AutoCloner

Multiple sequence alignment - TraesCS2D01G347000

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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	TraesCS2D01G347000	chr2D	100.000	3906	0	0	1	3906	445058567	445062472	0.000000e+00	7214.0
1	TraesCS2D01G347000	chr2D	86.688	954	89	21	1091	2039	443485876	443484956	0.000000e+00	1024.0
2	TraesCS2D01G347000	chr2D	90.909	737	63	3	2063	2799	443484450	443483718	0.000000e+00	987.0
3	TraesCS2D01G347000	chr2A	95.109	2985	76	35	475	3436	587404127	587407064	0.000000e+00	4639.0
4	TraesCS2D01G347000	chr2A	94.789	403	16	3	1	403	587403724	587404121	1.190000e-174	623.0
5	TraesCS2D01G347000	chr2A	76.923	208	40	8	1088	1291	729190382	729190179	1.150000e-20	111.0
6	TraesCS2D01G347000	chr2A	90.411	73	5	1	3834	3906	587407413	587407483	1.160000e-15	95.3
7	TraesCS2D01G347000	chr2B	95.657	2740	77	17	848	3555	523232819	523235548	0.000000e+00	4362.0
8	TraesCS2D01G347000	chr2B	94.455	523	22	5	314	830	523232314	523232835	0.000000e+00	798.0
9	TraesCS2D01G347000	chr2B	82.947	475	66	10	1975	2448	522541351	522540891	7.810000e-112	414.0
10	TraesCS2D01G347000	chr2B	90.674	193	9	5	3546	3737	523236975	523237159	8.380000e-62	248.0
11	TraesCS2D01G347000	chr2B	92.121	165	9	2	141	305	523232039	523232199	3.040000e-56	230.0
12	TraesCS2D01G347000	chr2B	93.151	73	5	0	3834	3906	523239898	523239970	1.480000e-19	108.0
13	TraesCS2D01G347000	chr4D	81.230	634	98	12	2173	2803	74159238	74158623	3.510000e-135	492.0
14	TraesCS2D01G347000	chr4D	86.087	115	14	2	1648	1761	74159604	74159491	5.300000e-24	122.0
15	TraesCS2D01G347000	chr4B	81.073	634	99	14	2173	2803	106491961	106491346	1.630000e-133	486.0
16	TraesCS2D01G347000	chr4B	83.333	144	22	2	1619	1761	106492359	106492217	8.810000e-27	132.0
17	TraesCS2D01G347000	chr4A	80.599	634	102	14	2173	2803	513805335	513805950	1.640000e-128	470.0
18	TraesCS2D01G347000	chr4A	85.593	118	15	2	1645	1761	513804965	513805081	5.300000e-24	122.0
19	TraesCS2D01G347000	chr5A	79.133	623	106	14	2170	2787	230454337	230454940	3.630000e-110	409.0
20	TraesCS2D01G347000	chr5A	79.210	582	104	8	2173	2753	225243112	225243677	4.730000e-104	388.0
21	TraesCS2D01G347000	chr5D	78.998	619	107	13	2173	2787	192538786	192539385	6.080000e-108	401.0
22	TraesCS2D01G347000	chr5D	89.362	47	4	1	457	502	428392426	428392380	1.520000e-04	58.4
23	TraesCS2D01G347000	chr5D	96.970	33	1	0	455	487	193642749	193642717	5.450000e-04	56.5
