AutoCloner

Multiple sequence alignment - TraesCS3D01G047100

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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	TraesCS3D01G047100	chr3D	100.000	2777	0	0	1	2777	17653442	17650666	0.000000e+00	5129.0
1	TraesCS3D01G047100	chr3D	90.262	688	65	2	1046	1732	18944268	18944954	0.000000e+00	898.0
2	TraesCS3D01G047100	chr3D	84.011	713	106	5	976	1687	17366861	17367566	0.000000e+00	678.0
3	TraesCS3D01G047100	chr3D	88.036	560	42	17	2218	2773	11342510	11343048	8.390000e-180	640.0
4	TraesCS3D01G047100	chr3D	79.857	561	56	35	2218	2763	11344991	11345509	9.460000e-95	357.0
5	TraesCS3D01G047100	chr3A	88.444	1350	134	13	481	1823	25947579	25946245	0.000000e+00	1609.0
6	TraesCS3D01G047100	chr3A	85.174	1032	103	20	964	1987	19290410	19291399	0.000000e+00	1013.0
7	TraesCS3D01G047100	chr3A	84.806	645	93	3	1046	1689	19362366	19363006	0.000000e+00	643.0
8	TraesCS3D01G047100	chr3A	82.538	733	112	9	964	1690	26472112	26472834	5.050000e-177	630.0
9	TraesCS3D01G047100	chr3A	94.175	412	18	4	2364	2773	25945702	25945295	8.450000e-175	623.0
10	TraesCS3D01G047100	chr3A	83.544	395	36	12	118	486	25948162	25947771	2.650000e-90	342.0
11	TraesCS3D01G047100	chr3A	84.932	292	28	8	671	948	19290045	19290334	5.860000e-72	281.0
12	TraesCS3D01G047100	chr3A	88.725	204	7	6	1997	2199	25945969	25945781	4.620000e-58	235.0
13	TraesCS3D01G047100	chr3A	80.632	253	31	13	2530	2777	19295851	19296090	2.200000e-41	180.0
14	TraesCS3D01G047100	chr3A	94.444	108	6	0	1880	1987	25946116	25946009	1.710000e-37	167.0
15	TraesCS3D01G047100	chr3A	89.773	88	9	0	2218	2305	25945794	25945707	2.260000e-21	113.0
16	TraesCS3D01G047100	chr3A	93.548	62	2	1	32	91	25948206	25948145	1.060000e-14	91.6
17	TraesCS3D01G047100	chrUn	83.690	1214	145	20	964	2140	346501305	346500108	0.000000e+00	1096.0
18	TraesCS3D01G047100	chrUn	89.841	315	27	5	636	948	346501690	346501379	1.550000e-107	399.0
19	TraesCS3D01G047100	chrUn	88.128	219	12	6	2546	2762	306756210	306756416	5.940000e-62	248.0
20	TraesCS3D01G047100	chrUn	88.095	168	15	2	2221	2388	346499744	346499582	7.850000e-46	195.0
21	TraesCS3D01G047100	chr3B	82.598	793	120	10	1046	1836	29724850	29725626	0.000000e+00	684.0
22	TraesCS3D01G047100	chr3B	82.399	767	114	13	1046	1808	29727332	29728081	0.000000e+00	649.0

