AutoCloner

Multiple sequence alignment - TraesCS6A01G201500

Loading Multiple Alignment...

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	TraesCS6A01G201500	chr6A	100.000	2843	0	0	1	2843	332190489	332187647	0.000000e+00	5251.0
1	TraesCS6A01G201500	chr6A	93.548	279	17	1	509	786	332230872	332230594	5.670000e-112	414.0
2	TraesCS6A01G201500	chr6A	93.190	279	18	1	509	786	332194947	332194669	2.640000e-110	409.0
3	TraesCS6A01G201500	chr6A	98.319	119	2	0	1	119	332226404	332226286	2.870000e-50	209.0
4	TraesCS6A01G201500	chr6A	87.050	139	17	1	2359	2497	313301113	313300976	3.790000e-34	156.0
5	TraesCS6A01G201500	chr6A	86.822	129	15	2	2359	2487	599041575	599041449	2.950000e-30	143.0
6	TraesCS6A01G201500	chr6B	96.948	1245	29	3	939	2174	307186905	307185661	0.000000e+00	2080.0
7	TraesCS6A01G201500	chr6B	86.507	793	96	10	3	789	145562792	145562005	0.000000e+00	861.0
8	TraesCS6A01G201500	chr6B	88.586	587	53	8	2238	2812	307185517	307184933	0.000000e+00	701.0
9	TraesCS6A01G201500	chr6B	94.400	125	7	0	2717	2841	307184997	307184873	2.890000e-45	193.0
10	TraesCS6A01G201500	chr6B	91.791	134	6	5	2336	2465	299051583	299051451	6.260000e-42	182.0
11	TraesCS6A01G201500	chr6B	90.769	130	11	1	2359	2488	588313226	588313098	3.770000e-39	172.0
12	TraesCS6A01G201500	chr6D	96.278	1209	35	8	803	2006	259293650	259292447	0.000000e+00	1975.0
13	TraesCS6A01G201500	chr6D	94.857	350	18	0	2463	2812	259292119	259291770	5.350000e-152	547.0
14	TraesCS6A01G201500	chr6D	92.330	339	15	3	2032	2360	259292454	259292117	3.320000e-129	472.0
15	TraesCS6A01G201500	chr6D	98.425	127	2	0	2717	2843	259291834	259291708	1.020000e-54	224.0
16	TraesCS6A01G201500	chr6D	98.198	111	2	0	2358	2468	457694098	457693988	8.040000e-46	195.0
17	TraesCS6A01G201500	chr1D	90.127	790	65	10	1	785	250640443	250641224	0.000000e+00	1014.0
18	TraesCS6A01G201500	chr1D	86.620	284	28	8	509	786	250635980	250636259	3.560000e-79	305.0
19	TraesCS6A01G201500	chr1D	78.638	323	60	5	196	518	231016895	231017208	3.710000e-49	206.0
20	TraesCS6A01G201500	chr1D	75.309	324	68	9	196	518	361842789	361843101	8.210000e-31	145.0
21	TraesCS6A01G201500	chr1D	90.625	64	4	2	2197	2259	351255384	351255322	1.820000e-12	84.2
22	TraesCS6A01G201500	chr4D	87.990	791	82	12	1	785	418760962	418761745	0.000000e+00	922.0
23	TraesCS6A01G201500	chr2D	82.620	794	123	14	1	785	395301431	395302218	0.000000e+00	688.0
24	TraesCS6A01G201500	chr2D	84.161	322	48	3	196	515	568315630	568315310	2.750000e-80	309.0
25	TraesCS6A01G201500	chr2D	95.000	120	6	0	2347	2466	65564708	65564827	3.740000e-44	189.0
