AutoCloner

Multiple sequence alignment - TraesCS1D01G209700

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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	TraesCS1D01G209700	chr1D	100.000	3674	0	0	1	3674	295542608	295538935	0.000000e+00	6785.0
1	TraesCS1D01G209700	chr1A	94.268	2617	109	18	1	2589	368803535	368800932	0.000000e+00	3964.0
2	TraesCS1D01G209700	chr1A	92.459	305	15	2	3313	3617	368800775	368800479	2.620000e-116	429.0
3	TraesCS1D01G209700	chr1A	91.573	178	10	2	3101	3277	368800945	368800772	1.320000e-59	241.0
4	TraesCS1D01G209700	chr1B	94.652	1926	85	14	1	1913	397058104	397056184	0.000000e+00	2970.0
5	TraesCS1D01G209700	chr1B	94.892	646	30	3	1946	2589	397056068	397055424	0.000000e+00	1007.0
6	TraesCS1D01G209700	chr1B	93.762	513	25	3	2590	3100	599248148	599247641	0.000000e+00	763.0
7	TraesCS1D01G209700	chr1B	91.323	461	32	1	3101	3561	397055437	397054985	1.120000e-174	623.0
8	TraesCS1D01G209700	chr1B	83.908	87	14	0	3588	3674	397054985	397054899	2.350000e-12	84.2
9	TraesCS1D01G209700	chr7D	97.872	517	9	1	2590	3106	37007187	37006673	0.000000e+00	893.0
10	TraesCS1D01G209700	chr7D	88.975	517	55	1	2590	3106	540241218	540241732	4.000000e-179	638.0
11	TraesCS1D01G209700	chr4D	98.228	508	7	1	2590	3097	502047165	502047670	0.000000e+00	887.0
12	TraesCS1D01G209700	chr5D	97.852	512	9	1	2590	3101	298988752	298989261	0.000000e+00	883.0
13	TraesCS1D01G209700	chr5D	88.825	519	54	3	2590	3107	243093961	243093446	5.180000e-178	634.0
14	TraesCS1D01G209700	chr3D	96.929	521	13	2	2590	3109	22298249	22297731	0.000000e+00	870.0
15	TraesCS1D01G209700	chr6A	93.860	456	26	2	2593	3048	552923397	552923850	0.000000e+00	686.0
16	TraesCS1D01G209700	chr2D	89.844	512	48	4	2590	3101	37063336	37062829	0.000000e+00	654.0
17	TraesCS1D01G209700	chr4B	85.979	378	47	6	1209	1584	660661768	660662141	2.060000e-107	399.0
18	TraesCS1D01G209700	chr4B	84.015	269	38	4	1649	1917	660662534	660662797	1.690000e-63	254.0
19	TraesCS1D01G209700	chr5A	86.104	367	42	8	1209	1574	700663493	700663851	1.600000e-103	387.0
20	TraesCS1D01G209700	chr5A	85.769	260	34	2	1658	1917	700664285	700664541	4.680000e-69	272.0
21	TraesCS1D01G209700	chrUn	85.912	362	45	4	1216	1574	110658148	110658506	7.450000e-102	381.0
22	TraesCS1D01G209700	chrUn	84.351	262	38	2	1656	1917	110658907	110659165	1.690000e-63	254.0
