AutoCloner

Multiple sequence alignment - TraesCS4D01G005500

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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	TraesCS4D01G005500	chr4D	100.000	4218	0	0	1	4218	3250335	3254552	0.000000e+00	7790.0
1	TraesCS4D01G005500	chr4D	83.796	432	58	6	1	423	3242024	3241596	2.360000e-107	399.0
2	TraesCS4D01G005500	chr4A	92.279	4300	213	43	1	4215	602273071	602268806	0.000000e+00	5991.0
3	TraesCS4D01G005500	chr4A	93.706	429	21	3	1669	2095	735504453	735504029	4.600000e-179	638.0
4	TraesCS4D01G005500	chr4A	83.596	317	42	9	1356	1663	735504825	735504510	5.340000e-74	289.0
5	TraesCS4D01G005500	chr4B	92.712	3307	172	33	960	4218	3831860	3835145	0.000000e+00	4708.0
6	TraesCS4D01G005500	chr4B	96.644	447	11	1	1	443	3830839	3831285	0.000000e+00	739.0
7	TraesCS4D01G005500	chr4B	92.141	369	16	6	429	796	3831316	3831672	3.760000e-140	508.0
8	TraesCS4D01G005500	chr4B	84.272	426	61	3	1	423	3821240	3820818	1.090000e-110	411.0
9	TraesCS4D01G005500	chr4B	94.690	113	5	1	835	947	3831680	3831791	1.560000e-39	174.0
10	TraesCS4D01G005500	chr3D	81.922	1488	205	39	1760	3219	307568697	307567246	0.000000e+00	1199.0
11	TraesCS4D01G005500	chr3D	85.776	232	33	0	1088	1319	307569897	307569666	3.260000e-61	246.0
12	TraesCS4D01G005500	chr1D	79.878	1481	244	28	1760	3204	2126354	2124892	0.000000e+00	1035.0
13	TraesCS4D01G005500	chr1D	83.146	267	41	4	1059	1323	2122078	2121814	1.520000e-59	241.0
14	TraesCS4D01G005500	chr3A	84.588	850	112	10	2369	3213	426653538	426654373	0.000000e+00	826.0
15	TraesCS4D01G005500	chr3A	88.053	226	27	0	1760	1985	426652880	426653105	6.950000e-68	268.0
16	TraesCS4D01G005500	chr3A	82.818	291	45	4	1059	1347	426651876	426652163	5.410000e-64	255.0
17	TraesCS4D01G005500	chr3B	83.976	830	118	7	2387	3213	413992945	413993762	0.000000e+00	782.0
18	TraesCS4D01G005500	chr3B	81.469	572	80	10	1760	2306	413992271	413992841	2.990000e-121	446.0
19	TraesCS4D01G005500	chr3B	82.759	261	45	0	1059	1319	413991292	413991552	2.540000e-57	233.0
20	TraesCS4D01G005500	chr5B	78.748	1054	171	28	1759	2785	636895528	636896555	0.000000e+00	656.0
21	TraesCS4D01G005500	chr5B	85.387	349	45	1	2888	3236	636896673	636897015	1.440000e-94	357.0
22	TraesCS4D01G005500	chr5D	78.261	1058	176	32	1759	2785	506158370	506159404	7.700000e-177	630.0
23	TraesCS4D01G005500	chr5D	82.528	269	46	1	1059	1326	506156116	506156384	7.050000e-58	235.0
24	TraesCS4D01G005500	chr2B	95.638	298	13	0	1798	2095	146777767	146777470	2.950000e-131	479.0
25	TraesCS4D01G005500	chr1B	82.090	268	40	4	1059	1319	1470020	1470286	5.490000e-54	222.0