26	TraesCS6A01G201500	chr2D	77.778	117	15	6	507	623	263052883	263052778	8.500000e-06	62.1
27	TraesCS6A01G201500	chr5B	81.620	321	57	2	196	515	664243231	664243550	6.040000e-67	265.0
28	TraesCS6A01G201500	chr5B	74.792	361	68	17	202	559	642283941	642283601	1.060000e-29	141.0
29	TraesCS6A01G201500	chr5B	89.552	67	5	2	2195	2260	591828392	591828457	1.820000e-12	84.2
30	TraesCS6A01G201500	chr1B	78.274	336	53	12	212	544	37765015	37764697	6.210000e-47	198.0
31	TraesCS6A01G201500	chr1B	89.231	130	13	1	2359	2488	647306464	647306336	8.150000e-36	161.0
32	TraesCS6A01G201500	chr7D	97.368	114	3	0	2358	2471	432956500	432956613	8.040000e-46	195.0
33	TraesCS6A01G201500	chr3D	97.368	114	3	0	2359	2472	230765645	230765758	8.040000e-46	195.0
34	TraesCS6A01G201500	chr1A	95.041	121	6	0	2356	2476	403636551	403636431	1.040000e-44	191.0
35	TraesCS6A01G201500	chr2A	92.969	128	6	3	2340	2465	30047480	30047354	1.740000e-42	183.0
36	TraesCS6A01G201500	chr2A	90.840	131	10	2	2359	2487	33330969	33330839	1.050000e-39	174.0
37	TraesCS6A01G201500	chr2A	94.000	50	3	0	2214	2263	709863101	709863052	3.040000e-10	76.8
38	TraesCS6A01G201500	chr2A	88.889	63	5	1	2198	2258	751242378	751242440	3.040000e-10	76.8
39	TraesCS6A01G201500	chr2A	84.507	71	5	6	591	659	88721778	88721712	6.570000e-07	65.8
40	TraesCS6A01G201500	chr5A	92.800	125	7	2	2359	2483	177604934	177604812	2.250000e-41	180.0
41	TraesCS6A01G201500	chr5A	97.059	34	1	0	592	625	309032100	309032133	1.100000e-04	58.4
42	TraesCS6A01G201500	chr2B	91.538	130	10	1	2359	2488	715014876	715015004	8.090000e-41	178.0
43	TraesCS6A01G201500	chr2B	74.317	366	73	14	196	559	146633188	146633534	4.940000e-28	135.0
44	TraesCS6A01G201500	chr2B	87.143	70	3	6	2221	2287	731610592	731610658	1.090000e-09	75.0
45	TraesCS6A01G201500	chr5D	79.435	248	51	0	196	443	553054074	553054321	2.910000e-40	176.0
46	TraesCS6A01G201500	chr7B	88.462	130	12	2	2359	2488	669327030	669327156	1.360000e-33	154.0
47	TraesCS6A01G201500	chr7B	71.847	444	84	28	214	652	591692095	591691688	3.900000e-14	89.8
48	TraesCS6A01G201500	chr7B	91.935	62	3	2	2201	2261	53250635	53250575	5.050000e-13	86.1
49	TraesCS6A01G201500	chr7B	90.698	43	2	1	592	634	591702504	591702464	3.960000e-04	56.5
50	TraesCS6A01G201500	chr3B	97.917	48	0	1	2219	2265	380683897	380683944	6.530000e-12	82.4
51	TraesCS6A01G201500	chr4A	86.765	68	8	1	2421	2488	626976060	626975994	1.090000e-09	75.0

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	TraesCS6A01G201500	chr6A	332187647	332190489	2842	True	5251.000000	5251	100.000000	1	2843	1	chr6A.!!$R2	2842