23	TraesCS1D01G209700	chr5B	88.462	104	10	2	3302	3404	703484631	703484529	1.390000e-24	124.0

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	TraesCS1D01G209700	chr1D	295538935	295542608	3673	True	6785.000000	6785	100.000000	1	3674	1	chr1D.!!$R1	3673
1	TraesCS1D01G209700	chr1A	368800479	368803535	3056	True	1544.666667	3964	92.766667	1	3617	3	chr1A.!!$R1	3616
2	TraesCS1D01G209700	chr1B	397054899	397058104	3205	True	1171.050000	2970	91.193750	1	3674	4	chr1B.!!$R2	3673
3	TraesCS1D01G209700	chr1B	599247641	599248148	507	True	763.000000	763	93.762000	2590	3100	1	chr1B.!!$R1	510
4	TraesCS1D01G209700	chr7D	37006673	37007187	514	True	893.000000	893	97.872000	2590	3106	1	chr7D.!!$R1	516
5	TraesCS1D01G209700	chr7D	540241218	540241732	514	False	638.000000	638	88.975000	2590	3106	1	chr7D.!!$F1	516
6	TraesCS1D01G209700	chr4D	502047165	502047670	505	False	887.000000	887	98.228000	2590	3097	1	chr4D.!!$F1	507
7	TraesCS1D01G209700	chr5D	298988752	298989261	509	False	883.000000	883	97.852000	2590	3101	1	chr5D.!!$F1	511
8	TraesCS1D01G209700	chr5D	243093446	243093961	515	True	634.000000	634	88.825000	2590	3107	1	chr5D.!!$R1	517
9	TraesCS1D01G209700	chr3D	22297731	22298249	518	True	870.000000	870	96.929000	2590	3109	1	chr3D.!!$R1	519
10	TraesCS1D01G209700	chr2D	37062829	37063336	507	True	654.000000	654	89.844000	2590	3101	1	chr2D.!!$R1	511
11	TraesCS1D01G209700	chr4B	660661768	660662797	1029	False	326.500000	399	84.997000	1209	1917	2	chr4B.!!$F1	708
12	TraesCS1D01G209700	chr5A	700663493	700664541	1048	False	329.500000	387	85.936500	1209	1917	2	chr5A.!!$F1	708
13	TraesCS1D01G209700	chrUn	110658148	110659165	1017	False	317.500000	381	85.131500	1216	1917	2	chrUn.!!$F1	701

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
792	801	1.374758	CCAGACGACCCAACAGCTC	60.375	63.158	0.00	0.0	0.00	4.09	F
1929	2332	0.107703	TAAGCATCCACTTGGCGAGG	60.108	55.000	6.71	0.0	34.44	4.63	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2587	3072	0.036732	TGGCTTTGGAGTAGGTGCAG	59.963	55.0	0.00	0.00	0.00	4.41	R
3280	3772	0.096628	CTGTCGTAGTAGCGTTCGCT	59.903	55.0	22.52	22.52	44.41	4.93	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
135	136	3.359523	CCTCGTCCGTCGTGTCCA	61.360	66.667	0.00	0.00	40.80	4.02
136	137	2.126965	CTCGTCCGTCGTGTCCAC	60.127	66.667	0.00	0.00	40.80	4.02
