AutoCloner

Multiple sequence alignment - TraesCS7B01G103400

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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	TraesCS7B01G103400	chr7B	100.000	2801	0	0	1	2801	118890415	118893215	0.000000e+00	5173.0
1	TraesCS7B01G103400	chr7B	85.965	1311	112	36	623	1897	118821001	118822275	0.000000e+00	1336.0
2	TraesCS7B01G103400	chr7A	91.853	1927	122	22	454	2365	211411832	211413738	0.000000e+00	2656.0
3	TraesCS7B01G103400	chr7A	96.571	350	10	2	2454	2801	211413747	211414096	1.870000e-161	579.0
4	TraesCS7B01G103400	chr7A	85.011	447	49	12	3	438	211411332	211411771	3.310000e-119	438.0
5	TraesCS7B01G103400	chr7D	91.650	1521	109	11	859	2372	156525315	156526824	0.000000e+00	2089.0
6	TraesCS7B01G103400	chr7D	90.246	1056	83	11	874	1911	156455204	156456257	0.000000e+00	1362.0
7	TraesCS7B01G103400	chr7D	97.414	348	7	2	2454	2799	156526819	156527166	2.400000e-165	592.0
8	TraesCS7B01G103400	chr7D	93.069	404	21	5	454	853	156524828	156525228	4.020000e-163	584.0
9	TraesCS7B01G103400	chr7D	84.318	491	51	9	4	479	156522940	156523419	9.140000e-125	457.0
10	TraesCS7B01G103400	chr7D	87.097	62	5	3	2587	2647	131468405	131468346	1.800000e-07	67.6
11	TraesCS7B01G103400	chr1B	86.839	813	107	0	993	1805	657506666	657507478	0.000000e+00	909.0
12	TraesCS7B01G103400	chr5B	86.924	803	105	0	1000	1802	638353512	638352710	0.000000e+00	902.0
13	TraesCS7B01G103400	chr5B	86.675	803	107	0	1000	1802	638345230	638344428	0.000000e+00	891.0
14	TraesCS7B01G103400	chr5B	95.652	46	2	0	2587	2632	479621308	479621353	1.080000e-09	75.0
15	TraesCS7B01G103400	chr1A	86.364	814	109	2	993	1805	566688779	566689591	0.000000e+00	887.0
16	TraesCS7B01G103400	chr6B	86.443	804	109	0	999	1802	117840423	117841226	0.000000e+00	881.0
17	TraesCS7B01G103400	chr5D	84.434	893	134	5	1000	1890	507835896	507835007	0.000000e+00	874.0
18	TraesCS7B01G103400	chr5D	92.391	92	7	0	2364	2455	56915672	56915763	6.300000e-27	132.0
19	TraesCS7B01G103400	chr3B	95.349	86	4	0	2370	2455	485411933	485412018	1.350000e-28	137.0
20	TraesCS7B01G103400	chr3B	90.625	96	9	0	2362	2457	732827268	732827363	8.140000e-26	128.0
21	TraesCS7B01G103400	chr2A	94.382	89	5	0	2368	2456	240481739	240481651	1.350000e-28	137.0
22	TraesCS7B01G103400	chr2A	89.623	106	8	3	2351	2455	404608190	404608293	6.300000e-27	132.0
23	TraesCS7B01G103400	chr1D	95.294	85	4	0	2371	2455	251295168	251295252	4.870000e-28	135.0
