AutoCloner

Multiple sequence alignment - TraesCS7B01G265400

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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	TraesCS7B01G265400	chr7B	100.000	3656	0	0	910	4565	487806083	487802428	0.000000e+00	6752.0
1	TraesCS7B01G265400	chr7B	100.000	761	0	0	1	761	487806992	487806232	0.000000e+00	1406.0
2	TraesCS7B01G265400	chr7B	76.765	1119	246	11	2411	3522	307364532	307363421	8.390000e-172	614.0
3	TraesCS7B01G265400	chr7B	98.649	74	1	0	4014	4087	487802907	487802834	1.030000e-26	132.0
4	TraesCS7B01G265400	chr7B	98.649	74	1	0	4086	4159	487802979	487802906	1.030000e-26	132.0
5	TraesCS7B01G265400	chr7B	100.000	48	0	0	4516	4563	487221850	487221803	6.290000e-14	89.8
6	TraesCS7B01G265400	chr7D	97.322	3099	68	7	910	3995	463889431	463892527	0.000000e+00	5249.0
7	TraesCS7B01G265400	chr7D	93.774	771	31	5	1	754	463888648	463889418	0.000000e+00	1142.0
8	TraesCS7B01G265400	chr7D	90.535	486	30	5	4086	4565	463892517	463892992	3.000000e-176	628.0
9	TraesCS7B01G265400	chr7D	76.676	1119	247	12	2411	3522	355563520	355562409	3.910000e-170	608.0
10	TraesCS7B01G265400	chr7D	91.200	125	10	1	633	756	205242405	205242529	7.850000e-38	169.0
11	TraesCS7B01G265400	chr7D	92.063	63	5	0	4501	4563	463961565	463961627	6.290000e-14	89.8
12	TraesCS7B01G265400	chr7D	77.863	131	16	9	505	629	486060283	486060160	8.190000e-08	69.4
13	TraesCS7B01G265400	chr7A	95.385	1885	52	13	2084	3961	536511228	536509372	0.000000e+00	2966.0
14	TraesCS7B01G265400	chr7A	93.828	1199	40	18	910	2090	536512492	536511310	0.000000e+00	1773.0
15	TraesCS7B01G265400	chr7A	90.992	766	35	6	1	756	536513244	536512503	0.000000e+00	1002.0
16	TraesCS7B01G265400	chr7A	76.709	1112	247	10	2411	3516	377979785	377980890	3.910000e-170	608.0
17	TraesCS7B01G265400	chr7A	84.101	434	22	11	4153	4565	536509359	536508952	4.310000e-100	375.0
18	TraesCS7B01G265400	chr7A	92.800	125	8	1	633	756	217525213	217525337	3.630000e-41	180.0
19	TraesCS7B01G265400	chr7A	97.917	48	1	0	4516	4563	536125108	536125061	2.930000e-12	84.2
20	TraesCS7B01G265400	chr3D	82.528	269	27	11	496	756	38938557	38938813	7.690000e-53	219.0
21	TraesCS7B01G265400	chr5B	81.111	270	39	8	491	755	705623357	705623619	5.990000e-49	206.0
22	TraesCS7B01G265400	chr2D	79.635	329	31	19	448	756	650237629	650237941	2.150000e-48	204.0
23	TraesCS7B01G265400	chr2D	81.761	159	17	7	576	725	242331559	242331714	6.200000e-24	122.0
24	TraesCS7B01G265400	chr5D	92.373	118	9	0	639	756	246308542	246308425	7.850000e-38	169.0