1	TraesCS6A01G201500	chr6B	307184873	307186905	2032	True	991.333333	2080	93.311333	939	2841	3	chr6B.!!$R4	1902
2	TraesCS6A01G201500	chr6B	145562005	145562792	787	True	861.000000	861	86.507000	3	789	1	chr6B.!!$R1	786
3	TraesCS6A01G201500	chr6D	259291708	259293650	1942	True	804.500000	1975	95.472500	803	2843	4	chr6D.!!$R2	2040
4	TraesCS6A01G201500	chr1D	250640443	250641224	781	False	1014.000000	1014	90.127000	1	785	1	chr1D.!!$F3	784
5	TraesCS6A01G201500	chr4D	418760962	418761745	783	False	922.000000	922	87.990000	1	785	1	chr4D.!!$F1	784
6	TraesCS6A01G201500	chr2D	395301431	395302218	787	False	688.000000	688	82.620000	1	785	1	chr2D.!!$F2	784

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
578	581	0.324943	CTTGAAGGCGAGAGGGGAAA	59.675	55.0	0.0	0.0	0.00	3.13	F
1712	1732	0.029267	AGCTTGGAGGGGAGGATCAT	60.029	55.0	0.0	0.0	36.25	2.45	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1723	1743	0.750911	CCCCTCAGCCTCAATGCTTC	60.751	60.000	0.0	0.0	40.32	3.86	R
2523	2669	5.195940	ACAGGGTCTTCAATATGGTGATTG	58.804	41.667	0.0	0.0	38.03	2.67	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
227	228	1.080705	CAGTTCGTCCAGGTCGACC	60.081	63.158	27.67	27.67	37.05	4.79
436	437	3.733960	CCGTCGGTCAGCGAGTCA	61.734	66.667	0.00	0.00	0.00	3.41
441	442	2.920645	CGGTCAGCGAGTCAGGTGT	61.921	63.158	11.85	0.00	40.23	4.16
455	456	2.031919	GTGTGGTGGCGATGACCA	59.968	61.111	0.00	0.00	41.37	4.02
464	465	1.118356	GGCGATGACCAGGGAGATCT	61.118	60.000	0.00	0.00	0.00	2.75
471	472	0.847373	ACCAGGGAGATCTAGAGCGA	59.153	55.000	1.62	0.00	0.00	4.93
481	482	2.139323	TCTAGAGCGAAAGGTGGCTA	57.861	50.000	0.00	0.00	45.11	3.93
559	562	2.492012	CCATGGATCAGAGCTACAAGC	58.508	52.381	5.56	0.00	42.84	4.01
574	577	1.023513	CAAGCTTGAAGGCGAGAGGG	61.024	60.000	22.31	0.00	37.29	4.30
578	581	0.324943	CTTGAAGGCGAGAGGGGAAA	59.675	55.000	0.00	0.00	0.00	3.13
580	583	0.324943	TGAAGGCGAGAGGGGAAAAG	59.675	55.000	0.00	0.00	0.00	2.27
581	584	0.393132	GAAGGCGAGAGGGGAAAAGG	60.393	60.000	0.00	0.00	0.00	3.11
586	589	1.276622	CGAGAGGGGAAAAGGAGGAA	58.723	55.000	0.00	0.00	0.00	3.36
630	634	1.608025	CCACACACGCAACACCTATCT	60.608	52.381	0.00	0.00	0.00	1.98
639	644	2.351726	GCAACACCTATCTGTTTAGCCG	59.648	50.000	0.00	0.00	31.73	5.52
692	698	8.860088	GGTTTAAATACAAGCTAATGGATCCAT	58.140	33.333	22.15	22.15	38.46	3.41
703	709	0.920763	TGGATCCATTCTGGCCCAGT	60.921	55.000	11.44	0.00	35.87	4.00
740	747	2.203294	GTTGTGTCTTGGGCCGGT	60.203	61.111	1.90	0.00	0.00	5.28