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	TraesCS3D01G047100	chr3D	17650666	17653442	2776	True	5129.000000	5129	100.000000	1	2777	1	chr3D.!!$R1	2776
1	TraesCS3D01G047100	chr3D	18944268	18944954	686	False	898.000000	898	90.262000	1046	1732	1	chr3D.!!$F2	686
2	TraesCS3D01G047100	chr3D	17366861	17367566	705	False	678.000000	678	84.011000	976	1687	1	chr3D.!!$F1	711
3	TraesCS3D01G047100	chr3D	11342510	11345509	2999	False	498.500000	640	83.946500	2218	2773	2	chr3D.!!$F3	555
4	TraesCS3D01G047100	chr3A	19290045	19291399	1354	False	647.000000	1013	85.053000	671	1987	2	chr3A.!!$F4	1316
5	TraesCS3D01G047100	chr3A	19362366	19363006	640	False	643.000000	643	84.806000	1046	1689	1	chr3A.!!$F2	643
6	TraesCS3D01G047100	chr3A	26472112	26472834	722	False	630.000000	630	82.538000	964	1690	1	chr3A.!!$F3	726
7	TraesCS3D01G047100	chr3A	25945295	25948206	2911	True	454.371429	1609	90.379000	32	2773	7	chr3A.!!$R1	2741
8	TraesCS3D01G047100	chrUn	346499582	346501690	2108	True	563.333333	1096	87.208667	636	2388	3	chrUn.!!$R1	1752
9	TraesCS3D01G047100	chr3B	29724850	29728081	3231	False	666.500000	684	82.498500	1046	1836	2	chr3B.!!$F1	790

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
50	51	0.041684	CCCTTGCTTGGATTTCCCCT	59.958	55.0	0.0	0.0	34.29	4.79	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1988	3509	0.037232	ACTCTTACTGGACAAGCGCC	60.037	55.0	2.29	0.0	0.0	6.53	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	9.204570	CTTTTAGTCAAGTTTGTAGCTTAGCTA	57.795	33.333	10.21	10.21	40.44	3.32
28	29	8.758633	TTTAGTCAAGTTTGTAGCTTAGCTAG	57.241	34.615	14.87	1.18	42.11	3.42
30	31	4.330347	GTCAAGTTTGTAGCTTAGCTAGGC	59.670	45.833	19.53	19.53	42.11	3.93
50	51	0.041684	CCCTTGCTTGGATTTCCCCT	59.958	55.000	0.00	0.00	34.29	4.79
73	76	2.601240	TTGACCCAAGCCATCAATCA	57.399	45.000	0.00	0.00	0.00	2.57
75	78	2.380941	TGACCCAAGCCATCAATCATG	58.619	47.619	0.00	0.00	0.00	3.07
76	79	1.068127	GACCCAAGCCATCAATCATGC	59.932	52.381	0.00	0.00	0.00	4.06
79	82	2.288825	CCCAAGCCATCAATCATGCATC	60.289	50.000	0.00	0.00	0.00	3.91
80	83	2.364002	CCAAGCCATCAATCATGCATCA	59.636	45.455	0.00	0.00	0.00	3.07
81	84	3.006859	CCAAGCCATCAATCATGCATCAT	59.993	43.478	0.00	0.00	0.00	2.45
82	85	3.942130	AGCCATCAATCATGCATCATG	57.058	42.857	0.00	0.00	42.60	3.07