25	TraesCS7B01G265400	chr5D	78.723	282	39	14	491	756	563404470	563404746	7.850000e-38	169.0
26	TraesCS7B01G265400	chr5D	92.857	42	1	1	443	484	332218180	332218219	4.930000e-05	60.2
27	TraesCS7B01G265400	chr2B	83.636	165	15	6	576	731	288471758	288471597	1.320000e-30	145.0
28	TraesCS7B01G265400	chr2B	94.340	53	3	0	3661	3713	30133364	30133312	1.050000e-11	82.4
29	TraesCS7B01G265400	chr3A	79.675	123	16	4	576	689	724470318	724470196	3.790000e-11	80.5
30	TraesCS7B01G265400	chrUn	100.000	29	0	0	576	604	328271529	328271557	2.000000e-03	54.7
31	TraesCS7B01G265400	chrUn	100.000	29	0	0	576	604	403575827	403575855	2.000000e-03	54.7

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	TraesCS7B01G265400	chr7B	487802428	487806992	4564	True	2105.500000	6752	99.3245	1	4565	4	chr7B.!!$R3	4564
1	TraesCS7B01G265400	chr7B	307363421	307364532	1111	True	614.000000	614	76.7650	2411	3522	1	chr7B.!!$R1	1111
2	TraesCS7B01G265400	chr7D	463888648	463892992	4344	False	2339.666667	5249	93.8770	1	4565	3	chr7D.!!$F3	4564
3	TraesCS7B01G265400	chr7D	355562409	355563520	1111	True	608.000000	608	76.6760	2411	3522	1	chr7D.!!$R1	1111
4	TraesCS7B01G265400	chr7A	536508952	536513244	4292	True	1529.000000	2966	91.0765	1	4565	4	chr7A.!!$R2	4564
5	TraesCS7B01G265400	chr7A	377979785	377980890	1105	False	608.000000	608	76.7090	2411	3516	1	chr7A.!!$F2	1105

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	Hairpin	End Stability	Orientation
399	407	2.028385	AGAGGCAGTTACCAACTTACCG	60.028	50.000	40.46	4.02	F
1109	1129	1.348036	GGACTACTGCAAACCTGAGGT	59.652	52.381	37.65	3.85	F
1265	1285	2.106566	AGGGTGTAGAGAGCATGACAG	58.893	52.381	0.00	3.51	F
2481	2605	1.425066	AGCCAAATCCACTGGTTCTCA	59.575	47.619	36.24	3.27	F
2856	2980	2.664402	ACAAGATGTTCAAGGGCACT	57.336	45.000	0.00	4.40	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
1231	1251	1.110442	CACCCTTGAACAAACAGGCA	58.890	50.000	0.00	4.75	R
2343	2467	2.028839	TGAATGCCAGCAACAAAGGATG	60.029	45.455	0.00	3.51	R
2922	3046	2.173356	CCAGATAAGGGCATTCAGGACA	59.827	50.000	0.00	4.02	R
3495	3619	0.664761	CATAGAAGCCAATGGTGCCG	59.335	55.000	0.00	5.69	R
3958	4089	0.992802	GTACGCAGTTAGCTCAGCAC	59.007	55.000	37.78	4.40	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
141	142	3.744660	ACTTGAAGAAGCCACACCTTAG	58.255	45.455	0.00	0.00	31.68	2.18
155	156	3.071602	ACACCTTAGAGACAAGTGCATGT	59.928	43.478	0.00	0.00	35.90	3.21
179	180	3.882888	TGTTGTTTCTTGTTGCCTCCTAG	59.117	43.478	0.00	0.00	0.00	3.02
