AutoCloner

Multiple sequence alignment - TraesCS3D01G484200

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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	TraesCS3D01G484200	chr3D	100.000	3538	0	0	1	3538	581459431	581455894	0.000000e+00	6534.0
1	TraesCS3D01G484200	chr3D	82.551	1811	285	23	725	2517	581507431	581505634	0.000000e+00	1565.0
2	TraesCS3D01G484200	chr3D	80.020	1992	337	34	634	2595	581514718	581512758	0.000000e+00	1417.0
3	TraesCS3D01G484200	chr3D	78.239	1829	328	36	719	2525	573402751	573404531	0.000000e+00	1109.0
4	TraesCS3D01G484200	chr3D	82.277	1247	197	14	1334	2571	581517684	581516453	0.000000e+00	1057.0
5	TraesCS3D01G484200	chr3D	77.830	857	162	19	944	1780	581390722	581389874	4.080000e-139	505.0
6	TraesCS3D01G484200	chr3D	94.805	231	9	2	288	517	342824159	342824387	1.210000e-94	357.0
7	TraesCS3D01G484200	chr3D	92.935	184	13	0	3351	3534	581525938	581525755	5.820000e-68	268.0
8	TraesCS3D01G484200	chr3D	90.863	197	13	5	96	291	515821179	515821371	3.500000e-65	259.0
9	TraesCS3D01G484200	chr3B	94.873	2048	78	11	593	2622	776863432	776865470	0.000000e+00	3175.0
10	TraesCS3D01G484200	chr3B	82.535	1878	286	22	725	2569	776996610	776998478	0.000000e+00	1613.0
11	TraesCS3D01G484200	chr3B	82.045	1927	290	38	719	2609	777033393	777035299	0.000000e+00	1591.0
12	TraesCS3D01G484200	chr3B	93.037	876	54	4	2661	3534	776865469	776866339	0.000000e+00	1273.0
13	TraesCS3D01G484200	chr3B	80.564	1595	263	26	944	2517	777001557	777003125	0.000000e+00	1184.0
14	TraesCS3D01G484200	chr3B	77.550	2000	364	44	634	2598	762802461	762804410	0.000000e+00	1127.0
15	TraesCS3D01G484200	chr3B	94.054	185	9	2	3351	3534	776555265	776555448	2.690000e-71	279.0
16	TraesCS3D01G484200	chr3B	91.005	189	13	3	105	290	448064055	448064242	5.860000e-63	252.0
17	TraesCS3D01G484200	chr3B	98.810	84	1	0	1	84	776863247	776863330	2.200000e-32	150.0
18	TraesCS3D01G484200	chr3B	97.959	49	1	0	517	565	776863394	776863442	6.290000e-13	86.1
19	TraesCS3D01G484200	chr3B	100.000	28	0	0	3355	3382	776866120	776866147	6.000000e-03	52.8
20	TraesCS3D01G484200	chr3A	83.629	2144	303	36	749	2865	716597896	716600018	0.000000e+00	1971.0
21	TraesCS3D01G484200	chr3A	79.684	2023	342	40	610	2595	716586982	716588972	0.000000e+00	1395.0
22	TraesCS3D01G484200	chr3A	76.965	1285	245	37	749	2004	716627940	716629202	0.000000e+00	686.0
23	TraesCS3D01G484200	chr3A	96.491	228	6	2	288	513	179806478	179806705	3.330000e-100	375.0
24	TraesCS3D01G484200	chr3A	93.478	184	9	1	3351	3534	716561003	716561183	1.620000e-68	270.0