98	101	1.045407	CATGCATTCATGGGAAGGGG	58.955	55.000	0.00	0.00	44.84	4.79
101	104	0.324645	GCATTCATGGGAAGGGGTGT	60.325	55.000	0.00	0.00	35.43	4.16
102	105	1.477553	CATTCATGGGAAGGGGTGTG	58.522	55.000	0.00	0.00	36.25	3.82
103	106	1.084018	ATTCATGGGAAGGGGTGTGT	58.916	50.000	0.00	0.00	36.25	3.72
106	109	3.224007	ATGGGAAGGGGTGTGTGCC	62.224	63.158	0.00	0.00	0.00	5.01
114	117	4.572571	GGTGTGTGCCCGGTTGGA	62.573	66.667	0.00	0.00	37.49	3.53
115	118	2.517402	GTGTGTGCCCGGTTGGAA	60.517	61.111	0.00	0.00	37.49	3.53
116	119	2.122167	GTGTGTGCCCGGTTGGAAA	61.122	57.895	0.00	0.00	37.49	3.13
193	212	2.722487	CGGGCAGCGAGGTACTAG	59.278	66.667	0.00	0.00	41.55	2.57
322	342	2.680805	CGGCACTATGGCATATTAGGGG	60.681	54.545	7.81	0.00	43.94	4.79
329	349	2.187958	TGGCATATTAGGGGATCTCCG	58.812	52.381	5.81	0.00	36.71	4.63
363	383	0.473694	ATCTCCCCCATATGTCCGCA	60.474	55.000	1.24	0.00	0.00	5.69
392	425	6.849588	AAAAACTGGCTCATCAAATTTGTC	57.150	33.333	17.47	3.94	0.00	3.18
398	431	2.159379	GCTCATCAAATTTGTCCGGACC	60.159	50.000	31.19	14.15	0.00	4.46
449	482	2.525629	GGAGCTCTAGGGGAGGCC	60.526	72.222	14.64	0.00	42.08	5.19
458	491	2.856039	TAGGGGAGGCCAGACAGTCG	62.856	65.000	5.01	0.00	0.00	4.18
464	497	2.126424	GCCAGACAGTCGACGGAC	60.126	66.667	22.71	16.02	43.76	4.79
562	792	8.547967	TTGCTATTACTAAGTTGGTTGAGAAG	57.452	34.615	0.00	0.00	0.00	2.85
581	811	9.985730	TTGAGAAGTTATGATTTTTCAAATGCT	57.014	25.926	0.00	0.00	27.58	3.79
707	938	1.897560	ACAAGAGCACAAAGTAGGCC	58.102	50.000	0.00	0.00	0.00	5.19
737	968	3.920231	TGATCAGGCTAAGCATTCTGT	57.080	42.857	0.00	0.00	0.00	3.41
959	1205	0.250513	CCACAGTAGTGCCTCCCTTC	59.749	60.000	0.00	0.00	44.53	3.46
1011	1318	3.917760	GCTCCGATGTCTCCCGGG	61.918	72.222	16.85	16.85	45.36	5.73
1188	2633	0.477204	CATGCAGTCCTGATCCCCAT	59.523	55.000	0.00	0.00	0.00	4.00
1456	2901	2.154798	CTGCACGGAGAAGGACGGAA	62.155	60.000	0.00	0.00	0.00	4.30
1458	2903	1.965219	CACGGAGAAGGACGGAACT	59.035	57.895	0.00	0.00	0.00	3.01
1693	3138	0.182061	CCTCCTGACATGGGATGTGG	59.818	60.000	0.00	0.00	45.03	4.17
1766	3211	9.778993	AATCATCTTTTATTCATCAAGTTCGTG	57.221	29.630	0.00	0.00	0.00	4.35
1784	3229	1.227380	GGGTGAGCTAGGATGTGCG	60.227	63.158	0.00	0.00	0.00	5.34
1788	3233	1.257750	TGAGCTAGGATGTGCGGTGT	61.258	55.000	0.00	0.00	0.00	4.16
1812	3257	4.450082	AATTTGCTTGGATTTCCCGTAC	57.550	40.909	0.00	0.00	37.93	3.67