24	TraesCS7B01G103400	chr4D	89.796	98	10	0	2363	2460	437508988	437508891	2.930000e-25	126.0
25	TraesCS7B01G103400	chr4D	92.000	50	2	1	2587	2636	138406319	138406366	5.010000e-08	69.4
26	TraesCS7B01G103400	chr4B	89.216	102	9	2	2362	2462	18440928	18440828	2.930000e-25	126.0
27	TraesCS7B01G103400	chr3D	88.571	105	11	1	2351	2455	424005968	424006071	2.930000e-25	126.0
28	TraesCS7B01G103400	chr3D	97.436	39	1	0	2587	2625	173579375	173579413	1.800000e-07	67.6
29	TraesCS7B01G103400	chr6D	95.652	46	2	0	2587	2632	88875953	88875908	1.080000e-09	75.0
30	TraesCS7B01G103400	chr6D	92.157	51	3	1	2587	2637	122992153	122992202	1.390000e-08	71.3
31	TraesCS7B01G103400	chr6A	93.478	46	3	0	2587	2632	106930040	106929995	5.010000e-08	69.4
32	TraesCS7B01G103400	chr2B	92.857	42	2	1	323	364	248021580	248021540	3.010000e-05	60.2

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	TraesCS7B01G103400	chr7B	118890415	118893215	2800	False	5173.000000	5173	100.00000	1	2801	1	chr7B.!!$F2	2800
1	TraesCS7B01G103400	chr7B	118821001	118822275	1274	False	1336.000000	1336	85.96500	623	1897	1	chr7B.!!$F1	1274
2	TraesCS7B01G103400	chr7A	211411332	211414096	2764	False	1224.333333	2656	91.14500	3	2801	3	chr7A.!!$F1	2798
3	TraesCS7B01G103400	chr7D	156455204	156456257	1053	False	1362.000000	1362	90.24600	874	1911	1	chr7D.!!$F1	1037
4	TraesCS7B01G103400	chr7D	156522940	156527166	4226	False	930.500000	2089	91.61275	4	2799	4	chr7D.!!$F2	2795
5	TraesCS7B01G103400	chr1B	657506666	657507478	812	False	909.000000	909	86.83900	993	1805	1	chr1B.!!$F1	812
6	TraesCS7B01G103400	chr5B	638352710	638353512	802	True	902.000000	902	86.92400	1000	1802	1	chr5B.!!$R2	802
7	TraesCS7B01G103400	chr5B	638344428	638345230	802	True	891.000000	891	86.67500	1000	1802	1	chr5B.!!$R1	802
8	TraesCS7B01G103400	chr1A	566688779	566689591	812	False	887.000000	887	86.36400	993	1805	1	chr1A.!!$F1	812
9	TraesCS7B01G103400	chr6B	117840423	117841226	803	False	881.000000	881	86.44300	999	1802	1	chr6B.!!$F1	803
10	TraesCS7B01G103400	chr5D	507835007	507835896	889	True	874.000000	874	84.43400	1000	1890	1	chr5D.!!$R1	890

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
961	2521	0.03563	AAGCCATCTCACACTCCAGC	60.036	55.0	0.0	0.0	0.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2263	3845	0.179156	CACGACAGGAATTGCATGGC	60.179	55.0	0.0	0.0	31.49	4.4	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
