AutoCloner

Multiple sequence alignment - TraesCS4B01G163700

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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	TraesCS4B01G163700	chr4B	100.000	8442	0	0	1	8442	335945415	335936974	0.000000e+00	15590
1	TraesCS4B01G163700	chr4B	92.238	773	51	8	7677	8442	330774265	330773495	0.000000e+00	1086
2	TraesCS4B01G163700	chr4B	92.098	772	52	7	7678	8442	27782409	27781640	0.000000e+00	1079
3	TraesCS4B01G163700	chr4B	86.772	567	60	8	2765	3319	335942471	335941908	1.200000e-172	617
4	TraesCS4B01G163700	chr4B	86.772	567	60	8	2945	3508	335942651	335942097	1.200000e-172	617
5	TraesCS4B01G163700	chr4B	86.975	476	59	1	3490	3962	335941455	335940980	4.490000e-147	532
6	TraesCS4B01G163700	chr4B	86.975	476	59	1	3961	4436	335941926	335941454	4.490000e-147	532
7	TraesCS4B01G163700	chr4B	81.941	371	53	12	2765	3124	335942291	335941924	1.380000e-77	302
8	TraesCS4B01G163700	chr4B	81.892	370	55	10	3125	3492	335942651	335942292	1.380000e-77	302
9	TraesCS4B01G163700	chr4B	91.875	160	12	1	437	596	335969205	335969363	1.100000e-53	222
10	TraesCS4B01G163700	chr4B	84.404	218	11	6	724	941	335969208	335969014	8.650000e-45	193
11	TraesCS4B01G163700	chr4A	96.137	7558	233	28	134	7674	345843444	345835929	0.000000e+00	12285
12	TraesCS4B01G163700	chr4A	87.080	565	62	9	2765	3319	345840664	345840101	5.560000e-176	628
13	TraesCS4B01G163700	chr4A	85.640	578	68	8	2943	3517	345840846	345840281	2.030000e-165	593
14	TraesCS4B01G163700	chr4A	87.815	476	55	1	3961	4436	345840119	345839647	9.570000e-154	555
15	TraesCS4B01G163700	chr4A	87.421	477	55	3	3490	3962	345839648	345839173	2.070000e-150	544
16	TraesCS4B01G163700	chr4A	91.418	268	18	5	729	996	345845005	345844743	6.230000e-96	363
17	TraesCS4B01G163700	chr4A	81.941	371	53	12	2765	3124	345840484	345840117	1.380000e-77	302
18	TraesCS4B01G163700	chr4A	81.501	373	55	12	3123	3492	345840846	345840485	2.300000e-75	294
19	TraesCS4B01G163700	chr4A	93.082	159	10	1	438	596	345845007	345845164	1.830000e-56	231
20	TraesCS4B01G163700	chr4D	97.533	6567	136	11	166	6727	271205059	271211604	0.000000e+00	11206
21	TraesCS4B01G163700	chr4D	97.592	955	18	2	6720	7674	271216124	271217073	0.000000e+00	1631
22	TraesCS4B01G163700	chr4D	87.125	567	58	11	2765	3319	271207827	271208390	5.560000e-176	628
23	TraesCS4B01G163700	chr4D	86.643	569	61	8	2943	3508	271207645	271208201	4.330000e-172	616