1828	3273	1.393539	CGTACCGAACCAAGCAATCAG	59.606	52.381	0.00	0.00	0.00	2.90
1834	3279	3.063997	CCGAACCAAGCAATCAGTCATAC	59.936	47.826	0.00	0.00	0.00	2.39
1846	3322	6.363626	GCAATCAGTCATACTATTAGTCACCG	59.636	42.308	0.00	0.00	0.00	4.94
1847	3323	5.434352	TCAGTCATACTATTAGTCACCGC	57.566	43.478	0.00	0.00	0.00	5.68
1861	3337	2.280186	CCGCACGAGGATAAGGCC	60.280	66.667	0.00	0.00	0.00	5.19
1991	3512	9.737427	CACTTATAATAGTATATCTTGGAGGCG	57.263	37.037	0.00	0.00	0.00	5.52
1992	3513	8.414778	ACTTATAATAGTATATCTTGGAGGCGC	58.585	37.037	0.00	0.00	0.00	6.53
1993	3514	8.534954	TTATAATAGTATATCTTGGAGGCGCT	57.465	34.615	7.64	0.00	0.00	5.92
2059	3610	3.194542	CCAGAGTACTCAGAGTTGGGAAG	59.805	52.174	24.44	0.00	0.00	3.46
2094	3645	7.121463	TCTGGATAGTTTAGTCTGAACTCTGAC	59.879	40.741	12.93	8.29	42.75	3.51
2120	3671	7.122650	CCTTCTGAAGTCCATGGCTAATTTTTA	59.877	37.037	15.72	0.00	0.00	1.52
2191	4052	8.698973	TCTTCAGGAGTATAATCCAGTAAGAG	57.301	38.462	20.72	9.52	42.26	2.85
2192	4053	6.902771	TCAGGAGTATAATCCAGTAAGAGC	57.097	41.667	20.72	0.00	42.26	4.09
2193	4054	5.775701	TCAGGAGTATAATCCAGTAAGAGCC	59.224	44.000	20.72	0.00	42.26	4.70
2194	4055	5.046950	CAGGAGTATAATCCAGTAAGAGCCC	60.047	48.000	20.72	0.00	42.26	5.19
2195	4056	4.838986	GGAGTATAATCCAGTAAGAGCCCA	59.161	45.833	14.31	0.00	39.34	5.36
2196	4057	5.046950	GGAGTATAATCCAGTAAGAGCCCAG	60.047	48.000	14.31	0.00	39.34	4.45
2197	4058	5.468658	AGTATAATCCAGTAAGAGCCCAGT	58.531	41.667	0.00	0.00	0.00	4.00
2198	4059	4.965200	ATAATCCAGTAAGAGCCCAGTC	57.035	45.455	0.00	0.00	0.00	3.51
2199	4060	2.559381	ATCCAGTAAGAGCCCAGTCT	57.441	50.000	0.00	0.00	0.00	3.24
2200	4061	2.327325	TCCAGTAAGAGCCCAGTCTT	57.673	50.000	0.00	0.00	40.07	3.01
2201	4062	2.621070	TCCAGTAAGAGCCCAGTCTTT	58.379	47.619	0.00	0.00	37.89	2.52
2202	4063	2.979678	TCCAGTAAGAGCCCAGTCTTTT	59.020	45.455	0.00	0.00	37.89	2.27
2203	4064	3.394606	TCCAGTAAGAGCCCAGTCTTTTT	59.605	43.478	0.00	0.00	37.89	1.94
2280	4141	6.152831	AGTTGTGGGCTAATGTTTATTTCTCC	59.847	38.462	0.00	0.00	0.00	3.71
2282	4143	5.417580	TGTGGGCTAATGTTTATTTCTCCAC	59.582	40.000	0.00	0.00	37.92	4.02
2283	4144	4.953579	TGGGCTAATGTTTATTTCTCCACC	59.046	41.667	0.00	0.00	0.00	4.61
2342	4203	4.065088	TGGGTGCTATTATTCATCGCTTC	58.935	43.478	0.00	0.00	0.00	3.86
2358	4219	2.225019	CGCTTCATGCAATGGATAGTCC	59.775	50.000	0.00	0.00	46.73	3.85
