.9170	1809	2951	1	chr3D.!!$F1	1142
5	TraesCS3B01G498000	chr3D	558783524	558787207	3683	False	1046.2	4272	89.8022	19	3932	5	chr3D.!!$F2	3913
6	TraesCS3B01G498000	chr3A	695129542	695133175	3633	False	2084.5	3995	91.8050	194	3886	2	chr3A.!!$F2	3692
7	TraesCS3B01G498000	chr3A	695224148	695225993	1845	False	363.5	409	84.8490	1809	2621	2	chr3A.!!$F3	812
8	TraesCS3B01G498000	chr4A	113330128	113331788	1660	True	1212.0	1212	80.1400	1244	2934	1	chr4A.!!$R1	1690
9	TraesCS3B01G498000	chr4D	352118429	352120107	1678	False	1158.0	1158	79.5260	1235	2934	1	chr4D.!!$F1	1699
10	TraesCS3B01G498000	chr7B	552790189	552790860	671	True	745.0	745	86.6670	3258	3932	1	chr7B.!!$R3	674
11	TraesCS3B01G498000	chr7B	552734542	552735209	667	True	726.0	726	86.3100	3262	3932	1	chr7B.!!$R1	670
12	TraesCS3B01G498000	chr7B	552775594	552776261	667	True	726.0	726	86.3100	3262	3932	1	chr7B.!!$R2	670
13	TraesCS3B01G498000	chr7B	553057844	553058509	665	True	699.0	699	85.5650	3258	3929	1	chr7B.!!$R4	671
14	TraesCS3B01G498000	chr7A	595306035	595306701	666	True	704.0	704	85.7360	3262	3932	1	chr7A.!!$R1	670
15	TraesCS3B01G498000	chr7D	519676889	519677436	547	True	560.0	560	85.1720	3382	3932	1	chr7D.!!$R1	550
16	TraesCS3B01G498000	chr1D	22624745	22625530	785	True	496.0	496	78.3380	1392	2174	1	chr1D.!!$R1	782
17	TraesCS3B01G498000	chr1B	38832656	38833322	666	False	460.0	460	79.3150	1510	2174	1	chr1B.!!$F1	664

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
134	153	1.593070	GCTGCACACGATCGCTTAATG	60.593	52.381	16.60	8.13	0.00	1.90	F
314	438	1.915614	ATCGGCAACAGAAAGCAGCG	61.916	55.000	0.00	0.00	0.00	5.18	F
2174	2600	0.677414	GTCTCTCCCCTCGAGTTCGT	60.677	60.000	12.31	0.00	39.84	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1025	1240	1.572085	GAAGTCGGAGTGGTCGTCGA	61.572	60.000	0.00	0.00	0.00	4.20	R
2214	2640	1.299850	CTTGTGGACGCGACTCACA	60.300	57.895	15.93	19.61	39.31	3.58	R
3636	6743	0.823356	GGCAGCAACTTGGGTTCTGA	60.823	55.000	0.00	0.00	35.07	3.27	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
28	29	5.741388	CGGAAGGAAGGAGTATGATTTTG	57.259	43.478	0.00	0.00	0.00	2.44
77	78	9.716556	TTCCTTAGATAGTAAGAATTCTGGTCT	57.283	33.333	9.17	10.09	0.00	3.85
82	83	7.787028	AGATAGTAAGAATTCTGGTCTTGGTC	58.213	38.462	9.17	7.31	36.06	4.02
88	89	5.799213	AGAATTCTGGTCTTGGTCTTACTG	58.201	41.667	7.30	0.00	0.00	2.74
117	136	2.536365	GTTCAATGGTCATGCATGCTG	58.464	47.619	22.25	14.33	0.00	4.41
134	153	1.593070	GCTGCACACGATCGCTTAATG	60.593	52.381	16.60	8.13	0.00	1.90
167	288	5.590145	TCGTACTACTAGTACTCTGAGCAG	58.410	45.833	19.68	0.00	46.68	4.24
224	348	2.185310	ATCGGGCTGGACCAAGTCAC	62.185	60.000	0.00	0.00	42.05	3.67