24	TraesCS2D01G347000	chr5B	77.949	585	103	10	2173	2756	212635546	212634987	3.740000e-90	342.0
25	TraesCS2D01G347000	chr3A	78.402	338	63	9	1115	1447	651996513	651996845	1.100000e-50	211.0
26	TraesCS2D01G347000	chr3A	80.252	238	41	5	1111	1346	651648973	651649206	1.440000e-39	174.0
27	TraesCS2D01G347000	chr1B	75.459	436	82	19	2258	2682	482697900	482698321	5.150000e-44	189.0
28	TraesCS2D01G347000	chr1B	82.090	134	21	3	1618	1750	482697529	482697660	1.150000e-20	111.0
29	TraesCS2D01G347000	chr3B	81.304	230	41	2	1118	1346	680477780	680477552	6.660000e-43	185.0
30	TraesCS2D01G347000	chr3B	76.647	334	68	10	1118	1446	680732611	680732283	4.010000e-40	176.0
31	TraesCS2D01G347000	chr1A	73.645	535	118	17	2258	2782	460281920	460282441	6.660000e-43	185.0
32	TraesCS2D01G347000	chr1A	82.734	139	21	3	1618	1755	460281549	460281685	1.910000e-23	121.0
33	TraesCS2D01G347000	chr3D	80.000	230	44	2	1118	1346	516671486	516671714	6.710000e-38	169.0
34	TraesCS2D01G347000	chr1D	82.734	139	21	3	1618	1755	360467798	360467934	1.910000e-23	121.0
35	TraesCS2D01G347000	chr1D	89.583	48	5	0	455	502	481468394	481468441	1.170000e-05	62.1

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	TraesCS2D01G347000	chr2D	445058567	445062472	3905	False	7214.000000	7214	100.000000	1	3906	1	chr2D.!!$F1	3905
1	TraesCS2D01G347000	chr2D	443483718	443485876	2158	True	1005.500000	1024	88.798500	1091	2799	2	chr2D.!!$R1	1708
2	TraesCS2D01G347000	chr2A	587403724	587407483	3759	False	1785.766667	4639	93.436333	1	3906	3	chr2A.!!$F1	3905
3	TraesCS2D01G347000	chr2B	523232039	523239970	7931	False	1149.200000	4362	93.211600	141	3906	5	chr2B.!!$F1	3765
4	TraesCS2D01G347000	chr4D	74158623	74159604	981	True	307.000000	492	83.658500	1648	2803	2	chr4D.!!$R1	1155
5	TraesCS2D01G347000	chr4B	106491346	106492359	1013	True	309.000000	486	82.203000	1619	2803	2	chr4B.!!$R1	1184
6	TraesCS2D01G347000	chr4A	513804965	513805950	985	False	296.000000	470	83.096000	1645	2803	2	chr4A.!!$F1	1158
7	TraesCS2D01G347000	chr5A	230454337	230454940	603	False	409.000000	409	79.133000	2170	2787	1	chr5A.!!$F2	617
8	TraesCS2D01G347000	chr5A	225243112	225243677	565	False	388.000000	388	79.210000	2173	2753	1	chr5A.!!$F1	580
9	TraesCS2D01G347000	chr5D	192538786	192539385	599	False	401.000000	401	78.998000	2173	2787	1	chr5D.!!$F1	614
10	TraesCS2D01G347000	chr5B	212634987	212635546	559	True	342.000000	342	77.949000	2173	2756	1	chr5B.!!$R1	583

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