762	769	4.889409	GTCCAATGCTTGAATCCCATCTTA	59.111	41.667	0.00	0.00	0.00	2.10
769	776	1.762370	TGAATCCCATCTTAGCGCTCA	59.238	47.619	16.34	0.30	0.00	4.26
785	792	1.538512	GCTCATCTTTGCTGCTGACAA	59.461	47.619	0.00	0.00	0.00	3.18
789	796	3.251729	TCATCTTTGCTGCTGACAAGTTC	59.748	43.478	0.00	0.00	0.00	3.01
790	797	2.923121	TCTTTGCTGCTGACAAGTTCT	58.077	42.857	0.00	0.00	0.00	3.01
791	798	4.071961	TCTTTGCTGCTGACAAGTTCTA	57.928	40.909	0.00	0.00	0.00	2.10
792	799	4.450976	TCTTTGCTGCTGACAAGTTCTAA	58.549	39.130	0.00	0.00	0.00	2.10
793	800	5.065914	TCTTTGCTGCTGACAAGTTCTAAT	58.934	37.500	0.00	0.00	0.00	1.73
794	801	5.180117	TCTTTGCTGCTGACAAGTTCTAATC	59.820	40.000	0.00	0.00	0.00	1.75
795	802	4.277515	TGCTGCTGACAAGTTCTAATCT	57.722	40.909	0.00	0.00	0.00	2.40
796	803	3.999001	TGCTGCTGACAAGTTCTAATCTG	59.001	43.478	0.00	0.00	0.00	2.90
797	804	4.248859	GCTGCTGACAAGTTCTAATCTGA	58.751	43.478	0.00	0.00	0.00	3.27
798	805	4.092675	GCTGCTGACAAGTTCTAATCTGAC	59.907	45.833	0.00	0.00	0.00	3.51
799	806	4.237724	TGCTGACAAGTTCTAATCTGACG	58.762	43.478	0.00	0.00	0.00	4.35
800	807	3.614616	GCTGACAAGTTCTAATCTGACGG	59.385	47.826	0.00	0.00	0.00	4.79
801	808	3.585862	TGACAAGTTCTAATCTGACGGC	58.414	45.455	0.00	0.00	0.00	5.68
816	825	4.161565	TCTGACGGCTATTACAAGGTGAAT	59.838	41.667	0.00	0.00	0.00	2.57
951	962	9.274065	CAAAAGTAATATAGAAAGAAACGCACC	57.726	33.333	0.00	0.00	0.00	5.01
952	963	8.556213	AAAGTAATATAGAAAGAAACGCACCA	57.444	30.769	0.00	0.00	0.00	4.17
954	965	5.485662	AATATAGAAAGAAACGCACCAGC	57.514	39.130	0.00	0.00	37.42	4.85
1712	1732	0.029267	AGCTTGGAGGGGAGGATCAT	60.029	55.000	0.00	0.00	36.25	2.45
1772	1792	7.828717	TGATATGTCACTAAAGGAAATGCTCAA	59.171	33.333	0.00	0.00	0.00	3.02
1923	1943	3.005684	GTGGTGCATTGAGTTTGAATCCA	59.994	43.478	0.00	0.00	0.00	3.41
1963	1984	3.488778	AATGTGCCAAATGCCTTCAAA	57.511	38.095	0.00	0.00	40.16	2.69
2022	2043	3.406764	GAGGATAGCTCGCAATGGATTT	58.593	45.455	0.00	0.00	0.00	2.17
2023	2044	3.144506	AGGATAGCTCGCAATGGATTTG	58.855	45.455	0.00	0.00	38.43	2.32
2030	2051	3.316308	GCTCGCAATGGATTTGGTAATCT	59.684	43.478	0.00	0.00	40.07	2.40
2098	2119	3.758554	CAGTTTTGGTTCTATGGTGGAGG	59.241	47.826	0.00	0.00	0.00	4.30
2104	2125	1.906574	GTTCTATGGTGGAGGTGTGGA	59.093	52.381	0.00	0.00	0.00	4.02
2364	2500	6.892456	TCTAGATTTGTCTGACATGTACTCCT	59.108	38.462	11.86	5.25	0.00	3.69
2365	2501	6.365970	AGATTTGTCTGACATGTACTCCTT	57.634	37.500	11.86	0.00	0.00	3.36
2367	2503	4.537135	TTGTCTGACATGTACTCCTTCC	57.463	45.455	11.86	0.00	0.00	3.46
2370	2506	3.056749	GTCTGACATGTACTCCTTCCGTT	60.057	47.826	0.00	0.00	0.00	4.44