24	TraesCS4B01G163700	chr4D	87.315	473	57	1	3961	4433	271208372	271208841	9.640000e-149	538
25	TraesCS4B01G163700	chr4D	87.315	473	57	1	3490	3959	271208843	271209315	9.640000e-149	538
26	TraesCS4B01G163700	chr4D	93.040	273	16	3	724	996	271203172	271203441	6.140000e-106	396
27	TraesCS4B01G163700	chr4D	83.019	371	49	12	2765	3124	271208007	271208374	2.940000e-84	324
28	TraesCS4B01G163700	chr4D	81.720	372	56	10	3123	3492	271207645	271208006	4.950000e-77	300
29	TraesCS4B01G163700	chr4D	93.373	166	10	1	437	602	271203175	271203011	2.350000e-60	244
30	TraesCS4B01G163700	chr4D	86.772	189	22	3	1	188	271204726	271204912	3.090000e-49	207
31	TraesCS4B01G163700	chr3B	94.703	774	34	4	7676	8442	726423503	726422730	0.000000e+00	1195
32	TraesCS4B01G163700	chr1B	93.694	777	43	3	7672	8442	67114719	67113943	0.000000e+00	1158
33	TraesCS4B01G163700	chr7B	93.411	774	44	4	7676	8442	697872314	697873087	0.000000e+00	1140
34	TraesCS4B01G163700	chr7B	92.784	776	43	11	7678	8442	527881275	527882048	0.000000e+00	1110
35	TraesCS4B01G163700	chr5B	92.674	778	48	7	7672	8442	180711579	180710804	0.000000e+00	1112
36	TraesCS4B01G163700	chr6B	92.308	780	49	9	7670	8442	704392610	704391835	0.000000e+00	1098
37	TraesCS4B01G163700	chr2B	91.742	775	55	7	7675	8442	24649818	24650590	0.000000e+00	1068
38	TraesCS4B01G163700	chr5D	96.970	66	2	0	223	288	88472041	88471976	2.490000e-20	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	TraesCS4B01G163700	chr4B	335936974	335945415	8441	True	15590.000000	15590	100.000000	1	8442	1	chr4B.!!$R3	8441
1	TraesCS4B01G163700	chr4B	330773495	330774265	770	True	1086.000000	1086	92.238000	7677	8442	1	chr4B.!!$R2	765
2	TraesCS4B01G163700	chr4B	27781640	27782409	769	True	1079.000000	1079	92.098000	7678	8442	1	chr4B.!!$R1	764
3	TraesCS4B01G163700	chr4B	335940980	335942651	1671	True	483.666667	617	85.221167	2765	4436	6	chr4B.!!$R5	1671
4	TraesCS4B01G163700	chr4A	345835929	345843444	7515	True	12285.000000	12285	96.137000	134	7674	1	chr4A.!!$R1	7540
5	TraesCS4B01G163700	chr4A	345839173	345845005	5832	True	468.428571	628	86.116571	729	4436	7	chr4A.!!$R2	3707
6	TraesCS4B01G163700	chr4D	271203172	271211604	8432	False	1639.222222	11206	87.831333	1	6727	9	chr4D.!!$F2	6726
7	TraesCS4B01G163700	chr4D	271216124	271217073	949	False	1631.000000	1631	97.592000	6720	7674	1	chr4D.!!$F1	954