762	876	0.511221	CGACAGCGGTTCGTTCATTT	59.489	50.0	9.86	0.0	0.0	2.32	F
2123	2728	0.109179	TTCGGTGATTGTCGTACCCG	60.109	55.0	0.00	0.0	0.0	5.28	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2165	2774	1.009675	CAGCGTGTCCTGCAACAAC	60.010	57.895	0.0	0.0	33.85	3.32	R
3392	4081	0.101219	GCAGCCAAAATCCATCGGTC	59.899	55.000	0.0	0.0	0.00	4.79	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
109	110	8.219105	CACTAACTAAATTGGTTCGACAAGTAC	58.781	37.037	0.00	0.00	33.23	2.73
119	120	4.025480	GGTTCGACAAGTACAACGTTGATT	60.025	41.667	33.66	20.71	0.00	2.57
138	139	6.698008	TGATTCTATGCCATTTTGTAGTGG	57.302	37.500	0.00	0.00	38.55	4.00
215	216	4.008330	CTCATAGTGGATTCCATGCCATC	58.992	47.826	9.01	0.00	35.28	3.51
216	217	3.395273	TCATAGTGGATTCCATGCCATCA	59.605	43.478	9.01	0.00	35.28	3.07
284	285	4.265073	GTTAGATGAGCACCCAGTTGATT	58.735	43.478	0.00	0.00	0.00	2.57
285	286	2.719739	AGATGAGCACCCAGTTGATTG	58.280	47.619	0.00	0.00	0.00	2.67
286	287	2.306805	AGATGAGCACCCAGTTGATTGA	59.693	45.455	0.00	0.00	0.00	2.57
290	291	3.245016	TGAGCACCCAGTTGATTGATTCT	60.245	43.478	0.00	0.00	0.00	2.40
351	458	5.243060	ACTTGTGCCCAACTCTTAAAATACC	59.757	40.000	0.00	0.00	0.00	2.73
395	502	7.936584	TCAAGTTCATTACAAATTTCGAGGTT	58.063	30.769	0.00	0.00	0.00	3.50
427	534	5.103515	ACATTTTGGATCATAGGTAGCCCTT	60.104	40.000	0.00	0.00	42.66	3.95
428	535	4.706842	TTTGGATCATAGGTAGCCCTTC	57.293	45.455	0.00	0.00	42.66	3.46
448	560	7.214381	CCCTTCCATCAATAATAAGTGTCGTA	58.786	38.462	0.00	0.00	0.00	3.43
454	566	6.880822	TCAATAATAAGTGTCGTAGTGTGC	57.119	37.500	0.00	0.00	0.00	4.57
483	595	7.809665	AGTTTAAAACCGCGACACTTATTATT	58.190	30.769	8.23	0.00	0.00	1.40
487	599	5.652744	AACCGCGACACTTATTATTGATC	57.347	39.130	8.23	0.00	0.00	2.92
491	603	4.443063	CGCGACACTTATTATTGATCGGAA	59.557	41.667	0.00	0.00	0.00	4.30
588	702	9.646427	GTATGTTTTCTAGTGAAGAGATTGTCT	57.354	33.333	0.00	0.00	35.05	3.41
762	876	0.511221	CGACAGCGGTTCGTTCATTT	59.489	50.000	9.86	0.00	0.00	2.32
813	927	7.934120	TCTTTCCAAAAACAAAAGACTTTTCCA	59.066	29.630	10.28	0.00	34.87	3.53
899	1013	3.081804	CTGTACACAAATCCTGAACCCC	58.918	50.000	0.00	0.00	0.00	4.95
918	1032	1.563173	GCGGCTTAAATACGCCTCG	59.437	57.895	6.41	0.00	46.92	4.63
952	1066	2.843113	CCTCCTCCACTTTCCAATCTCT	59.157	50.000	0.00	0.00	0.00	3.10
962	1076	3.428063	TTCCAATCTCTCATCCCCTCT	57.572	47.619	0.00	0.00	0.00	3.69
974	1088	2.704190	TCCCCTCTCTCACAAAGTCT	57.296	50.000	0.00	0.00	0.00	3.24
1520	1640	6.764308	TCTTGTCAATCAATCTTCATTCCC	57.236	37.500	0.00	0.00	35.35	3.97