25	TraesCS3D01G484200	chr2B	80.287	1948	335	32	725	2646	26573732	26571808	0.000000e+00	1424.0
26	TraesCS3D01G484200	chr2B	92.386	197	13	2	96	291	445084937	445084742	2.690000e-71	279.0
27	TraesCS3D01G484200	chr2B	90.404	198	16	2	96	291	29603956	29604152	1.260000e-64	257.0
28	TraesCS3D01G484200	chr2A	81.062	1827	307	25	725	2521	16871482	16869665	0.000000e+00	1421.0
29	TraesCS3D01G484200	chr2D	80.225	1957	327	36	725	2646	14778003	14776072	0.000000e+00	1415.0
30	TraesCS3D01G484200	chr2D	95.279	233	10	1	288	519	511192898	511193130	5.580000e-98	368.0
31	TraesCS3D01G484200	chr4A	96.581	234	6	2	288	519	193121785	193122018	1.540000e-103	387.0
32	TraesCS3D01G484200	chr6B	94.850	233	11	1	288	519	274769349	274769581	2.600000e-96	363.0
33	TraesCS3D01G484200	chr6B	92.935	184	11	2	105	287	274767805	274767987	2.090000e-67	267.0
34	TraesCS3D01G484200	chr1A	94.805	231	11	1	290	519	226333606	226333376	3.360000e-95	359.0
35	TraesCS3D01G484200	chr1A	88.889	198	15	5	96	291	315000717	315000909	1.640000e-58	237.0
36	TraesCS3D01G484200	chr7D	93.644	236	12	3	288	520	198297409	198297644	2.020000e-92	350.0
37	TraesCS3D01G484200	chr7D	93.684	190	10	2	105	293	307313493	307313305	2.080000e-72	283.0
38	TraesCS3D01G484200	chr5B	93.617	235	13	2	288	520	133609273	133609039	2.020000e-92	350.0
39	TraesCS3D01G484200	chr5A	91.304	253	14	7	288	532	484364621	484364873	4.370000e-89	339.0
40	TraesCS3D01G484200	chr5A	90.374	187	15	3	105	291	139366466	139366283	3.530000e-60	243.0
41	TraesCS3D01G484200	chr5A	88.776	196	19	3	96	291	124950484	124950676	1.640000e-58	237.0

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	TraesCS3D01G484200	chr3D	581455894	581459431	3537	True	6534.00	6534	100.0000	1	3538	1	chr3D.!!$R2	3537
1	TraesCS3D01G484200	chr3D	581505634	581507431	1797	True	1565.00	1565	82.5510	725	2517	1	chr3D.!!$R3	1792
2	TraesCS3D01G484200	chr3D	581512758	581517684	4926	True	1237.00	1417	81.1485	634	2595	2	chr3D.!!$R5	1961
3	TraesCS3D01G484200	chr3D	573402751	573404531	1780	False	1109.00	1109	78.2390	719	2525	1	chr3D.!!$F3	1806
4	TraesCS3D01G484200	chr3D	581389874	581390722	848	True	505.00	505	77.8300	944	1780	1	chr3D.!!$R1	836
5	TraesCS3D01G484200	chr3B	777033393	777035299	1906	False	1591.00	1591	82.0450	719	2609	1	chr3B.!!$F4	1890
6	TraesCS3D01G484200	chr3B	776996610	777003125	6515	False	1398.50	1613	81.5495	725	2569	2	chr3B.!!$F6	1844
7	TraesCS3D01G484200	chr3B	762802461	762804410	1949	False	1127.00	1127	77.5500	634	2598	1	chr3B.!!$F2	1964