2371	2507	3.192844	TCTGACATGTACTCCTTCCGTTC	59.807	47.826	0.00	0.00	0.00	3.95
2376	2512	2.173519	TGTACTCCTTCCGTTCGGAAT	58.826	47.619	23.69	13.41	42.61	3.01
2385	2521	2.598589	TCCGTTCGGAATTACTTGTCG	58.401	47.619	11.66	0.00	0.00	4.35
2386	2522	1.060122	CCGTTCGGAATTACTTGTCGC	59.940	52.381	5.19	0.00	0.00	5.19
2397	2543	4.944962	TTACTTGTCGCAGAAATGGATG	57.055	40.909	0.00	0.00	39.69	3.51
2401	2547	4.572389	ACTTGTCGCAGAAATGGATGTATC	59.428	41.667	0.00	0.00	39.69	2.24
2406	2552	5.631512	GTCGCAGAAATGGATGTATCTAGAC	59.368	44.000	0.00	0.00	39.69	2.59
2407	2553	5.301805	TCGCAGAAATGGATGTATCTAGACA	59.698	40.000	0.00	0.00	0.00	3.41
2410	2556	7.978414	CGCAGAAATGGATGTATCTAGACATAT	59.022	37.037	0.00	0.00	40.18	1.78
2411	2557	9.664332	GCAGAAATGGATGTATCTAGACATATT	57.336	33.333	0.00	0.00	40.18	1.28
2446	2592	8.328758	AGATACATCCATTTCCAAGACAAGTAA	58.671	33.333	0.00	0.00	0.00	2.24
2449	2595	7.830739	ACATCCATTTCCAAGACAAGTAATTC	58.169	34.615	0.00	0.00	0.00	2.17
2452	2598	5.414454	CCATTTCCAAGACAAGTAATTCCGA	59.586	40.000	0.00	0.00	0.00	4.55
2456	2602	3.124636	CCAAGACAAGTAATTCCGAACGG	59.875	47.826	6.94	6.94	0.00	4.44
2510	2656	5.403246	ACGTGACATAAACACTTTTTGCAA	58.597	33.333	0.00	0.00	36.29	4.08
2523	2669	7.702386	ACACTTTTTGCAAAAATTATTGGTCC	58.298	30.769	31.54	0.00	37.27	4.46
2550	2696	3.456277	ACCATATTGAAGACCCTGTCCTC	59.544	47.826	0.00	0.00	32.18	3.71
2593	2739	4.041198	TGGATCGAAGGAAGTAGGTGTTTT	59.959	41.667	0.00	0.00	0.00	2.43

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
154	155	4.814294	CTCCTACCGCACCACCGC	62.814	72.222	0.00	0.00	0.00	5.68
206	207	2.649034	GACCTGGACGAACTGCGA	59.351	61.111	0.00	0.00	44.57	5.10
227	228	0.537188	ACGTCAAGCTGTCCATAGGG	59.463	55.000	0.00	0.00	0.00	3.53
260	261	0.689623	CCAAGTTGGACCTGCTCTCT	59.310	55.000	17.60	0.00	40.96	3.10
374	375	2.005960	CTCCCGAGACGAAGGCGATT	62.006	60.000	0.00	0.00	41.64	3.34
436	437	2.347490	GTCATCGCCACCACACCT	59.653	61.111	0.00	0.00	0.00	4.00
441	442	3.716195	CCCTGGTCATCGCCACCA	61.716	66.667	0.00	0.74	41.91	4.17
455	456	2.091555	ACCTTTCGCTCTAGATCTCCCT	60.092	50.000	0.00	0.00	0.00	4.20
464	465	1.480954	CCTTAGCCACCTTTCGCTCTA	59.519	52.381	0.00	0.00	36.53	2.43
471	472	1.354705	GTCCTTCCCTTAGCCACCTTT	59.645	52.381	0.00	0.00	0.00	3.11
481	482	0.618968	ATCAGAGCCGTCCTTCCCTT	60.619	55.000	0.00	0.00	0.00	3.95
559	562	0.324943	TTTCCCCTCTCGCCTTCAAG	59.675	55.000	0.00	0.00	0.00	3.02
565	568	1.222113	CTCCTTTTCCCCTCTCGCC	59.778	63.158	0.00	0.00	0.00	5.54
574	577	1.815613	GAGCTGCTTTCCTCCTTTTCC	59.184	52.381	2.53	0.00	0.00	3.13