226	350	3.050275	GGCTGGACCAAGTCACGC	61.050	66.667	0.00	0.00	38.86	5.34
314	438	1.915614	ATCGGCAACAGAAAGCAGCG	61.916	55.000	0.00	0.00	0.00	5.18
316	440	2.798262	GCAACAGAAAGCAGCGCG	60.798	61.111	0.00	0.00	0.00	6.86
1072	1287	4.704103	TCCGCCTCTCCCAGCAGT	62.704	66.667	0.00	0.00	0.00	4.40
1081	1296	3.699894	CCCAGCAGTGCCTCGACT	61.700	66.667	12.58	0.00	0.00	4.18
1162	1383	3.490759	CGCCACATGCACGGTCTC	61.491	66.667	0.00	0.00	41.33	3.36
1163	1384	3.127533	GCCACATGCACGGTCTCC	61.128	66.667	0.00	0.00	40.77	3.71
1164	1385	2.436646	CCACATGCACGGTCTCCC	60.437	66.667	0.00	0.00	0.00	4.30
1165	1386	2.436646	CACATGCACGGTCTCCCC	60.437	66.667	0.00	0.00	0.00	4.81
1166	1387	2.607750	ACATGCACGGTCTCCCCT	60.608	61.111	0.00	0.00	0.00	4.79
1167	1388	2.124983	CATGCACGGTCTCCCCTG	60.125	66.667	0.00	0.00	0.00	4.45
1168	1389	4.101448	ATGCACGGTCTCCCCTGC	62.101	66.667	0.00	0.00	37.67	4.85
1196	1417	2.506438	GCCACGCGTACAGTCTCC	60.506	66.667	13.44	0.00	0.00	3.71
1197	1418	2.181021	CCACGCGTACAGTCTCCC	59.819	66.667	13.44	0.00	0.00	4.30
1198	1419	2.181021	CACGCGTACAGTCTCCCC	59.819	66.667	13.44	0.00	0.00	4.81
1199	1420	2.035312	ACGCGTACAGTCTCCCCT	59.965	61.111	11.67	0.00	0.00	4.79
1200	1421	2.341101	ACGCGTACAGTCTCCCCTG	61.341	63.158	11.67	0.00	38.45	4.45
1201	1422	2.184579	GCGTACAGTCTCCCCTGC	59.815	66.667	0.00	0.00	35.83	4.85
1202	1423	2.893398	CGTACAGTCTCCCCTGCC	59.107	66.667	0.00	0.00	35.83	4.85
1203	1424	2.722201	CGTACAGTCTCCCCTGCCC	61.722	68.421	0.00	0.00	35.83	5.36
1204	1425	2.040606	TACAGTCTCCCCTGCCCC	59.959	66.667	0.00	0.00	35.83	5.80
1205	1426	3.635869	TACAGTCTCCCCTGCCCCC	62.636	68.421	0.00	0.00	35.83	5.40
1233	1454	2.844839	GAGCCGTATCCCCTGCCT	60.845	66.667	0.00	0.00	0.00	4.75
2174	2600	0.677414	GTCTCTCCCCTCGAGTTCGT	60.677	60.000	12.31	0.00	39.84	3.85
2190	2616	4.367023	GTGTACCTCGCACGCCCA	62.367	66.667	0.00	0.00	0.00	5.36
2220	2646	1.675641	GCCGCCCAAATCTGTGAGT	60.676	57.895	0.00	0.00	0.00	3.41
2538	4354	0.734253	CCTTCCTCTGCGAGTTCACG	60.734	60.000	0.00	0.00	0.00	4.35
2562	4378	4.899239	GTGCTCCCCGCGGATCAG	62.899	72.222	30.73	19.63	43.27	2.90
2583	5670	4.178214	CGCATTGCCAACGCGGAT	62.178	61.111	10.41	0.00	45.08	4.18
2586	5673	3.061231	ATTGCCAACGCGGATGCA	61.061	55.556	12.47	13.09	42.97	3.96
2595	5682	2.105528	GCGGATGCAAATGCCAGG	59.894	61.111	2.46	0.00	42.15	4.45
2762	5855	3.750162	CGTGATCGACGTGTCCAC	58.250	61.111	0.00	0.00	43.50	4.02
2979	6078	2.031157	GTGCGTTGTTCTGCCATTTACT	60.031	45.455	0.00	0.00	0.00	2.24
2980	6079	3.187637	GTGCGTTGTTCTGCCATTTACTA	59.812	43.478	0.00	0.00	0.00	1.82
2982	6081	5.064198	GTGCGTTGTTCTGCCATTTACTATA	59.936	40.000	0.00	0.00	0.00	1.31