8	TraesCS3D01G484200	chr3B	776863247	776866339	3092	False	947.38	3175	96.9358	1	3534	5	chr3B.!!$F5	3533
9	TraesCS3D01G484200	chr3A	716597896	716600018	2122	False	1971.00	1971	83.6290	749	2865	1	chr3A.!!$F4	2116
10	TraesCS3D01G484200	chr3A	716586982	716588972	1990	False	1395.00	1395	79.6840	610	2595	1	chr3A.!!$F3	1985
11	TraesCS3D01G484200	chr3A	716627940	716629202	1262	False	686.00	686	76.9650	749	2004	1	chr3A.!!$F5	1255
12	TraesCS3D01G484200	chr2B	26571808	26573732	1924	True	1424.00	1424	80.2870	725	2646	1	chr2B.!!$R1	1921
13	TraesCS3D01G484200	chr2A	16869665	16871482	1817	True	1421.00	1421	81.0620	725	2521	1	chr2A.!!$R1	1796
14	TraesCS3D01G484200	chr2D	14776072	14778003	1931	True	1415.00	1415	80.2250	725	2646	1	chr2D.!!$R1	1921
15	TraesCS3D01G484200	chr6B	274767805	274769581	1776	False	315.00	363	93.8925	105	519	2	chr6B.!!$F1	414

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
635	1999	0.036306	AACGCCCAAGAGTTACCAGG	59.964	55.0	0.0	0.0	33.89	4.45	F
2145	4599	0.387929	GACCACTGACGTTGTCCAGA	59.612	55.0	8.8	0.0	31.49	3.86	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2258	4712	0.869880	TATCATTGAGACGCGCCGTG	60.870	55.0	5.73	0.0	41.37	4.94	R
2994	6656	0.193574	TCCCCTGTCTCACTCCCTTT	59.806	55.0	0.00	0.0	0.00	3.11	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
68	69	0.745128	TCCAAACAACACGCCGAAGT	60.745	50.000	0.00	0.00	0.00	3.01
101	102	3.929002	GCCTGCTGCCATGAATGA	58.071	55.556	0.00	0.00	0.00	2.57
102	103	1.436336	GCCTGCTGCCATGAATGAC	59.564	57.895	0.00	0.00	0.00	3.06
103	104	2.012902	GCCTGCTGCCATGAATGACC	62.013	60.000	0.00	0.00	0.00	4.02
112	113	3.839490	TGCCATGAATGACCTTTGGAAAT	59.161	39.130	0.00	0.00	0.00	2.17
122	123	3.573967	GACCTTTGGAAATTTCAGAGGCA	59.426	43.478	23.10	10.43	0.00	4.75
128	129	5.804944	TGGAAATTTCAGAGGCATTTGAA	57.195	34.783	19.49	0.00	0.00	2.69
139	140	9.947433	TTCAGAGGCATTTGAATTTTATTTGAT	57.053	25.926	0.00	0.00	0.00	2.57
462	1825	1.346068	TGTACTGTGTGTGCCAGCATA	59.654	47.619	0.00	0.00	33.09	3.14
502	1866	2.154462	CACAGAGACTTGGCCGATTTT	58.846	47.619	0.00	0.00	0.00	1.82
508	1872	0.178975	ACTTGGCCGATTTTGGGTCA	60.179	50.000	0.00	0.00	37.39	4.02
559	1923	7.043391	GCTTGGTTTTCTTTCACATACAACTTC	60.043	37.037	0.00	0.00	0.00	3.01
560	1924	7.397892	TGGTTTTCTTTCACATACAACTTCA	57.602	32.000	0.00	0.00	0.00	3.02
563	1927	7.222031	GGTTTTCTTTCACATACAACTTCAACC	59.778	37.037	0.00	0.00	0.00	3.77
566	1930	5.298276	TCTTTCACATACAACTTCAACCACC	59.702	40.000	0.00	0.00	0.00	4.61
567	1931	4.431416	TCACATACAACTTCAACCACCT	57.569	40.909	0.00	0.00	0.00	4.00