26	TraesCS4D01G005500	chr1B	81.343	268	42	4	1059	1319	1426744	1426478	1.190000e-50	211.0
27	TraesCS4D01G005500	chr7B	79.231	130	23	3	3016	3143	605909329	605909456	2.090000e-13	87.9

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	TraesCS4D01G005500	chr4D	3250335	3254552	4217	False	7790.000000	7790	100.000000	1	4218	1	chr4D.!!$F1	4217
1	TraesCS4D01G005500	chr4A	602268806	602273071	4265	True	5991.000000	5991	92.279000	1	4215	1	chr4A.!!$R1	4214
2	TraesCS4D01G005500	chr4A	735504029	735504825	796	True	463.500000	638	88.651000	1356	2095	2	chr4A.!!$R2	739
3	TraesCS4D01G005500	chr4B	3830839	3835145	4306	False	1532.250000	4708	94.046750	1	4218	4	chr4B.!!$F1	4217
4	TraesCS4D01G005500	chr3D	307567246	307569897	2651	True	722.500000	1199	83.849000	1088	3219	2	chr3D.!!$R1	2131
5	TraesCS4D01G005500	chr1D	2121814	2126354	4540	True	638.000000	1035	81.512000	1059	3204	2	chr1D.!!$R1	2145
6	TraesCS4D01G005500	chr3A	426651876	426654373	2497	False	449.666667	826	85.153000	1059	3213	3	chr3A.!!$F1	2154
7	TraesCS4D01G005500	chr3B	413991292	413993762	2470	False	487.000000	782	82.734667	1059	3213	3	chr3B.!!$F1	2154
8	TraesCS4D01G005500	chr5B	636895528	636897015	1487	False	506.500000	656	82.067500	1759	3236	2	chr5B.!!$F1	1477
9	TraesCS4D01G005500	chr5D	506156116	506159404	3288	False	432.500000	630	80.394500	1059	2785	2	chr5D.!!$F1	1726

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
987	1072	0.319405	CCCCTCAAACTAACGACGGT	59.681	55.0	0.00	0.00	4.83	F
1400	1549	0.175989	AGCTTAGCTTCGCTACACCC	59.824	55.0	0.00	41.12	4.61	F
2680	5033	0.102300	CGTGGACCATGATCGTGCTA	59.898	55.0	8.08	0.00	3.49	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
2605	4958	0.761187	AGAACAGCTTGCACTCTCCA	59.239	50.0	0.00	0.00	3.86	R
3079	5509	1.414061	CGATCCCCATCTTGGCCTCT	61.414	60.0	3.32	35.79	3.69	R
4082	7038	0.178967	TGCTTTGCAAGGGTGGATCA	60.179	50.0	10.89	34.76	2.92	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
131	132	2.814336	GACAGGAACAATTGGAGGACAC	59.186	50.000	10.83	0.00	0.00	3.67
404	405	2.604046	AATGGATTTCTCCGTCTCCG	57.396	50.000	0.00	0.00	45.37	4.63
463	513	6.058183	GGTGTGAAAATGTGCCTCTATCTAT	58.942	40.000	0.00	0.00	0.00	1.98
489	539	1.761198	GTAGTCCCCAACGCCTCTATT	59.239	52.381	0.00	0.00	0.00	1.73
500	550	3.270877	ACGCCTCTATTTGTTGTCCATC	58.729	45.455	0.00	0.00	0.00	3.51
826	879	5.803020	AAGACATTTTCGCAATCTACTCC	57.197	39.130	0.00	0.00	0.00	3.85
833	886	2.025155	TCGCAATCTACTCCCTCTGAC	58.975	52.381	0.00	0.00	0.00	3.51
973	1058	3.319031	AACATCATTCCCATTCCCCTC	57.681	47.619	0.00	0.00	0.00	4.30