132	134	5.470368	TCTATCGGATTTGCTAATTCTCGG	58.530	41.667	0.00	0.00	0.00	4.63
137	139	4.058817	GGATTTGCTAATTCTCGGTCGAT	58.941	43.478	0.00	0.00	0.00	3.59
177	180	7.493743	TTTAGTCGTCACTAGAGTATCATCC	57.506	40.000	0.00	0.00	36.43	3.51
183	186	5.239525	CGTCACTAGAGTATCATCCATCACA	59.760	44.000	0.00	0.00	37.82	3.58
186	189	5.917447	CACTAGAGTATCATCCATCACAACG	59.083	44.000	0.00	0.00	37.82	4.10
197	200	3.628032	TCCATCACAACGTGCAAGTTTTA	59.372	39.130	15.65	4.63	32.98	1.52
198	201	4.096532	TCCATCACAACGTGCAAGTTTTAA	59.903	37.500	15.65	4.30	32.98	1.52
208	212	9.566624	CAACGTGCAAGTTTTAATATTTTTCTG	57.433	29.630	15.65	0.00	30.96	3.02
213	217	9.762933	TGCAAGTTTTAATATTTTTCTGAGCTT	57.237	25.926	0.00	0.00	0.00	3.74
228	232	6.751514	TCTGAGCTTTGAAAACAAACACTA	57.248	33.333	0.00	0.00	0.00	2.74
229	233	7.333528	TCTGAGCTTTGAAAACAAACACTAT	57.666	32.000	0.00	0.00	0.00	2.12
231	235	8.559536	TCTGAGCTTTGAAAACAAACACTATAG	58.440	33.333	0.00	0.00	0.00	1.31
284	288	8.567285	TTTTGTGGGTTGTATGAACAAATTTT	57.433	26.923	0.00	0.00	46.84	1.82
285	289	8.567285	TTTGTGGGTTGTATGAACAAATTTTT	57.433	26.923	0.00	0.00	46.84	1.94
299	303	5.009048	CAAATTTTTGTGCAATCGACTGG	57.991	39.130	0.00	0.00	33.59	4.00
310	314	3.567164	GCAATCGACTGGGAATCAATCAT	59.433	43.478	0.00	0.00	0.00	2.45
314	318	7.681782	GCAATCGACTGGGAATCAATCATTTTA	60.682	37.037	0.00	0.00	0.00	1.52
322	326	7.972527	TGGGAATCAATCATTTTAATTTTGCG	58.027	30.769	0.00	0.00	0.00	4.85
325	329	8.442384	GGAATCAATCATTTTAATTTTGCGTGT	58.558	29.630	0.00	0.00	0.00	4.49
365	369	0.389948	GTTCTGCTCCTACCCACACG	60.390	60.000	0.00	0.00	0.00	4.49
366	370	1.541310	TTCTGCTCCTACCCACACGG	61.541	60.000	0.00	0.00	37.81	4.94
367	371	3.665675	CTGCTCCTACCCACACGGC	62.666	68.421	0.00	0.00	33.26	5.68
368	372	4.468689	GCTCCTACCCACACGGCC	62.469	72.222	0.00	0.00	33.26	6.13
369	373	3.000819	CTCCTACCCACACGGCCA	61.001	66.667	2.24	0.00	33.26	5.36
370	374	3.310860	CTCCTACCCACACGGCCAC	62.311	68.421	2.24	0.00	33.26	5.01
371	375	3.632080	CCTACCCACACGGCCACA	61.632	66.667	2.24	0.00	33.26	4.17
372	376	2.358247	CTACCCACACGGCCACAC	60.358	66.667	2.24	0.00	33.26	3.82
373	377	3.894547	CTACCCACACGGCCACACC	62.895	68.421	2.24	0.00	33.26	4.16
398	402	0.710588	TGGTGCCTCCCTCTTCTCTA	59.289	55.000	0.00	0.00	34.77	2.43
402	417	2.769095	GTGCCTCCCTCTTCTCTATGTT	59.231	50.000	0.00	0.00	0.00	2.71
419	434	7.940137	TCTCTATGTTCTCTCCTACCTATCAAC	59.060	40.741	0.00	0.00	0.00	3.18