212	220	5.972327	ATTTCAGGAGATCAGGAGAACAT	57.028	39.130	0.00	0.00	0.00	2.71
258	266	4.981806	ACACTTGTTAACACTTGCATGT	57.018	36.364	8.07	0.00	0.00	3.21
277	285	2.294791	TGTTGTTTTCCGGTGCCATTAG	59.705	45.455	0.00	0.00	0.00	1.73
282	290	2.799126	TTCCGGTGCCATTAGATTGT	57.201	45.000	0.00	0.00	0.00	2.71
283	291	2.799126	TCCGGTGCCATTAGATTGTT	57.201	45.000	0.00	0.00	0.00	2.83
334	342	5.304686	TGTTGGAGTCCTCTTGTTTATGT	57.695	39.130	11.33	0.00	0.00	2.29
376	384	4.022935	GCATTGGTGACTGTCATTTCTTCA	60.023	41.667	14.37	3.79	0.00	3.02
382	390	4.928615	GTGACTGTCATTTCTTCAGAGAGG	59.071	45.833	14.37	0.00	32.44	3.69
399	407	2.028385	AGAGGCAGTTACCAACTTACCG	60.028	50.000	0.00	0.00	40.46	4.02
464	472	9.495382	AAACTTCTAAACTAGAGATGATACCCT	57.505	33.333	0.00	0.00	35.96	4.34
511	529	5.163591	TGCATGAGATTTGGCAGTATGAAAG	60.164	40.000	0.00	0.00	39.69	2.62
532	550	9.677567	TGAAAGTTCAGTATTTTGATTAGCAAC	57.322	29.630	0.00	0.00	32.58	4.17
756	774	7.048512	GCAGGTTAGGATAATTGAGTTAGTGT	58.951	38.462	0.00	0.00	0.00	3.55
758	776	8.041323	CAGGTTAGGATAATTGAGTTAGTGTGT	58.959	37.037	0.00	0.00	0.00	3.72
759	777	8.041323	AGGTTAGGATAATTGAGTTAGTGTGTG	58.959	37.037	0.00	0.00	0.00	3.82
1000	1020	7.841956	TCAATGGTTTTCAAAGGTTGACTAAA	58.158	30.769	0.00	0.00	39.87	1.85
1001	1021	8.482128	TCAATGGTTTTCAAAGGTTGACTAAAT	58.518	29.630	0.00	0.00	39.87	1.40
1109	1129	1.348036	GGACTACTGCAAACCTGAGGT	59.652	52.381	0.00	0.00	37.65	3.85
1122	1142	3.944087	ACCTGAGGTGATTAAGAACAGC	58.056	45.455	1.77	0.00	32.98	4.40
1260	1280	2.906389	TGTTCAAGGGTGTAGAGAGCAT	59.094	45.455	0.00	0.00	0.00	3.79
1265	1285	2.106566	AGGGTGTAGAGAGCATGACAG	58.893	52.381	0.00	0.00	0.00	3.51
1276	1296	6.766429	AGAGAGCATGACAGCATAATATGAA	58.234	36.000	4.14	0.00	36.85	2.57
1278	1298	7.883833	AGAGAGCATGACAGCATAATATGAAAT	59.116	33.333	4.14	0.00	36.85	2.17
1279	1299	8.405418	AGAGCATGACAGCATAATATGAAATT	57.595	30.769	4.14	0.00	36.85	1.82
1280	1300	8.297426	AGAGCATGACAGCATAATATGAAATTG	58.703	33.333	4.14	0.00	36.85	2.32
1477	1505	6.658816	TGTATTGCCAGTTGATTAACATGACT	59.341	34.615	0.00	0.00	39.30	3.41
1587	1621	5.934625	GCATAAGCTATAATACAGTGCCTGT	59.065	40.000	11.76	11.76	42.01	4.00
1943	1977	3.165058	TGTCTAACTTAGCATGCCTCG	57.835	47.619	15.66	5.05	0.00	4.63
2009	2044	5.912892	ACAGTCCGAAACCAATTGAAATTT	58.087	33.333	7.12	4.58	0.00	1.82
2174	2298	8.893219	TTGCCTATTCACTGTCTATCTTTATG	57.107	34.615	0.00	0.00	0.00	1.90
2310	2434	9.445878	CCTGATGCATATGTTGTATTCTCTTAT	57.554	33.333	0.00	0.00	29.94	1.73
2481	2605	1.425066	AGCCAAATCCACTGGTTCTCA	59.575	47.619	0.00	0.00	36.24	3.27
