AutoCloner

Multiple sequence alignment - TraesCS5A01G336000

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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	TraesCS5A01G336000	chr5A	100.000	2676	0	0	1	2676	545057736	545060411	0.000000e+00	4942.0
1	TraesCS5A01G336000	chr5A	99.848	657	1	0	206	862	620394820	620395476	0.000000e+00	1208.0
2	TraesCS5A01G336000	chr5A	82.920	1048	94	40	869	1857	545073575	545074596	0.000000e+00	865.0
3	TraesCS5A01G336000	chr5A	85.986	421	31	16	1830	2240	545074599	545075001	2.460000e-115	425.0
4	TraesCS5A01G336000	chr5A	84.211	418	39	11	2236	2634	545075057	545075466	5.410000e-102	381.0
5	TraesCS5A01G336000	chr5A	89.899	99	8	2	13	111	545073407	545073503	2.800000e-25	126.0
6	TraesCS5A01G336000	chr5A	97.436	39	1	0	2636	2674	436985303	436985265	1.720000e-07	67.6
7	TraesCS5A01G336000	chr5A	95.122	41	2	0	2636	2676	601257415	601257375	6.180000e-07	65.8
8	TraesCS5A01G336000	chr5B	92.527	1124	54	12	896	2013	518472399	518473498	0.000000e+00	1583.0
9	TraesCS5A01G336000	chr5B	84.453	1042	97	33	869	1862	518481361	518482385	0.000000e+00	966.0
10	TraesCS5A01G336000	chr5B	84.179	847	67	39	1438	2245	310664639	310663821	0.000000e+00	760.0
11	TraesCS5A01G336000	chr5B	83.894	416	38	13	2244	2638	518482848	518483255	1.170000e-98	370.0
12	TraesCS5A01G336000	chr5B	95.683	139	6	0	2235	2373	518473569	518473707	9.640000e-55	224.0
13	TraesCS5A01G336000	chr5B	96.190	105	4	0	2397	2501	518473879	518473983	3.540000e-39	172.0
14	TraesCS5A01G336000	chr5B	92.473	93	6	1	13	105	518481192	518481283	6.010000e-27	132.0
15	TraesCS5A01G336000	chr6B	99.695	655	1	1	205	859	140993193	140992540	0.000000e+00	1197.0
16	TraesCS5A01G336000	chr6B	88.563	682	51	13	206	861	461344277	461344957	0.000000e+00	802.0
17	TraesCS5A01G336000	chr3B	99.388	654	4	0	206	859	829196893	829197546	0.000000e+00	1186.0
18	TraesCS5A01G336000	chr3B	99.838	619	1	0	209	827	824375387	824376005	0.000000e+00	1138.0
19	TraesCS5A01G336000	chr3B	83.465	127	18	3	214	338	228678581	228678456	6.050000e-22	115.0
20	TraesCS5A01G336000	chr5D	82.785	1458	124	62	858	2240	429289329	429290734	0.000000e+00	1184.0
21	TraesCS5A01G336000	chr5D	81.701	623	78	26	1080	1692	423064664	423064068	1.110000e-133	486.0
22	TraesCS5A01G336000	chr5D	81.152	573	48	33	1695	2245	423009437	423008903	3.210000e-109	405.0
23	TraesCS5A01G336000	chr5D	84.597	422	38	11	2236	2638	429290790	429291203	6.940000e-106	394.0