974	1059	2.216881	ACATCATTCCCATTCCCCTCA	58.783	47.619	0.00	0.00	0.00	3.86
975	1060	2.586838	ACATCATTCCCATTCCCCTCAA	59.413	45.455	0.00	0.00	0.00	3.02
976	1061	3.012730	ACATCATTCCCATTCCCCTCAAA	59.987	43.478	0.00	0.00	0.00	2.69
980	1065	4.293634	TCATTCCCATTCCCCTCAAACTAA	59.706	41.667	0.00	0.00	0.00	2.24
982	1067	2.026636	TCCCATTCCCCTCAAACTAACG	60.027	50.000	0.00	0.00	0.00	3.18
984	1069	3.007635	CCATTCCCCTCAAACTAACGAC	58.992	50.000	0.00	0.00	0.00	4.34
985	1070	2.443887	TTCCCCTCAAACTAACGACG	57.556	50.000	0.00	0.00	0.00	5.12
986	1071	0.604578	TCCCCTCAAACTAACGACGG	59.395	55.000	0.00	0.00	0.00	4.79
987	1072	0.319405	CCCCTCAAACTAACGACGGT	59.681	55.000	0.00	0.00	0.00	4.83
989	1074	1.000060	CCCTCAAACTAACGACGGTCA	60.000	52.381	9.10	0.00	0.00	4.02
991	1076	3.125316	CCTCAAACTAACGACGGTCAAA	58.875	45.455	9.10	0.00	0.00	2.69
992	1077	3.183775	CCTCAAACTAACGACGGTCAAAG	59.816	47.826	9.10	4.59	0.00	2.77
994	1079	2.228138	AACTAACGACGGTCAAAGCA	57.772	45.000	9.10	0.00	0.00	3.91
995	1080	2.450609	ACTAACGACGGTCAAAGCAT	57.549	45.000	9.10	0.00	0.00	3.79
1046	1150	3.650298	TTCCATGGGAGCAGCAGCC	62.650	63.158	13.02	0.00	43.56	4.85
1188	1292	1.078708	CAGGGCGTACCATTCCGTT	60.079	57.895	1.21	0.00	43.89	4.44
1304	1408	2.291153	CCCTGTTTCACCAGACCATCAT	60.291	50.000	0.00	0.00	34.23	2.45
1330	1455	1.862827	ACGGTGCGTGTACTTTTCTTC	59.137	47.619	0.00	0.00	39.18	2.87
1383	1508	6.750039	TGTTTCTTTTTAGCGGCATTATTAGC	59.250	34.615	1.45	0.00	0.00	3.09
1387	1536	7.861630	TCTTTTTAGCGGCATTATTAGCTTAG	58.138	34.615	1.45	0.00	40.73	2.18
1394	1543	3.748568	GGCATTATTAGCTTAGCTTCGCT	59.251	43.478	13.44	13.10	40.44	4.93
1400	1549	0.175989	AGCTTAGCTTCGCTACACCC	59.824	55.000	0.00	0.00	41.12	4.61
1402	1551	1.927895	CTTAGCTTCGCTACACCCTG	58.072	55.000	0.00	0.00	41.12	4.45
1409	1562	0.892358	TCGCTACACCCTGAGTCGTT	60.892	55.000	0.00	0.00	0.00	3.85
1413	1566	2.927014	GCTACACCCTGAGTCGTTTGAG	60.927	54.545	0.00	0.00	0.00	3.02
1449	1632	5.946377	GTGTCCATGGAAGGATTTAGTTCTT	59.054	40.000	18.20	0.00	40.42	2.52
1458	1641	9.010029	TGGAAGGATTTAGTTCTTGTTATGTTC	57.990	33.333	0.00	0.00	0.00	3.18
1470	1699	7.513371	TCTTGTTATGTTCGGTTTTAATGGT	57.487	32.000	0.00	0.00	0.00	3.55
1561	3116	7.977789	AAATGTTTTTGGGTATGAAATCCAC	57.022	32.000	0.00	0.00	0.00	4.02
1604	3529	0.384309	GTGGCATGGCATCTCACATG	59.616	55.000	26.07	0.00	45.49	3.21
1611	3539	2.464782	TGGCATCTCACATGAGTCTCT	58.535	47.619	8.70	0.00	42.60	3.10
1623	3551	1.269257	TGAGTCTCTCACACGCAACAG	60.269	52.381	0.65	0.00	35.39	3.16
1628	3556	2.943345	CTCACACGCAACAGACGGC	61.943	63.158	0.00	0.00	34.00	5.68
1682	3765	9.880157	TCCACCTAAATAAACAGACTATAACAC	57.120	33.333	0.00	0.00	0.00	3.32