8	TraesCS4B01G163700	chr3B	726422730	726423503	773	True	1195.000000	1195	94.703000	7676	8442	1	chr3B.!!$R1	766
9	TraesCS4B01G163700	chr1B	67113943	67114719	776	True	1158.000000	1158	93.694000	7672	8442	1	chr1B.!!$R1	770
10	TraesCS4B01G163700	chr7B	697872314	697873087	773	False	1140.000000	1140	93.411000	7676	8442	1	chr7B.!!$F2	766
11	TraesCS4B01G163700	chr7B	527881275	527882048	773	False	1110.000000	1110	92.784000	7678	8442	1	chr7B.!!$F1	764
12	TraesCS4B01G163700	chr5B	180710804	180711579	775	True	1112.000000	1112	92.674000	7672	8442	1	chr5B.!!$R1	770
13	TraesCS4B01G163700	chr6B	704391835	704392610	775	True	1098.000000	1098	92.308000	7670	8442	1	chr6B.!!$R1	772
14	TraesCS4B01G163700	chr2B	24649818	24650590	772	False	1068.000000	1068	91.742000	7675	8442	1	chr2B.!!$F1	767

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
212	1938	2.162681	AGGCGTTGGATCTTTTTCCAG	58.837	47.619	0.00	0.0	46.22	3.86	F
1035	2762	1.329256	AGGTCTTGTACAGTGTCGCT	58.671	50.000	0.00	0.0	0.00	4.93	F
1501	3228	0.107508	CCCTGCTGTGGATAGTGTGG	60.108	60.000	0.00	0.0	0.00	4.17	F
1872	3599	0.811915	CTATAGACCGGCCAGGATCG	59.188	60.000	18.74	0.0	45.00	3.69	F
4465	6192	1.421268	TCATCAACAGTCCAGTGCCTT	59.579	47.619	0.00	0.0	0.00	4.35	F
6264	7999	0.041312	CTGTTTGTGCCCGAAAGTCG	60.041	55.000	0.00	0.0	40.07	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1305	3032	0.036388	TCAGCACCTCCCGTTCATTC	60.036	55.000	0.00	0.0	0.00	2.67	R
2763	4490	0.112995	TTTGGGCAATGCACTCTCCT	59.887	50.000	9.57	0.0	30.56	3.69	R
4465	6192	5.422012	TCAGGTCATCAGAGTGCTTGTTATA	59.578	40.000	0.00	0.0	0.00	0.98	R
4642	6369	2.366266	ACAAAATTCACTGCACATGCCT	59.634	40.909	0.49	0.0	41.18	4.75	R
7315	9055	0.323999	TCCTACTCCGTAGCAGGCAA	60.324	55.000	0.00	0.0	35.06	4.52	R
7626	9378	0.041663	AAAACGCAACGTCATCACCG	60.042	50.000	0.00	0.0	39.99	4.94	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
32	1588	4.334203	TCTTCTCATTACAGAGAGACGCTC	59.666	45.833	0.00	0.00	44.78	5.03
62	1618	5.728637	ATGTACTCGCCAATGAGATGATA	57.271	39.130	0.00	0.00	39.35	2.15
64	1620	4.340950	TGTACTCGCCAATGAGATGATACA	59.659	41.667	0.00	0.00	39.35	2.29
65	1621	4.613925	ACTCGCCAATGAGATGATACAT	57.386	40.909	0.00	0.00	39.35	2.29
67	1623	5.718146	ACTCGCCAATGAGATGATACATAG	58.282	41.667	0.00	0.00	39.35	2.23
68	1624	5.244851	ACTCGCCAATGAGATGATACATAGT	59.755	40.000	0.00	0.00	39.35	2.12