24	TraesCS5A01G336000	chr5D	87.019	208	7	4	1	208	429289146	429289333	1.610000e-52	217.0
25	TraesCS5A01G336000	chr5D	95.122	41	2	0	2636	2676	233153541	233153581	6.180000e-07	65.8
26	TraesCS5A01G336000	chr2A	99.388	654	3	1	209	861	52397663	52397010	0.000000e+00	1184.0
27	TraesCS5A01G336000	chr2A	92.296	675	27	10	209	860	66700786	66700114	0.000000e+00	935.0
28	TraesCS5A01G336000	chr2A	80.995	663	76	25	1359	2007	103209329	103209955	5.180000e-132	481.0
29	TraesCS5A01G336000	chr2A	81.290	620	51	37	1650	2245	332987334	332986756	2.440000e-120	442.0
30	TraesCS5A01G336000	chr2A	81.403	613	51	35	1650	2240	557968368	557968939	2.440000e-120	442.0
31	TraesCS5A01G336000	chr2A	86.364	286	14	10	1654	1918	32006636	32006355	3.370000e-74	289.0
32	TraesCS5A01G336000	chr2A	88.462	52	5	1	2624	2674	79460338	79460389	8.000000e-06	62.1
33	TraesCS5A01G336000	chr1A	80.851	1175	135	56	1093	2240	291729800	291730911	0.000000e+00	841.0
34	TraesCS5A01G336000	chr1A	80.697	1176	136	57	1093	2240	292013295	292014407	0.000000e+00	830.0
35	TraesCS5A01G336000	chr1A	80.254	1180	144	52	1093	2245	293322199	293321082	0.000000e+00	806.0
36	TraesCS5A01G336000	chr1A	95.122	41	2	0	2636	2676	321291443	321291403	6.180000e-07	65.8
37	TraesCS5A01G336000	chr1A	88.235	51	5	1	2626	2676	145199956	145199907	2.880000e-05	60.2
38	TraesCS5A01G336000	chr7D	87.776	679	24	18	209	859	537495489	537496136	0.000000e+00	739.0
39	TraesCS5A01G336000	chr7D	78.472	432	36	19	2243	2638	2037622	2037212	2.070000e-56	230.0
40	TraesCS5A01G336000	chr7D	93.182	44	2	1	209	251	175675764	175675807	2.220000e-06	63.9
41	TraesCS5A01G336000	chr2D	82.422	677	65	27	1359	2007	639858291	639857641	2.340000e-150	542.0
42	TraesCS5A01G336000	chr2D	100.000	29	0	0	205	233	376323258	376323230	1.000000e-03	54.7
43	TraesCS5A01G336000	chr7A	88.222	450	18	12	209	648	102350976	102350552	3.070000e-139	505.0
44	TraesCS5A01G336000	chr7A	91.866	209	14	2	654	860	102348312	102348105	3.370000e-74	289.0
45	TraesCS5A01G336000	chr3A	81.146	663	75	27	1359	2007	459075136	459074510	1.110000e-133	486.0
46	TraesCS5A01G336000	chr4A	80.274	583	86	18	933	1503	742652295	742651730	1.920000e-111	412.0
47	TraesCS5A01G336000	chr4A	78.302	424	37	16	2243	2632	742607024	742606622	3.470000e-54	222.0
48	TraesCS5A01G336000	chr4A	85.648	216	22	5	1360	1575	198007808	198007602	4.490000e-53	219.0
49	TraesCS5A01G336000	chr4A	95.122	41	2	0	2636	2676	449393605	449393645	6.180000e-07	65.8
