AutoCloner

Multiple sequence alignment - TraesCS3A01G030200

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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	TraesCS3A01G030200	chr3A	100.000	2648	0	0	1	2648	15837621	15840268	0.000000e+00	4891.0
1	TraesCS3A01G030200	chr3A	88.597	1561	159	13	149	1698	16011285	16012837	0.000000e+00	1879.0
2	TraesCS3A01G030200	chr3A	85.228	1557	186	28	170	1693	17333522	17335067	0.000000e+00	1561.0
3	TraesCS3A01G030200	chr3A	84.783	1564	195	24	169	1699	17377804	17376251	0.000000e+00	1530.0
4	TraesCS3A01G030200	chr3A	88.571	105	6	2	1	105	16011213	16011311	3.580000e-24	122.0
5	TraesCS3A01G030200	chr3D	96.600	1706	50	4	1	1698	41594769	41593064	0.000000e+00	2822.0
6	TraesCS3A01G030200	chr3D	94.789	1708	76	7	1	1696	41425054	41423348	0.000000e+00	2649.0
7	TraesCS3A01G030200	chr3D	85.048	1565	191	22	168	1699	5374469	5372915	0.000000e+00	1554.0
8	TraesCS3A01G030200	chr3D	84.277	1590	195	30	149	1698	5408054	5406480	0.000000e+00	1500.0
9	TraesCS3A01G030200	chr3D	95.455	44	1	1	104	146	58559168	58559211	4.730000e-08	69.4
10	TraesCS3A01G030200	chr3B	96.366	1706	54	3	1	1698	12841120	12839415	0.000000e+00	2800.0
11	TraesCS3A01G030200	chr3B	95.713	1703	47	3	1	1698	12474450	12476131	0.000000e+00	2717.0
12	TraesCS3A01G030200	chr3B	88.216	1553	148	17	153	1698	13248157	13249681	0.000000e+00	1821.0
13	TraesCS3A01G030200	chr3B	87.043	1559	180	19	149	1698	12935484	12937029	0.000000e+00	1740.0
14	TraesCS3A01G030200	chr3B	90.855	339	28	2	1695	2030	178405890	178406228	4.020000e-123	451.0
15	TraesCS3A01G030200	chr3B	89.000	100	7	1	6	105	12935415	12935510	1.290000e-23	121.0
16	TraesCS3A01G030200	chr3B	100.000	58	0	0	2591	2648	775561349	775561292	1.000000e-19	108.0
17	TraesCS3A01G030200	chr3B	82.407	108	12	3	1	105	13248076	13248179	1.310000e-13	87.9
18	TraesCS3A01G030200	chr3B	90.476	42	3	1	109	149	746796409	746796368	1.000000e-03	54.7
19	TraesCS3A01G030200	chr7A	93.341	886	39	8	1695	2569	671506429	671507305	0.000000e+00	1291.0
20	TraesCS3A01G030200	chr4A	92.022	890	42	14	1695	2574	546578879	546578009	0.000000e+00	1223.0
21	TraesCS3A01G030200	chr6B	89.773	264	19	4	1693	1948	672778928	672778665	5.460000e-87	331.0
22	TraesCS3A01G030200	chr6B	88.931	262	21	4	1695	1948	142796643	142796904	1.530000e-82	316.0
23	TraesCS3A01G030200	chr6B	86.486	222	30	0	2349	2570	668976258	668976037	7.320000e-61	244.0