233	234	4.564372	AGCATACATATTCGTCGATCATGC	59.436	41.667	13.61	12.65	37.19	4.06
274	279	2.890474	GCGATGGCTGGTACGTGG	60.890	66.667	0.00	0.00	35.83	4.94
486	491	4.554036	GCCCTCCTCCACGCCATC	62.554	72.222	0.00	0.00	0.00	3.51
527	532	1.427435	GAGCTAGCTCGATGGAATGC	58.573	55.000	28.04	2.91	33.06	3.56
534	539	1.884579	GCTCGATGGAATGCAATGGAT	59.115	47.619	0.00	0.00	0.00	3.41
576	581	1.856012	GAGCGAGCTGTGTGTCAAC	59.144	57.895	0.84	0.00	0.00	3.18
705	711	3.635836	GGTACGGCAGAGTAGAATAACCT	59.364	47.826	0.00	0.00	0.00	3.50
706	712	4.261530	GGTACGGCAGAGTAGAATAACCTC	60.262	50.000	0.00	0.00	0.00	3.85
707	713	3.362706	ACGGCAGAGTAGAATAACCTCA	58.637	45.455	0.00	0.00	0.00	3.86
792	801	1.374758	CCAGACGACCCAACAGCTC	60.375	63.158	0.00	0.00	0.00	4.09
936	945	4.237809	GCCGCCGAGCCGAAAATC	62.238	66.667	0.00	0.00	0.00	2.17
942	951	1.883084	CGAGCCGAAAATCCGAGGG	60.883	63.158	0.00	0.00	0.00	4.30
945	954	2.516225	CCGAAAATCCGAGGGGGC	60.516	66.667	0.00	0.00	34.94	5.80
1140	1149	2.759973	CGGTGGCTCCTCTGGCTA	60.760	66.667	3.83	0.00	0.00	3.93
1167	1176	1.381327	CGCCTACCTCTTCCTCCCA	60.381	63.158	0.00	0.00	0.00	4.37
1418	1434	1.963338	GCTGCAACTTCTCCACGCT	60.963	57.895	0.00	0.00	0.00	5.07
1594	1823	1.519719	GCTGCTCGATCCAACCTCT	59.480	57.895	0.00	0.00	0.00	3.69
1601	1830	3.053455	CTCGATCCAACCTCTAATTCGC	58.947	50.000	0.00	0.00	0.00	4.70
1614	1843	4.065088	TCTAATTCGCAGCTGTTTCTTGT	58.935	39.130	16.64	0.00	0.00	3.16
1929	2332	0.107703	TAAGCATCCACTTGGCGAGG	60.108	55.000	6.71	0.00	34.44	4.63
1965	2450	5.288232	CGAGATCATGTTCAGAACTTCAGAC	59.712	44.000	14.51	2.66	0.00	3.51
2002	2487	1.589803	AGTCACCGTTGCAGTTTACC	58.410	50.000	0.00	0.00	0.00	2.85
2009	2494	2.873472	CCGTTGCAGTTTACCACTTACA	59.127	45.455	0.00	0.00	30.92	2.41
2148	2633	4.087892	TTCTGCCTCTGCCCGCTC	62.088	66.667	0.00	0.00	36.33	5.03
2175	2660	2.503061	CCATGGAGCCCTCGTCTG	59.497	66.667	5.56	0.00	0.00	3.51
2351	2836	3.057104	ACCAACATGACGACGATACAGAA	60.057	43.478	0.00	0.00	0.00	3.02
2525	3010	3.463585	GGTACCGTCGCCATCCCA	61.464	66.667	0.00	0.00	0.00	4.37
2535	3020	0.677731	CGCCATCCCACAGTGTGAAT	60.678	55.000	24.99	14.15	35.23	2.57
2574	3059	4.039004	ACTTGTTGCTTTGATATGTTGGCA	59.961	37.500	0.00	0.00	0.00	4.92
2575	3060	4.597404	TGTTGCTTTGATATGTTGGCAA	57.403	36.364	0.00	0.00	37.35	4.52