50	TraesCS5A01G336000	chr6D	81.262	539	48	25	1359	1861	98754049	98753528	1.160000e-103	387.0
51	TraesCS5A01G336000	chr6D	88.462	286	20	6	1730	2014	217172912	217172639	1.540000e-87	333.0
52	TraesCS5A01G336000	chr2B	78.090	534	61	27	1359	1856	747755698	747756211	1.210000e-73	287.0
53	TraesCS5A01G336000	chrUn	77.885	416	36	17	2243	2629	81435572	81435960	9.710000e-50	207.0
54	TraesCS5A01G336000	chrUn	77.885	416	36	17	2243	2629	336022134	336022522	9.710000e-50	207.0
55	TraesCS5A01G336000	chr6A	90.385	52	3	1	2625	2676	13437166	13437215	1.720000e-07	67.6
56	TraesCS5A01G336000	chr6A	89.796	49	4	1	2628	2676	504471651	504471604	8.000000e-06	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	TraesCS5A01G336000	chr5A	545057736	545060411	2675	False	4942.000000	4942	100.000000	1	2676	1	chr5A.!!$F1	2675
1	TraesCS5A01G336000	chr5A	620394820	620395476	656	False	1208.000000	1208	99.848000	206	862	1	chr5A.!!$F2	656
2	TraesCS5A01G336000	chr5A	545073407	545075466	2059	False	449.250000	865	85.754000	13	2634	4	chr5A.!!$F3	2621
3	TraesCS5A01G336000	chr5B	310663821	310664639	818	True	760.000000	760	84.179000	1438	2245	1	chr5B.!!$R1	807
4	TraesCS5A01G336000	chr5B	518472399	518473983	1584	False	659.666667	1583	94.800000	896	2501	3	chr5B.!!$F1	1605
5	TraesCS5A01G336000	chr5B	518481192	518483255	2063	False	489.333333	966	86.940000	13	2638	3	chr5B.!!$F2	2625
6	TraesCS5A01G336000	chr6B	140992540	140993193	653	True	1197.000000	1197	99.695000	205	859	1	chr6B.!!$R1	654
7	TraesCS5A01G336000	chr6B	461344277	461344957	680	False	802.000000	802	88.563000	206	861	1	chr6B.!!$F1	655
8	TraesCS5A01G336000	chr3B	829196893	829197546	653	False	1186.000000	1186	99.388000	206	859	1	chr3B.!!$F2	653
9	TraesCS5A01G336000	chr3B	824375387	824376005	618	False	1138.000000	1138	99.838000	209	827	1	chr3B.!!$F1	618
10	TraesCS5A01G336000	chr5D	429289146	429291203	2057	False	598.333333	1184	84.800333	1	2638	3	chr5D.!!$F2	2637
11	TraesCS5A01G336000	chr5D	423064068	423064664	596	True	486.000000	486	81.701000	1080	1692	1	chr5D.!!$R2	612
12	TraesCS5A01G336000	chr5D	423008903	423009437	534	True	405.000000	405	81.152000	1695	2245	1	chr5D.!!$R1	550
13	TraesCS5A01G336000	chr2A	52397010	52397663	653	True	1184.000000	1184	99.388000	209	861	1	chr2A.!!$R2	652
14	TraesCS5A01G336000	chr2A	66700114	66700786	672	True	935.000000	935	92.296000	209	860	1	chr2A.!!$R3	651
15	TraesCS5A01G336000	chr2A	103209329	103209955	626	False	481.000000	481	80.995000	1359	2007	1	chr2A.!!$F2	648