1807	1930	4.214119	GGTGTCGCGTATATACCAAGTCTA	59.786	45.833	5.77	0.00	0.00	2.59
1838	1961	2.598637	CGTCGTCGACATGTTGAATCAT	59.401	45.455	24.13	0.00	39.71	2.45
2123	2728	0.109179	TTCGGTGATTGTCGTACCCG	60.109	55.000	0.00	0.00	0.00	5.28
2165	2774	4.524316	TTTGTTCCTTGGATGCTGATTG	57.476	40.909	0.00	0.00	0.00	2.67
2871	3537	1.305201	GTTCGCTCAACCAAGTTGGA	58.695	50.000	28.80	5.20	42.99	3.53
2897	3572	4.376615	GCAACGTTTTACTGCTTCGATGTA	60.377	41.667	0.00	0.00	33.20	2.29
2936	3611	2.769663	ACTGTGTGTGGTCAGAAGGTTA	59.230	45.455	0.00	0.00	35.84	2.85
2977	3656	4.143333	CGGACTGTAGCACCGGGG	62.143	72.222	6.32	0.84	42.48	5.73
3130	3815	2.098870	GTTTGTCGTGCGAGTGTTTTC	58.901	47.619	0.00	0.00	0.00	2.29
3178	3864	2.548480	GAGTGGCGAATTATACAAGGCC	59.452	50.000	0.00	0.00	40.88	5.19
3218	3904	3.634448	TGGGCAATCTTTTCTCGTCAAAA	59.366	39.130	0.00	0.00	0.00	2.44
3219	3905	4.098654	TGGGCAATCTTTTCTCGTCAAAAA	59.901	37.500	0.00	0.00	0.00	1.94
3220	3906	4.681483	GGGCAATCTTTTCTCGTCAAAAAG	59.319	41.667	11.05	11.05	42.46	2.27
3235	3921	2.549754	CAAAAAGCACACTCGAGTCCAT	59.450	45.455	16.96	0.79	0.00	3.41
3298	3985	0.399091	CATGTGGGGCCTCCTCTAGA	60.399	60.000	0.00	0.00	36.20	2.43
3329	4016	2.664851	TCTGCGTGTTTCGGGCTG	60.665	61.111	0.00	0.00	40.26	4.85
3392	4081	0.600557	ACTGCTGTCCGTTGAGAGAG	59.399	55.000	0.00	0.00	33.81	3.20
3393	4082	0.884514	CTGCTGTCCGTTGAGAGAGA	59.115	55.000	0.00	0.00	33.81	3.10
3565	5693	5.030820	AGCCCCTAAAATGTCACTACTACT	58.969	41.667	0.00	0.00	0.00	2.57
3672	5902	8.349245	CCAACTTAACACACAATATTTGAGACA	58.651	33.333	5.11	0.00	0.00	3.41
3673	5903	9.729023	CAACTTAACACACAATATTTGAGACAA	57.271	29.630	5.11	0.00	0.00	3.18
3732	5963	2.531522	AAGCCTGTTGCAATGTTTCC	57.468	45.000	0.59	0.00	44.83	3.13
3737	5968	3.118665	GCCTGTTGCAATGTTTCCCATAT	60.119	43.478	0.59	0.00	40.77	1.78
3738	5969	4.099266	GCCTGTTGCAATGTTTCCCATATA	59.901	41.667	0.59	0.00	40.77	0.86
3749	5994	3.755112	TTCCCATATAAATCGACGGCA	57.245	42.857	0.00	0.00	0.00	5.69
3755	6000	4.926832	CCATATAAATCGACGGCACATACA	59.073	41.667	0.00	0.00	0.00	2.29
3786	8690	9.503399	ACTTTAACCAATAGTCAGACTAAAAGG	57.497	33.333	22.73	20.58	33.89	3.11
3787	8691	9.720769	CTTTAACCAATAGTCAGACTAAAAGGA	57.279	33.333	23.24	2.85	33.89	3.36
3816	8720	3.808174	AGTCGTGACTAAAAGAAAGTGGC	59.192	43.478	0.00	0.00	40.43	5.01
3817	8721	3.059120	GTCGTGACTAAAAGAAAGTGGCC	60.059	47.826	0.00	0.00	0.00	5.36
3818	8722	3.139077	CGTGACTAAAAGAAAGTGGCCT	58.861	45.455	3.32	0.00	0.00	5.19
