AutoCloner

Multiple sequence alignment - TraesCS5A01G060100

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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	TraesCS5A01G060100	chr5A	100.000	2282	0	0	1	2282	60332531	60330250	0.000000e+00	4215.0
1	TraesCS5A01G060100	chr4B	99.174	1452	12	0	1	1452	38751984	38753435	0.000000e+00	2615.0
2	TraesCS5A01G060100	chr4B	98.902	1457	13	3	1	1455	63042241	63040786	0.000000e+00	2599.0
3	TraesCS5A01G060100	chr4D	91.199	1068	77	6	386	1452	479532242	479531191	0.000000e+00	1435.0
4	TraesCS5A01G060100	chr4D	93.284	402	23	1	3	404	479532654	479532257	7.020000e-165	590.0
5	TraesCS5A01G060100	chr5D	89.751	1083	69	11	396	1452	3886965	3885899	0.000000e+00	1347.0
6	TraesCS5A01G060100	chr5D	91.654	647	32	4	1576	2208	70483597	70482959	0.000000e+00	876.0
7	TraesCS5A01G060100	chr5D	93.359	256	13	1	149	404	3887242	3886991	2.140000e-100	375.0
8	TraesCS5A01G060100	chr5D	96.190	105	4	0	77	181	3887349	3887245	3.010000e-39	172.0
9	TraesCS5A01G060100	chr5D	95.062	81	4	0	3	83	3885818	3885898	6.620000e-26	128.0
10	TraesCS5A01G060100	chr5B	91.556	675	39	7	1550	2208	75338030	75337358	0.000000e+00	915.0
11	TraesCS5A01G060100	chr5B	91.556	675	39	7	1550	2208	75742818	75742146	0.000000e+00	915.0
12	TraesCS5A01G060100	chr5B	80.089	894	137	31	52	919	533108475	533109353	5.350000e-176	627.0
13	TraesCS5A01G060100	chr5B	83.121	314	24	8	1452	1762	75744233	75743946	2.250000e-65	259.0
14	TraesCS5A01G060100	chr5B	90.698	86	8	0	1452	1537	75338202	75338117	5.150000e-22	115.0
15	TraesCS5A01G060100	chr5B	90.698	86	8	0	1452	1537	75742990	75742905	5.150000e-22	115.0
16	TraesCS5A01G060100	chr5B	100.000	28	0	0	761	788	480515566	480515539	4.000000e-03	52.8
17	TraesCS5A01G060100	chr7A	83.987	918	95	26	1	890	548061019	548061912	0.000000e+00	833.0
18	TraesCS5A01G060100	chr1A	82.128	940	106	30	1	919	561062902	561063800	0.000000e+00	749.0
19	TraesCS5A01G060100	chr1A	92.308	78	5	1	2200	2277	514125056	514124980	2.400000e-20	110.0
20	TraesCS5A01G060100	chrUn	100.000	392	0	0	326	717	479777298	479776907	0.000000e+00	725.0
21	TraesCS5A01G060100	chr3B	81.984	877	101	28	1	849	738720597	738721444	0.000000e+00	691.0
22	TraesCS5A01G060100	chr3B	93.421	76	5	0	2207	2282	666611620	666611695	1.850000e-21	113.0
23	TraesCS5A01G060100	chr7D	79.936	942	137	36	1	919	24044918	24044006	0.000000e+00	645.0