2576	3061	5.149973	TGTTGCTTTGATATGTTGGCAAT	57.850	34.783	1.92	0.00	40.80	3.56
2577	3062	6.278172	TGTTGCTTTGATATGTTGGCAATA	57.722	33.333	1.92	0.00	40.80	1.90
2578	3063	6.876155	TGTTGCTTTGATATGTTGGCAATAT	58.124	32.000	14.07	14.07	40.80	1.28
2579	3064	6.757478	TGTTGCTTTGATATGTTGGCAATATG	59.243	34.615	18.36	3.00	40.80	1.78
2580	3065	6.468333	TGCTTTGATATGTTGGCAATATGT	57.532	33.333	18.36	12.43	0.00	2.29
2581	3066	6.274579	TGCTTTGATATGTTGGCAATATGTG	58.725	36.000	18.36	2.72	0.00	3.21
2793	3278	2.171448	GGTGCTTGATGGATGACCTACT	59.829	50.000	0.00	0.00	37.04	2.57
2794	3279	3.462021	GTGCTTGATGGATGACCTACTC	58.538	50.000	0.00	0.00	37.04	2.59
2995	3482	3.192844	CCATGTGAGTAGTTAGTCCGTGT	59.807	47.826	0.00	0.00	0.00	4.49
3139	3626	6.461092	CCCATCTCATCAGAAATGAAATGGTG	60.461	42.308	15.64	6.90	42.34	4.17
3143	3630	7.067129	ATCTCATCAGAAATGAAATGGTGACAG	59.933	37.037	0.00	0.00	36.33	3.51
3231	3719	1.523258	CTCCCTCGAAGCCATGCTG	60.523	63.158	0.00	0.00	39.62	4.41
3232	3720	1.964608	CTCCCTCGAAGCCATGCTGA	61.965	60.000	0.00	0.00	39.62	4.26
3233	3721	1.078214	CCCTCGAAGCCATGCTGAA	60.078	57.895	0.00	0.00	39.62	3.02
3234	3722	0.677731	CCCTCGAAGCCATGCTGAAA	60.678	55.000	0.00	0.00	39.62	2.69
3279	3771	5.067936	CGAGGACAAAGATCTAAGCCTTCTA	59.932	44.000	0.00	0.00	0.00	2.10
3280	3772	6.405953	CGAGGACAAAGATCTAAGCCTTCTAA	60.406	42.308	0.00	0.00	0.00	2.10
3282	3774	5.525745	GGACAAAGATCTAAGCCTTCTAAGC	59.474	44.000	0.00	0.00	0.00	3.09
3304	3796	0.170561	ACGCTACTACGACAGCAAGG	59.829	55.000	0.00	0.00	37.66	3.61
3313	3805	2.029844	GACAGCAAGGTCGTCTGCC	61.030	63.158	0.00	0.00	0.00	4.85
3331	3823	2.233676	TGCCTTTCATCTGAGCGAAGTA	59.766	45.455	0.00	0.00	0.00	2.24
3339	3831	3.422417	TCTGAGCGAAGTAATTCCTCG	57.578	47.619	13.19	9.76	0.00	4.63
3359	3851	2.806244	CGAGGTCAGGTTAAACAAGTGG	59.194	50.000	0.00	0.00	0.00	4.00
3393	3885	2.103143	ACGAGAGCAAGCGATCGG	59.897	61.111	18.30	0.83	39.42	4.18
3413	3905	3.307762	CGGAAAGGAGGAGAAAGAACCAT	60.308	47.826	0.00	0.00	0.00	3.55
3415	3907	3.728385	AAGGAGGAGAAAGAACCATGG	57.272	47.619	11.19	11.19	0.00	3.66
3454	3946	3.415212	CAGCTTTCCTGGTTGAGATTCA	58.585	45.455	0.00	0.00	37.93	2.57
3463	3955	4.157289	CCTGGTTGAGATTCACATTTGGAG	59.843	45.833	0.00	0.00	0.00	3.86
3503	3995	1.133199	AGGCTGTTGAAATTGGTCCCA	60.133	47.619	0.00	0.00	0.00	4.37
3504	3996	1.273327	GGCTGTTGAAATTGGTCCCAG	59.727	52.381	0.00	0.00	0.00	4.45