3819	8723	4.039488	TCGTGACTAAAAGAAAGTGGCCTA	59.961	41.667	3.32	0.00	0.00	3.93
3820	8724	4.935808	CGTGACTAAAAGAAAGTGGCCTAT	59.064	41.667	3.32	0.00	0.00	2.57
3821	8725	5.163854	CGTGACTAAAAGAAAGTGGCCTATG	60.164	44.000	3.32	0.00	0.00	2.23
3822	8726	5.123979	GTGACTAAAAGAAAGTGGCCTATGG	59.876	44.000	3.32	0.00	0.00	2.74
3823	8727	5.013704	TGACTAAAAGAAAGTGGCCTATGGA	59.986	40.000	3.32	0.00	0.00	3.41
3824	8728	5.887754	ACTAAAAGAAAGTGGCCTATGGAA	58.112	37.500	3.32	0.00	0.00	3.53
3825	8729	6.311735	ACTAAAAGAAAGTGGCCTATGGAAA	58.688	36.000	3.32	0.00	0.00	3.13
3826	8730	6.954102	ACTAAAAGAAAGTGGCCTATGGAAAT	59.046	34.615	3.32	0.00	0.00	2.17
3827	8731	8.113462	ACTAAAAGAAAGTGGCCTATGGAAATA	58.887	33.333	3.32	0.00	0.00	1.40
3828	8732	7.978099	AAAAGAAAGTGGCCTATGGAAATAT	57.022	32.000	3.32	0.00	0.00	1.28
3829	8733	7.978099	AAAGAAAGTGGCCTATGGAAATATT	57.022	32.000	3.32	0.00	0.00	1.28
3830	8734	7.588497	AAGAAAGTGGCCTATGGAAATATTC	57.412	36.000	3.32	0.00	0.00	1.75
3831	8735	6.672593	AGAAAGTGGCCTATGGAAATATTCA	58.327	36.000	3.32	0.00	0.00	2.57
3832	8736	7.125391	AGAAAGTGGCCTATGGAAATATTCAA	58.875	34.615	3.32	0.00	0.00	2.69
3833	8737	7.619302	AGAAAGTGGCCTATGGAAATATTCAAA	59.381	33.333	3.32	0.00	0.00	2.69
3834	8738	7.732222	AAGTGGCCTATGGAAATATTCAAAA	57.268	32.000	3.32	0.00	0.00	2.44
3835	8739	7.732222	AGTGGCCTATGGAAATATTCAAAAA	57.268	32.000	3.32	0.00	0.00	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	3.227147	GTCGAATCGATGTATGAGACGG	58.773	50.000	9.10	0.00	38.42	4.79
109	110	5.863397	ACAAAATGGCATAGAATCAACGTTG	59.137	36.000	22.35	22.35	0.00	4.10
138	139	9.638239	TGAAAATGACTATGGAACTTAAAATGC	57.362	29.630	0.00	0.00	0.00	3.56
284	285	5.588246	TCGCTACAAAATTGGCATAGAATCA	59.412	36.000	0.00	0.00	0.00	2.57
285	286	5.909610	GTCGCTACAAAATTGGCATAGAATC	59.090	40.000	0.00	0.00	0.00	2.52
286	287	5.356751	TGTCGCTACAAAATTGGCATAGAAT	59.643	36.000	0.00	0.00	30.91	2.40
312	419	4.396166	GGCACAAGTGACATTGTAGCTAAT	59.604	41.667	4.04	0.00	41.41	1.73
389	496	6.978343	TCCAAAATGTAGATGTAAACCTCG	57.022	37.500	0.00	0.00	0.00	4.63
427	534	7.704899	CACACTACGACACTTATTATTGATGGA	59.295	37.037	0.00	0.00	0.00	3.41
428	535	7.516785	GCACACTACGACACTTATTATTGATGG	60.517	40.741	0.00	0.00	0.00	3.51
448	560	3.004002	GCGGTTTTAAACTAAGGCACACT	59.996	43.478	7.79	0.00	0.00	3.55
454	566	3.495753	AGTGTCGCGGTTTTAAACTAAGG	59.504	43.478	6.13	0.00	0.00	2.69
483	595	3.300388	AGAATACTGCTCCTTCCGATCA	58.700	45.455	0.00	0.00	0.00	2.92
487	599	3.452474	CTGAAGAATACTGCTCCTTCCG	58.548	50.000	0.00	0.00	35.42	4.30