578	581	0.321122	CGTGAGCTGCTTTCCTCCTT	60.321	55.000	2.53	0.00	0.00	3.36
580	583	3.882025	CGTGAGCTGCTTTCCTCC	58.118	61.111	2.53	0.00	0.00	4.30
605	608	1.672682	TGTTGCGTGTGTGGTGTGT	60.673	52.632	0.00	0.00	0.00	3.72
630	634	2.357760	GGTGGCGACGGCTAAACA	60.358	61.111	22.70	0.00	39.81	2.83
639	644	1.557651	GATAAGAACGAGGTGGCGAC	58.442	55.000	0.00	0.00	34.83	5.19
651	656	9.656040	TGTATTTAAACCTGTAAGCGATAAGAA	57.344	29.630	0.00	0.00	0.00	2.52
762	769	1.376942	AGCAGCAAAGATGAGCGCT	60.377	52.632	11.27	11.27	36.39	5.92
769	776	3.484407	AGAACTTGTCAGCAGCAAAGAT	58.516	40.909	0.00	0.00	0.00	2.40
785	792	6.710597	TGTAATAGCCGTCAGATTAGAACT	57.289	37.500	0.00	0.00	0.00	3.01
789	796	5.692204	CACCTTGTAATAGCCGTCAGATTAG	59.308	44.000	0.00	0.00	0.00	1.73
790	797	5.361571	TCACCTTGTAATAGCCGTCAGATTA	59.638	40.000	0.00	0.00	0.00	1.75
791	798	4.161565	TCACCTTGTAATAGCCGTCAGATT	59.838	41.667	0.00	0.00	0.00	2.40
792	799	3.704566	TCACCTTGTAATAGCCGTCAGAT	59.295	43.478	0.00	0.00	0.00	2.90
793	800	3.093814	TCACCTTGTAATAGCCGTCAGA	58.906	45.455	0.00	0.00	0.00	3.27
794	801	3.520290	TCACCTTGTAATAGCCGTCAG	57.480	47.619	0.00	0.00	0.00	3.51
795	802	3.965379	TTCACCTTGTAATAGCCGTCA	57.035	42.857	0.00	0.00	0.00	4.35
796	803	3.489785	CGATTCACCTTGTAATAGCCGTC	59.510	47.826	0.00	0.00	0.00	4.79
797	804	3.454375	CGATTCACCTTGTAATAGCCGT	58.546	45.455	0.00	0.00	0.00	5.68
798	805	2.800544	CCGATTCACCTTGTAATAGCCG	59.199	50.000	0.00	0.00	0.00	5.52
799	806	4.058817	CTCCGATTCACCTTGTAATAGCC	58.941	47.826	0.00	0.00	0.00	3.93
800	807	4.058817	CCTCCGATTCACCTTGTAATAGC	58.941	47.826	0.00	0.00	0.00	2.97
801	808	4.632153	CCCTCCGATTCACCTTGTAATAG	58.368	47.826	0.00	0.00	0.00	1.73
833	842	2.564721	GCCCAAATATCGGCTGGCC	61.565	63.158	0.00	0.00	42.21	5.36
861	870	3.289834	CTGTGTTTGCTGGGCGCT	61.290	61.111	7.64	0.00	40.11	5.92
867	876	2.337532	GGGCTGCTGTGTTTGCTG	59.662	61.111	0.00	0.00	0.00	4.41
930	941	6.258068	AGCTGGTGCGTTTCTTTCTATATTAC	59.742	38.462	0.00	0.00	45.42	1.89
931	942	6.346096	AGCTGGTGCGTTTCTTTCTATATTA	58.654	36.000	0.00	0.00	45.42	0.98
933	944	4.770795	AGCTGGTGCGTTTCTTTCTATAT	58.229	39.130	0.00	0.00	45.42	0.86
934	945	4.181578	GAGCTGGTGCGTTTCTTTCTATA	58.818	43.478	0.00	0.00	45.42	1.31
947	958	1.065854	AGTTATCCACTGAGCTGGTGC	60.066	52.381	10.04	0.00	32.83	5.01
951	962	1.565305	GCGAGTTATCCACTGAGCTG	58.435	55.000	0.00	0.00	35.01	4.24
952	963	0.461961	GGCGAGTTATCCACTGAGCT	59.538	55.000	0.00	0.00	35.01	4.09
954	965	1.067821	GGAGGCGAGTTATCCACTGAG	59.932	57.143	0.00	0.00	35.01	3.35
1081	1101	2.436646	CTTGCGGCGGAACTCCAT	60.437	61.111	10.55	0.00	28.55	3.41