3505	3997	1.337167	GCTGTTGAAATTGGTCCCAGC	60.337	52.381	0.00	0.00	35.60	4.85
3506	3998	1.273327	CTGTTGAAATTGGTCCCAGCC	59.727	52.381	0.00	0.00	0.00	4.85
3507	3999	1.133199	TGTTGAAATTGGTCCCAGCCT	60.133	47.619	0.00	0.00	0.00	4.58
3508	4000	1.546029	GTTGAAATTGGTCCCAGCCTC	59.454	52.381	0.00	0.00	0.00	4.70
3509	4001	0.039618	TGAAATTGGTCCCAGCCTCC	59.960	55.000	0.00	0.00	0.00	4.30
3510	4002	0.684479	GAAATTGGTCCCAGCCTCCC	60.684	60.000	0.00	0.00	0.00	4.30
3561	4053	2.813908	GTACGTGCGCAGGGAAGG	60.814	66.667	31.09	8.86	0.00	3.46
3632	4124	0.936764	CTCCATCGAGGCGACAATCG	60.937	60.000	0.00	0.00	43.89	3.34
3665	4157	1.448540	GTCGACAGGTCATGGCTGG	60.449	63.158	11.55	0.00	33.15	4.85
3670	4162	3.402681	AGGTCATGGCTGGACGGG	61.403	66.667	0.00	0.00	36.12	5.28

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
274	279	9.016438	CCTGAACCCTTCTATACTTATCTCTAC	57.984	40.741	0.00	0.00	0.00	2.59
328	333	1.226888	GGAACGCCTACGCCTACAG	60.227	63.158	0.00	0.00	45.53	2.74
486	491	2.027688	GCTAATTGGTCTTTCGTCGACG	59.972	50.000	31.30	31.30	41.45	5.12
493	498	3.246463	GCTAGCTCGCTAATTGGTCTTTC	59.754	47.826	7.70	0.00	0.00	2.62
527	532	1.825191	CTCACCGGCCCATCCATTG	60.825	63.158	0.00	0.00	34.01	2.82
621	626	4.351938	TTGGGCTCACGTCGACCG	62.352	66.667	10.58	7.90	44.03	4.79
702	708	2.508526	GTGGCTGAAACAAGATGAGGT	58.491	47.619	0.00	0.00	0.00	3.85
705	711	2.143122	GTCGTGGCTGAAACAAGATGA	58.857	47.619	0.00	0.00	0.00	2.92
706	712	1.872952	TGTCGTGGCTGAAACAAGATG	59.127	47.619	0.00	0.00	0.00	2.90
707	713	2.146342	CTGTCGTGGCTGAAACAAGAT	58.854	47.619	0.00	0.00	0.00	2.40
792	801	2.747460	CTGGCATGTGGGACCGTG	60.747	66.667	0.00	0.00	0.00	4.94
813	822	1.284657	GAGATGCGTGTGATGACCAG	58.715	55.000	0.00	0.00	0.00	4.00
931	940	0.687427	CCATTGCCCCCTCGGATTTT	60.687	55.000	0.00	0.00	0.00	1.82
932	941	1.076044	CCATTGCCCCCTCGGATTT	60.076	57.895	0.00	0.00	0.00	2.17
935	944	3.089874	CTCCATTGCCCCCTCGGA	61.090	66.667	0.00	0.00	0.00	4.55
936	945	2.615227	CTTCTCCATTGCCCCCTCGG	62.615	65.000	0.00	0.00	0.00	4.63
942	951	1.134098	TCGGATTCTTCTCCATTGCCC	60.134	52.381	0.00	0.00	34.78	5.36
945	954	3.624861	CCAGTTCGGATTCTTCTCCATTG	59.375	47.826	0.00	0.00	36.56	2.82
1045	1054	0.250467	TGGGCTCTTGCTGTCTTCAC	60.250	55.000	0.00	0.00	39.59	3.18
1047	1056	0.250467	TGTGGGCTCTTGCTGTCTTC	60.250	55.000	0.00	0.00	39.59	2.87