568	1932	4.133820	TCACATACAACTTCAACCACCTG	58.866	43.478	0.00	0.00	0.00	4.00
569	1933	2.884639	ACATACAACTTCAACCACCTGC	59.115	45.455	0.00	0.00	0.00	4.85
570	1934	2.719531	TACAACTTCAACCACCTGCA	57.280	45.000	0.00	0.00	0.00	4.41
571	1935	1.846007	ACAACTTCAACCACCTGCAA	58.154	45.000	0.00	0.00	0.00	4.08
572	1936	2.175202	ACAACTTCAACCACCTGCAAA	58.825	42.857	0.00	0.00	0.00	3.68
574	1938	3.007398	ACAACTTCAACCACCTGCAAAAA	59.993	39.130	0.00	0.00	0.00	1.94
617	1981	4.557554	CCATCCGCATGGCTACAA	57.442	55.556	0.00	0.00	43.55	2.41
618	1982	2.024918	CCATCCGCATGGCTACAAC	58.975	57.895	0.00	0.00	43.55	3.32
620	1984	2.180204	ATCCGCATGGCTACAACGC	61.180	57.895	0.00	0.00	34.14	4.84
627	1991	3.890674	GGCTACAACGCCCAAGAG	58.109	61.111	0.00	0.00	44.41	2.85
628	1992	1.003718	GGCTACAACGCCCAAGAGT	60.004	57.895	0.00	0.00	44.41	3.24
629	1993	0.605589	GGCTACAACGCCCAAGAGTT	60.606	55.000	0.00	0.00	44.41	3.01
630	1994	1.338389	GGCTACAACGCCCAAGAGTTA	60.338	52.381	0.00	0.00	44.41	2.24
631	1995	1.730612	GCTACAACGCCCAAGAGTTAC	59.269	52.381	0.00	0.00	33.89	2.50
632	1996	2.344025	CTACAACGCCCAAGAGTTACC	58.656	52.381	0.00	0.00	33.89	2.85
633	1997	0.470766	ACAACGCCCAAGAGTTACCA	59.529	50.000	0.00	0.00	33.89	3.25
635	1999	0.036306	AACGCCCAAGAGTTACCAGG	59.964	55.000	0.00	0.00	33.89	4.45
636	2000	1.078426	CGCCCAAGAGTTACCAGGG	60.078	63.158	0.00	0.00	42.55	4.45
673	3007	0.742281	CGTGTCTCAGGCAATCCAGG	60.742	60.000	0.00	0.00	33.74	4.45
716	3050	2.352421	CGAACATCCGGAACAGTGTAGT	60.352	50.000	9.01	0.00	0.00	2.73
745	3090	2.267642	GTGCCGCTGTGGGATACA	59.732	61.111	9.65	0.00	41.76	2.29
1017	3378	1.135603	CACATGGGCATTGACGTCAAG	60.136	52.381	32.19	24.25	39.47	3.02
1041	3402	1.153842	CATCTCGCAGGCGTACACA	60.154	57.895	13.83	0.00	40.74	3.72
1402	3823	1.962100	TGTGCATCTTTGTTGGCATCA	59.038	42.857	0.00	0.00	38.68	3.07
1473	3894	3.320826	GGGGCATTGGACATATTGGTTAC	59.679	47.826	0.00	0.00	0.00	2.50
1485	3906	1.894881	TTGGTTACCGTAAGTTGGCC	58.105	50.000	0.00	0.00	0.00	5.36
1599	4020	5.098211	GCAGTGGCAATAAAGAGATTCAAC	58.902	41.667	0.00	0.00	40.72	3.18
1602	4023	4.023291	TGGCAATAAAGAGATTCAACCCC	58.977	43.478	0.00	0.00	0.00	4.95
1655	4085	1.079503	GACGAACTCAGGATTGCCAC	58.920	55.000	0.00	0.00	36.29	5.01
1714	4144	2.981784	TGGTGCTATTATGGCCAGAGAT	59.018	45.455	13.05	7.56	0.00	2.75
1825	4255	1.589803	ACACTTACACGAGGGCAAAC	58.410	50.000	0.00	0.00	0.00	2.93
2145	4599	0.387929	GACCACTGACGTTGTCCAGA	59.612	55.000	8.80	0.00	31.49	3.86
2215	4669	5.939764	AATAGGCAGTCAGACATCTACAA	57.060	39.130	2.66	0.00	0.00	2.41