24	TraesCS5A01G060100	chr7D	86.024	508	63	5	918	1423	24043956	24043455	2.580000e-149	538.0
25	TraesCS5A01G060100	chr1D	87.339	545	57	7	914	1452	55034867	55034329	4.170000e-172	614.0
26	TraesCS5A01G060100	chr1D	78.986	966	137	40	1	923	55035853	55034911	1.170000e-167	599.0
27	TraesCS5A01G060100	chr1D	87.103	535	57	9	914	1444	69585653	69585127	1.510000e-166	595.0
28	TraesCS5A01G060100	chr1D	92.208	77	6	0	2201	2277	299562536	299562612	2.400000e-20	110.0
29	TraesCS5A01G060100	chr3A	86.679	548	62	8	910	1455	521359080	521359618	4.200000e-167	597.0
30	TraesCS5A01G060100	chr6B	86.239	545	62	8	914	1452	11281288	11281825	1.520000e-161	579.0
31	TraesCS5A01G060100	chr6B	79.371	858	117	35	105	916	11280396	11281239	1.190000e-152	549.0
32	TraesCS5A01G060100	chr6B	93.421	76	5	0	2207	2282	107182357	107182282	1.850000e-21	113.0
33	TraesCS5A01G060100	chr7B	85.793	542	65	8	914	1452	668456395	668456927	4.260000e-157	564.0
34	TraesCS5A01G060100	chr3D	79.396	762	107	31	192	923	590751696	590750955	2.040000e-135	492.0
35	TraesCS5A01G060100	chr2D	87.037	108	13	1	812	919	573648445	573648551	1.110000e-23	121.0
36	TraesCS5A01G060100	chr2D	94.286	70	4	0	2207	2276	591466170	591466101	8.620000e-20	108.0
37	TraesCS5A01G060100	chr6D	93.421	76	5	0	2207	2282	1912967	1913042	1.850000e-21	113.0
38	TraesCS5A01G060100	chr6D	95.714	70	3	0	2207	2276	19492540	19492609	1.850000e-21	113.0
39	TraesCS5A01G060100	chr6D	93.421	76	4	1	2207	2281	370799851	370799926	6.660000e-21	111.0
40	TraesCS5A01G060100	chr2B	90.000	90	6	3	2194	2280	517753907	517753818	1.850000e-21	113.0
41	TraesCS5A01G060100	chr2A	94.444	54	3	0	1399	1452	15089708	15089761	1.450000e-12	84.2

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	TraesCS5A01G060100	chr5A	60330250	60332531	2281	True	4215.000000	4215	100.000000	1	2282	1	chr5A.!!$R1	2281
1	TraesCS5A01G060100	chr4B	38751984	38753435	1451	False	2615.000000	2615	99.174000	1	1452	1	chr4B.!!$F1	1451
2	TraesCS5A01G060100	chr4B	63040786	63042241	1455	True	2599.000000	2599	98.902000	1	1455	1	chr4B.!!$R1	1454
3	TraesCS5A01G060100	chr4D	479531191	479532654	1463	True	1012.500000	1435	92.241500	3	1452	2	chr4D.!!$R1	1449
4	TraesCS5A01G060100	chr5D	70482959	70483597	638	True	876.000000	876	91.654000	1576	2208	1	chr5D.!!$R1	632
5	TraesCS5A01G060100	chr5D	3885899	3887349	1450	True	631.333333	1347	93.100000	77	1452	3	chr5D.!!$R2	1375