69	1625	5.714047	TCGCCAATGAGATGATACATAGTC	58.286	41.667	0.00	0.00	0.00	2.59
70	1626	4.560427	CGCCAATGAGATGATACATAGTCG	59.440	45.833	0.00	0.00	0.00	4.18
71	1627	5.619981	CGCCAATGAGATGATACATAGTCGA	60.620	44.000	0.00	0.00	0.00	4.20
114	1670	3.129287	GCGATGATGGGTGTGAATCTTTT	59.871	43.478	0.00	0.00	0.00	2.27
116	1672	4.395854	CGATGATGGGTGTGAATCTTTTGA	59.604	41.667	0.00	0.00	0.00	2.69
117	1673	5.106197	CGATGATGGGTGTGAATCTTTTGAA	60.106	40.000	0.00	0.00	0.00	2.69
212	1938	2.162681	AGGCGTTGGATCTTTTTCCAG	58.837	47.619	0.00	0.00	46.22	3.86
571	2298	5.756195	TGTTGTTTCTCTGGTTCAGATTG	57.244	39.130	0.00	0.00	39.92	2.67
714	2441	3.429410	GGCATTAGCTTGTTGGATTGTCC	60.429	47.826	0.00	0.00	41.70	4.02
1035	2762	1.329256	AGGTCTTGTACAGTGTCGCT	58.671	50.000	0.00	0.00	0.00	4.93
1065	2792	3.679738	CCATTTGGCGGTGCGGTT	61.680	61.111	0.00	0.00	0.00	4.44
1158	2885	1.699634	CAGGGGGTTCTCAAGACAAGA	59.300	52.381	0.00	0.00	0.00	3.02
1191	2918	4.405116	AAACATTGCTGTGAATGGTGTT	57.595	36.364	0.00	0.00	37.60	3.32
1387	3114	2.196742	TATCTCAACCATGGAGGCCT	57.803	50.000	21.47	3.86	43.14	5.19
1412	3139	1.649271	GGGGATGGGAAGATGCCTGT	61.649	60.000	0.00	0.00	34.33	4.00
1501	3228	0.107508	CCCTGCTGTGGATAGTGTGG	60.108	60.000	0.00	0.00	0.00	4.17
1633	3360	1.558294	ATCTGAGAGATGCTGGCAACA	59.442	47.619	0.00	0.00	37.75	3.33
1719	3446	4.406456	TGGGCTCTAATTGTGACAATGTT	58.594	39.130	12.09	0.22	0.00	2.71
1872	3599	0.811915	CTATAGACCGGCCAGGATCG	59.188	60.000	18.74	0.00	45.00	3.69
2118	3845	8.153479	ACCAAAATTTTACTGAAGCAAATTCC	57.847	30.769	2.44	0.00	37.08	3.01
2375	4102	4.827284	GGAACAGGAAGATGTCAAGGAAAA	59.173	41.667	0.00	0.00	31.50	2.29
2540	4267	7.082602	GTCAATGATCACATGGATATTTCTGC	58.917	38.462	0.00	0.00	38.52	4.26
2701	4428	3.543680	AGGATTCCACGGTGAATACTG	57.456	47.619	10.28	0.00	42.94	2.74
2740	4467	7.309377	GGGAACATGATGTTTCTTTCAATCAGA	60.309	37.037	15.67	0.00	41.28	3.27
2755	4482	8.961294	TTTCAATCAGACACCAAAAATTCAAT	57.039	26.923	0.00	0.00	0.00	2.57
2763	4490	5.728471	ACACCAAAAATTCAATGTGTGACA	58.272	33.333	0.00	0.00	35.39	3.58
4465	6192	1.421268	TCATCAACAGTCCAGTGCCTT	59.579	47.619	0.00	0.00	0.00	4.35
4500	6227	4.220602	TCTGATGACCTGAAAGACGATTCA	59.779	41.667	0.00	0.00	37.70	2.57
4697	6424	8.044574	TCATATTCATCAATTTCAGGGGACTA	57.955	34.615	0.00	0.00	40.21	2.59
4884	6618	2.249139	ACCTTAGAGAAGTTCCGTGCT	58.751	47.619	0.00	0.00	0.00	4.40