2856	2980	2.664402	ACAAGATGTTCAAGGGCACT	57.336	45.000	0.00	0.00	0.00	4.40
3495	3619	0.250513	ATGCCTTCTTCGTCCTGACC	59.749	55.000	0.00	0.00	0.00	4.02
3578	3702	3.242518	TCGACTGATGTAGCAACTTTCG	58.757	45.455	0.00	0.00	0.00	3.46
3599	3723	4.109050	CGAGATAAGTTTCCTGTCTGCTC	58.891	47.826	0.00	0.00	0.00	4.26
3615	3739	1.365633	CTCCTAGAGCATGTCCCGC	59.634	63.158	0.00	0.00	0.00	6.13
3760	3888	3.941483	GGATGTTCACGGATGTTGAAGAT	59.059	43.478	0.00	0.00	0.00	2.40
3761	3889	4.396166	GGATGTTCACGGATGTTGAAGATT	59.604	41.667	0.00	0.00	0.00	2.40
3788	3916	4.655762	TGATACTCGTTGCAGATTAGCT	57.344	40.909	0.00	0.00	34.99	3.32
3958	4089	7.928307	ATGATTTCATTCGATATTACCCTGG	57.072	36.000	0.00	0.00	31.37	4.45
3964	4095	2.673258	TCGATATTACCCTGGTGCTGA	58.327	47.619	0.00	0.00	0.00	4.26
3970	4101	0.902531	TACCCTGGTGCTGAGCTAAC	59.097	55.000	5.83	0.00	0.00	2.34
3971	4102	0.838122	ACCCTGGTGCTGAGCTAACT	60.838	55.000	5.83	0.00	0.00	2.24
3995	4126	6.684686	TGCGTACTGTTTGTTACTCTCTTAT	58.315	36.000	0.00	0.00	0.00	1.73
3997	4128	7.654520	TGCGTACTGTTTGTTACTCTCTTATTT	59.345	33.333	0.00	0.00	0.00	1.40
4021	4152	5.888982	TTTTGAAGGGTCTGTTACTCTCT	57.111	39.130	0.00	0.00	38.26	3.10
4022	4153	5.888982	TTTGAAGGGTCTGTTACTCTCTT	57.111	39.130	0.00	0.00	38.26	2.85
4023	4154	6.989155	TTTGAAGGGTCTGTTACTCTCTTA	57.011	37.500	0.00	0.00	38.26	2.10
4024	4155	5.979288	TGAAGGGTCTGTTACTCTCTTAC	57.021	43.478	0.00	0.00	38.26	2.34
4025	4156	5.642165	TGAAGGGTCTGTTACTCTCTTACT	58.358	41.667	0.00	0.00	38.26	2.24
4026	4157	6.075984	TGAAGGGTCTGTTACTCTCTTACTT	58.924	40.000	0.00	0.00	38.26	2.24
4027	4158	5.986501	AGGGTCTGTTACTCTCTTACTTG	57.013	43.478	0.00	0.00	31.02	3.16
4028	4159	4.773149	AGGGTCTGTTACTCTCTTACTTGG	59.227	45.833	0.00	0.00	31.02	3.61
4029	4160	4.527427	GGGTCTGTTACTCTCTTACTTGGT	59.473	45.833	0.00	0.00	0.00	3.67
4030	4161	5.713861	GGGTCTGTTACTCTCTTACTTGGTA	59.286	44.000	0.00	0.00	0.00	3.25
4031	4162	6.380560	GGGTCTGTTACTCTCTTACTTGGTAT	59.619	42.308	0.00	0.00	0.00	2.73
4032	4163	7.559170	GGGTCTGTTACTCTCTTACTTGGTATA	59.441	40.741	0.00	0.00	0.00	1.47
4033	4164	8.623030	GGTCTGTTACTCTCTTACTTGGTATAG	58.377	40.741	0.00	0.00	0.00	1.31
4034	4165	9.176460	GTCTGTTACTCTCTTACTTGGTATAGT	57.824	37.037	0.00	0.00	0.00	2.12
4072	4203	9.529325	GTACCTGAATCTTAAAATTAATTGGCC	57.471	33.333	0.39	0.00	0.00	5.36
4073	4204	8.144862	ACCTGAATCTTAAAATTAATTGGCCA	57.855	30.769	0.00	0.00	0.00	5.36
4074	4205	8.601546	ACCTGAATCTTAAAATTAATTGGCCAA	58.398	29.630	23.00	23.00	0.00	4.52