2758	4643	9.928236	GAAAAGCAGCAAACACAAATAAAAATA	57.072	25.926	0.00	0.00	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	8.089115	AGCTAAGCTACAAACTTGACTAAAAG	57.911	34.615	0.00	0.00	36.99	2.27
5	6	6.627508	GCCTAGCTAAGCTACAAACTTGACTA	60.628	42.308	7.10	0.00	40.44	2.59
6	7	5.725362	CCTAGCTAAGCTACAAACTTGACT	58.275	41.667	0.00	0.00	40.44	3.41
8	9	4.504858	GCCTAGCTAAGCTACAAACTTGA	58.495	43.478	7.10	0.00	40.44	3.02
12	13	2.562635	GGGCCTAGCTAAGCTACAAAC	58.437	52.381	13.88	0.00	40.44	2.93
14	15	1.129058	GGGGCCTAGCTAAGCTACAA	58.871	55.000	13.88	0.00	40.44	2.41
15	16	0.264955	AGGGGCCTAGCTAAGCTACA	59.735	55.000	13.88	0.00	40.44	2.74
16	17	1.070914	CAAGGGGCCTAGCTAAGCTAC	59.929	57.143	13.88	7.51	40.44	3.58
17	18	1.424638	CAAGGGGCCTAGCTAAGCTA	58.575	55.000	13.88	0.00	40.44	3.32
18	19	1.988982	GCAAGGGGCCTAGCTAAGCT	61.989	60.000	13.88	0.00	38.60	3.74
19	20	1.527148	GCAAGGGGCCTAGCTAAGC	60.527	63.158	5.73	5.73	36.11	3.09
21	22	0.255890	CAAGCAAGGGGCCTAGCTAA	59.744	55.000	15.98	0.00	46.50	3.09
23	24	2.679716	CAAGCAAGGGGCCTAGCT	59.320	61.111	0.84	7.85	46.50	3.32
27	28	0.615827	GAAATCCAAGCAAGGGGCCT	60.616	55.000	0.84	0.00	46.50	5.19
28	29	1.617018	GGAAATCCAAGCAAGGGGCC	61.617	60.000	0.00	0.00	38.66	5.80
30	31	0.977627	GGGGAAATCCAAGCAAGGGG	60.978	60.000	1.22	0.00	37.91	4.79
50	51	5.022122	TGATTGATGGCTTGGGTCAATAAA	58.978	37.500	0.00	0.00	41.30	1.40
80	83	0.638292	ACCCCTTCCCATGAATGCAT	59.362	50.000	0.00	0.00	34.29	3.96
81	84	0.324552	CACCCCTTCCCATGAATGCA	60.325	55.000	0.00	0.00	0.00	3.96
82	85	0.324645	ACACCCCTTCCCATGAATGC	60.325	55.000	0.00	0.00	0.00	3.56
84	87	1.084018	ACACACCCCTTCCCATGAAT	58.916	50.000	0.00	0.00	0.00	2.57
85	88	0.112218	CACACACCCCTTCCCATGAA	59.888	55.000	0.00	0.00	0.00	2.57
86	89	1.767036	CACACACCCCTTCCCATGA	59.233	57.895	0.00	0.00	0.00	3.07
88	91	2.440599	GCACACACCCCTTCCCAT	59.559	61.111	0.00	0.00	0.00	4.00
97	100	4.572571	TCCAACCGGGCACACACC	62.573	66.667	6.32	0.00	36.21	4.16
98	101	1.668101	TTTTCCAACCGGGCACACAC	61.668	55.000	6.32	0.00	36.21	3.82
101	104	2.045280	CATTTTCCAACCGGGCACA	58.955	52.632	6.32	0.00	36.21	4.57
102	105	1.374125	GCATTTTCCAACCGGGCAC	60.374	57.895	6.32	0.00	36.21	5.01
103	106	1.190833	ATGCATTTTCCAACCGGGCA	61.191	50.000	6.32	1.87	36.21	5.36
106	109	2.542597	CATGATGCATTTTCCAACCGG	58.457	47.619	0.00	0.00	0.00	5.28