2432	4886	1.672356	GTGCGTGCACCAGGATCTT	60.672	57.895	13.90	0.00	40.79	2.40
2491	4951	0.038709	CGATCGGAGAGGCTGGAATC	60.039	60.000	7.38	0.00	43.63	2.52
2538	4998	4.040829	TGATACCACTCTTGATGCCATAGG	59.959	45.833	0.00	0.00	0.00	2.57
2568	5043	4.553330	TCAGGCTTCTAGTCCGAAAAAT	57.447	40.909	0.00	0.00	0.00	1.82
2571	5046	4.878397	CAGGCTTCTAGTCCGAAAAATCAT	59.122	41.667	0.00	0.00	0.00	2.45
2627	5104	2.294449	TGAGCCTAGATGTATCGCCT	57.706	50.000	0.00	0.00	0.00	5.52
2838	6499	5.904362	ATTGCCATTCTTAAACTGGACTC	57.096	39.130	2.60	0.00	31.38	3.36
2872	6534	3.141398	TGAACTGAGTGAATGCAAGACC	58.859	45.455	0.00	0.00	0.00	3.85
2942	6604	5.643421	AGACCAAGATGATATTTGGCTCT	57.357	39.130	7.80	7.40	46.16	4.09
2981	6643	5.595952	GCTTCTCATTGGTATTCCTGGAAAT	59.404	40.000	14.03	5.04	34.23	2.17
3001	6663	5.665916	AATAATTCCACTGCAAAAGGGAG	57.334	39.130	0.00	0.00	41.43	4.30
3054	6717	3.964688	TGACCTAGTTGTTGACTTCCTCA	59.035	43.478	0.00	0.00	39.86	3.86
3059	6722	5.997746	CCTAGTTGTTGACTTCCTCAAATCA	59.002	40.000	0.00	0.00	40.73	2.57
3066	6729	8.868522	TGTTGACTTCCTCAAATCAATTCTAT	57.131	30.769	0.00	0.00	40.73	1.98
3102	6765	4.194640	TGCTCAATTCATACAAGCTCCTC	58.805	43.478	0.00	0.00	34.11	3.71
3110	6773	1.352083	TACAAGCTCCTCTGTTGGCT	58.648	50.000	0.00	0.00	36.53	4.75
3130	6793	4.442052	GGCTGAATCTTGCCCTAATTTTCC	60.442	45.833	6.59	0.00	43.11	3.13
3141	6804	8.602472	TTGCCCTAATTTTCCAGTAATACAAT	57.398	30.769	0.00	0.00	0.00	2.71
3185	6848	1.339610	CTCCTTACATCCGAGCCTCAG	59.660	57.143	0.00	0.00	0.00	3.35
3233	6896	3.876341	ACATTTTTGCAGCCCATATTGG	58.124	40.909	0.00	0.00	37.25	3.16
3338	8732	9.586732	TGGGCAGTAAGATATTTATAAGCAAAT	57.413	29.630	0.00	0.00	32.91	2.32
3462	8856	1.295792	GCTTTCACTGGACAACACGA	58.704	50.000	0.00	0.00	0.00	4.35
3479	9188	2.164624	CACGAGAGGCTTAGTGCTTACT	59.835	50.000	0.00	0.00	42.39	2.24
3483	9192	4.799428	CGAGAGGCTTAGTGCTTACTTAAC	59.201	45.833	0.00	0.00	42.39	2.01
3535	9245	9.483489	TCAGTAGTTTAATCCCAGTTATGTAGA	57.517	33.333	0.00	0.00	0.00	2.59

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
84	85	1.436336	GTCATTCATGGCAGCAGGC	59.564	57.895	0.00	0.00	43.74	4.85
85	86	0.395311	AGGTCATTCATGGCAGCAGG	60.395	55.000	0.00	0.00	33.08	4.85
86	87	1.471119	AAGGTCATTCATGGCAGCAG	58.529	50.000	0.00	0.00	33.08	4.24
87	88	1.546923	CAAAGGTCATTCATGGCAGCA	59.453	47.619	0.00	0.00	33.08	4.41
101	102	3.575805	TGCCTCTGAAATTTCCAAAGGT	58.424	40.909	21.95	0.00	0.00	3.50
102	103	4.813750	ATGCCTCTGAAATTTCCAAAGG	57.186	40.909	15.48	17.66	0.00	3.11
103	104	6.225318	TCAAATGCCTCTGAAATTTCCAAAG	58.775	36.000	15.48	6.69	0.00	2.77