4075	4206	9.617523	CCTGAATCTTAAAATTAATTGGCCAAT	57.382	29.630	25.73	25.73	0.00	3.16
4092	4223	9.822185	ATTGGCCAATCAATAAAAATTACTCTC	57.178	29.630	25.73	0.00	35.78	3.20
4093	4224	8.593945	TGGCCAATCAATAAAAATTACTCTCT	57.406	30.769	0.61	0.00	0.00	3.10
4094	4225	9.034800	TGGCCAATCAATAAAAATTACTCTCTT	57.965	29.630	0.61	0.00	0.00	2.85
4209	4344	3.673338	CGACGTTTATCAGAAAGCAGACA	59.327	43.478	0.00	0.00	0.00	3.41
4249	4386	9.846248	ATAAAACTTTATTCAGTGAGAATGTGC	57.154	29.630	0.00	0.00	46.24	4.57
4267	4404	7.763528	AGAATGTGCAGTGAAAAACATTTTACA	59.236	29.630	12.33	0.00	41.91	2.41
4272	4409	7.164008	GTGCAGTGAAAAACATTTTACATTTGC	59.836	33.333	0.00	0.00	0.00	3.68
4348	4485	4.191544	CTGACAAATGACCACGGATACAT	58.808	43.478	0.00	0.00	0.00	2.29
4423	4575	2.058595	GCTTAGCGGGAGTCAGGGA	61.059	63.158	0.00	0.00	0.00	4.20
4459	4611	1.925285	ATCACCCCGCACATCATGGT	61.925	55.000	0.00	0.00	0.00	3.55
4466	4618	0.107508	CGCACATCATGGTCTCCCTT	60.108	55.000	0.00	0.00	0.00	3.95
4505	4657	2.933287	ATGTGGGCCCCTTCGACA	60.933	61.111	22.27	17.49	0.00	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
141	142	4.032703	ACAACAAACATGCACTTGTCTC	57.967	40.909	10.20	0.00	34.71	3.36
155	156	3.513515	AGGAGGCAACAAGAAACAACAAA	59.486	39.130	0.00	0.00	41.41	2.83
179	180	2.742053	TCTCCTGAAATTGTAACTGCGC	59.258	45.455	0.00	0.00	0.00	6.09
241	249	6.091441	GGAAAACAACATGCAAGTGTTAACAA	59.909	34.615	10.51	0.00	40.17	2.83
258	266	2.865079	TCTAATGGCACCGGAAAACAA	58.135	42.857	9.46	0.00	0.00	2.83
334	342	1.946768	GCAACACAACAACTGGAGCTA	59.053	47.619	0.00	0.00	0.00	3.32
376	384	3.261137	GGTAAGTTGGTAACTGCCTCTCT	59.739	47.826	0.00	0.00	41.91	3.10
382	390	2.995939	GGTACGGTAAGTTGGTAACTGC	59.004	50.000	0.00	0.00	41.91	4.40
511	529	9.282247	CTCATGTTGCTAATCAAAATACTGAAC	57.718	33.333	0.00	0.00	36.26	3.18
632	650	6.153170	TCACCATGTCACTATGCATGAAAAAT	59.847	34.615	10.16	0.00	43.60	1.82
676	694	6.489603	TGCCCCACTAAATTTAATTCTCTCA	58.510	36.000	0.00	0.00	0.00	3.27
933	951	8.143835	ACAGGAAACAATGAATAAAACTTCCAG	58.856	33.333	0.00	0.00	34.74	3.86
946	964	7.009179	ACAGAGAATAGACAGGAAACAATGA	57.991	36.000	0.00	0.00	0.00	2.57
1000	1020	7.175797	AGATCATCATCCTGCAATATGAACAT	58.824	34.615	13.06	8.81	35.82	2.71
1001	1021	6.540083	AGATCATCATCCTGCAATATGAACA	58.460	36.000	13.06	5.18	35.82	3.18
1109	1129	3.592898	TCTCAGCGCTGTTCTTAATCA	57.407	42.857	34.70	13.09	0.00	2.57
1122	1142	1.550976	ACTTCCCCTAAGTTCTCAGCG	59.449	52.381	0.00	0.00	46.61	5.18
1231	1251	1.110442	CACCCTTGAACAAACAGGCA	58.890	50.000	0.00	0.00	0.00	4.75
1232	1252	1.111277	ACACCCTTGAACAAACAGGC	58.889	50.000	0.00	0.00	0.00	4.85