107	110	1.928503	GCATGATGCATTTTCCAACCG	59.071	47.619	13.36	0.00	44.26	4.44
193	212	1.662044	CACAACTTGGGCAGGAAGC	59.338	57.895	0.00	0.00	44.65	3.86
249	268	9.826574	AACTTTCTTTTTGAAAAGGGGTTATAC	57.173	29.630	14.33	0.00	44.22	1.47
300	320	2.009774	CCTAATATGCCATAGTGCCGC	58.990	52.381	0.00	0.00	0.00	6.53
308	328	2.774234	CGGAGATCCCCTAATATGCCAT	59.226	50.000	0.00	0.00	0.00	4.40
322	342	2.229062	TCAGTGACTTGTGTCGGAGATC	59.771	50.000	0.00	0.00	45.70	2.75
329	349	3.330267	GGGAGATTCAGTGACTTGTGTC	58.670	50.000	0.00	0.00	43.20	3.67
373	393	2.489329	CGGACAAATTTGATGAGCCAGT	59.511	45.455	24.64	0.00	0.00	4.00
392	425	0.539901	AGGAGATCCATACGGTCCGG	60.540	60.000	17.28	0.00	38.89	5.14
398	431	2.128035	GCGAACAAGGAGATCCATACG	58.872	52.381	0.92	1.42	38.89	3.06
449	482	1.081376	GGTGTCCGTCGACTGTCTG	60.081	63.158	14.70	0.00	39.94	3.51
464	497	1.068588	TCCAAGACTGAGTTGACGGTG	59.931	52.381	0.00	0.00	0.00	4.94
474	507	2.046292	TGTGATGGTGTCCAAGACTGA	58.954	47.619	0.00	0.00	36.95	3.41
562	792	8.707938	AGCCTTAGCATTTGAAAAATCATAAC	57.292	30.769	0.00	0.00	43.56	1.89
619	849	4.407296	CAGATAACAGCCCTCTAACCTTCT	59.593	45.833	0.00	0.00	0.00	2.85
623	853	2.485657	GGCAGATAACAGCCCTCTAACC	60.486	54.545	0.00	0.00	41.84	2.85
707	938	5.294306	TGCTTAGCCTGATCATTTAAGTTCG	59.706	40.000	0.29	0.00	0.00	3.95
737	968	4.346709	TGGACTAGTGATGTGACTTGGAAA	59.653	41.667	0.00	0.00	0.00	3.13
959	1205	4.633126	AGAGATTGTGGTGAATGAACGATG	59.367	41.667	0.00	0.00	0.00	3.84
1011	1318	2.029844	GAGGACGAACCAGCAGCAC	61.030	63.158	0.00	0.00	42.04	4.40
1081	2519	3.798511	GCAGTCTACCCCCTGCCC	61.799	72.222	0.24	0.00	46.55	5.36
1089	2528	1.174783	TCTTGGTCGAGCAGTCTACC	58.825	55.000	17.81	0.00	38.73	3.18
1091	2530	2.229062	CACTTCTTGGTCGAGCAGTCTA	59.771	50.000	17.81	1.73	0.00	2.59
1752	3197	2.766313	CTCACCCACGAACTTGATGAA	58.234	47.619	0.00	0.00	0.00	2.57
1766	3211	1.227380	CGCACATCCTAGCTCACCC	60.227	63.158	0.00	0.00	0.00	4.61
1784	3229	5.410924	GGAAATCCAAGCAAATTAGACACC	58.589	41.667	0.00	0.00	35.64	4.16
1788	3233	4.340617	ACGGGAAATCCAAGCAAATTAGA	58.659	39.130	1.22	0.00	37.91	2.10
1812	3257	1.522668	TGACTGATTGCTTGGTTCGG	58.477	50.000	0.00	0.00	0.00	4.30
1828	3273	3.973135	CGTGCGGTGACTAATAGTATGAC	59.027	47.826	0.00	0.00	0.00	3.06
1834	3279	1.674441	TCCTCGTGCGGTGACTAATAG	59.326	52.381	0.00	0.00	0.00	1.73