491	603	6.814954	TTTATCCTGAAGAATACTGCTCCT	57.185	37.500	0.00	0.00	0.00	3.69
535	647	5.316167	GGGCCTCAAATTTTGGATTTCTTT	58.684	37.500	0.84	0.00	0.00	2.52
588	702	5.079689	TCATCTACGGTCAATGCAAGTAA	57.920	39.130	0.00	0.00	0.00	2.24
733	847	0.747255	ACCGCTGTCGCATAGAGAAT	59.253	50.000	0.00	0.00	35.30	2.40
762	876	5.924254	CGCGGGTAGTGATTTATGAAGAATA	59.076	40.000	0.00	0.00	0.00	1.75
855	969	0.250467	TGGTGCTGGCAGTCTTCTTC	60.250	55.000	17.16	0.00	0.00	2.87
918	1032	0.311477	GAGGAGGATCGCTACGGAAC	59.689	60.000	0.00	0.00	34.37	3.62
952	1066	2.834549	GACTTTGTGAGAGAGGGGATGA	59.165	50.000	0.00	0.00	0.00	2.92
962	1076	4.060900	GAGATGTTGCAGACTTTGTGAGA	58.939	43.478	0.00	0.00	0.00	3.27
974	1088	3.950794	GACGGGGCGAGATGTTGCA	62.951	63.158	4.21	0.00	34.26	4.08
1520	1640	4.858692	CGTCATACCAAATCCAGCAAAAAG	59.141	41.667	0.00	0.00	0.00	2.27
1585	1705	2.594303	TTGCAGTCGCCCTTGTGG	60.594	61.111	0.00	0.00	37.32	4.17
1838	1961	5.533528	TCGTCGTCAATAGATTAGATTCCCA	59.466	40.000	0.00	0.00	0.00	4.37
2123	2728	1.760480	AGCAAACACAACCCCACCC	60.760	57.895	0.00	0.00	0.00	4.61
2165	2774	1.009675	CAGCGTGTCCTGCAACAAC	60.010	57.895	0.00	0.00	33.85	3.32
2615	3277	2.356793	GAGATGGCGCCGATGAGG	60.357	66.667	23.90	0.00	44.97	3.86
2789	3451	3.249189	TGGGCCTTGAACTCGGCT	61.249	61.111	4.53	0.00	45.57	5.52
2853	3519	1.140052	TCTCCAACTTGGTTGAGCGAA	59.860	47.619	11.38	0.00	45.28	4.70
2871	3537	2.221055	CGAAGCAGTAAAACGTTGCTCT	59.779	45.455	11.81	3.24	46.72	4.09
2897	3572	8.517878	ACACACAGTACACGATAATTAGTAGTT	58.482	33.333	0.00	0.00	0.00	2.24
2936	3611	3.612681	CACCTGACCACCGGACGT	61.613	66.667	9.46	2.33	0.00	4.34
2996	3675	0.611062	AGTAGGCTAGCCACACGACA	60.611	55.000	34.70	8.26	38.92	4.35
3144	3829	1.393539	CGCCACTCCATTGACTTAACG	59.606	52.381	0.00	0.00	0.00	3.18
3178	3864	1.066716	CCATGCATCTGGTTTTGGTGG	60.067	52.381	0.00	0.00	0.00	4.61
3218	3904	1.344438	TCAATGGACTCGAGTGTGCTT	59.656	47.619	25.58	8.07	0.00	3.91
3219	3905	0.969149	TCAATGGACTCGAGTGTGCT	59.031	50.000	25.58	1.54	0.00	4.40
3220	3906	1.795768	TTCAATGGACTCGAGTGTGC	58.204	50.000	25.58	8.66	0.00	4.57
3235	3921	1.531739	GACCGGGCCATGCTTTTCAA	61.532	55.000	6.32	0.00	0.00	2.69
3276	3963	4.052518	AGGAGGCCCCACATGCAC	62.053	66.667	12.24	0.00	37.41	4.57
3298	3985	1.735571	ACGCAGACAACAAACGAAACT	59.264	42.857	0.00	0.00	0.00	2.66
3392	4081	0.101219	GCAGCCAAAATCCATCGGTC	59.899	55.000	0.00	0.00	0.00	4.79
3393	4082	0.611618	TGCAGCCAAAATCCATCGGT	60.612	50.000	0.00	0.00	0.00	4.69