1235	1255	4.703897	CTCTCTACACCCTTGAACAAACA	58.296	43.478	0.00	0.00	0.00	2.83
1278	1298	8.478877	TGGGAAATTGAACTTAAGTTAAAGCAA	58.521	29.630	20.58	18.78	38.56	3.91
1279	1299	8.012957	TGGGAAATTGAACTTAAGTTAAAGCA	57.987	30.769	20.58	11.54	38.56	3.91
1280	1300	8.761497	GTTGGGAAATTGAACTTAAGTTAAAGC	58.239	33.333	20.58	12.44	38.56	3.51
1307	1335	4.279169	CCTCCTCATCTTGAACTGCAAAAA	59.721	41.667	0.00	0.00	35.74	1.94
1447	1475	6.920758	TGTTAATCAACTGGCAATACAACAAC	59.079	34.615	0.00	0.00	35.56	3.32
1503	1531	1.202371	TGTAAGCCGGCTAGACAATCG	60.202	52.381	31.55	0.00	0.00	3.34
1506	1534	3.639561	TCATATGTAAGCCGGCTAGACAA	59.360	43.478	34.92	26.33	0.00	3.18
1587	1621	7.733773	TCCTGATAGAAGGAAAGTACATTGA	57.266	36.000	0.00	0.00	43.57	2.57
1986	2020	5.529581	AATTTCAATTGGTTTCGGACTGT	57.470	34.783	5.42	0.00	0.00	3.55
2174	2298	5.176223	GCACCATATTCATGTTTAATGCTGC	59.824	40.000	0.00	0.00	0.00	5.25
2343	2467	2.028839	TGAATGCCAGCAACAAAGGATG	60.029	45.455	0.00	0.00	0.00	3.51
2481	2605	9.927081	AGGACAATCATCAAGGAGTTAATAATT	57.073	29.630	0.00	0.00	0.00	1.40
2718	2842	3.081061	TCCAAGTAGCGCAAACATCATT	58.919	40.909	11.47	0.00	0.00	2.57
2856	2980	2.834549	GAGGGTGATCTTCTTCCACTCA	59.165	50.000	0.00	0.00	33.91	3.41
2922	3046	2.173356	CCAGATAAGGGCATTCAGGACA	59.827	50.000	0.00	0.00	0.00	4.02
3135	3259	2.359900	CCACCAGCAAGTATGGAGAAC	58.640	52.381	0.00	0.00	40.51	3.01
3495	3619	0.664761	CATAGAAGCCAATGGTGCCG	59.335	55.000	0.00	0.00	0.00	5.69
3578	3702	4.161377	AGGAGCAGACAGGAAACTTATCTC	59.839	45.833	0.00	0.00	40.21	2.75
3599	3723	1.227380	GTGCGGGACATGCTCTAGG	60.227	63.158	0.00	0.00	0.00	3.02
3609	3733	1.029681	AAGAAAACCTTGTGCGGGAC	58.970	50.000	0.00	0.00	32.92	4.46
3760	3888	6.741992	ATCTGCAACGAGTATCAAATTCAA	57.258	33.333	0.00	0.00	33.17	2.69
3761	3889	6.741992	AATCTGCAACGAGTATCAAATTCA	57.258	33.333	0.00	0.00	33.17	2.57
3950	4081	1.278127	GTTAGCTCAGCACCAGGGTAA	59.722	52.381	0.00	0.00	0.00	2.85
3958	4089	0.992802	GTACGCAGTTAGCTCAGCAC	59.007	55.000	0.00	0.00	37.78	4.40
3964	4095	3.107642	ACAAACAGTACGCAGTTAGCT	57.892	42.857	0.00	0.00	37.78	3.32
3970	4101	4.547532	AGAGAGTAACAAACAGTACGCAG	58.452	43.478	0.00	0.00	0.00	5.18
3971	4102	4.579454	AGAGAGTAACAAACAGTACGCA	57.421	40.909	0.00	0.00	0.00	5.24
3999	4130	5.888982	AGAGAGTAACAGACCCTTCAAAA	57.111	39.130	0.00	0.00	0.00	2.44
4000	4131	5.888982	AAGAGAGTAACAGACCCTTCAAA	57.111	39.130	0.00	0.00	0.00	2.69
4002	4133	5.642165	AGTAAGAGAGTAACAGACCCTTCA	58.358	41.667	0.00	0.00	0.00	3.02