16	TraesCS5A01G336000	chr2A	332986756	332987334	578	True	442.000000	442	81.290000	1650	2245	1	chr2A.!!$R4	595
17	TraesCS5A01G336000	chr2A	557968368	557968939	571	False	442.000000	442	81.403000	1650	2240	1	chr2A.!!$F3	590
18	TraesCS5A01G336000	chr1A	291729800	291730911	1111	False	841.000000	841	80.851000	1093	2240	1	chr1A.!!$F1	1147
19	TraesCS5A01G336000	chr1A	292013295	292014407	1112	False	830.000000	830	80.697000	1093	2240	1	chr1A.!!$F2	1147
20	TraesCS5A01G336000	chr1A	293321082	293322199	1117	True	806.000000	806	80.254000	1093	2245	1	chr1A.!!$R2	1152
21	TraesCS5A01G336000	chr7D	537495489	537496136	647	False	739.000000	739	87.776000	209	859	1	chr7D.!!$F2	650
22	TraesCS5A01G336000	chr2D	639857641	639858291	650	True	542.000000	542	82.422000	1359	2007	1	chr2D.!!$R2	648
23	TraesCS5A01G336000	chr7A	102348105	102350976	2871	True	397.000000	505	90.044000	209	860	2	chr7A.!!$R1	651
24	TraesCS5A01G336000	chr3A	459074510	459075136	626	True	486.000000	486	81.146000	1359	2007	1	chr3A.!!$R1	648
25	TraesCS5A01G336000	chr4A	742651730	742652295	565	True	412.000000	412	80.274000	933	1503	1	chr4A.!!$R3	570
26	TraesCS5A01G336000	chr6D	98753528	98754049	521	True	387.000000	387	81.262000	1359	1861	1	chr6D.!!$R1	502
27	TraesCS5A01G336000	chr2B	747755698	747756211	513	False	287.000000	287	78.090000	1359	1856	1	chr2B.!!$F1	497

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
970	3219	3.755628	CATCCGTCGTCCACCCGT	61.756	66.667	0.0	0.0	0.0	5.28	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2522	5210	0.322975	AGCACAGGTAGTTGAGCAGG	59.677	55.0	0.0	0.0	37.16	4.85	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
159	160	4.812476	TCTCCGTCGCCCGCATTG	62.812	66.667	0.00	0.00	34.38	2.82
970	3219	3.755628	CATCCGTCGTCCACCCGT	61.756	66.667	0.00	0.00	0.00	5.28
1010	3262	1.968017	CAGTGTGGATGCGCTGGTT	60.968	57.895	9.73	0.00	41.72	3.67
1019	3271	0.101759	ATGCGCTGGTTGATGAATGC	59.898	50.000	9.73	0.00	0.00	3.56
1020	3272	1.242665	TGCGCTGGTTGATGAATGCA	61.243	50.000	9.73	0.00	0.00	3.96
1022	3274	0.806868	CGCTGGTTGATGAATGCAGT	59.193	50.000	0.00	0.00	0.00	4.40
1230	3501	4.862092	CTCTGCGACGCCTGCGAT	62.862	66.667	19.52	2.28	42.83	4.58
1469	3764	3.912248	TCCTACAGGAGATTCAGGTACC	58.088	50.000	2.73	2.73	39.78	3.34
1519	3822	3.438781	CACTTCCTTTTTGCGCCAGTATA	59.561	43.478	4.18	0.00	0.00	1.47
1520	3823	4.096382	CACTTCCTTTTTGCGCCAGTATAT	59.904	41.667	4.18	0.00	0.00	0.86