6	TraesCS5A01G060100	chr5B	533108475	533109353	878	False	627.000000	627	80.089000	52	919	1	chr5B.!!$F1	867
7	TraesCS5A01G060100	chr5B	75337358	75338202	844	True	515.000000	915	91.127000	1452	2208	2	chr5B.!!$R2	756
8	TraesCS5A01G060100	chr5B	75742146	75744233	2087	True	429.666667	915	88.458333	1452	2208	3	chr5B.!!$R3	756
9	TraesCS5A01G060100	chr7A	548061019	548061912	893	False	833.000000	833	83.987000	1	890	1	chr7A.!!$F1	889
10	TraesCS5A01G060100	chr1A	561062902	561063800	898	False	749.000000	749	82.128000	1	919	1	chr1A.!!$F1	918
11	TraesCS5A01G060100	chr3B	738720597	738721444	847	False	691.000000	691	81.984000	1	849	1	chr3B.!!$F2	848
12	TraesCS5A01G060100	chr7D	24043455	24044918	1463	True	591.500000	645	82.980000	1	1423	2	chr7D.!!$R1	1422
13	TraesCS5A01G060100	chr1D	55034329	55035853	1524	True	606.500000	614	83.162500	1	1452	2	chr1D.!!$R2	1451
14	TraesCS5A01G060100	chr1D	69585127	69585653	526	True	595.000000	595	87.103000	914	1444	1	chr1D.!!$R1	530
15	TraesCS5A01G060100	chr3A	521359080	521359618	538	False	597.000000	597	86.679000	910	1455	1	chr3A.!!$F1	545
16	TraesCS5A01G060100	chr6B	11280396	11281825	1429	False	564.000000	579	82.805000	105	1452	2	chr6B.!!$F1	1347
17	TraesCS5A01G060100	chr7B	668456395	668456927	532	False	564.000000	564	85.793000	914	1452	1	chr7B.!!$F1	538
18	TraesCS5A01G060100	chr3D	590750955	590751696	741	True	492.000000	492	79.396000	192	923	1	chr3D.!!$R1	731

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
324	401	6.215431	TCTCCACTGATTTCAATTCTAGGGAA	59.785	38.462	0.0	0.0	35.78	3.97	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2140	2483	0.179004	TCCGCACACAAACTTCCCAT	60.179	50.0	0.0	0.0	0.0	4.0	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
324	401	6.215431	TCTCCACTGATTTCAATTCTAGGGAA	59.785	38.462	0.00	0.00	35.78	3.97
717	859	7.201513	CGAGAACAAAATGTTGACACCAAAATT	60.202	33.333	1.62	0.00	41.28	1.82
1088	1333	3.251479	TCGCATCTTATTGACTGTGCT	57.749	42.857	0.00	0.00	0.00	4.40
1240	1485	2.954318	GAGATTGACATTGACCCCATGG	59.046	50.000	4.14	4.14	37.80	3.66
1436	1686	3.756783	CCCCGGGCCCCCAAAATA	61.757	66.667	17.73	0.00	35.37	1.40
1485	1735	7.326454	ACATAACTGATCCGATCATTATCTGG	58.674	38.462	11.53	1.29	38.85	3.86
1487	1737	6.425210	AACTGATCCGATCATTATCTGGAA	57.575	37.500	11.53	0.00	37.90	3.53