4966	6700	1.123077	CTGGGATGTAGCTGCACCTA	58.877	55.000	6.66	7.87	0.00	3.08
5154	6888	3.819337	AGAGCACAGTCGTGAGTACTTTA	59.181	43.478	0.00	0.00	46.80	1.85
5186	6920	4.956700	TGTTAGAGAGTCGGATGGAGAAAT	59.043	41.667	0.00	0.00	0.00	2.17
5340	7074	1.581447	GCAGCAGGTTAGTTGCCAC	59.419	57.895	0.00	0.00	42.48	5.01
5663	7397	6.954487	AGAGTTTGGAAAAATAACGTCCTT	57.046	33.333	0.00	0.00	32.28	3.36
6022	7757	8.432805	TCTTTTCTCCAACTACAGAAGATTCTT	58.567	33.333	0.00	0.00	34.74	2.52
6052	7787	5.517770	GCCTGAAGAATTGCATATGTTTGTC	59.482	40.000	4.29	0.00	0.00	3.18
6056	7791	9.199982	CTGAAGAATTGCATATGTTTGTCTTTT	57.800	29.630	4.29	0.00	0.00	2.27
6094	7829	2.675032	GCAAGCTGCCCCTAAAATGTTC	60.675	50.000	0.00	0.00	37.42	3.18
6264	7999	0.041312	CTGTTTGTGCCCGAAAGTCG	60.041	55.000	0.00	0.00	40.07	4.18
6552	8287	3.777106	TGAGGACAGTGCTGAAGAATT	57.223	42.857	0.00	0.00	0.00	2.17
6622	8358	3.430333	AACCACCGTTGTTTGACATTC	57.570	42.857	0.00	0.00	0.00	2.67
6996	8736	1.264020	GTGAAGTTGCTGTGAATCGCA	59.736	47.619	0.00	0.00	0.00	5.10
7023	8763	6.772716	GGTGAATACCAAATCATACATGTCCT	59.227	38.462	0.00	0.00	46.71	3.85
7089	8829	1.244697	GGAGCAGGTCTGTCTGTCGA	61.245	60.000	0.00	0.00	37.12	4.20
7115	8855	9.525409	AGTTTTCTGATTCTTGACTTGAATTTG	57.475	29.630	0.00	0.00	34.67	2.32
7230	8970	2.872557	CAGTCTGGGCACAATGCG	59.127	61.111	0.00	0.00	46.21	4.73
7315	9055	4.431416	TGTCATAACCTGTTGTGTTCCT	57.569	40.909	6.65	0.00	34.03	3.36
7593	9345	7.920738	ACTAGAACAACAAGACAAGAATTCAC	58.079	34.615	8.44	0.00	0.00	3.18
7626	9378	3.594453	TCCTGTTGGATTGGATGCC	57.406	52.632	0.00	0.00	37.46	4.40
7788	9540	1.579429	GGTCGTTTTTCTGCGCCAT	59.421	52.632	4.18	0.00	0.00	4.40
7869	9621	2.358737	GTCAGGGGTTGCCACTCG	60.359	66.667	0.00	0.00	33.28	4.18
8001	9755	2.357034	CGCACCGCAGTTACTGGT	60.357	61.111	14.63	1.24	36.10	4.00
8057	9812	2.754658	GAGGGGAGAAGGCGACGA	60.755	66.667	0.00	0.00	0.00	4.20
8148	9903	2.740714	GCCTGCGCGTTGAAGGTAG	61.741	63.158	8.43	0.00	33.34	3.18
8206	9963	1.617947	CCCCTTCCTCCCTGTTCGAG	61.618	65.000	0.00	0.00	0.00	4.04
8261	10018	4.537533	CGATGCGTCGGCGTTTCG	62.538	66.667	20.66	18.45	44.00	3.46
8262	10019	3.475774	GATGCGTCGGCGTTTCGT	61.476	61.111	12.58	0.00	44.10	3.85
8276	10038	1.291184	TTTCGTCGCGGAGTCGTCTA	61.291	55.000	6.13	0.00	38.89	2.59
8412	10177	0.243636	CTCCCGGTTTGTTTGATGCC	59.756	55.000	0.00	0.00	0.00	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	6.836007	TCTCTGTAATGAGAAGATCTGGCTAA	59.164	38.462	0.00	0.00	39.80	3.09