1575	3885	3.495331	TGTGTGCCAAATCTTACATGGT	58.505	40.909	0.00	0.00	36.57	3.55
1577	3887	2.746904	TGTGCCAAATCTTACATGGTCG	59.253	45.455	0.00	0.00	36.57	4.79
1647	3967	3.614150	GCTCCGGCTATGTATCGATCAAA	60.614	47.826	0.00	0.00	35.22	2.69
1648	3968	4.169508	CTCCGGCTATGTATCGATCAAAG	58.830	47.826	0.00	0.00	0.00	2.77
1692	4017	8.715191	AGAGAATGATGACAATAAAGTGAGTC	57.285	34.615	0.00	0.00	0.00	3.36
1959	4411	9.823647	CACAGTACCTTCTAATCACTATTGAAT	57.176	33.333	0.00	0.00	34.61	2.57
2022	4494	9.651913	AAAAGCAAAAAGAAAATTAGACAGACA	57.348	25.926	0.00	0.00	0.00	3.41
2023	4495	8.634475	AAGCAAAAAGAAAATTAGACAGACAC	57.366	30.769	0.00	0.00	0.00	3.67
2024	4496	8.000780	AGCAAAAAGAAAATTAGACAGACACT	57.999	30.769	0.00	0.00	0.00	3.55
2025	4497	8.131731	AGCAAAAAGAAAATTAGACAGACACTC	58.868	33.333	0.00	0.00	0.00	3.51
2051	4524	2.104963	AGAACCAGTGAACCCTCAAGAC	59.895	50.000	0.00	0.00	31.88	3.01
2126	4602	9.282247	GACTATTTGAGTATGAAAAATGTGCAG	57.718	33.333	0.00	0.00	39.06	4.41
2184	4660	5.965922	TGCTACATACTCAATATGGATCGG	58.034	41.667	0.00	0.00	44.51	4.18
2208	4685	6.239232	GGAGGCTAATTATCGACTTCCAAGTA	60.239	42.308	0.00	0.00	39.88	2.24
2305	4845	4.463891	ACAAAGCCAACAATGCTAGCTTAT	59.536	37.500	17.23	0.00	42.69	1.73
2374	5043	9.627395	AATTACGATTGAATATCTCTCTTACCG	57.373	33.333	0.00	0.00	0.00	4.02
2375	5044	6.879276	ACGATTGAATATCTCTCTTACCGA	57.121	37.500	0.00	0.00	0.00	4.69
2389	5058	6.371278	TCTCTTACCGATTAAGTAGGATGGT	58.629	40.000	1.29	0.00	38.73	3.55
2441	5129	2.437281	AGGATGGATCTCAAATCTGCGT	59.563	45.455	0.00	0.00	0.00	5.24
2489	5177	0.807496	GATCAAAGAGGCACCAGCAC	59.193	55.000	0.00	0.00	44.61	4.40
2495	5183	4.208403	AGGCACCAGCACCAGCAA	62.208	61.111	0.00	0.00	45.49	3.91
2501	5189	0.820891	ACCAGCACCAGCAACTTCAG	60.821	55.000	0.00	0.00	45.49	3.02
2510	5198	1.531423	AGCAACTTCAGCTGTGATGG	58.469	50.000	14.67	3.43	41.61	3.51
2555	5243	1.538512	CTGTGCTCCACAATGTTCTGG	59.461	52.381	0.00	0.00	44.08	3.86
2568	5256	4.851639	ATGTTCTGGGCTTGAGAATACT	57.148	40.909	0.00	0.00	32.18	2.12
2569	5257	5.957771	ATGTTCTGGGCTTGAGAATACTA	57.042	39.130	0.00	0.00	32.18	1.82
2580	5268	8.763601	GGGCTTGAGAATACTATAATGGAGTAT	58.236	37.037	0.00	0.00	40.99	2.12
2596	5284	5.245531	TGGAGTATTTGTTGGTCATCACTC	58.754	41.667	0.00	0.00	32.55	3.51
2603	5291	1.002430	GTTGGTCATCACTCAGCTGGA	59.998	52.381	15.13	3.44	0.00	3.86
2612	5300	1.071385	CACTCAGCTGGACCTTCACTT	59.929	52.381	15.13	0.00	0.00	3.16
2634	5322	9.871238	CACTTACTTTTGAGGTACATACATACT	57.129	33.333	0.00	0.00	0.00	2.12