3514	4206	1.659794	CTTTGTCCCAAACAGGCCG	59.340	57.895	0.00	0.00	39.58	6.13
3632	5862	2.254546	AGTTGGAGATTTCGTGTGCA	57.745	45.000	0.00	0.00	0.00	4.57
3633	5863	4.024387	TGTTAAGTTGGAGATTTCGTGTGC	60.024	41.667	0.00	0.00	0.00	4.57
3636	5866	5.007234	TGTGTGTTAAGTTGGAGATTTCGTG	59.993	40.000	0.00	0.00	0.00	4.35
3672	5902	6.097554	TGTGTGGATGGAGTGTTTTATGTTTT	59.902	34.615	0.00	0.00	0.00	2.43
3673	5903	5.596361	TGTGTGGATGGAGTGTTTTATGTTT	59.404	36.000	0.00	0.00	0.00	2.83
3674	5904	5.136828	TGTGTGGATGGAGTGTTTTATGTT	58.863	37.500	0.00	0.00	0.00	2.71
3675	5905	4.724399	TGTGTGGATGGAGTGTTTTATGT	58.276	39.130	0.00	0.00	0.00	2.29
3676	5906	5.703978	TTGTGTGGATGGAGTGTTTTATG	57.296	39.130	0.00	0.00	0.00	1.90
3677	5907	5.596361	TGTTTGTGTGGATGGAGTGTTTTAT	59.404	36.000	0.00	0.00	0.00	1.40
3678	5908	4.950475	TGTTTGTGTGGATGGAGTGTTTTA	59.050	37.500	0.00	0.00	0.00	1.52
3679	5909	3.766591	TGTTTGTGTGGATGGAGTGTTTT	59.233	39.130	0.00	0.00	0.00	2.43
3732	5963	4.926832	TGTATGTGCCGTCGATTTATATGG	59.073	41.667	0.00	0.00	0.00	2.74
3737	5968	3.995048	TGTTTGTATGTGCCGTCGATTTA	59.005	39.130	0.00	0.00	0.00	1.40
3738	5969	2.809119	TGTTTGTATGTGCCGTCGATTT	59.191	40.909	0.00	0.00	0.00	2.17
3755	6000	8.747538	AGTCTGACTATTGGTTAAAGTTGTTT	57.252	30.769	8.91	0.00	0.00	2.83
3785	8689	7.647907	TCTTTTAGTCACGACTATTGTTTCC	57.352	36.000	7.71	0.00	42.83	3.13
3786	8690	9.582223	CTTTCTTTTAGTCACGACTATTGTTTC	57.418	33.333	7.71	0.00	42.83	2.78
3787	8691	9.106070	ACTTTCTTTTAGTCACGACTATTGTTT	57.894	29.630	7.71	0.00	42.83	2.83
3788	8692	8.548721	CACTTTCTTTTAGTCACGACTATTGTT	58.451	33.333	7.71	0.00	42.83	2.83
3836	8740	8.644374	TTCTAATACAACATAGGCCACTTTTT	57.356	30.769	5.01	0.00	0.00	1.94
3837	8741	7.888546	ACTTCTAATACAACATAGGCCACTTTT	59.111	33.333	5.01	0.00	0.00	2.27
3838	8742	7.402862	ACTTCTAATACAACATAGGCCACTTT	58.597	34.615	5.01	0.00	0.00	2.66
3839	8743	6.958767	ACTTCTAATACAACATAGGCCACTT	58.041	36.000	5.01	0.00	0.00	3.16
3840	8744	6.561519	ACTTCTAATACAACATAGGCCACT	57.438	37.500	5.01	0.00	0.00	4.00
3841	8745	8.774586	CAATACTTCTAATACAACATAGGCCAC	58.225	37.037	5.01	0.00	0.00	5.01
3842	8746	8.491134	ACAATACTTCTAATACAACATAGGCCA	58.509	33.333	5.01	0.00	0.00	5.36
3843	8747	8.904099	ACAATACTTCTAATACAACATAGGCC	57.096	34.615	0.00	0.00	0.00	5.19
3844	8748	9.542462	TGACAATACTTCTAATACAACATAGGC	57.458	33.333	0.00	0.00	0.00	3.93
3848	8752	9.959721	AAGGTGACAATACTTCTAATACAACAT	57.040	29.630	0.00	0.00	0.00	2.71

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.