1717	3851	4.212636	GGAAACGTGTATATGCCCATGTAC	59.787	45.833	7.87	7.87	36.37	2.90
1835	4083	0.861837	CTGAACTGGTGCGTGAAGTC	59.138	55.000	0.00	0.00	0.00	3.01
2040	4323	5.055265	TCAGACTGTAACAAAAATCCCCA	57.945	39.130	1.59	0.00	0.00	4.96
2049	4332	8.207350	TGTAACAAAAATCCCCATTCCATTTA	57.793	30.769	0.00	0.00	0.00	1.40
2118	4407	0.466124	GATGGGAAGTTCTAGCCGCT	59.534	55.000	2.25	0.00	0.00	5.52
2551	4901	2.875672	GCTGTTGCTGGAGTCCAACATA	60.876	50.000	15.91	7.78	46.96	2.29
2605	4958	1.254026	TCACGACGGAAGACCTGATT	58.746	50.000	0.00	0.00	0.00	2.57
2680	5033	0.102300	CGTGGACCATGATCGTGCTA	59.898	55.000	8.08	0.00	0.00	3.49
2762	5115	0.455464	CACGACGCCAGATTACGACA	60.455	55.000	0.00	0.00	0.00	4.35
2884	5314	3.315949	GGCGGTGTCAGGTACCCA	61.316	66.667	8.74	0.00	34.66	4.51
3003	5433	2.194326	GATCTCCAAGGCAGGGGC	59.806	66.667	0.00	0.00	40.13	5.80
3079	5509	1.066422	CCAGAGCTTCGCGATGCTA	59.934	57.895	39.05	13.55	41.18	3.49
3529	6472	7.514573	AACAAAAGTTAACAAACTTAAGCGG	57.485	32.000	8.61	0.00	41.76	5.52
3530	6473	6.854778	ACAAAAGTTAACAAACTTAAGCGGA	58.145	32.000	8.61	0.00	41.76	5.54
3531	6474	7.314393	ACAAAAGTTAACAAACTTAAGCGGAA	58.686	30.769	8.61	0.00	41.76	4.30
3532	6475	7.977293	ACAAAAGTTAACAAACTTAAGCGGAAT	59.023	29.630	8.61	0.00	41.76	3.01
3533	6476	8.813282	CAAAAGTTAACAAACTTAAGCGGAATT	58.187	29.630	8.61	0.00	41.76	2.17
3534	6477	8.936070	AAAGTTAACAAACTTAAGCGGAATTT	57.064	26.923	8.61	0.00	41.76	1.82
3566	6520	0.942962	AGATCTAGCAGCGCAATTGC	59.057	50.000	20.76	20.76	41.83	3.56
3641	6595	0.529992	GGTACATACGCTCTGGGCAC	60.530	60.000	0.00	0.00	41.91	5.01
3671	6625	4.776322	TGCCTCAATGACCGGCCG	62.776	66.667	21.04	21.04	43.12	6.13
3740	6694	1.185618	TGACCCTTGGAGGACACTCG	61.186	60.000	0.00	0.00	44.93	4.18
3890	6846	5.012664	TGCTTGTAGGTAGGATTGTGAAAGA	59.987	40.000	0.00	0.00	0.00	2.52
3891	6847	5.582665	GCTTGTAGGTAGGATTGTGAAAGAG	59.417	44.000	0.00	0.00	0.00	2.85
3939	6895	3.104512	AGTATACAGGCCAAGCTGTGTA	58.895	45.455	5.01	3.80	34.44	2.90
4082	7038	3.007920	CCAGCCACCTCAGCCTCT	61.008	66.667	0.00	0.00	0.00	3.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
131	132	0.803768	AGCAGCGACAATAGCGACAG	60.804	55.000	0.00	0.00	40.04	3.51
301	302	1.442526	CCGACCTTGCATGCCTCATC	61.443	60.000	16.68	7.12	0.00	2.92
404	405	4.776647	GTCAACAATGGCGCCCGC	62.777	66.667	26.77	3.71	41.06	6.13
463	513	1.188863	GCGTTGGGGACTACTCCTAA	58.811	55.000	0.00	0.00	37.59	2.69
489	539	4.365514	TCCTTAAGCAGATGGACAACAA	57.634	40.909	0.00	0.00	0.00	2.83
500	550	7.056635	TCCCTTTTCATAGATTCCTTAAGCAG	58.943	38.462	0.00	0.00	0.00	4.24