2641	5329	9.880157	TTTTGAGGTACATACATACTTACTTCC	57.120	33.333	0.00	0.00	0.00	3.46
2642	5330	8.834004	TTGAGGTACATACATACTTACTTCCT	57.166	34.615	0.00	0.00	0.00	3.36
2643	5331	8.461249	TGAGGTACATACATACTTACTTCCTC	57.539	38.462	0.00	0.00	37.61	3.71
2644	5332	7.504911	TGAGGTACATACATACTTACTTCCTCC	59.495	40.741	0.00	0.00	36.67	4.30
2645	5333	7.359849	AGGTACATACATACTTACTTCCTCCA	58.640	38.462	0.00	0.00	0.00	3.86
2646	5334	8.011290	AGGTACATACATACTTACTTCCTCCAT	58.989	37.037	0.00	0.00	0.00	3.41
2647	5335	8.648693	GGTACATACATACTTACTTCCTCCATT	58.351	37.037	0.00	0.00	0.00	3.16
2650	5338	8.768397	ACATACATACTTACTTCCTCCATTTCA	58.232	33.333	0.00	0.00	0.00	2.69
2651	5339	9.613428	CATACATACTTACTTCCTCCATTTCAA	57.387	33.333	0.00	0.00	0.00	2.69
2654	5342	9.533831	ACATACTTACTTCCTCCATTTCAAATT	57.466	29.630	0.00	0.00	0.00	1.82
2658	5346	9.232473	ACTTACTTCCTCCATTTCAAATTACTC	57.768	33.333	0.00	0.00	0.00	2.59
2659	5347	6.743575	ACTTCCTCCATTTCAAATTACTCG	57.256	37.500	0.00	0.00	0.00	4.18
2660	5348	6.238648	ACTTCCTCCATTTCAAATTACTCGT	58.761	36.000	0.00	0.00	0.00	4.18
2661	5349	6.371825	ACTTCCTCCATTTCAAATTACTCGTC	59.628	38.462	0.00	0.00	0.00	4.20
2662	5350	5.800296	TCCTCCATTTCAAATTACTCGTCA	58.200	37.500	0.00	0.00	0.00	4.35
2663	5351	5.642063	TCCTCCATTTCAAATTACTCGTCAC	59.358	40.000	0.00	0.00	0.00	3.67
2664	5352	5.411361	CCTCCATTTCAAATTACTCGTCACA	59.589	40.000	0.00	0.00	0.00	3.58
2665	5353	6.402550	CCTCCATTTCAAATTACTCGTCACAG	60.403	42.308	0.00	0.00	0.00	3.66
2666	5354	6.227522	TCCATTTCAAATTACTCGTCACAGA	58.772	36.000	0.00	0.00	0.00	3.41
2667	5355	6.708502	TCCATTTCAAATTACTCGTCACAGAA	59.291	34.615	0.00	0.00	0.00	3.02
2668	5356	7.227711	TCCATTTCAAATTACTCGTCACAGAAA	59.772	33.333	0.00	0.00	0.00	2.52
2669	5357	8.023128	CCATTTCAAATTACTCGTCACAGAAAT	58.977	33.333	0.00	0.00	34.57	2.17
2670	5358	8.843733	CATTTCAAATTACTCGTCACAGAAATG	58.156	33.333	0.00	0.00	41.51	2.32
2671	5359	6.480524	TCAAATTACTCGTCACAGAAATGG	57.519	37.500	0.00	0.00	0.00	3.16
2672	5360	6.227522	TCAAATTACTCGTCACAGAAATGGA	58.772	36.000	0.00	0.00	0.00	3.41
2673	5361	6.878923	TCAAATTACTCGTCACAGAAATGGAT	59.121	34.615	0.00	0.00	0.00	3.41
2674	5362	6.668541	AATTACTCGTCACAGAAATGGATG	57.331	37.500	0.00	0.00	0.00	3.51
2675	5363	3.685139	ACTCGTCACAGAAATGGATGT	57.315	42.857	0.00	0.00	0.00	3.06

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
97	98	3.625897	CTGTGGGCCACGACCTCA	61.626	66.667	30.14	11.96	37.14	3.86
107	108	3.910490	TTGGTTTGCGCTGTGGGC	61.910	61.111	9.73	0.00	41.94	5.36