4003	4134	6.391537	CAAGTAAGAGAGTAACAGACCCTTC	58.608	44.000	0.00	0.00	0.00	3.46
4004	4135	5.246429	CCAAGTAAGAGAGTAACAGACCCTT	59.754	44.000	0.00	0.00	0.00	3.95
4005	4136	4.773149	CCAAGTAAGAGAGTAACAGACCCT	59.227	45.833	0.00	0.00	0.00	4.34
4006	4137	4.527427	ACCAAGTAAGAGAGTAACAGACCC	59.473	45.833	0.00	0.00	0.00	4.46
4007	4138	5.725325	ACCAAGTAAGAGAGTAACAGACC	57.275	43.478	0.00	0.00	0.00	3.85
4008	4139	9.176460	ACTATACCAAGTAAGAGAGTAACAGAC	57.824	37.037	0.00	0.00	0.00	3.51
4011	4142	9.964354	TGTACTATACCAAGTAAGAGAGTAACA	57.036	33.333	0.00	0.00	33.85	2.41
4026	4157	9.565090	CAGGTACATAGTTACTGTACTATACCA	57.435	37.037	18.71	0.00	45.31	3.25
4027	4158	9.784531	TCAGGTACATAGTTACTGTACTATACC	57.215	37.037	12.46	14.04	45.31	2.73
4032	4163	9.476928	AAGATTCAGGTACATAGTTACTGTACT	57.523	33.333	12.46	0.00	45.31	2.73
4066	4197	9.822185	GAGAGTAATTTTTATTGATTGGCCAAT	57.178	29.630	31.09	31.09	39.76	3.16
4098	4229	9.565090	CAGGTACATAGTTACTGTACTATACCA	57.435	37.037	18.71	0.00	45.31	3.25
4099	4230	9.784531	TCAGGTACATAGTTACTGTACTATACC	57.215	37.037	12.46	14.04	45.31	2.73
4104	4235	9.476928	AAGATTCAGGTACATAGTTACTGTACT	57.523	33.333	12.46	0.00	45.31	2.73
4118	4249	9.529325	GGCCAATTAATTTTAAGATTCAGGTAC	57.471	33.333	0.00	0.00	0.00	3.34
4119	4250	9.261035	TGGCCAATTAATTTTAAGATTCAGGTA	57.739	29.630	0.61	0.00	0.00	3.08
4120	4251	8.144862	TGGCCAATTAATTTTAAGATTCAGGT	57.855	30.769	0.61	0.00	0.00	4.00
4121	4252	9.617523	ATTGGCCAATTAATTTTAAGATTCAGG	57.382	29.630	25.73	0.00	0.00	3.86
4135	4266	9.293404	TGAAATTTTCATTGATTGGCCAATTAA	57.707	25.926	31.00	31.00	34.77	1.40
4136	4267	8.859236	TGAAATTTTCATTGATTGGCCAATTA	57.141	26.923	31.13	24.84	34.77	1.40
4137	4268	7.666388	TCTGAAATTTTCATTGATTGGCCAATT	59.334	29.630	31.13	13.89	39.30	2.32
4138	4269	7.169591	TCTGAAATTTTCATTGATTGGCCAAT	58.830	30.769	31.09	31.09	39.30	3.16
4139	4270	6.531923	TCTGAAATTTTCATTGATTGGCCAA	58.468	32.000	23.00	23.00	39.30	4.52
4140	4271	6.111669	TCTGAAATTTTCATTGATTGGCCA	57.888	33.333	12.04	0.00	39.30	5.36
4141	4272	6.427547	TGTTCTGAAATTTTCATTGATTGGCC	59.572	34.615	12.04	0.00	39.30	5.36
4181	4312	5.344128	TGCTTTCTGATAAACGTCGTCTTAC	59.656	40.000	0.00	0.00	0.00	2.34
4249	4386	7.692088	TGGCAAATGTAAAATGTTTTTCACTG	58.308	30.769	0.00	1.65	31.76	3.66
4348	4485	1.675310	CCTCGCATGCCTGTTCCAA	60.675	57.895	13.15	0.00	0.00	3.53
4432	4584	4.530857	GCGGGGTGATCAGGACGG	62.531	72.222	12.82	5.16	0.00	4.79
4459	4611	2.599281	TCGACGTGCCAAGGGAGA	60.599	61.111	0.00	0.00	0.00	3.71

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.