3	4	5.301551	TCTCTCTGTAATGAGAAGATCTGGC	59.698	44.000	0.00	0.00	41.85	4.85
8	9	4.887071	AGCGTCTCTCTGTAATGAGAAGAT	59.113	41.667	9.39	1.38	41.85	2.40
10	11	4.497340	GGAGCGTCTCTCTGTAATGAGAAG	60.497	50.000	6.78	0.00	41.85	2.85
11	12	3.378742	GGAGCGTCTCTCTGTAATGAGAA	59.621	47.826	6.78	0.00	41.85	2.87
12	13	2.946329	GGAGCGTCTCTCTGTAATGAGA	59.054	50.000	6.78	0.00	41.60	3.27
13	14	2.034053	GGGAGCGTCTCTCTGTAATGAG	59.966	54.545	6.78	0.00	41.60	2.90
14	15	2.025155	GGGAGCGTCTCTCTGTAATGA	58.975	52.381	6.78	0.00	41.60	2.57
17	18	1.030488	CGGGGAGCGTCTCTCTGTAA	61.030	60.000	7.23	0.00	41.60	2.41
18	19	1.451567	CGGGGAGCGTCTCTCTGTA	60.452	63.158	7.23	0.00	41.60	2.74
20	21	2.752238	ACGGGGAGCGTCTCTCTG	60.752	66.667	12.32	12.32	42.66	3.35
32	1588	1.520787	GGCGAGTACATTGACGGGG	60.521	63.158	0.00	0.00	0.00	5.73
62	1618	4.547905	CGCCGCCGTCGACTATGT	62.548	66.667	14.70	0.00	38.10	2.29
81	1637	3.490793	ATCATCGCTGTCTCCGCCG	62.491	63.158	0.00	0.00	0.00	6.46
95	1651	6.669125	TTTCAAAAGATTCACACCCATCAT	57.331	33.333	0.00	0.00	0.00	2.45
114	1670	1.505807	CGCAACATCCGCCATTTCA	59.494	52.632	0.00	0.00	0.00	2.69
116	1672	1.531739	AACCGCAACATCCGCCATTT	61.532	50.000	0.00	0.00	0.00	2.32
117	1673	0.678366	TAACCGCAACATCCGCCATT	60.678	50.000	0.00	0.00	0.00	3.16
212	1938	2.368221	CCTCTGTCCCTCTGATGGATTC	59.632	54.545	4.94	0.00	33.65	2.52
285	2011	9.185192	ACGTCGCCACTTACTTATTATTTATAC	57.815	33.333	0.00	0.00	0.00	1.47
287	2013	7.922278	TGACGTCGCCACTTACTTATTATTTAT	59.078	33.333	11.62	0.00	0.00	1.40
288	2014	7.257003	TGACGTCGCCACTTACTTATTATTTA	58.743	34.615	11.62	0.00	0.00	1.40
289	2015	6.101332	TGACGTCGCCACTTACTTATTATTT	58.899	36.000	11.62	0.00	0.00	1.40
290	2016	5.653507	TGACGTCGCCACTTACTTATTATT	58.346	37.500	11.62	0.00	0.00	1.40
291	2017	5.252969	TGACGTCGCCACTTACTTATTAT	57.747	39.130	11.62	0.00	0.00	1.28
292	2018	4.700268	TGACGTCGCCACTTACTTATTA	57.300	40.909	11.62	0.00	0.00	0.98
487	2214	0.443869	CACGATCCAAGCAAGAACCG	59.556	55.000	0.00	0.00	0.00	4.44
654	2381	2.124570	CACCTTGGCAGGATCGGG	60.125	66.667	9.53	0.00	44.19	5.14
714	2441	3.868077	CCTGCTGAGAATCCGAACTTTAG	59.132	47.826	0.00	0.00	0.00	1.85
795	2522	5.068987	CCTCAAAACTCCAACCAATTCTTCA	59.931	40.000	0.00	0.00	0.00	3.02
1035	2762	1.552023	CCAAATGGGTGGAATGGACCA	60.552	52.381	0.00	0.00	41.65	4.02