1323	1343	3.756783	CGGAGGAGAGGAGGGGGT	61.757	72.222	0.00	0.00	0.00	4.95
1723	1743	0.750911	CCCCTCAGCCTCAATGCTTC	60.751	60.000	0.00	0.00	40.32	3.86
1772	1792	1.479730	TGAACTCATCATCGCTGCTCT	59.520	47.619	0.00	0.00	31.50	4.09
2022	2043	4.079787	CCATCCTTCCTCCAAAGATTACCA	60.080	45.833	0.00	0.00	0.00	3.25
2023	2044	4.464947	CCATCCTTCCTCCAAAGATTACC	58.535	47.826	0.00	0.00	0.00	2.85
2030	2051	0.999712	GGACCCATCCTTCCTCCAAA	59.000	55.000	0.00	0.00	42.45	3.28
2181	2307	8.202137	CGGAGGGAATAGAAGACTTACATTTTA	58.798	37.037	0.00	0.00	0.00	1.52
2231	2366	5.307976	TCCCTCTGTCCCATAATGTAAGATG	59.692	44.000	0.00	0.00	0.00	2.90
2232	2367	5.476983	TCCCTCTGTCCCATAATGTAAGAT	58.523	41.667	0.00	0.00	0.00	2.40
2249	2384	8.896722	TTGACTAGTAAAATTCTACTCCCTCT	57.103	34.615	0.00	0.00	34.03	3.69
2287	2422	8.578151	GGTAGTTCTACCTTTATAGATGGTCAG	58.422	40.741	18.49	0.00	37.08	3.51
2348	2483	2.492484	ACGGAAGGAGTACATGTCAGAC	59.508	50.000	0.00	0.00	0.00	3.51
2365	2501	2.598589	CGACAAGTAATTCCGAACGGA	58.401	47.619	12.04	12.04	43.52	4.69
2367	2503	1.722464	TGCGACAAGTAATTCCGAACG	59.278	47.619	0.00	0.00	0.00	3.95
2370	2506	3.306917	TTCTGCGACAAGTAATTCCGA	57.693	42.857	0.00	0.00	0.00	4.55
2371	2507	4.334443	CATTTCTGCGACAAGTAATTCCG	58.666	43.478	0.00	0.00	0.00	4.30
2376	2512	4.323417	ACATCCATTTCTGCGACAAGTAA	58.677	39.130	0.00	0.00	0.00	2.24
2385	2521	9.664332	AATATGTCTAGATACATCCATTTCTGC	57.336	33.333	0.00	0.00	40.52	4.26
2415	2561	7.987458	TGTCTTGGAAATGGATGTATCTAGAAC	59.013	37.037	0.00	0.00	0.00	3.01
2416	2562	8.089625	TGTCTTGGAAATGGATGTATCTAGAA	57.910	34.615	0.00	0.00	0.00	2.10
2421	2567	8.506168	TTACTTGTCTTGGAAATGGATGTATC	57.494	34.615	0.00	0.00	0.00	2.24
2429	2575	6.494893	TCGGAATTACTTGTCTTGGAAATG	57.505	37.500	0.00	0.00	0.00	2.32
2435	2581	3.991773	TCCGTTCGGAATTACTTGTCTTG	59.008	43.478	11.66	0.00	0.00	3.02
2436	2582	4.243270	CTCCGTTCGGAATTACTTGTCTT	58.757	43.478	14.79	0.00	33.41	3.01
2437	2583	3.368116	CCTCCGTTCGGAATTACTTGTCT	60.368	47.826	14.79	0.00	33.41	3.41
2446	2592	1.341778	ACTACTCCCTCCGTTCGGAAT	60.342	52.381	14.79	2.09	33.41	3.01
2449	2595	0.893447	AAACTACTCCCTCCGTTCGG	59.107	55.000	4.74	4.74	0.00	4.30
2452	2598	6.803366	ACATTATAAACTACTCCCTCCGTT	57.197	37.500	0.00	0.00	0.00	4.44
2523	2669	5.195940	ACAGGGTCTTCAATATGGTGATTG	58.804	41.667	0.00	0.00	38.03	2.67
2550	2696	5.805728	TCCAAAACCTAGCTCTTTTAGGAG	58.194	41.667	6.48	0.00	40.12	3.69
2593	2739	5.882000	CAGTTCAGTTTACATCATCCCATGA	59.118	40.000	0.00	0.00	44.55	3.07

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.