1846	3322	1.300233	CTCGGCCTTATCCTCGTGC	60.300	63.158	0.00	0.00	0.00	5.34
1847	3323	0.460311	AACTCGGCCTTATCCTCGTG	59.540	55.000	0.00	0.00	0.00	4.35
1973	3494	4.528596	ACAAGCGCCTCCAAGATATACTAT	59.471	41.667	2.29	0.00	0.00	2.12
1987	3508	0.247736	CTCTTACTGGACAAGCGCCT	59.752	55.000	2.29	0.00	0.00	5.52
1988	3509	0.037232	ACTCTTACTGGACAAGCGCC	60.037	55.000	2.29	0.00	0.00	6.53
1991	3512	1.801178	GCACACTCTTACTGGACAAGC	59.199	52.381	0.00	0.00	0.00	4.01
1992	3513	3.062763	CTGCACACTCTTACTGGACAAG	58.937	50.000	0.00	0.00	0.00	3.16
1993	3514	2.434336	ACTGCACACTCTTACTGGACAA	59.566	45.455	0.00	0.00	0.00	3.18
2059	3610	3.636153	AAACTATCCAGAAGCCACTCC	57.364	47.619	0.00	0.00	0.00	3.85
2094	3645	3.634397	TTAGCCATGGACTTCAGAAGG	57.366	47.619	18.40	0.00	0.00	3.46
2206	4067	3.850752	TGGGCTCTTACAATCCCAAAAA	58.149	40.909	0.00	0.00	45.14	1.94
2207	4068	3.534357	TGGGCTCTTACAATCCCAAAA	57.466	42.857	0.00	0.00	45.14	2.44
2210	4071	1.559682	GACTGGGCTCTTACAATCCCA	59.440	52.381	0.00	0.00	45.87	4.37
2211	4072	1.559682	TGACTGGGCTCTTACAATCCC	59.440	52.381	0.00	0.00	39.22	3.85
2212	4073	2.501723	TCTGACTGGGCTCTTACAATCC	59.498	50.000	0.00	0.00	0.00	3.01
2213	4074	3.895232	TCTGACTGGGCTCTTACAATC	57.105	47.619	0.00	0.00	0.00	2.67
2214	4075	3.584848	ACTTCTGACTGGGCTCTTACAAT	59.415	43.478	0.00	0.00	0.00	2.71
2215	4076	2.972713	ACTTCTGACTGGGCTCTTACAA	59.027	45.455	0.00	0.00	0.00	2.41
2216	4077	2.609747	ACTTCTGACTGGGCTCTTACA	58.390	47.619	0.00	0.00	0.00	2.41
2217	4078	4.017808	TCTACTTCTGACTGGGCTCTTAC	58.982	47.826	0.00	0.00	0.00	2.34
2218	4079	4.017808	GTCTACTTCTGACTGGGCTCTTA	58.982	47.826	0.00	0.00	0.00	2.10
2219	4080	2.829120	GTCTACTTCTGACTGGGCTCTT	59.171	50.000	0.00	0.00	0.00	2.85
2220	4081	2.042433	AGTCTACTTCTGACTGGGCTCT	59.958	50.000	0.00	0.00	42.46	4.09
2221	4082	2.452505	AGTCTACTTCTGACTGGGCTC	58.547	52.381	0.00	0.00	42.46	4.70
2342	4203	5.062183	CGTTATACGGACTATCCATTGCATG	59.938	44.000	0.00	0.00	38.08	4.06
2397	4277	1.535896	GAGCTCACGGGTTTTTCTTCC	59.464	52.381	9.40	0.00	0.00	3.46
2713	4598	9.328845	TGCTTTTCATTCTTATGCTTTCTTTTT	57.671	25.926	0.00	0.00	0.00	1.94
2718	4603	5.865552	TGCTGCTTTTCATTCTTATGCTTTC	59.134	36.000	0.00	0.00	0.00	2.62
2724	4609	6.514947	TGTGTTTGCTGCTTTTCATTCTTAT	58.485	32.000	0.00	0.00	0.00	1.73

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.