2983	6082	5.293324	TGCGTTGTTCTGCCATTTACTATAG	59.707	40.000	0.00	0.00	0.00	1.31
2984	6083	5.293569	GCGTTGTTCTGCCATTTACTATAGT	59.706	40.000	10.87	10.87	0.00	2.12
2986	6085	7.516312	GCGTTGTTCTGCCATTTACTATAGTAC	60.516	40.741	12.25	1.67	0.00	2.73
2987	6086	7.490079	CGTTGTTCTGCCATTTACTATAGTACA	59.510	37.037	12.25	6.66	0.00	2.90
2988	6087	9.326413	GTTGTTCTGCCATTTACTATAGTACAT	57.674	33.333	12.25	8.80	0.00	2.29
3063	6162	2.493973	GAGCCACCTCTCGCTGAG	59.506	66.667	0.00	0.00	42.30	3.35
3142	6241	3.407424	TCACATCCAACTTGTCCTGAG	57.593	47.619	0.00	0.00	0.00	3.35
3193	6294	5.350640	CCCGAGTTAAATTCCAGACACTTAC	59.649	44.000	0.00	0.00	0.00	2.34
3209	6310	6.985059	AGACACTTACTTTAGAACAGTTCCAC	59.015	38.462	9.85	0.00	0.00	4.02
3238	6339	0.036010	ACATCCAGTCCGAGCAAAGG	60.036	55.000	0.00	0.00	0.00	3.11
3245	6346	2.670934	CCGAGCAAAGGCAGCAGT	60.671	61.111	0.00	0.00	44.61	4.40
3252	6353	1.821136	GCAAAGGCAGCAGTTAGGAAT	59.179	47.619	0.00	0.00	40.72	3.01
3340	6446	6.490721	AGAATAAAGTCGGGGATAGTAGAGTG	59.509	42.308	0.00	0.00	0.00	3.51
3367	6473	7.042658	ACAGAGTTCAGACGAATTAGAAACAAC	60.043	37.037	0.00	0.00	32.61	3.32
3402	6508	5.296780	GCTAAGCTATCAGCAACCACATTAA	59.703	40.000	9.38	0.00	45.56	1.40
3403	6509	6.016777	GCTAAGCTATCAGCAACCACATTAAT	60.017	38.462	9.38	0.00	45.56	1.40
3407	6513	5.979517	GCTATCAGCAACCACATTAATTTCC	59.020	40.000	0.00	0.00	41.89	3.13
3415	6521	5.890424	ACCACATTAATTTCCCTACAACG	57.110	39.130	0.00	0.00	0.00	4.10
3494	6601	3.259328	TGCCACATCAGGACCCATATAT	58.741	45.455	0.00	0.00	0.00	0.86
3515	6622	1.546029	TCATCTGCTCGTGTAACAGCT	59.454	47.619	0.00	0.00	40.20	4.24
3636	6743	1.047596	TGCACTGCAAACATGGGGTT	61.048	50.000	0.00	0.00	42.98	4.11
3637	6744	0.319813	GCACTGCAAACATGGGGTTC	60.320	55.000	0.00	0.00	39.29	3.62
3751	6859	7.087409	TGCATCCACATTAATCTTAACAGTG	57.913	36.000	8.83	8.83	34.45	3.66
3851	6967	6.205464	TGTTGCCAAAACTTTGATTGAAACAA	59.795	30.769	3.72	0.00	40.55	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
3	4	3.110293	TCATACTCCTTCCTTCCGGAA	57.890	47.619	17.73	17.73	46.90	4.30
6	7	4.576463	CCAAAATCATACTCCTTCCTTCCG	59.424	45.833	0.00	0.00	0.00	4.30
7	8	5.755849	TCCAAAATCATACTCCTTCCTTCC	58.244	41.667	0.00	0.00	0.00	3.46
8	9	6.830838	ACATCCAAAATCATACTCCTTCCTTC	59.169	38.462	0.00	0.00	0.00	3.46
9	10	6.735556	ACATCCAAAATCATACTCCTTCCTT	58.264	36.000	0.00	0.00	0.00	3.36
10	11	6.332976	ACATCCAAAATCATACTCCTTCCT	57.667	37.500	0.00	0.00	0.00	3.36
11	12	6.202954	CGTACATCCAAAATCATACTCCTTCC	59.797	42.308	0.00	0.00	0.00	3.46
12	13	6.761714	ACGTACATCCAAAATCATACTCCTTC	59.238	38.462	0.00	0.00	0.00	3.46
13	14	6.650120	ACGTACATCCAAAATCATACTCCTT	58.350	36.000	0.00	0.00	0.00	3.36