112	113	9.775854	TCAAATAAAATTCAAATGCCTCTGAAA	57.224	25.926	0.00	0.00	35.31	2.69
210	211	3.634448	CGGAGTGTCATGTTATCTCCTCT	59.366	47.826	18.55	0.00	41.50	3.69
232	233	8.816640	TTGGCATTATTTTCTTCTGACTTTTC	57.183	30.769	0.00	0.00	0.00	2.29
339	1702	3.248043	CCGAAGGCCAACTCATGAA	57.752	52.632	5.01	0.00	46.14	2.57
448	1811	2.159338	CCAAGATTATGCTGGCACACAC	60.159	50.000	0.00	0.00	0.00	3.82
462	1825	6.384015	TCTGTGTATCTGTACCATCCAAGATT	59.616	38.462	0.00	0.00	0.00	2.40
502	1866	2.043939	AGGTATGTAGTGACCTGACCCA	59.956	50.000	0.00	0.00	44.64	4.51
590	1954	3.598299	CCATGCGGATGGTTGAATTTTT	58.402	40.909	26.47	0.00	43.98	1.94
591	1955	3.249986	CCATGCGGATGGTTGAATTTT	57.750	42.857	26.47	0.00	43.98	1.82
592	1956	2.965572	CCATGCGGATGGTTGAATTT	57.034	45.000	26.47	0.00	43.98	1.82
614	1978	0.470766	TGGTAACTCTTGGGCGTTGT	59.529	50.000	0.00	0.00	37.61	3.32
616	1980	0.036306	CCTGGTAACTCTTGGGCGTT	59.964	55.000	0.00	0.00	37.61	4.84
617	1981	1.677552	CCTGGTAACTCTTGGGCGT	59.322	57.895	0.00	0.00	37.61	5.68
618	1982	1.078426	CCCTGGTAACTCTTGGGCG	60.078	63.158	0.00	0.00	37.61	6.13
620	1984	0.618981	GTCCCCTGGTAACTCTTGGG	59.381	60.000	0.00	0.00	37.68	4.12
621	1985	0.249398	CGTCCCCTGGTAACTCTTGG	59.751	60.000	0.00	0.00	37.61	3.61
622	1986	0.391263	GCGTCCCCTGGTAACTCTTG	60.391	60.000	0.00	0.00	37.61	3.02
623	1987	0.834687	TGCGTCCCCTGGTAACTCTT	60.835	55.000	0.00	0.00	37.61	2.85
624	1988	0.617820	ATGCGTCCCCTGGTAACTCT	60.618	55.000	0.00	0.00	37.61	3.24
625	1989	1.117150	TATGCGTCCCCTGGTAACTC	58.883	55.000	0.00	0.00	37.61	3.01
626	1990	0.828677	GTATGCGTCCCCTGGTAACT	59.171	55.000	0.00	0.00	37.61	2.24
627	1991	0.828677	AGTATGCGTCCCCTGGTAAC	59.171	55.000	0.00	0.00	0.00	2.50
628	1992	1.483415	GAAGTATGCGTCCCCTGGTAA	59.517	52.381	0.00	0.00	0.00	2.85
629	1993	1.117150	GAAGTATGCGTCCCCTGGTA	58.883	55.000	0.00	0.00	0.00	3.25
630	1994	0.907704	TGAAGTATGCGTCCCCTGGT	60.908	55.000	0.00	0.00	0.00	4.00
631	1995	0.251916	TTGAAGTATGCGTCCCCTGG	59.748	55.000	0.00	0.00	0.00	4.45
632	1996	1.338674	TGTTGAAGTATGCGTCCCCTG	60.339	52.381	0.00	0.00	0.00	4.45
633	1997	0.981183	TGTTGAAGTATGCGTCCCCT	59.019	50.000	0.00	0.00	0.00	4.79
635	1999	1.084289	GGTGTTGAAGTATGCGTCCC	58.916	55.000	0.00	0.00	0.00	4.46
636	2000	0.719465	CGGTGTTGAAGTATGCGTCC	59.281	55.000	0.00	0.00	0.00	4.79
673	3007	2.358737	CCCACCGGCTCTTGTCAC	60.359	66.667	0.00	0.00	0.00	3.67
745	3090	2.125512	GTGAGCTCGCCGGTGATT	60.126	61.111	19.93	10.15	0.00	2.57
1017	3378	1.953138	CGCCTGCGAGATGATGGAC	60.953	63.158	5.43	0.00	42.83	4.02