24	TraesCS3A01G030200	chr2B	89.695	262	19	4	1695	1948	786939711	786939450	7.070000e-86	327.0
25	TraesCS3A01G030200	chr2B	88.931	262	21	4	1695	1948	643485218	643484957	1.530000e-82	316.0
26	TraesCS3A01G030200	chr2B	88.550	262	22	4	1695	1948	27164336	27164075	7.120000e-81	311.0
27	TraesCS3A01G030200	chr2B	94.521	73	2	2	2576	2648	496974107	496974037	7.750000e-21	111.0
28	TraesCS3A01G030200	chr2B	94.521	73	3	1	2577	2648	785054612	785054684	7.750000e-21	111.0
29	TraesCS3A01G030200	chr4B	89.313	262	20	4	1695	1948	648055413	648055674	3.290000e-84	322.0
30	TraesCS3A01G030200	chr4B	87.783	221	27	0	2349	2569	13276399	13276619	2.610000e-65	259.0
31	TraesCS3A01G030200	chr4B	87.755	98	8	4	2555	2648	603338593	603338690	7.750000e-21	111.0
32	TraesCS3A01G030200	chr5A	86.486	222	30	0	2349	2570	667025859	667026080	7.320000e-61	244.0
33	TraesCS3A01G030200	chr5A	97.143	70	0	1	2579	2648	37180662	37180729	1.670000e-22	117.0
34	TraesCS3A01G030200	chr7B	86.829	205	27	0	2360	2564	531261732	531261936	2.050000e-56	230.0
35	TraesCS3A01G030200	chr7B	84.649	228	27	4	2349	2575	22543433	22543213	1.230000e-53	220.0
36	TraesCS3A01G030200	chr7B	97.143	70	1	1	2580	2648	466989606	466989675	1.670000e-22	117.0
37	TraesCS3A01G030200	chr4D	86.047	215	25	3	2356	2570	350266381	350266590	2.650000e-55	226.0
38	TraesCS3A01G030200	chr5D	85.581	215	27	4	2356	2569	48051883	48051672	3.430000e-54	222.0
39	TraesCS3A01G030200	chr1A	100.000	61	0	0	2588	2648	5124165	5124105	2.150000e-21	113.0
40	TraesCS3A01G030200	chr6A	94.444	72	3	1	2578	2648	98608172	98608243	2.790000e-20	110.0
41	TraesCS3A01G030200	chrUn	92.405	79	1	4	2574	2648	7468236	7468313	1.000000e-19	108.0

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	TraesCS3A01G030200	chr3A	15837621	15840268	2647	False	4891.00	4891	100.0000	1	2648	1	chr3A.!!$F1	2647
1	TraesCS3A01G030200	chr3A	17333522	17335067	1545	False	1561.00	1561	85.2280	170	1693	1	chr3A.!!$F2	1523
2	TraesCS3A01G030200	chr3A	17376251	17377804	1553	True	1530.00	1530	84.7830	169	1699	1	chr3A.!!$R1	1530
3	TraesCS3A01G030200	chr3A	16011213	16012837	1624	False	1000.50	1879	88.5840	1	1698	2	chr3A.!!$F3	1697
4	TraesCS3A01G030200	chr3D	41593064	41594769	1705	True	2822.00	2822	96.6000	1	1698	1	chr3D.!!$R4	1697
5	TraesCS3A01G030200	chr3D	41423348	41425054	1706	True	2649.00	2649	94.7890	1	1696	1	chr3D.!!$R3	1695
6	TraesCS3A01G030200	chr3D	5372915	5374469	1554	True	1554.00	1554	85.0480	168	1699	1	chr3D.!!$R1	1531