1065	2792	2.549329	CTGCTGCACAACAACTATGTCA	59.451	45.455	0.00	0.00	39.40	3.58
1158	2885	4.074970	CAGCAATGTTTACCACCTTCTCT	58.925	43.478	0.00	0.00	0.00	3.10
1191	2918	0.179004	ACATGTGAAACCCGGCTTCA	60.179	50.000	11.93	11.93	34.36	3.02
1304	3031	1.026718	CAGCACCTCCCGTTCATTCC	61.027	60.000	0.00	0.00	0.00	3.01
1305	3032	0.036388	TCAGCACCTCCCGTTCATTC	60.036	55.000	0.00	0.00	0.00	2.67
1306	3033	0.620556	ATCAGCACCTCCCGTTCATT	59.379	50.000	0.00	0.00	0.00	2.57
1387	3114	0.920763	ATCTTCCCATCCCCAGCACA	60.921	55.000	0.00	0.00	0.00	4.57
1412	3139	3.153130	CTCTGTCTTGAGACTGTCCTCA	58.847	50.000	12.00	5.15	44.99	3.86
1633	3360	4.463050	TTGTGGTTTCCCCTTGATTACT	57.537	40.909	0.00	0.00	0.00	2.24
2118	3845	2.428890	TGTGGTTGTGCTAAAAGTTGGG	59.571	45.455	0.00	0.00	0.00	4.12
2281	4008	4.097437	AGCCAATGAGTTACATTCAGCATG	59.903	41.667	0.00	0.00	46.01	4.06
2290	4017	3.264193	AGACCATCAGCCAATGAGTTACA	59.736	43.478	0.00	0.00	42.53	2.41
2375	4102	5.171339	AGAACTATGATTTGACAGTGGCT	57.829	39.130	0.00	0.00	0.00	4.75
2540	4267	2.226200	TGATCATTTGCAACAGTGTCCG	59.774	45.455	0.00	0.00	0.00	4.79
2701	4428	3.953612	TCATGTTCCCCATAGCATGTTTC	59.046	43.478	0.00	0.00	39.54	2.78
2740	4467	5.728471	TGTCACACATTGAATTTTTGGTGT	58.272	33.333	0.00	0.00	39.83	4.16
2755	4482	1.051008	ATGCACTCTCCTGTCACACA	58.949	50.000	0.00	0.00	0.00	3.72
2763	4490	0.112995	TTTGGGCAATGCACTCTCCT	59.887	50.000	9.57	0.00	30.56	3.69
4465	6192	5.422012	TCAGGTCATCAGAGTGCTTGTTATA	59.578	40.000	0.00	0.00	0.00	0.98
4642	6369	2.366266	ACAAAATTCACTGCACATGCCT	59.634	40.909	0.49	0.00	41.18	4.75
4726	6453	4.997565	ACACATACAATATTGCAGGCAAC	58.002	39.130	15.48	0.00	38.88	4.17
4884	6618	6.479990	CGTTTCTTATCAATGACTGCTCCATA	59.520	38.462	0.00	0.00	0.00	2.74
4966	6700	0.466963	GAAACCATCCCCCGTACGAT	59.533	55.000	18.76	0.00	0.00	3.73
5144	6878	8.603898	TCTAACAGGAATGGATAAAGTACTCA	57.396	34.615	0.00	0.00	0.00	3.41
5154	6888	3.639094	CCGACTCTCTAACAGGAATGGAT	59.361	47.826	0.00	0.00	0.00	3.41
5186	6920	7.363705	CCATCATCTTTGCACTGGGTTTATTTA	60.364	37.037	0.00	0.00	0.00	1.40
5340	7074	6.527023	GCAAATCAAGTGTGATGATGAAAGAG	59.473	38.462	6.84	0.00	44.02	2.85
5598	7332	8.877779	CCACTTTTCATTTAACACAAAATGTCA	58.122	29.630	8.65	0.00	42.31	3.58
6022	7757	4.811969	ATGCAATTCTTCAGGCATTTGA	57.188	36.364	0.00	0.00	43.97	2.69
6052	7787	5.629097	TGCTGCAAAAATTCACACAAAAAG	58.371	33.333	0.00	0.00	0.00	2.27