1079	1088	4.779733	GCCTGTCGAGGAGGGGGA	62.780	72.222	11.55	0.00	42.93	4.81
1082	1091	2.363018	TGAGCCTGTCGAGGAGGG	60.363	66.667	11.55	1.34	42.93	4.30
1140	1149	3.742248	GAGGTAGGCGGAGAGGGCT	62.742	68.421	0.00	0.00	45.70	5.19
1594	1823	3.563808	ACACAAGAAACAGCTGCGAATTA	59.436	39.130	15.27	0.00	0.00	1.40
1601	1830	2.787601	ATGCACACAAGAAACAGCTG	57.212	45.000	13.48	13.48	0.00	4.24
1614	1843	4.652421	AAATCAGACACAACAATGCACA	57.348	36.364	0.00	0.00	0.00	4.57
1929	2332	2.299993	TGATCTCGTGAGGCAATGTC	57.700	50.000	0.00	0.00	0.00	3.06
1944	2347	6.203530	TGTTGTCTGAAGTTCTGAACATGATC	59.796	38.462	21.50	13.77	0.00	2.92
1965	2450	5.088739	GTGACTAATCGAGCCAAATTGTTG	58.911	41.667	0.00	0.00	34.25	3.33
2002	2487	3.705604	CCCAAGTGCAAAGTTGTAAGTG	58.294	45.455	0.00	0.00	0.00	3.16
2009	2494	1.402107	CCTGGCCCAAGTGCAAAGTT	61.402	55.000	0.00	0.00	0.00	2.66
2335	2820	3.695060	AGGTTCTTCTGTATCGTCGTCAT	59.305	43.478	0.00	0.00	0.00	3.06
2351	2836	2.292511	TGGGGTCCCACAGGTTCT	59.707	61.111	10.98	0.00	41.89	3.01
2385	2870	1.170442	CCATCGGGCGGTTAAAAACT	58.830	50.000	0.00	0.00	0.00	2.66
2447	2932	2.669569	GCAACGGCTCCAGCTTCA	60.670	61.111	0.00	0.00	41.70	3.02
2525	3010	4.832266	AGTCAGAGAAGAGATTCACACTGT	59.168	41.667	0.00	0.00	0.00	3.55
2535	3020	5.595885	CAACAAGTGAAGTCAGAGAAGAGA	58.404	41.667	0.00	0.00	0.00	3.10
2580	3065	1.272480	TGGAGTAGGTGCAGTAGAGCA	60.272	52.381	0.00	0.00	43.35	4.26
2581	3066	1.475403	TGGAGTAGGTGCAGTAGAGC	58.525	55.000	0.00	0.00	0.00	4.09
2582	3067	3.677424	GCTTTGGAGTAGGTGCAGTAGAG	60.677	52.174	0.00	0.00	0.00	2.43
2583	3068	2.233922	GCTTTGGAGTAGGTGCAGTAGA	59.766	50.000	0.00	0.00	0.00	2.59
2584	3069	2.622436	GCTTTGGAGTAGGTGCAGTAG	58.378	52.381	0.00	0.00	0.00	2.57
2585	3070	1.278127	GGCTTTGGAGTAGGTGCAGTA	59.722	52.381	0.00	0.00	0.00	2.74
2586	3071	0.036875	GGCTTTGGAGTAGGTGCAGT	59.963	55.000	0.00	0.00	0.00	4.40
2587	3072	0.036732	TGGCTTTGGAGTAGGTGCAG	59.963	55.000	0.00	0.00	0.00	4.41
2588	3073	0.036732	CTGGCTTTGGAGTAGGTGCA	59.963	55.000	0.00	0.00	0.00	4.57
2672	3157	2.042831	GCAAGCAATCGACCTGCCT	61.043	57.895	15.75	2.55	40.86	4.75
2793	3278	2.241941	AGAGGACATGCTGAGAGAGAGA	59.758	50.000	0.00	0.00	0.00	3.10
2794	3279	2.658285	AGAGGACATGCTGAGAGAGAG	58.342	52.381	0.00	0.00	0.00	3.20
2995	3482	5.392165	CGGGCGAAAACCAATACAGATAAAA	60.392	40.000	0.00	0.00	0.00	1.52