7	TraesCS3A01G030200	chr3D	5406480	5408054	1574	True	1500.00	1500	84.2770	149	1698	1	chr3D.!!$R2	1549
8	TraesCS3A01G030200	chr3B	12839415	12841120	1705	True	2800.00	2800	96.3660	1	1698	1	chr3B.!!$R1	1697
9	TraesCS3A01G030200	chr3B	12474450	12476131	1681	False	2717.00	2717	95.7130	1	1698	1	chr3B.!!$F1	1697
10	TraesCS3A01G030200	chr3B	13248076	13249681	1605	False	954.45	1821	85.3115	1	1698	2	chr3B.!!$F4	1697
11	TraesCS3A01G030200	chr3B	12935415	12937029	1614	False	930.50	1740	88.0215	6	1698	2	chr3B.!!$F3	1692
12	TraesCS3A01G030200	chr7A	671506429	671507305	876	False	1291.00	1291	93.3410	1695	2569	1	chr7A.!!$F1	874
13	TraesCS3A01G030200	chr4A	546578009	546578879	870	True	1223.00	1223	92.0220	1695	2574	1	chr4A.!!$R1	879

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
440	468	2.125685	CGATGCTGCTGTAGATGTGAG	58.874	52.381	0.0	0.0	0.0	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2131	2212	0.452184	CGAGTACTGCACCGATGACT	59.548	55.0	0.0	0.0	0.0	3.41	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
85	90	7.884877	TGATTATATGGATGGATTCACCTCAAC	59.115	37.037	0.00	0.00	39.86	3.18
107	112	7.176515	TCAACTGATGTGCCTATATGTGTTTTT	59.823	33.333	0.00	0.00	0.00	1.94
282	299	2.270352	TGTCATTCCGGTCTTTGCTT	57.730	45.000	0.00	0.00	0.00	3.91
440	468	2.125685	CGATGCTGCTGTAGATGTGAG	58.874	52.381	0.00	0.00	0.00	3.51
496	533	2.418197	GGTGCTACCTGTTGCTTCGATA	60.418	50.000	5.40	0.00	34.73	2.92
529	566	3.374220	TTCCACGTTTCGATGTACTGT	57.626	42.857	0.00	0.00	0.00	3.55
658	701	8.629158	GGAAGGTTTACATGCACAATATGATTA	58.371	33.333	0.00	0.00	0.00	1.75
1024	1101	2.606213	TGCTCCGGGTGGTGATGA	60.606	61.111	0.00	0.00	36.30	2.92
1273	1350	1.229951	TCCATCCAGGGCCTTGTCT	60.230	57.895	14.60	0.00	38.24	3.41
1474	1551	2.325082	CGGGGAAGGTTTGTGCTCG	61.325	63.158	0.00	0.00	0.00	5.03
1624	1701	0.820226	CTTCACAGAGATCCGAGCCA	59.180	55.000	0.00	0.00	0.00	4.75
1681	1760	1.364626	GCCATGTCCTCTCAGCAACG	61.365	60.000	0.00	0.00	0.00	4.10
1755	1834	1.202336	GCTGCATAATTGTGCCTGACC	60.202	52.381	22.48	4.70	44.43	4.02
1773	1852	0.609131	CCGACCAAGCCAGTTTCCAT	60.609	55.000	0.00	0.00	0.00	3.41
1854	1934	7.172703	TGCATATATTGATTGTCTCTGCAGAAG	59.827	37.037	18.85	11.92	33.58	2.85
1916	1996	3.029074	GCAAACGCTCGTTGCAATATAG	58.971	45.455	0.59	1.68	43.06	1.31
2145	2226	0.244994	GACTGAGTCATCGGTGCAGT	59.755	55.000	7.90	7.08	45.36	4.40