1041	3402	2.186826	GCCAGGCACAGTCACGTTT	61.187	57.895	6.55	0.00	0.00	3.60
1473	3894	2.760159	CGCATGGGCCAACTTACGG	61.760	63.158	11.89	0.00	36.38	4.02
1485	3906	1.077645	CGAATTTGTTGGCCGCATGG	61.078	55.000	0.00	0.00	38.77	3.66
1714	4144	6.597672	CACCAGCATATAAACTCAACCAAGTA	59.402	38.462	0.00	0.00	0.00	2.24
1825	4255	1.459455	TTGGACCATGGCAACCAACG	61.459	55.000	25.02	0.00	36.95	4.10
2215	4669	4.649674	TCTCTAGTAGGACAATGCCGAAAT	59.350	41.667	0.00	0.00	0.00	2.17
2258	4712	0.869880	TATCATTGAGACGCGCCGTG	60.870	55.000	5.73	0.00	41.37	4.94
2491	4951	1.742768	GCTAGGGGAGTGATGTCCG	59.257	63.158	0.00	0.00	37.50	4.79
2538	4998	4.177783	GACTAGAAGCCTGAACTACAAGC	58.822	47.826	0.00	0.00	36.31	4.01
2627	5104	4.280174	GCGTCCTGGTACAAGATTCCTATA	59.720	45.833	0.00	0.00	38.70	1.31
2656	5133	6.456988	CGTGGCCTTTGTAGAATGAGTATTTC	60.457	42.308	3.32	0.00	0.00	2.17
2667	5144	1.290955	CCGTCGTGGCCTTTGTAGA	59.709	57.895	3.32	0.00	0.00	2.59
2774	6100	5.359756	CCACCGATGAAGATACTCAAATGA	58.640	41.667	0.00	0.00	0.00	2.57
2838	6499	6.324819	TCACTCAGTTCAAAAGCTTTTTCAG	58.675	36.000	21.70	11.16	0.00	3.02
2872	6534	1.471684	GCAGGCAGAACTTCCAAGATG	59.528	52.381	0.00	0.00	0.00	2.90
2924	6586	3.887110	TGCCAGAGCCAAATATCATCTTG	59.113	43.478	0.00	0.00	38.69	3.02
2981	6643	3.826157	CACTCCCTTTTGCAGTGGAATTA	59.174	43.478	0.00	0.00	34.96	1.40
2994	6656	0.193574	TCCCCTGTCTCACTCCCTTT	59.806	55.000	0.00	0.00	0.00	3.11
2998	6660	1.051556	GGGATCCCCTGTCTCACTCC	61.052	65.000	21.42	0.00	41.34	3.85
3022	6684	6.316390	GTCAACAACTAGGTCAAAGATATGGG	59.684	42.308	0.00	0.00	0.00	4.00
3082	6745	5.426504	ACAGAGGAGCTTGTATGAATTGAG	58.573	41.667	0.00	0.00	0.00	3.02
3110	6773	5.332743	ACTGGAAAATTAGGGCAAGATTCA	58.667	37.500	0.00	0.00	0.00	2.57
3162	6825	2.630580	GAGGCTCGGATGTAAGGAGAAT	59.369	50.000	0.00	0.00	0.00	2.40
3185	6848	4.327680	ACAGGTTCTTGATTTGGAGTAGC	58.672	43.478	0.00	0.00	0.00	3.58
3188	6851	4.536765	ACAACAGGTTCTTGATTTGGAGT	58.463	39.130	0.00	0.00	0.00	3.85
3233	6896	7.907214	ATACATTCACACTTTACCTTGAGAC	57.093	36.000	0.00	0.00	0.00	3.36
3289	8683	3.391506	AACGTAAACCCAGTAGTCCAC	57.608	47.619	0.00	0.00	0.00	4.02
3332	8726	4.708177	CAGTAGGCCAGTATACATTTGCT	58.292	43.478	5.01	0.00	0.00	3.91
3338	8732	2.747177	ACTGCAGTAGGCCAGTATACA	58.253	47.619	20.16	0.00	43.89	2.29
3419	8813	4.586001	AGCATATATGACTGCCCAAAAAGG	59.414	41.667	17.10	0.00	39.22	3.11
3425	8819	2.189594	GCAGCATATATGACTGCCCA	57.810	50.000	31.10	0.00	44.51	5.36
3503	9212	8.788325	AACTGGGATTAAACTACTGAATACAC	57.212	34.615	0.00	0.00	0.00	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.