14	15	6.235231	ACGTACATCCAAAATCATACTCCT	57.765	37.500	0.00	0.00	0.00	3.69
15	16	6.292168	CGAACGTACATCCAAAATCATACTCC	60.292	42.308	0.00	0.00	0.00	3.85
16	17	6.637365	CGAACGTACATCCAAAATCATACTC	58.363	40.000	0.00	0.00	0.00	2.59
17	18	5.006358	GCGAACGTACATCCAAAATCATACT	59.994	40.000	0.00	0.00	0.00	2.12
26	27	5.501092	CGATAAAATGCGAACGTACATCCAA	60.501	40.000	0.00	0.00	0.00	3.53
28	29	4.026310	ACGATAAAATGCGAACGTACATCC	60.026	41.667	0.00	0.00	32.42	3.51
67	68	4.042187	AGCAGTAAGACCAAGACCAGAATT	59.958	41.667	0.00	0.00	0.00	2.17
71	72	2.300152	TGAGCAGTAAGACCAAGACCAG	59.700	50.000	0.00	0.00	0.00	4.00
77	78	4.002906	ACGAATTGAGCAGTAAGACCAA	57.997	40.909	0.00	0.00	0.00	3.67
82	83	5.106555	ACCATTGAACGAATTGAGCAGTAAG	60.107	40.000	0.00	0.00	0.00	2.34
88	89	3.829886	TGACCATTGAACGAATTGAGC	57.170	42.857	0.00	0.00	0.00	4.26
117	136	3.592381	AATCATTAAGCGATCGTGTGC	57.408	42.857	17.81	0.00	0.00	4.57
167	288	0.110644	CCTCGACGCAAAAAGAGCAC	60.111	55.000	0.00	0.00	0.00	4.40
202	323	1.815421	CTTGGTCCAGCCCGATTCG	60.815	63.158	0.00	0.00	36.04	3.34
224	348	0.938637	GAGCCTCGATGACATGAGCG	60.939	60.000	0.00	0.00	0.00	5.03
226	350	0.383590	ACGAGCCTCGATGACATGAG	59.616	55.000	22.80	0.46	43.74	2.90
256	380	0.469917	ATGGATGGATGGGTCGTGTC	59.530	55.000	0.00	0.00	0.00	3.67
267	391	1.990327	CTGGATGGATGGATGGATGGA	59.010	52.381	0.00	0.00	0.00	3.41
268	392	1.005569	CCTGGATGGATGGATGGATGG	59.994	57.143	0.00	0.00	38.35	3.51
269	393	1.616187	GCCTGGATGGATGGATGGATG	60.616	57.143	0.00	0.00	38.35	3.51
270	394	0.702902	GCCTGGATGGATGGATGGAT	59.297	55.000	0.00	0.00	38.35	3.41
422	621	3.979497	GTTGGGTGGGGTGGGGAG	61.979	72.222	0.00	0.00	0.00	4.30
1025	1240	1.572085	GAAGTCGGAGTGGTCGTCGA	61.572	60.000	0.00	0.00	0.00	4.20
1034	1249	2.342648	GGTTGGCGAAGTCGGAGT	59.657	61.111	2.47	0.00	40.23	3.85
1072	1287	2.121538	CGGAGATGGAGTCGAGGCA	61.122	63.158	0.00	0.00	0.00	4.75
1179	1400	2.506438	GGAGACTGTACGCGTGGC	60.506	66.667	24.59	15.29	0.00	5.01
1180	1401	2.181021	GGGAGACTGTACGCGTGG	59.819	66.667	24.59	14.26	0.00	4.94
1181	1402	2.181021	GGGGAGACTGTACGCGTG	59.819	66.667	24.59	7.93	0.00	5.34
1182	1403	2.035312	AGGGGAGACTGTACGCGT	59.965	61.111	19.17	19.17	0.00	6.01
1183	1404	2.490217	CAGGGGAGACTGTACGCG	59.510	66.667	3.53	3.53	33.81	6.01
1184	1405	2.184579	GCAGGGGAGACTGTACGC	59.815	66.667	0.00	0.00	40.59	4.42
1185	1406	2.722201	GGGCAGGGGAGACTGTACG	61.722	68.421	0.00	0.00	40.59	3.67
1186	1407	2.368011	GGGGCAGGGGAGACTGTAC	61.368	68.421	0.00	0.00	40.59	2.90
1187	1408	2.040606	GGGGCAGGGGAGACTGTA	59.959	66.667	0.00	0.00	40.59	2.74
1436	1675	4.373116	GCTCGGAGTTGCGGTGGA	62.373	66.667	6.90	0.00	0.00	4.02