2177	2258	1.064946	CTCTTCGGCACCTAGCTCG	59.935	63.158	0.00	0.00	44.79	5.03
2234	2315	3.118702	AGCCATCGATCCATCATCTGATC	60.119	47.826	0.00	0.00	35.19	2.92
2369	2460	5.597182	TCTGTACTGCGGGTTAATTAGAGAT	59.403	40.000	0.00	0.00	0.00	2.75
2374	2465	4.065088	TGCGGGTTAATTAGAGATGATGC	58.935	43.478	0.00	0.00	0.00	3.91
2386	2477	1.355381	AGATGATGCCAGGGTGTTTCA	59.645	47.619	0.00	0.00	0.00	2.69
2407	2498	2.872028	CAAAAGTGCAGGCAACGAC	58.128	52.632	0.00	0.00	46.39	4.34
2443	2535	0.038251	CTGCCACTTGTCGAGCTGTA	60.038	55.000	0.00	0.00	0.00	2.74
2468	2560	1.865865	CCGGGGACTAAATCATCACG	58.134	55.000	0.00	0.00	0.00	4.35
2470	2562	2.363038	CCGGGGACTAAATCATCACGTA	59.637	50.000	0.00	0.00	0.00	3.57
2471	2563	3.006537	CCGGGGACTAAATCATCACGTAT	59.993	47.826	0.00	0.00	0.00	3.06
2505	2597	4.020543	GGGTATGGTGGAGTTGCATTTTA	58.979	43.478	0.00	0.00	0.00	1.52
2515	2607	6.533367	GTGGAGTTGCATTTTACAAGTTTGAA	59.467	34.615	0.00	0.00	30.90	2.69
2564	2656	2.704464	GGTACCTCGGGTGCTTTTAT	57.296	50.000	4.06	0.00	38.37	1.40
2570	2662	2.939103	CCTCGGGTGCTTTTATCTCTTG	59.061	50.000	0.00	0.00	0.00	3.02
2574	2666	3.615155	GGGTGCTTTTATCTCTTGCTCT	58.385	45.455	0.00	0.00	0.00	4.09
2575	2667	4.680708	CGGGTGCTTTTATCTCTTGCTCTA	60.681	45.833	0.00	0.00	0.00	2.43
2576	2668	5.372373	GGGTGCTTTTATCTCTTGCTCTAT	58.628	41.667	0.00	0.00	0.00	1.98
2577	2669	5.825151	GGGTGCTTTTATCTCTTGCTCTATT	59.175	40.000	0.00	0.00	0.00	1.73
2578	2670	6.319911	GGGTGCTTTTATCTCTTGCTCTATTT	59.680	38.462	0.00	0.00	0.00	1.40
2579	2671	7.148000	GGGTGCTTTTATCTCTTGCTCTATTTT	60.148	37.037	0.00	0.00	0.00	1.82
2580	2672	8.246871	GGTGCTTTTATCTCTTGCTCTATTTTT	58.753	33.333	0.00	0.00	0.00	1.94
2603	2695	8.804912	TTTTTAGTACTAACACTGGTGGAAAA	57.195	30.769	14.96	6.32	34.19	2.29
2604	2696	8.804912	TTTTAGTACTAACACTGGTGGAAAAA	57.195	30.769	14.96	1.48	34.19	1.94
2605	2697	8.441312	TTTAGTACTAACACTGGTGGAAAAAG	57.559	34.615	14.96	0.00	34.19	2.27
2606	2698	5.374071	AGTACTAACACTGGTGGAAAAAGG	58.626	41.667	0.00	0.00	34.19	3.11
2607	2699	3.562182	ACTAACACTGGTGGAAAAAGGG	58.438	45.455	5.70	0.00	34.19	3.95
2608	2700	1.119684	AACACTGGTGGAAAAAGGGC	58.880	50.000	5.70	0.00	34.19	5.19
2609	2701	0.759060	ACACTGGTGGAAAAAGGGCC	60.759	55.000	0.00	0.00	34.19	5.80
2610	2702	0.469892	CACTGGTGGAAAAAGGGCCT	60.470	55.000	0.00	0.00	0.00	5.19
2611	2703	0.264657	ACTGGTGGAAAAAGGGCCTT	59.735	50.000	14.48	14.48	0.00	4.35