1490	1740	6.708054	ACTGATCCGATCATTATCTGGAAAAC	59.292	38.462	11.53	2.66	37.90	2.43
1527	1777	8.869897	TGAAAAATACTCGTCACATCTATTGTC	58.130	33.333	0.00	0.00	36.00	3.18
1545	1795	2.691984	TCGAAATCGAGACGAACACA	57.308	45.000	0.58	0.00	44.22	3.72
1546	1796	3.002708	TCGAAATCGAGACGAACACAA	57.997	42.857	0.58	0.00	44.22	3.33
1598	1922	0.038159	CCGAGCTGTCTCCGTTTCTT	60.038	55.000	0.00	0.00	35.94	2.52
1609	1933	5.049680	TGTCTCCGTTTCTTGCAACTAATTC	60.050	40.000	0.00	0.00	0.00	2.17
1610	1934	4.454504	TCTCCGTTTCTTGCAACTAATTCC	59.545	41.667	0.00	0.00	0.00	3.01
1734	2058	2.283966	CCCCTGAGACTCCCGTGT	60.284	66.667	0.00	0.00	0.00	4.49
1806	2130	0.392461	GGCTGTCGAAATACAGGGCA	60.392	55.000	6.17	0.00	45.75	5.36
1812	2136	0.742990	CGAAATACAGGGCAGCCGAA	60.743	55.000	5.00	0.00	0.00	4.30
1813	2137	0.733150	GAAATACAGGGCAGCCGAAC	59.267	55.000	5.00	0.00	0.00	3.95
1814	2138	0.037590	AAATACAGGGCAGCCGAACA	59.962	50.000	5.00	0.00	0.00	3.18
1821	2145	2.617274	GGCAGCCGAACAGTTGTCC	61.617	63.158	0.00	0.00	0.00	4.02
1864	2193	1.067821	GTCCTCCTCCGCACTAATCTG	59.932	57.143	0.00	0.00	0.00	2.90
1980	2323	8.076178	GCAAGAGTATGTGTGTACATTCTTTTT	58.924	33.333	0.00	0.00	45.01	1.94
2019	2362	9.959721	ATCCTTGTACAGTTATTTGAATACTGT	57.040	29.630	11.32	11.32	43.14	3.55
2084	2427	8.669946	TTTTGTTTTGACAGAAAAGAAACCTT	57.330	26.923	0.00	0.00	33.85	3.50
2112	2455	1.210722	TGTGTGTGTACTTTGCCCTCA	59.789	47.619	0.00	0.00	0.00	3.86
2166	2509	1.404035	AGTTTGTGTGCGGAAAGGAAC	59.596	47.619	0.00	0.00	0.00	3.62
2208	2551	6.767524	TTATCCGGTTGAACAATATGCTTT	57.232	33.333	0.00	0.00	0.00	3.51
2209	2552	5.659440	ATCCGGTTGAACAATATGCTTTT	57.341	34.783	0.00	0.00	0.00	2.27
2210	2553	5.461032	TCCGGTTGAACAATATGCTTTTT	57.539	34.783	0.00	0.00	0.00	1.94
2211	2554	6.576662	TCCGGTTGAACAATATGCTTTTTA	57.423	33.333	0.00	0.00	0.00	1.52
2212	2555	6.616947	TCCGGTTGAACAATATGCTTTTTAG	58.383	36.000	0.00	0.00	0.00	1.85
2213	2556	6.431543	TCCGGTTGAACAATATGCTTTTTAGA	59.568	34.615	0.00	0.00	0.00	2.10
2214	2557	7.040340	TCCGGTTGAACAATATGCTTTTTAGAA	60.040	33.333	0.00	0.00	0.00	2.10
2215	2558	7.061789	CCGGTTGAACAATATGCTTTTTAGAAC	59.938	37.037	0.00	0.00	0.00	3.01
2216	2559	7.201232	CGGTTGAACAATATGCTTTTTAGAACG	60.201	37.037	0.00	0.00	0.00	3.95
2217	2560	7.593644	GGTTGAACAATATGCTTTTTAGAACGT	59.406	33.333	0.00	0.00	0.00	3.99
2218	2561	9.601971	GTTGAACAATATGCTTTTTAGAACGTA	57.398	29.630	0.00	0.00	0.00	3.57