427	443	7.265673	TCTCTCCTACCTATCAACGAAAAATG	58.734	38.462	0.00	0.00	0.00	2.32
439	455	5.809562	TCAACGAAAAATGCACAATCTTTGT	59.190	32.000	0.00	0.00	46.75	2.83
499	1950	7.676947	AGTATAAACTGCACTTTCTTGTAGGA	58.323	34.615	0.00	0.00	33.78	2.94
574	2026	2.681976	GCATATGTCCAGACCTTGCACT	60.682	50.000	4.29	0.00	32.94	4.40
578	2030	2.846193	TGTCCAGACCTTGCACTTAAC	58.154	47.619	0.00	0.00	0.00	2.01
594	2046	1.518325	TAACACCAGCCACATGTTCG	58.482	50.000	0.00	0.00	37.68	3.95
606	2058	6.478673	CAGCCACATGTTCGAATTATACACTA	59.521	38.462	0.00	0.00	0.00	2.74
694	2151	5.444663	AAAAGCACAGATCCACTCTTTTC	57.555	39.130	7.24	0.00	29.94	2.29
699	2156	1.391485	CAGATCCACTCTTTTCGCACG	59.609	52.381	0.00	0.00	29.16	5.34
858	2327	3.969287	TCTGTCCATCTCCTTCTTGTG	57.031	47.619	0.00	0.00	0.00	3.33
958	2518	1.552337	TCTCAAGCCATCTCACACTCC	59.448	52.381	0.00	0.00	0.00	3.85
961	2521	0.035630	AAGCCATCTCACACTCCAGC	60.036	55.000	0.00	0.00	0.00	4.85
962	2522	1.451028	GCCATCTCACACTCCAGCC	60.451	63.158	0.00	0.00	0.00	4.85
1035	2613	0.473694	TGTCCCTTTCCTCCTCAGCA	60.474	55.000	0.00	0.00	0.00	4.41
1058	2636	0.964358	GCTGGCAAGGCAGTGAAGAT	60.964	55.000	22.29	0.00	0.00	2.40
1072	2650	4.448732	CAGTGAAGATTGTGTCATTGTCGA	59.551	41.667	0.00	0.00	29.54	4.20
1088	2666	0.323957	TCGACTCTCTTCGGTGAGGA	59.676	55.000	5.91	0.00	39.19	3.71
1704	3282	0.754587	TTGTGCAGGCCATTGTCACA	60.755	50.000	5.01	11.32	35.14	3.58
1705	3283	0.754587	TGTGCAGGCCATTGTCACAA	60.755	50.000	5.01	0.00	34.52	3.33
1713	3291	1.340889	GCCATTGTCACAAGCAAAGGA	59.659	47.619	0.00	0.00	36.99	3.36
1716	3294	1.021202	TTGTCACAAGCAAAGGACCG	58.979	50.000	0.00	0.00	0.00	4.79
1952	3531	4.040829	TGATATTCATCTTCATGTCCCGCT	59.959	41.667	0.00	0.00	31.93	5.52
1998	3577	8.100164	CACCTGGACAATTGGGTTTATTTAATT	58.900	33.333	10.83	0.00	0.00	1.40
2130	3712	2.035066	CACTGCCTTGGACTCCAAAAAG	59.965	50.000	11.77	11.02	43.44	2.27
2174	3756	3.578282	TGCTCCACGGATGATACATATGT	59.422	43.478	13.93	13.93	0.00	2.29
2190	3772	4.568359	ACATATGTCTGATCTTTGCACGAC	59.432	41.667	1.41	0.00	0.00	4.34
2263	3845	5.401972	GCTAGATTTCATCATCGTCTGTCAG	59.598	44.000	0.00	0.00	0.00	3.51
2306	3888	5.627172	TGCATAGCACAAATCTAAAACGTC	58.373	37.500	0.00	0.00	31.71	4.34
2319	3901	3.382048	AAAACGTCACAGAGGGAGTAC	57.618	47.619	0.00	0.00	0.00	2.73
2330	3912	1.486726	GAGGGAGTACATGGTTGAGGG	59.513	57.143	0.00	0.00	0.00	4.30