6056	7791	3.063725	GCTTGCTGCAAAAATTCACACAA	59.936	39.130	16.74	0.00	42.31	3.33
6094	7829	7.378181	AGGCCATAAGAACAAACACAATTAAG	58.622	34.615	5.01	0.00	0.00	1.85
6552	8287	3.439857	ACTAAATTCAGCAGCCTCCAA	57.560	42.857	0.00	0.00	0.00	3.53
6622	8358	5.163774	GGAGCTCTTCTGATAACTGCAAAAG	60.164	44.000	14.64	0.00	0.00	2.27
6996	8736	6.672593	ACATGTATGATTTGGTATTCACCCT	58.327	36.000	0.00	0.00	45.11	4.34
7023	8763	1.469703	CCGATTCACAAGAGCATGCAA	59.530	47.619	21.98	3.36	0.00	4.08
7089	8829	9.525409	CAAATTCAAGTCAAGAATCAGAAAACT	57.475	29.630	0.00	0.00	34.78	2.66
7115	8855	5.277828	GGTCAAGGTACAAAACACACTGATC	60.278	44.000	0.00	0.00	0.00	2.92
7154	8894	2.248248	CAGGTGTTGTAGTCCTCCTGA	58.752	52.381	0.00	0.00	43.28	3.86
7230	8970	1.298863	CATTGCTGTGCGCCATAGC	60.299	57.895	17.43	17.43	46.31	2.97
7315	9055	0.323999	TCCTACTCCGTAGCAGGCAA	60.324	55.000	0.00	0.00	35.06	4.52
7452	9201	2.854777	CTCGTACAGACTATGTTGCTGC	59.145	50.000	0.00	0.00	39.96	5.25
7453	9202	2.854777	GCTCGTACAGACTATGTTGCTG	59.145	50.000	0.00	0.00	39.96	4.41
7454	9203	2.478031	CGCTCGTACAGACTATGTTGCT	60.478	50.000	0.00	0.00	39.96	3.91
7593	9345	8.859236	ATCCAACAGGATTACTTGATGATATG	57.141	34.615	0.00	0.00	39.09	1.78
7608	9360	0.394216	CGGCATCCAATCCAACAGGA	60.394	55.000	0.00	0.00	35.50	3.86
7626	9378	0.041663	AAAACGCAACGTCATCACCG	60.042	50.000	0.00	0.00	39.99	4.94
7699	9451	1.215647	GTCGAGATGGTGAACGCCT	59.784	57.895	5.99	0.00	0.00	5.52
7788	9540	1.303074	ACACTCGCCTCGTCCTACA	60.303	57.895	0.00	0.00	0.00	2.74
8001	9755	2.552599	TGAAATGCGAGTGGGTTGTA	57.447	45.000	0.00	0.00	0.00	2.41
8057	9812	2.050350	TCGATTCTTCCGCCTCCGT	61.050	57.895	0.00	0.00	0.00	4.69
8148	9903	1.406970	GCGAGAGTTGTAGCGAGCAC	61.407	60.000	0.00	0.00	0.00	4.40
8206	9963	2.809119	TCTATGAATCTCGAGCGAGGAC	59.191	50.000	18.57	11.09	42.20	3.85
8259	10016	2.125952	TAGACGACTCCGCGACGA	60.126	61.111	8.23	0.00	39.95	4.20
8261	10018	0.576328	CTAGTAGACGACTCCGCGAC	59.424	60.000	8.23	0.00	39.81	5.19
8262	10019	1.150567	GCTAGTAGACGACTCCGCGA	61.151	60.000	8.23	0.00	39.81	5.87
8289	10051	1.827789	GAAACTGCCCAGTGCCACA	60.828	57.895	1.07	0.00	41.58	4.17
8335	10100	0.107214	CCGGACAGGCATAACCACAT	60.107	55.000	0.00	0.00	43.14	3.21
8388	10153	1.065345	TCAAACAAACCGGGAGACACA	60.065	47.619	6.32	0.00	0.00	3.72
8412	10177	3.658757	AACACCAATTCGAACCAATGG	57.341	42.857	15.62	15.62	0.00	3.16

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.