109	110	2.027460	GGTTGGTTTGCGCTGTGG	59.973	61.111	9.73	0.00	0.00	4.17
110	111	2.353376	CGGTTGGTTTGCGCTGTG	60.353	61.111	9.73	0.00	0.00	3.66
111	112	4.264638	GCGGTTGGTTTGCGCTGT	62.265	61.111	9.73	0.00	0.00	4.40
190	191	1.366111	CCATAGGTCGCGGTTGGTTG	61.366	60.000	6.13	0.00	0.00	3.77
203	204	3.226777	TCAAACCAAACACACCCATAGG	58.773	45.455	0.00	0.00	40.04	2.57
204	205	3.305335	GCTCAAACCAAACACACCCATAG	60.305	47.826	0.00	0.00	0.00	2.23
997	3246	0.322366	TTCATCAACCAGCGCATCCA	60.322	50.000	11.47	0.00	0.00	3.41
1519	3822	5.028549	AGAGTCTCCGTCAATTGCATAAT	57.971	39.130	0.00	0.00	0.00	1.28
1520	3823	4.471904	AGAGTCTCCGTCAATTGCATAA	57.528	40.909	0.00	0.00	0.00	1.90
1575	3885	3.669251	TCACACACAATGTATCACCGA	57.331	42.857	0.00	0.00	40.64	4.69
1577	3887	4.260985	TGGATCACACACAATGTATCACC	58.739	43.478	0.00	0.00	40.64	4.02
1647	3967	7.355512	TCTCTCTTCTCTATATCATTCCCCT	57.644	40.000	0.00	0.00	0.00	4.79
1648	3968	8.477256	CATTCTCTCTTCTCTATATCATTCCCC	58.523	40.741	0.00	0.00	0.00	4.81
1692	4017	6.861144	TCATTAATCACTCACACTCTCTCTG	58.139	40.000	0.00	0.00	0.00	3.35
1797	4152	6.358974	TCGATCCACCATTACATGTATCAT	57.641	37.500	6.36	0.00	0.00	2.45
1931	4379	9.031537	TCAATAGTGATTAGAAGGTACTGTGAA	57.968	33.333	0.00	0.00	40.86	3.18
1933	4381	9.823647	ATTCAATAGTGATTAGAAGGTACTGTG	57.176	33.333	0.00	0.00	33.16	3.66
1959	4411	9.884636	ATACAGTCAAACTAACTAACATATGCA	57.115	29.630	1.58	0.00	0.00	3.96
2019	4491	2.891580	TCACTGGTTCTGTAGGAGTGTC	59.108	50.000	0.00	0.00	0.00	3.67
2022	4494	2.633481	GGTTCACTGGTTCTGTAGGAGT	59.367	50.000	0.00	0.00	0.00	3.85
2023	4495	2.028020	GGGTTCACTGGTTCTGTAGGAG	60.028	54.545	0.00	0.00	0.00	3.69
2024	4496	1.975680	GGGTTCACTGGTTCTGTAGGA	59.024	52.381	0.00	0.00	0.00	2.94
2025	4497	1.978580	AGGGTTCACTGGTTCTGTAGG	59.021	52.381	0.00	0.00	0.00	3.18
2051	4524	1.067516	CCTTCAGGTGTGCCTTTTGTG	59.932	52.381	0.00	0.00	44.18	3.33
2126	4602	7.697291	TTTTCATTGAAAAAGCAAGATTGCAAC	59.303	29.630	19.57	0.00	44.44	4.17
2147	4623	5.665812	AGTATGTAGCAGTCCCCTATTTTCA	59.334	40.000	0.00	0.00	0.00	2.69
2184	4660	5.602628	ACTTGGAAGTCGATAATTAGCCTC	58.397	41.667	0.00	0.00	32.86	4.70
2251	4790	7.706607	CAGAAAAGAAGGAAGGTTTTTAGTTGG	59.293	37.037	0.00	0.00	0.00	3.77
2305	4845	5.245531	CAGTGAAACCTATCTTGGCACTTA	58.754	41.667	0.00	0.00	37.80	2.24
2374	5043	5.468072	CACTCATGCACCATCCTACTTAATC	59.532	44.000	0.00	0.00	0.00	1.75
2375	5044	5.371526	CACTCATGCACCATCCTACTTAAT	58.628	41.667	0.00	0.00	0.00	1.40