2612	2704	1.343985	ACTGGTGGAAAAAGGGCCTTT	60.344	47.619	25.68	25.68	34.94	3.11
2613	2705	1.070601	CTGGTGGAAAAAGGGCCTTTG	59.929	52.381	31.06	12.80	33.64	2.77
2614	2706	0.396435	GGTGGAAAAAGGGCCTTTGG	59.604	55.000	31.06	0.00	33.64	3.28
2615	2707	1.128200	GTGGAAAAAGGGCCTTTGGT	58.872	50.000	31.06	21.81	33.64	3.67
2616	2708	1.070134	GTGGAAAAAGGGCCTTTGGTC	59.930	52.381	31.06	27.31	33.64	4.02
2617	2709	0.317160	GGAAAAAGGGCCTTTGGTCG	59.683	55.000	31.06	0.00	33.64	4.79
2618	2710	0.319555	GAAAAAGGGCCTTTGGTCGC	60.320	55.000	31.06	14.98	33.64	5.19
2619	2711	2.082629	AAAAAGGGCCTTTGGTCGCG	62.083	55.000	31.06	0.00	33.64	5.87
2623	2715	3.733960	GGCCTTTGGTCGCGGTTC	61.734	66.667	6.13	0.00	0.00	3.62
2624	2716	4.084888	GCCTTTGGTCGCGGTTCG	62.085	66.667	6.13	0.00	40.15	3.95
2635	2727	2.953821	CGGTTCGCAACTGCCATT	59.046	55.556	0.00	0.00	37.91	3.16
2636	2728	2.167161	CGGTTCGCAACTGCCATTA	58.833	52.632	0.00	0.00	37.91	1.90
2637	2729	0.096976	CGGTTCGCAACTGCCATTAG	59.903	55.000	0.00	0.00	37.91	1.73
2638	2730	1.165270	GGTTCGCAACTGCCATTAGT	58.835	50.000	0.00	0.00	37.91	2.24
2639	2731	1.130561	GGTTCGCAACTGCCATTAGTC	59.869	52.381	0.00	0.00	37.91	2.59
2640	2732	1.075542	TTCGCAACTGCCATTAGTCG	58.924	50.000	0.00	0.00	37.91	4.18
2641	2733	1.060937	CGCAACTGCCATTAGTCGC	59.939	57.895	0.00	0.00	37.91	5.19
2642	2734	1.060937	GCAACTGCCATTAGTCGCG	59.939	57.895	0.00	0.00	34.31	5.87
2643	2735	1.715585	CAACTGCCATTAGTCGCGG	59.284	57.895	6.13	0.00	37.39	6.46
2644	2736	1.019278	CAACTGCCATTAGTCGCGGT	61.019	55.000	6.13	0.00	46.47	5.68
2645	2737	1.295423	ACTGCCATTAGTCGCGGTT	59.705	52.632	6.13	0.00	41.86	4.44
2646	2738	1.019278	ACTGCCATTAGTCGCGGTTG	61.019	55.000	6.13	0.00	41.86	3.77
2647	2739	2.309764	CTGCCATTAGTCGCGGTTGC	62.310	60.000	6.13	0.28	37.91	4.17

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
57	58	8.270030	TGAGGTGAATCCATCCATATAATCATC	58.730	37.037	0.00	0.00	39.02	2.92
85	90	7.417612	GGTAAAAACACATATAGGCACATCAG	58.582	38.462	0.00	0.00	0.00	2.90
107	112	5.750352	AGAAATTCCTACAGTTTCGGGTA	57.250	39.130	0.00	0.00	37.04	3.69
214	231	1.403647	CGGGCTGACACTTTCGACATA	60.404	52.381	0.00	0.00	0.00	2.29
282	299	1.271325	ACCATGTCGCTGGTCAATTGA	60.271	47.619	3.38	3.38	46.79	2.57
440	468	2.051345	CGTCAAAACCGTGGCTGC	60.051	61.111	0.00	0.00	0.00	5.25
496	533	1.673920	ACGTGGAAAGCACAACGATTT	59.326	42.857	11.29	0.00	0.00	2.17
529	566	2.603021	GTGATCCAGAGGGCTGATCTA	58.397	52.381	0.00	0.00	45.17	1.98