719	772	5.529430	ACATCAAGGAAAATGTGTGTACGAA	59.471	36.000	0.00	0.00	34.88	3.85
727	780	2.819608	ACCGGACATCAAGGAAAATGTG	59.180	45.455	9.46	0.00	36.28	3.21
814	867	1.067821	GGTCAGAGGGAGTAGATTGCG	59.932	57.143	0.00	0.00	0.00	4.85
826	879	5.713792	ATACGAATGTATCTGGTCAGAGG	57.286	43.478	6.81	0.00	41.33	3.69
880	933	3.719871	TGTTCTATTGCTACTCCCTCCA	58.280	45.455	0.00	0.00	0.00	3.86
947	1000	4.359706	GGAATGGGAATGATGTTTTACGC	58.640	43.478	0.00	0.00	0.00	4.42
973	1058	2.285756	TGCTTTGACCGTCGTTAGTTTG	59.714	45.455	0.00	0.00	0.00	2.93
974	1059	2.553086	TGCTTTGACCGTCGTTAGTTT	58.447	42.857	0.00	0.00	0.00	2.66
975	1060	2.228138	TGCTTTGACCGTCGTTAGTT	57.772	45.000	0.00	0.00	0.00	2.24
976	1061	2.450609	ATGCTTTGACCGTCGTTAGT	57.549	45.000	0.00	0.00	0.00	2.24
980	1065	1.076332	GCTTATGCTTTGACCGTCGT	58.924	50.000	0.00	0.00	36.03	4.34
982	1067	2.223340	CCATGCTTATGCTTTGACCGTC	60.223	50.000	1.96	0.00	40.48	4.79
984	1069	1.534595	GCCATGCTTATGCTTTGACCG	60.535	52.381	1.96	0.00	40.48	4.79
985	1070	1.534595	CGCCATGCTTATGCTTTGACC	60.535	52.381	1.96	0.00	40.48	4.02
986	1071	1.401552	TCGCCATGCTTATGCTTTGAC	59.598	47.619	1.96	0.00	40.48	3.18
987	1072	1.401552	GTCGCCATGCTTATGCTTTGA	59.598	47.619	1.96	0.00	40.48	2.69
989	1074	0.378257	CGTCGCCATGCTTATGCTTT	59.622	50.000	1.96	0.00	40.48	3.51
991	1076	0.877649	CTCGTCGCCATGCTTATGCT	60.878	55.000	1.96	0.00	40.48	3.79
992	1077	1.566563	CTCGTCGCCATGCTTATGC	59.433	57.895	0.00	0.00	40.20	3.14
994	1079	1.951130	CGCTCGTCGCCATGCTTAT	60.951	57.895	0.00	0.00	34.21	1.73
995	1080	2.582226	CGCTCGTCGCCATGCTTA	60.582	61.111	0.00	0.00	34.21	3.09
1015	1119	5.422214	TCCCATGGAAAAGAGTCTTCTAC	57.578	43.478	15.22	0.00	31.96	2.59
1046	1150	2.778026	CGTACACATGCACCAGCG	59.222	61.111	0.00	0.00	46.23	5.18
1054	1158	2.434185	AGCCACCGCGTACACATG	60.434	61.111	4.92	0.00	41.18	3.21
1284	1388	2.566833	TGATGGTCTGGTGAAACAGG	57.433	50.000	0.00	0.00	39.98	4.00
1330	1455	4.038042	GGTCACTCAAGAAAAAGGAAAGGG	59.962	45.833	0.00	0.00	0.00	3.95
1394	1543	2.589720	TCTCAAACGACTCAGGGTGTA	58.410	47.619	0.00	0.00	0.00	2.90
1400	1549	3.194861	TGGTTGTTCTCAAACGACTCAG	58.805	45.455	8.21	0.00	45.51	3.35
1402	1551	4.609691	TTTGGTTGTTCTCAAACGACTC	57.390	40.909	8.21	1.28	45.51	3.36
1409	1562	4.019858	TGGACACATTTGGTTGTTCTCAA	58.980	39.130	0.00	0.00	0.00	3.02
1413	1566	3.320541	TCCATGGACACATTTGGTTGTTC	59.679	43.478	11.44	0.00	34.35	3.18
1449	1632	7.513371	AGAACCATTAAAACCGAACATAACA	57.487	32.000	0.00	0.00	0.00	2.41
1458	1641	8.134895	ACATGCATTATAGAACCATTAAAACCG	58.865	33.333	0.00	0.00	0.00	4.44
1470	1699	6.000891	GCATTTCCGACATGCATTATAGAA	57.999	37.500	13.52	0.00	45.50	2.10