3143	3630	9.481340	TGCAATGTCATCAGTAAGTAGATAATC	57.519	33.333	0.00	0.00	0.00	1.75
3178	3666	4.771577	CCTGTCAGTGCTAGATATGGATCT	59.228	45.833	0.00	0.00	44.90	2.75
3226	3714	0.962356	CCGCCCTTCACTTTCAGCAT	60.962	55.000	0.00	0.00	0.00	3.79
3231	3719	1.017701	CGGTACCGCCCTTCACTTTC	61.018	60.000	23.44	0.00	0.00	2.62
3232	3720	1.004200	CGGTACCGCCCTTCACTTT	60.004	57.895	23.44	0.00	0.00	2.66
3233	3721	1.474332	TTCGGTACCGCCCTTCACTT	61.474	55.000	29.64	0.00	39.59	3.16
3234	3722	1.262640	ATTCGGTACCGCCCTTCACT	61.263	55.000	29.64	2.24	39.59	3.41
3279	3771	0.518636	TGTCGTAGTAGCGTTCGCTT	59.481	50.000	23.92	10.47	42.08	4.68
3280	3772	0.096628	CTGTCGTAGTAGCGTTCGCT	59.903	55.000	22.52	22.52	44.41	4.93
3282	3774	0.179207	TGCTGTCGTAGTAGCGTTCG	60.179	55.000	0.00	0.00	40.44	3.95
3295	3787	2.029844	GGCAGACGACCTTGCTGTC	61.030	63.158	0.00	0.00	32.39	3.51
3304	3796	2.266554	CTCAGATGAAAGGCAGACGAC	58.733	52.381	0.00	0.00	0.00	4.34
3309	3801	1.664659	CTTCGCTCAGATGAAAGGCAG	59.335	52.381	0.00	0.00	0.00	4.85
3313	3805	5.814705	AGGAATTACTTCGCTCAGATGAAAG	59.185	40.000	0.00	0.00	31.75	2.62
3331	3823	4.041198	TGTTTAACCTGACCTCGAGGAATT	59.959	41.667	37.69	22.62	38.94	2.17
3339	3831	4.081322	TCCACTTGTTTAACCTGACCTC	57.919	45.455	0.00	0.00	0.00	3.85
3359	3851	0.247814	CGTGCTTGCAACCGATGATC	60.248	55.000	0.00	0.00	0.00	2.92
3393	3885	4.013050	CCATGGTTCTTTCTCCTCCTTTC	58.987	47.826	2.57	0.00	0.00	2.62
3454	3946	7.074653	TCTAGTGACCTTTTACTCCAAATGT	57.925	36.000	0.00	0.00	0.00	2.71
3463	3955	4.749976	CCTGAGCTCTAGTGACCTTTTAC	58.250	47.826	16.19	0.00	0.00	2.01
3509	4001	1.765314	CTGATGTCTTCCCCTACCTGG	59.235	57.143	0.00	0.00	0.00	4.45
3510	4002	2.169352	CACTGATGTCTTCCCCTACCTG	59.831	54.545	0.00	0.00	0.00	4.00
3561	4053	1.135141	TGTTGTGCTTGCTTGTGTTCC	60.135	47.619	0.00	0.00	0.00	3.62
3640	4132	4.773117	GACCTGTCGACGACCCGC	62.773	72.222	24.33	8.29	0.00	6.13
3641	4133	2.697761	ATGACCTGTCGACGACCCG	61.698	63.158	24.33	16.18	0.00	5.28
3647	4139	1.448540	CCAGCCATGACCTGTCGAC	60.449	63.158	9.11	9.11	0.00	4.20
3649	4141	1.448540	GTCCAGCCATGACCTGTCG	60.449	63.158	10.97	0.18	0.00	4.35
3653	4145	3.402681	CCCGTCCAGCCATGACCT	61.403	66.667	0.00	0.00	0.00	3.85
3655	4147	1.745489	GAACCCGTCCAGCCATGAC	60.745	63.158	0.00	0.00	0.00	3.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.