2219	2562	9.820229	TTGAACAATATGCTTTTTAGAACGTAG	57.180	29.630	0.00	0.00	0.00	3.51
2220	2563	8.447833	TGAACAATATGCTTTTTAGAACGTAGG	58.552	33.333	0.00	0.00	0.00	3.18
2221	2564	6.782150	ACAATATGCTTTTTAGAACGTAGGC	58.218	36.000	0.00	0.00	0.00	3.93
2222	2565	6.183360	ACAATATGCTTTTTAGAACGTAGGCC	60.183	38.462	0.00	0.00	0.00	5.19
2223	2566	2.429478	TGCTTTTTAGAACGTAGGCCC	58.571	47.619	0.00	0.00	0.00	5.80
2224	2567	2.224572	TGCTTTTTAGAACGTAGGCCCA	60.225	45.455	0.00	0.00	0.00	5.36
2225	2568	2.815503	GCTTTTTAGAACGTAGGCCCAA	59.184	45.455	0.00	0.00	0.00	4.12
2226	2569	3.253921	GCTTTTTAGAACGTAGGCCCAAA	59.746	43.478	0.00	0.00	0.00	3.28
2227	2570	4.261698	GCTTTTTAGAACGTAGGCCCAAAA	60.262	41.667	0.00	0.00	0.00	2.44
2228	2571	5.736777	GCTTTTTAGAACGTAGGCCCAAAAA	60.737	40.000	0.00	0.00	0.00	1.94
2229	2572	5.441709	TTTTAGAACGTAGGCCCAAAAAG	57.558	39.130	0.00	0.00	0.00	2.27
2230	2573	2.943036	AGAACGTAGGCCCAAAAAGA	57.057	45.000	0.00	0.00	0.00	2.52
2231	2574	2.779506	AGAACGTAGGCCCAAAAAGAG	58.220	47.619	0.00	0.00	0.00	2.85
2232	2575	1.199327	GAACGTAGGCCCAAAAAGAGC	59.801	52.381	0.00	0.00	0.00	4.09
2236	2579	3.381983	GGCCCAAAAAGAGCCCGG	61.382	66.667	0.00	0.00	41.00	5.73
2237	2580	4.069232	GCCCAAAAAGAGCCCGGC	62.069	66.667	0.00	0.00	0.00	6.13
2238	2581	2.283173	CCCAAAAAGAGCCCGGCT	60.283	61.111	13.16	13.16	43.88	5.52
2239	2582	1.908299	CCCAAAAAGAGCCCGGCTT	60.908	57.895	14.70	0.50	39.88	4.35
2240	2583	1.471829	CCCAAAAAGAGCCCGGCTTT	61.472	55.000	14.70	4.65	39.88	3.51
2241	2584	0.319813	CCAAAAAGAGCCCGGCTTTG	60.320	55.000	14.70	13.56	39.88	2.77
2242	2585	0.673437	CAAAAAGAGCCCGGCTTTGA	59.327	50.000	14.70	0.00	39.88	2.69
2243	2586	1.068434	CAAAAAGAGCCCGGCTTTGAA	59.932	47.619	14.70	0.00	39.88	2.69
2244	2587	1.632589	AAAAGAGCCCGGCTTTGAAT	58.367	45.000	14.70	0.00	39.88	2.57
2245	2588	1.632589	AAAGAGCCCGGCTTTGAATT	58.367	45.000	14.70	2.03	39.88	2.17
2246	2589	2.507407	AAGAGCCCGGCTTTGAATTA	57.493	45.000	14.70	0.00	39.88	1.40
2247	2590	2.507407	AGAGCCCGGCTTTGAATTAA	57.493	45.000	14.70	0.00	39.88	1.40
2248	2591	2.092323	AGAGCCCGGCTTTGAATTAAC	58.908	47.619	14.70	0.00	39.88	2.01
2249	2592	1.816224	GAGCCCGGCTTTGAATTAACA	59.184	47.619	14.70	0.00	39.88	2.41
2250	2593	2.230266	GAGCCCGGCTTTGAATTAACAA	59.770	45.455	14.70	0.00	39.88	2.83
2251	2594	2.630580	AGCCCGGCTTTGAATTAACAAA	59.369	40.909	5.94	0.00	33.89	2.83