2380	5049	1.210478	ACCACTCATGCACCATCCTAC	59.790	52.381	0.00	0.00	0.00	3.18
2441	5129	1.393603	TGTTGTTGTCCCATTCGCAA	58.606	45.000	0.00	0.00	0.00	4.85
2495	5183	1.421268	TCCAACCATCACAGCTGAAGT	59.579	47.619	23.35	6.87	0.00	3.01
2501	5189	2.927871	GCATTGTTCCAACCATCACAGC	60.928	50.000	0.00	0.00	0.00	4.40
2510	5198	0.961019	TGAGCAGGCATTGTTCCAAC	59.039	50.000	0.00	0.00	36.30	3.77
2522	5210	0.322975	AGCACAGGTAGTTGAGCAGG	59.677	55.000	0.00	0.00	37.16	4.85
2568	5256	9.337396	GTGATGACCAACAAATACTCCATTATA	57.663	33.333	0.00	0.00	0.00	0.98
2569	5257	8.055181	AGTGATGACCAACAAATACTCCATTAT	58.945	33.333	0.00	0.00	0.00	1.28
2580	5268	2.880268	CAGCTGAGTGATGACCAACAAA	59.120	45.455	8.42	0.00	33.12	2.83
2596	5284	3.409026	AAGTAAGTGAAGGTCCAGCTG	57.591	47.619	6.78	6.78	0.00	4.24
2603	5291	6.243216	TGTACCTCAAAAGTAAGTGAAGGT	57.757	37.500	0.00	0.00	33.08	3.50
2634	5322	7.881232	ACGAGTAATTTGAAATGGAGGAAGTAA	59.119	33.333	0.00	0.00	0.00	2.24
2638	5326	6.148811	GTGACGAGTAATTTGAAATGGAGGAA	59.851	38.462	0.00	0.00	0.00	3.36
2639	5327	5.642063	GTGACGAGTAATTTGAAATGGAGGA	59.358	40.000	0.00	0.00	0.00	3.71
2640	5328	5.411361	TGTGACGAGTAATTTGAAATGGAGG	59.589	40.000	0.00	0.00	0.00	4.30
2641	5329	6.368791	TCTGTGACGAGTAATTTGAAATGGAG	59.631	38.462	0.00	0.00	0.00	3.86
2642	5330	6.227522	TCTGTGACGAGTAATTTGAAATGGA	58.772	36.000	0.00	0.00	0.00	3.41
2643	5331	6.480524	TCTGTGACGAGTAATTTGAAATGG	57.519	37.500	0.00	0.00	0.00	3.16
2644	5332	8.843733	CATTTCTGTGACGAGTAATTTGAAATG	58.156	33.333	0.00	0.00	40.48	2.32
2645	5333	8.023128	CCATTTCTGTGACGAGTAATTTGAAAT	58.977	33.333	0.00	0.00	33.61	2.17
2646	5334	7.227711	TCCATTTCTGTGACGAGTAATTTGAAA	59.772	33.333	0.00	0.00	0.00	2.69
2647	5335	6.708502	TCCATTTCTGTGACGAGTAATTTGAA	59.291	34.615	0.00	0.00	0.00	2.69
2648	5336	6.227522	TCCATTTCTGTGACGAGTAATTTGA	58.772	36.000	0.00	0.00	0.00	2.69
2649	5337	6.480524	TCCATTTCTGTGACGAGTAATTTG	57.519	37.500	0.00	0.00	0.00	2.32
2650	5338	6.655003	ACATCCATTTCTGTGACGAGTAATTT	59.345	34.615	0.00	0.00	0.00	1.82
2651	5339	6.173339	ACATCCATTTCTGTGACGAGTAATT	58.827	36.000	0.00	0.00	0.00	1.40
2652	5340	5.734720	ACATCCATTTCTGTGACGAGTAAT	58.265	37.500	0.00	0.00	0.00	1.89
2653	5341	5.147330	ACATCCATTTCTGTGACGAGTAA	57.853	39.130	0.00	0.00	0.00	2.24
2654	5342	4.801330	ACATCCATTTCTGTGACGAGTA	57.199	40.909	0.00	0.00	0.00	2.59
2655	5343	3.685139	ACATCCATTTCTGTGACGAGT	57.315	42.857	0.00	0.00	0.00	4.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.