2332	3914	0.912486	GGAGTACATGGTTGAGGGCT	59.088	55.000	0.00	0.00	0.00	5.19
2333	3915	1.282157	GGAGTACATGGTTGAGGGCTT	59.718	52.381	0.00	0.00	0.00	4.35
2334	3916	2.359900	GAGTACATGGTTGAGGGCTTG	58.640	52.381	0.00	0.00	0.00	4.01
2367	3949	8.042515	TCGTAGGCCAAAATACTTGTACTAATT	58.957	33.333	5.01	0.00	0.00	1.40
2379	3961	7.894753	ACTTGTACTAATTACTACTCCCTCC	57.105	40.000	0.00	0.00	0.00	4.30
2380	3962	6.838090	ACTTGTACTAATTACTACTCCCTCCC	59.162	42.308	0.00	0.00	0.00	4.30
2381	3963	6.603110	TGTACTAATTACTACTCCCTCCCT	57.397	41.667	0.00	0.00	0.00	4.20
2382	3964	6.608922	TGTACTAATTACTACTCCCTCCCTC	58.391	44.000	0.00	0.00	0.00	4.30
2383	3965	5.077369	ACTAATTACTACTCCCTCCCTCC	57.923	47.826	0.00	0.00	0.00	4.30
2384	3966	3.347759	AATTACTACTCCCTCCCTCCC	57.652	52.381	0.00	0.00	0.00	4.30
2385	3967	1.702699	TTACTACTCCCTCCCTCCCA	58.297	55.000	0.00	0.00	0.00	4.37
2386	3968	1.937098	TACTACTCCCTCCCTCCCAT	58.063	55.000	0.00	0.00	0.00	4.00
2387	3969	1.937098	ACTACTCCCTCCCTCCCATA	58.063	55.000	0.00	0.00	0.00	2.74
2388	3970	2.233178	ACTACTCCCTCCCTCCCATAA	58.767	52.381	0.00	0.00	0.00	1.90
2389	3971	2.804440	ACTACTCCCTCCCTCCCATAAT	59.196	50.000	0.00	0.00	0.00	1.28
2390	3972	4.002050	ACTACTCCCTCCCTCCCATAATA	58.998	47.826	0.00	0.00	0.00	0.98
2391	3973	4.617469	ACTACTCCCTCCCTCCCATAATAT	59.383	45.833	0.00	0.00	0.00	1.28
2392	3974	5.807086	ACTACTCCCTCCCTCCCATAATATA	59.193	44.000	0.00	0.00	0.00	0.86
2393	3975	5.650167	ACTCCCTCCCTCCCATAATATAA	57.350	43.478	0.00	0.00	0.00	0.98
2394	3976	5.604752	ACTCCCTCCCTCCCATAATATAAG	58.395	45.833	0.00	0.00	0.00	1.73
2395	3977	5.321625	ACTCCCTCCCTCCCATAATATAAGA	59.678	44.000	0.00	0.00	0.00	2.10
2396	3978	5.600749	TCCCTCCCTCCCATAATATAAGAC	58.399	45.833	0.00	0.00	0.00	3.01
2397	3979	4.406003	CCCTCCCTCCCATAATATAAGACG	59.594	50.000	0.00	0.00	0.00	4.18
2398	3980	5.024118	CCTCCCTCCCATAATATAAGACGT	58.976	45.833	0.00	0.00	0.00	4.34
2399	3981	5.484290	CCTCCCTCCCATAATATAAGACGTT	59.516	44.000	0.00	0.00	0.00	3.99
2400	3982	6.013639	CCTCCCTCCCATAATATAAGACGTTT	60.014	42.308	0.00	0.00	0.00	3.60
2401	3983	7.383156	TCCCTCCCATAATATAAGACGTTTT	57.617	36.000	0.00	0.00	0.00	2.43
2402	3984	7.808218	TCCCTCCCATAATATAAGACGTTTTT	58.192	34.615	0.00	0.00	0.00	1.94
2450	4032	4.872664	GTCTTACATTATGAGACGGAGGG	58.127	47.826	0.00	0.00	34.53	4.30
2451	4033	4.583489	GTCTTACATTATGAGACGGAGGGA	59.417	45.833	0.00	0.00	34.53	4.20
2452	4034	4.827835	TCTTACATTATGAGACGGAGGGAG	59.172	45.833	0.00	0.00	0.00	4.30