1872	2129	4.314440	GGGCTGGCGTCACAGTCA	62.314	66.667	9.90	0.00	44.69	3.41
2174	2600	4.063967	CTGGGCGTGCGAGGTACA	62.064	66.667	0.00	0.00	0.00	2.90
2214	2640	1.299850	CTTGTGGACGCGACTCACA	60.300	57.895	15.93	19.61	39.31	3.58
2220	2646	2.661537	CAGCACTTGTGGACGCGA	60.662	61.111	15.93	0.00	0.00	5.87
2562	4378	4.776647	GCGTTGGCAATGCGGGAC	62.777	66.667	26.79	3.57	39.62	4.46
2581	5668	1.434696	CGGTCCTGGCATTTGCATC	59.565	57.895	4.74	0.00	44.36	3.91
2583	5670	2.676121	CCGGTCCTGGCATTTGCA	60.676	61.111	4.74	0.00	44.36	4.08
2734	5827	3.830192	GATCACGTACCCCGGCGT	61.830	66.667	6.01	0.00	42.24	5.68
2762	5855	2.202623	CCGCGAAGTTCCTCCTCG	60.203	66.667	8.23	0.00	0.00	4.63
2880	5979	2.044053	CGCATGGGTGGGATGGTT	60.044	61.111	0.68	0.00	40.48	3.67
2952	6051	2.289133	TGGCAGAACAACGCACATACTA	60.289	45.455	0.00	0.00	0.00	1.82
2953	6052	1.156736	GGCAGAACAACGCACATACT	58.843	50.000	0.00	0.00	0.00	2.12
2954	6053	0.871722	TGGCAGAACAACGCACATAC	59.128	50.000	0.00	0.00	0.00	2.39
2982	6081	7.701924	CGATTCATGGCAAATGTAAAATGTACT	59.298	33.333	0.00	0.00	0.00	2.73
2983	6082	7.487829	ACGATTCATGGCAAATGTAAAATGTAC	59.512	33.333	0.00	0.00	0.00	2.90
2984	6083	7.542890	ACGATTCATGGCAAATGTAAAATGTA	58.457	30.769	0.00	0.00	0.00	2.29
2986	6085	6.890663	ACGATTCATGGCAAATGTAAAATG	57.109	33.333	0.00	0.00	0.00	2.32
2987	6086	7.276218	CAGAACGATTCATGGCAAATGTAAAAT	59.724	33.333	0.00	0.00	0.00	1.82
2988	6087	6.585702	CAGAACGATTCATGGCAAATGTAAAA	59.414	34.615	0.00	0.00	0.00	1.52
3063	6162	3.582714	AAGGAAAGCAAAGCATACAGC	57.417	42.857	0.00	0.00	46.19	4.40
3167	6268	4.225267	AGTGTCTGGAATTTAACTCGGGAT	59.775	41.667	0.00	0.00	0.00	3.85
3179	6280	7.736893	ACTGTTCTAAAGTAAGTGTCTGGAAT	58.263	34.615	0.00	0.00	0.00	3.01
3209	6310	2.679837	CGGACTGGATGTTGGAATTGAG	59.320	50.000	0.00	0.00	0.00	3.02
3292	6398	6.317642	TCTTTCCCACATTGTAAACGATATGG	59.682	38.462	1.21	1.21	34.72	2.74
3340	6446	6.641314	TGTTTCTAATTCGTCTGAACTCTGTC	59.359	38.462	0.00	0.00	36.81	3.51
3367	6473	7.530010	TGCTGATAGCTTAGCTAAACTTTTTG	58.470	34.615	18.34	5.72	44.62	2.44
3402	6508	9.139734	TGACTATAGTTATCGTTGTAGGGAAAT	57.860	33.333	6.88	0.00	0.00	2.17
3403	6509	8.523915	TGACTATAGTTATCGTTGTAGGGAAA	57.476	34.615	6.88	0.00	0.00	3.13
3422	6528	5.305585	ACGGATTTCGCCAATATTGACTAT	58.694	37.500	17.23	3.14	43.89	2.12
3494	6601	2.029020	AGCTGTTACACGAGCAGATGAA	60.029	45.455	0.00	0.00	37.70	2.57
3636	6743	0.823356	GGCAGCAACTTGGGTTCTGA	60.823	55.000	0.00	0.00	35.07	3.27
3637	6744	1.108727	TGGCAGCAACTTGGGTTCTG	61.109	55.000	0.00	0.00	35.61	3.02
3751	6859	1.007580	GGAAGAAACCGATCGAAGGC	58.992	55.000	18.66	3.23	0.00	4.35

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.