2261	2604	7.120789	CTTTGAATTAACAAAGCCATCAACC	57.879	36.000	6.67	0.00	46.05	3.77
2262	2605	4.804108	TGAATTAACAAAGCCATCAACCG	58.196	39.130	0.00	0.00	0.00	4.44
2263	2606	3.866883	ATTAACAAAGCCATCAACCGG	57.133	42.857	0.00	0.00	0.00	5.28
2269	2612	2.908015	GCCATCAACCGGCTAGGA	59.092	61.111	0.00	0.00	46.56	2.94
2270	2613	1.451936	GCCATCAACCGGCTAGGAT	59.548	57.895	0.00	0.00	46.56	3.24
2271	2614	0.179018	GCCATCAACCGGCTAGGATT	60.179	55.000	0.00	0.00	46.56	3.01
2272	2615	1.071699	GCCATCAACCGGCTAGGATTA	59.928	52.381	0.00	0.00	46.56	1.75
2273	2616	2.767505	CCATCAACCGGCTAGGATTAC	58.232	52.381	0.00	0.00	45.00	1.89
2274	2617	2.104111	CCATCAACCGGCTAGGATTACA	59.896	50.000	0.00	0.00	45.00	2.41
2275	2618	3.433031	CCATCAACCGGCTAGGATTACAA	60.433	47.826	0.00	0.00	45.00	2.41
2276	2619	3.255969	TCAACCGGCTAGGATTACAAC	57.744	47.619	0.00	0.00	45.00	3.32
2277	2620	2.835764	TCAACCGGCTAGGATTACAACT	59.164	45.455	0.00	0.00	45.00	3.16
2278	2621	3.118884	TCAACCGGCTAGGATTACAACTC	60.119	47.826	0.00	0.00	45.00	3.01
2279	2622	1.761198	ACCGGCTAGGATTACAACTCC	59.239	52.381	0.00	0.00	45.00	3.85
2280	2623	1.269621	CCGGCTAGGATTACAACTCCG	60.270	57.143	0.00	0.00	45.00	4.63
2281	2624	1.269621	CGGCTAGGATTACAACTCCGG	60.270	57.143	0.00	0.00	37.88	5.14

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
324	401	3.440173	CCTGCACAAAATTACAGATCGGT	59.560	43.478	3.43	3.43	31.67	4.69
717	859	6.346096	GGAGCCACTTACATTGTTATGTCTA	58.654	40.000	0.00	0.00	43.81	2.59
837	1006	7.865385	AGATGTCTCTCGCTTTATTATCAAGAC	59.135	37.037	0.00	0.00	33.07	3.01
1088	1333	2.027073	GCTGATGCAACCGTCACGA	61.027	57.895	0.00	0.00	39.41	4.35
1251	1501	5.702622	TTCTTCTAACATTCTTCGATGCG	57.297	39.130	0.00	0.00	0.00	4.73
1490	1740	9.190858	TGACGAGTATTTTTCATTGATTTTTGG	57.809	29.630	0.00	0.00	0.00	3.28
1500	1750	9.383519	ACAATAGATGTGACGAGTATTTTTCAT	57.616	29.630	0.00	0.00	41.93	2.57
1509	1759	4.696899	TTCGACAATAGATGTGACGAGT	57.303	40.909	0.00	0.00	44.12	4.18
1512	1762	4.733405	TCGATTTCGACAATAGATGTGACG	59.267	41.667	0.00	0.00	44.12	4.35
1513	1763	5.971792	TCTCGATTTCGACAATAGATGTGAC	59.028	40.000	0.00	0.00	44.12	3.67
1527	1777	2.724690	AGTTGTGTTCGTCTCGATTTCG	59.275	45.455	0.00	0.00	35.23	3.46
1537	1787	4.339872	TTGTGGGTATAGTTGTGTTCGT	57.660	40.909	0.00	0.00	0.00	3.85
1538	1788	5.873179	AATTGTGGGTATAGTTGTGTTCG	57.127	39.130	0.00	0.00	0.00	3.95