2555	4137	6.037726	TGTTGTGCCATACGTAATAGTACTG	58.962	40.000	5.39	0.00	0.00	2.74
2615	4198	3.689649	ACTGCGACACTTATTTTGGATCC	59.310	43.478	4.20	4.20	0.00	3.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
89	91	9.408069	CGATAGAACTAAAATACCATGTACTCC	57.592	37.037	0.00	0.00	39.76	3.85
107	109	6.128795	CCGAGAATTAGCAAATCCGATAGAAC	60.129	42.308	0.00	0.00	39.76	3.01
177	180	7.795431	ATATTAAAACTTGCACGTTGTGATG	57.205	32.000	9.59	0.00	35.23	3.07
183	186	9.522804	TCAGAAAAATATTAAAACTTGCACGTT	57.477	25.926	2.17	2.17	0.00	3.99
186	189	9.196552	AGCTCAGAAAAATATTAAAACTTGCAC	57.803	29.630	0.00	0.00	0.00	4.57
284	288	2.083774	GATTCCCAGTCGATTGCACAA	58.916	47.619	1.73	0.00	0.00	3.33
285	289	1.003003	TGATTCCCAGTCGATTGCACA	59.997	47.619	1.73	0.00	0.00	4.57
297	301	7.605691	ACGCAAAATTAAAATGATTGATTCCCA	59.394	29.630	5.94	0.00	0.00	4.37
299	303	8.442384	ACACGCAAAATTAAAATGATTGATTCC	58.558	29.630	5.94	0.00	0.00	3.01
310	314	5.010213	AGCCCTCTAACACGCAAAATTAAAA	59.990	36.000	0.00	0.00	0.00	1.52
314	318	2.228822	CAGCCCTCTAACACGCAAAATT	59.771	45.455	0.00	0.00	0.00	1.82
322	326	0.391793	GGTGCTCAGCCCTCTAACAC	60.392	60.000	0.00	0.00	0.00	3.32
325	329	3.727387	GGGTGCTCAGCCCTCTAA	58.273	61.111	6.84	0.00	42.92	2.10
371	375	1.918800	GGGAGGCACCACACTAGGT	60.919	63.158	2.69	0.00	44.48	3.08
372	376	1.613630	AGGGAGGCACCACACTAGG	60.614	63.158	2.69	0.00	41.20	3.02
373	377	0.616111	AGAGGGAGGCACCACACTAG	60.616	60.000	2.69	0.00	41.20	2.57
398	402	5.446860	TCGTTGATAGGTAGGAGAGAACAT	58.553	41.667	0.00	0.00	0.00	2.71
402	417	6.845758	TTTTTCGTTGATAGGTAGGAGAGA	57.154	37.500	0.00	0.00	0.00	3.10
439	455	4.121317	ACGACCTTTTTGTCACGAATACA	58.879	39.130	0.00	0.00	34.88	2.29
445	461	4.525411	AAGTAACGACCTTTTTGTCACG	57.475	40.909	0.00	0.00	34.88	4.35
447	463	9.715121	ATAATCTAAGTAACGACCTTTTTGTCA	57.285	29.630	0.00	0.00	34.88	3.58
560	2012	2.486548	GGTGTTAAGTGCAAGGTCTGGA	60.487	50.000	0.00	0.00	0.00	3.86
574	2026	1.876799	CGAACATGTGGCTGGTGTTAA	59.123	47.619	0.00	0.00	36.30	2.01
578	2030	1.167851	ATTCGAACATGTGGCTGGTG	58.832	50.000	0.00	0.00	0.00	4.17
594	2046	7.483307	TGACTGGTTACCGTAGTGTATAATTC	58.517	38.462	0.00	0.00	0.00	2.17
606	2058	4.701171	TGTTTTTCTTTGACTGGTTACCGT	59.299	37.500	0.00	0.00	0.00	4.83
694	2151	1.234615	ACATTTTCTGGGGTCGTGCG	61.235	55.000	0.00	0.00	0.00	5.34
699	2156	4.099573	TCGATCTAGACATTTTCTGGGGTC	59.900	45.833	0.00	0.00	35.55	4.46