1604	3529	1.001268	TCTGTTGCGTGTGAGAGACTC	60.001	52.381	0.00	0.00	0.00	3.36
1611	3539	2.916502	AAGCCGTCTGTTGCGTGTGA	62.917	55.000	0.00	0.00	0.00	3.58
1623	3551	3.069729	AGTGGGACTATTATCAAGCCGTC	59.930	47.826	0.00	0.00	0.00	4.79
1628	3556	7.921786	TTTGTCAAGTGGGACTATTATCAAG	57.078	36.000	0.00	0.00	38.61	3.02
1682	3765	8.733128	CATATACACGTTTCCGATTTCATTTTG	58.267	33.333	0.00	0.00	37.88	2.44
1693	3776	1.942677	TGGGCATATACACGTTTCCG	58.057	50.000	0.00	0.00	40.83	4.30
1706	3789	1.839994	ACTAGCAGTGTACATGGGCAT	59.160	47.619	15.65	6.43	0.00	4.40
1708	3791	3.195661	GTTACTAGCAGTGTACATGGGC	58.804	50.000	0.00	3.43	0.00	5.36
1709	3792	4.465632	TGTTACTAGCAGTGTACATGGG	57.534	45.455	0.00	0.00	0.00	4.00
1717	3851	3.575630	TCGAAGCTTGTTACTAGCAGTG	58.424	45.455	19.49	9.10	41.11	3.66
1835	4083	1.318576	GACCCAACTTGTTGGACAGG	58.681	55.000	28.19	16.38	44.82	4.00
2040	4323	3.772932	CAACATGCGCTGTAAATGGAAT	58.227	40.909	9.73	0.00	36.98	3.01
2534	4884	1.350684	TGCTATGTTGGACTCCAGCAA	59.649	47.619	17.62	7.44	46.92	3.91
2605	4958	0.761187	AGAACAGCTTGCACTCTCCA	59.239	50.000	0.00	0.00	0.00	3.86
2680	5033	2.438975	CAGTCCGGGTGCATGCAT	60.439	61.111	25.64	2.10	0.00	3.96
2762	5115	4.092968	CACGATTTTTAGGCGAGTTAAGCT	59.907	41.667	0.00	0.00	34.52	3.74
2884	5314	2.044650	ATGAACAGCATGCCCGCT	60.045	55.556	15.66	0.00	45.21	5.52
2894	5324	1.475280	CAGGAATGGCACCATGAACAG	59.525	52.381	2.19	0.00	36.68	3.16
3079	5509	1.414061	CGATCCCCATCTTGGCCTCT	61.414	60.000	3.32	0.00	35.79	3.69
3483	6426	7.713750	TGTTTAAAACAAATATCACCGGTTCA	58.286	30.769	2.97	0.00	38.72	3.18
3527	6470	8.959705	AGATCTAGGGTTTAGTTTAAATTCCG	57.040	34.615	0.00	0.00	32.66	4.30
3532	6475	7.985752	GCTGCTAGATCTAGGGTTTAGTTTAAA	59.014	37.037	27.21	0.00	33.87	1.52
3533	6476	7.498443	GCTGCTAGATCTAGGGTTTAGTTTAA	58.502	38.462	27.21	0.00	33.87	1.52
3534	6477	6.238953	CGCTGCTAGATCTAGGGTTTAGTTTA	60.239	42.308	27.21	0.00	33.87	2.01
3535	6478	5.452077	CGCTGCTAGATCTAGGGTTTAGTTT	60.452	44.000	27.21	0.00	33.87	2.66
3536	6479	4.038162	CGCTGCTAGATCTAGGGTTTAGTT	59.962	45.833	27.21	0.00	33.87	2.24
3641	6595	0.674581	TGAGGCATGCAAGTTCCTCG	60.675	55.000	21.36	0.00	46.10	4.63
3671	6625	2.597510	GCCAACTCCACCACCACC	60.598	66.667	0.00	0.00	0.00	4.61
3740	6694	5.063817	ACACACACTAACGTTAAAACTGACC	59.936	40.000	9.68	0.00	0.00	4.02
3890	6846	4.081752	CCTCTGTCTAAGCAGAATGTGACT	60.082	45.833	0.00	0.00	43.92	3.41
3891	6847	4.081972	TCCTCTGTCTAAGCAGAATGTGAC	60.082	45.833	0.00	0.00	43.92	3.67
4082	7038	0.178967	TGCTTTGCAAGGGTGGATCA	60.179	50.000	10.89	0.00	34.76	2.92

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.