1565	1889	4.642429	ACAGCTCGGTTAATCAGAAAACT	58.358	39.130	0.00	0.00	0.00	2.66
1598	1922	1.890573	GCACCCTGGGAATTAGTTGCA	60.891	52.381	22.23	0.00	0.00	4.08
1609	1933	1.903877	ATCGAACTCAGCACCCTGGG	61.904	60.000	12.28	12.28	45.43	4.45
1610	1934	0.460987	GATCGAACTCAGCACCCTGG	60.461	60.000	0.00	0.00	39.61	4.45
1653	1977	0.673985	TCGCCTCTGAATATGACGGG	59.326	55.000	0.00	0.00	0.00	5.28
1718	2042	2.650116	CCACACGGGAGTCTCAGGG	61.650	68.421	1.47	0.00	44.67	4.45
1727	2051	0.953471	CGAAGAATTGCCACACGGGA	60.953	55.000	0.00	0.00	40.01	5.14
1734	2058	1.378514	GCTCCCCGAAGAATTGCCA	60.379	57.895	0.00	0.00	0.00	4.92
1806	2130	0.249911	GTCTGGACAACTGTTCGGCT	60.250	55.000	0.00	0.00	29.82	5.52
1812	2136	1.141657	AGTGCATGTCTGGACAACTGT	59.858	47.619	7.53	0.00	45.43	3.55
1813	2137	1.888215	AGTGCATGTCTGGACAACTG	58.112	50.000	7.53	4.06	45.43	3.16
1814	2138	3.677148	CGATAGTGCATGTCTGGACAACT	60.677	47.826	7.53	9.12	45.43	3.16
1864	2193	2.855660	ACGCAACCAAGTACCAAAAC	57.144	45.000	0.00	0.00	0.00	2.43
1933	2276	4.007644	TGGGTGGCTGCGTCTGAG	62.008	66.667	0.00	0.00	0.00	3.35
1980	2323	5.014202	TGTACAAGGATATATAGCCGCTCA	58.986	41.667	11.31	5.59	36.72	4.26
2063	2406	5.637387	TGCAAGGTTTCTTTTCTGTCAAAAC	59.363	36.000	0.00	0.00	0.00	2.43
2084	2427	1.119684	AGTACACACACACTCCTGCA	58.880	50.000	0.00	0.00	0.00	4.41
2112	2455	6.196918	TGGGATGAATGATCTCAAAGCTAT	57.803	37.500	0.00	0.00	38.74	2.97
2140	2483	0.179004	TCCGCACACAAACTTCCCAT	60.179	50.000	0.00	0.00	0.00	4.00
2166	2509	2.821991	AACTCCTTCTCGTGTCCTTG	57.178	50.000	0.00	0.00	0.00	3.61
2208	2551	4.716794	TCTTTTTGGGCCTACGTTCTAAA	58.283	39.130	4.53	0.00	0.00	1.85
2209	2552	4.320870	CTCTTTTTGGGCCTACGTTCTAA	58.679	43.478	4.53	0.00	0.00	2.10
2210	2553	3.867216	GCTCTTTTTGGGCCTACGTTCTA	60.867	47.826	4.53	0.00	0.00	2.10
2211	2554	2.779506	CTCTTTTTGGGCCTACGTTCT	58.220	47.619	4.53	0.00	0.00	3.01
2212	2555	1.199327	GCTCTTTTTGGGCCTACGTTC	59.801	52.381	4.53	0.00	0.00	3.95
2213	2556	1.244816	GCTCTTTTTGGGCCTACGTT	58.755	50.000	4.53	0.00	0.00	3.99
2214	2557	0.608308	GGCTCTTTTTGGGCCTACGT	60.608	55.000	4.53	0.00	42.31	3.57
2215	2558	1.313091	GGGCTCTTTTTGGGCCTACG	61.313	60.000	4.53	0.00	44.70	3.51
2216	2559	1.313091	CGGGCTCTTTTTGGGCCTAC	61.313	60.000	4.53	0.00	44.70	3.18
2217	2560	1.001393	CGGGCTCTTTTTGGGCCTA	60.001	57.895	4.53	0.00	44.70	3.93
2218	2561	2.283173	CGGGCTCTTTTTGGGCCT	60.283	61.111	4.53	0.00	44.70	5.19