858	2327	1.227002	GCCTGGTGTACGCTAGCTC	60.227	63.158	13.93	4.69	0.00	4.09
962	2522	1.152839	GTCCGAGAGAGAGAGGGGG	60.153	68.421	0.00	0.00	0.00	5.40
988	2564	1.822613	CCGCCATTGCTCTGCTGAT	60.823	57.895	0.00	0.00	34.43	2.90
1035	2613	0.828762	TCACTGCCTTGCCAGCAAAT	60.829	50.000	6.52	0.00	40.35	2.32
1041	2619	1.250328	CAATCTTCACTGCCTTGCCA	58.750	50.000	0.00	0.00	0.00	4.92
1058	2636	4.299155	GAAGAGAGTCGACAATGACACAA	58.701	43.478	19.50	0.00	41.41	3.33
1072	2650	0.882474	CGTTCCTCACCGAAGAGAGT	59.118	55.000	5.76	0.00	37.87	3.24
1605	3183	4.373116	GCGAACGCCTCAGGGTCA	62.373	66.667	8.03	0.00	38.40	4.02
1638	3216	1.153549	GCGGCCGTTCTTGATCTCT	60.154	57.895	28.70	0.00	0.00	3.10
1704	3282	1.267121	TCTCTAGCGGTCCTTTGCTT	58.733	50.000	0.00	0.00	42.48	3.91
1705	3283	1.066787	GTTCTCTAGCGGTCCTTTGCT	60.067	52.381	0.00	0.00	45.04	3.91
1713	3291	1.378778	AGCGAGGTTCTCTAGCGGT	60.379	57.895	0.00	0.00	46.66	5.68
1716	3294	0.101579	GGTCAGCGAGGTTCTCTAGC	59.898	60.000	0.00	0.00	43.23	3.42
1952	3531	6.095580	CAGGTGATCACTACAAGTAGCTAGAA	59.904	42.308	24.50	0.00	36.66	2.10
1998	3577	2.060326	GCAGAGTGTGCGTTGTACTA	57.940	50.000	0.00	0.00	43.99	1.82
2130	3712	7.527457	AGCAGTTTCGAACATTTTATAAGACC	58.473	34.615	0.00	0.00	0.00	3.85
2174	3756	1.344438	ACCTGTCGTGCAAAGATCAGA	59.656	47.619	16.77	0.00	30.05	3.27
2190	3772	1.714899	CCGGCCGCTTGATTTACCTG	61.715	60.000	22.85	0.00	0.00	4.00
2242	3824	4.118410	GCTGACAGACGATGATGAAATCT	58.882	43.478	6.65	0.00	45.81	2.40
2263	3845	0.179156	CACGACAGGAATTGCATGGC	60.179	55.000	0.00	0.00	31.49	4.40
2293	3875	5.221661	ACTCCCTCTGTGACGTTTTAGATTT	60.222	40.000	0.00	0.00	0.00	2.17
2295	3877	3.833070	ACTCCCTCTGTGACGTTTTAGAT	59.167	43.478	0.00	0.00	0.00	1.98
2303	3885	1.135139	CCATGTACTCCCTCTGTGACG	59.865	57.143	0.00	0.00	0.00	4.35
2306	3888	2.567169	TCAACCATGTACTCCCTCTGTG	59.433	50.000	0.00	0.00	0.00	3.66
2319	3901	1.619654	TGAACAAGCCCTCAACCATG	58.380	50.000	0.00	0.00	0.00	3.66
2330	3912	0.727398	GGCCTACGACATGAACAAGC	59.273	55.000	0.00	0.00	0.00	4.01
2332	3914	2.552599	TTGGCCTACGACATGAACAA	57.447	45.000	3.32	0.00	0.00	2.83
2333	3915	2.552599	TTTGGCCTACGACATGAACA	57.447	45.000	3.32	0.00	0.00	3.18
2334	3916	4.634443	AGTATTTTGGCCTACGACATGAAC	59.366	41.667	3.32	0.00	0.00	3.18
2367	3949	1.937098	ATGGGAGGGAGGGAGTAGTA	58.063	55.000	0.00	0.00	0.00	1.82
2369	3951	3.569135	ATTATGGGAGGGAGGGAGTAG	57.431	52.381	0.00	0.00	0.00	2.57