2219	2562	3.381983	CCGGGCTCTTTTTGGGCC	61.382	66.667	0.00	0.00	44.59	5.80
2220	2563	4.069232	GCCGGGCTCTTTTTGGGC	62.069	66.667	12.87	0.00	0.00	5.36
2221	2564	1.471829	AAAGCCGGGCTCTTTTTGGG	61.472	55.000	24.08	0.00	38.25	4.12
2222	2565	0.319813	CAAAGCCGGGCTCTTTTTGG	60.320	55.000	24.08	0.00	38.25	3.28
2223	2566	0.673437	TCAAAGCCGGGCTCTTTTTG	59.327	50.000	24.08	21.74	38.25	2.44
2224	2567	1.408969	TTCAAAGCCGGGCTCTTTTT	58.591	45.000	24.08	10.16	38.25	1.94
2225	2568	1.632589	ATTCAAAGCCGGGCTCTTTT	58.367	45.000	24.08	10.57	38.25	2.27
2226	2569	1.632589	AATTCAAAGCCGGGCTCTTT	58.367	45.000	24.08	11.39	38.25	2.52
2227	2570	2.492088	GTTAATTCAAAGCCGGGCTCTT	59.508	45.455	24.08	15.43	38.25	2.85
2228	2571	2.092323	GTTAATTCAAAGCCGGGCTCT	58.908	47.619	24.08	5.15	38.25	4.09
2229	2572	1.816224	TGTTAATTCAAAGCCGGGCTC	59.184	47.619	24.08	6.82	38.25	4.70
2230	2573	1.917872	TGTTAATTCAAAGCCGGGCT	58.082	45.000	17.69	17.69	42.56	5.19
2231	2574	2.734276	TTGTTAATTCAAAGCCGGGC	57.266	45.000	12.11	12.11	0.00	6.13
2238	2581	5.694006	CGGTTGATGGCTTTGTTAATTCAAA	59.306	36.000	0.00	0.00	36.18	2.69
2239	2582	5.226396	CGGTTGATGGCTTTGTTAATTCAA	58.774	37.500	0.00	0.00	0.00	2.69
2240	2583	4.321601	CCGGTTGATGGCTTTGTTAATTCA	60.322	41.667	0.00	0.00	0.00	2.57
2241	2584	4.173256	CCGGTTGATGGCTTTGTTAATTC	58.827	43.478	0.00	0.00	0.00	2.17
2242	2585	4.186856	CCGGTTGATGGCTTTGTTAATT	57.813	40.909	0.00	0.00	0.00	1.40
2243	2586	3.866883	CCGGTTGATGGCTTTGTTAAT	57.133	42.857	0.00	0.00	0.00	1.40
2253	2596	2.104111	TGTAATCCTAGCCGGTTGATGG	59.896	50.000	1.90	1.63	0.00	3.51
2254	2597	3.469008	TGTAATCCTAGCCGGTTGATG	57.531	47.619	1.90	0.00	0.00	3.07
2255	2598	3.454812	AGTTGTAATCCTAGCCGGTTGAT	59.545	43.478	1.90	0.00	0.00	2.57
2256	2599	2.835764	AGTTGTAATCCTAGCCGGTTGA	59.164	45.455	1.90	0.00	0.00	3.18
2257	2600	3.195661	GAGTTGTAATCCTAGCCGGTTG	58.804	50.000	1.90	0.00	0.00	3.77
2258	2601	2.169978	GGAGTTGTAATCCTAGCCGGTT	59.830	50.000	1.90	0.00	33.77	4.44
2259	2602	1.761198	GGAGTTGTAATCCTAGCCGGT	59.239	52.381	1.90	0.00	33.77	5.28
2260	2603	1.269621	CGGAGTTGTAATCCTAGCCGG	60.270	57.143	0.00	0.00	34.45	6.13
2261	2604	1.269621	CCGGAGTTGTAATCCTAGCCG	60.270	57.143	0.00	0.00	34.45	5.52
2262	2605	2.528041	CCGGAGTTGTAATCCTAGCC	57.472	55.000	0.00	0.00	34.45	3.93

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.