2373	3955	5.600749	GTCTTATATTATGGGAGGGAGGGA	58.399	45.833	0.00	0.00	0.00	4.20
2374	3956	4.406003	CGTCTTATATTATGGGAGGGAGGG	59.594	50.000	0.00	0.00	0.00	4.30
2375	3957	5.024118	ACGTCTTATATTATGGGAGGGAGG	58.976	45.833	0.00	0.00	0.00	4.30
2376	3958	6.607004	AACGTCTTATATTATGGGAGGGAG	57.393	41.667	0.00	0.00	0.00	4.30
2377	3959	7.383156	AAAACGTCTTATATTATGGGAGGGA	57.617	36.000	0.00	0.00	0.00	4.20
2428	4010	4.583489	TCCCTCCGTCTCATAATGTAAGAC	59.417	45.833	0.00	0.00	36.82	3.01
2429	4011	4.800023	TCCCTCCGTCTCATAATGTAAGA	58.200	43.478	0.00	0.00	0.00	2.10
2430	4012	4.585162	ACTCCCTCCGTCTCATAATGTAAG	59.415	45.833	0.00	0.00	0.00	2.34
2431	4013	4.543689	ACTCCCTCCGTCTCATAATGTAA	58.456	43.478	0.00	0.00	0.00	2.41
2432	4014	4.180377	ACTCCCTCCGTCTCATAATGTA	57.820	45.455	0.00	0.00	0.00	2.29
2433	4015	3.033659	ACTCCCTCCGTCTCATAATGT	57.966	47.619	0.00	0.00	0.00	2.71
2434	4016	4.585162	AGTTACTCCCTCCGTCTCATAATG	59.415	45.833	0.00	0.00	0.00	1.90
2435	4017	4.805744	AGTTACTCCCTCCGTCTCATAAT	58.194	43.478	0.00	0.00	0.00	1.28
2436	4018	4.246712	AGTTACTCCCTCCGTCTCATAA	57.753	45.455	0.00	0.00	0.00	1.90
2437	4019	3.947612	AGTTACTCCCTCCGTCTCATA	57.052	47.619	0.00	0.00	0.00	2.15
2438	4020	2.830651	AGTTACTCCCTCCGTCTCAT	57.169	50.000	0.00	0.00	0.00	2.90
2439	4021	2.683152	GCTAGTTACTCCCTCCGTCTCA	60.683	54.545	0.00	0.00	0.00	3.27
2440	4022	1.948834	GCTAGTTACTCCCTCCGTCTC	59.051	57.143	0.00	0.00	0.00	3.36
2441	4023	1.284198	TGCTAGTTACTCCCTCCGTCT	59.716	52.381	0.00	0.00	0.00	4.18
2442	4024	1.404748	GTGCTAGTTACTCCCTCCGTC	59.595	57.143	0.00	0.00	0.00	4.79
2443	4025	1.472188	GTGCTAGTTACTCCCTCCGT	58.528	55.000	0.00	0.00	0.00	4.69
2444	4026	0.381089	CGTGCTAGTTACTCCCTCCG	59.619	60.000	0.00	0.00	0.00	4.63
2445	4027	1.760192	TCGTGCTAGTTACTCCCTCC	58.240	55.000	0.00	0.00	0.00	4.30
2446	4028	5.474189	AGATATTCGTGCTAGTTACTCCCTC	59.526	44.000	0.00	0.00	0.00	4.30
2447	4029	5.386924	AGATATTCGTGCTAGTTACTCCCT	58.613	41.667	0.00	0.00	0.00	4.20
2448	4030	5.708877	AGATATTCGTGCTAGTTACTCCC	57.291	43.478	0.00	0.00	0.00	4.30
2449	4031	9.694137	AATTTAGATATTCGTGCTAGTTACTCC	57.306	33.333	0.00	0.00	0.00	3.85
2500	4082	3.270877	CAACACCATAGCACTTACTCCC	58.729	50.000	0.00	0.00	0.00	4.30
2581	4164	3.376859	AGTGTCGCAGTTTTGAACAATCA	59.623	39.130	0.00	0.00	0.00	2.57
2615	4198	9.760077	ATTACAAATATAAACAGTACTCCCTCG	57.240	33.333	0.00	0.00	0.00	4.63

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.