658	701	3.802948	AATCGATTCCAGCGTTAGACT	57.197	42.857	4.39	0.00	0.00	3.24
1273	1350	8.628630	TCATTGTAGTATGGTTTGTCATTGAA	57.371	30.769	0.00	0.00	0.00	2.69
1624	1701	0.834687	TGGTACTCTTCGCACCCCTT	60.835	55.000	0.00	0.00	0.00	3.95
1701	1780	6.368791	GGAACAAATAATGAAAAGAGCCAACC	59.631	38.462	0.00	0.00	0.00	3.77
1755	1834	0.804989	GATGGAAACTGGCTTGGTCG	59.195	55.000	0.00	0.00	0.00	4.79
1773	1852	1.800805	GCTTAGCAGCTTGTGTGAGA	58.199	50.000	0.00	0.00	43.51	3.27
1808	1887	3.492313	CAGAAATTGCTCGCCTTTACAC	58.508	45.455	0.00	0.00	0.00	2.90
2131	2212	0.452184	CGAGTACTGCACCGATGACT	59.548	55.000	0.00	0.00	0.00	3.41
2145	2226	1.738350	CGAAGAGAGTTGGCTCGAGTA	59.262	52.381	15.13	0.37	46.03	2.59
2177	2258	7.173390	CCTTATTATTTAAGGAGCTACACAGGC	59.827	40.741	0.00	0.00	45.24	4.85
2234	2315	1.975660	TTTTGAGTCTGTTTCCGGGG	58.024	50.000	0.00	0.00	0.00	5.73
2308	2390	2.526888	TCCACGACCAGGAGAAGTAT	57.473	50.000	0.00	0.00	0.00	2.12
2310	2392	1.645710	ATTCCACGACCAGGAGAAGT	58.354	50.000	0.00	0.00	36.33	3.01
2369	2460	1.548081	CATGAAACACCCTGGCATCA	58.452	50.000	0.00	0.00	0.00	3.07
2374	2465	2.102925	ACTTTTGCATGAAACACCCTGG	59.897	45.455	0.00	0.00	0.00	4.45
2398	2489	4.003788	CTGGACCGGTCGTTGCCT	62.004	66.667	27.68	0.00	0.00	4.75
2418	2510	2.693762	CGACAAGTGGCAGCCATGG	61.694	63.158	19.75	12.75	35.28	3.66
2443	2535	2.414612	TGATTTAGTCCCCGGCCTATT	58.585	47.619	0.00	0.00	0.00	1.73
2468	2560	5.009610	CACCATACCCCAACTTGCATTATAC	59.990	44.000	0.00	0.00	0.00	1.47
2470	2562	3.960102	CACCATACCCCAACTTGCATTAT	59.040	43.478	0.00	0.00	0.00	1.28
2471	2563	3.360867	CACCATACCCCAACTTGCATTA	58.639	45.455	0.00	0.00	0.00	1.90
2505	2597	9.651913	AATGTGATGTTTTAGTTTCAAACTTGT	57.348	25.926	8.41	0.00	42.81	3.16
2515	2607	9.120538	ACTTGTGTAGAATGTGATGTTTTAGTT	57.879	29.630	0.00	0.00	0.00	2.24
2578	2670	8.804912	TTTTCCACCAGTGTTAGTACTAAAAA	57.195	30.769	16.82	7.85	0.00	1.94
2579	2671	8.804912	TTTTTCCACCAGTGTTAGTACTAAAA	57.195	30.769	16.82	9.24	0.00	1.52
2580	2672	7.499895	CCTTTTTCCACCAGTGTTAGTACTAAA	59.500	37.037	16.82	5.34	0.00	1.85
2581	2673	6.993902	CCTTTTTCCACCAGTGTTAGTACTAA	59.006	38.462	11.38	11.38	0.00	2.24
2582	2674	6.464749	CCCTTTTTCCACCAGTGTTAGTACTA	60.465	42.308	0.00	0.00	0.00	1.82
2583	2675	5.374071	CCTTTTTCCACCAGTGTTAGTACT	58.626	41.667	0.00	0.00	0.00	2.73
2584	2676	4.517832	CCCTTTTTCCACCAGTGTTAGTAC	59.482	45.833	0.00	0.00	0.00	2.73
2585	2677	4.721132	CCCTTTTTCCACCAGTGTTAGTA	58.279	43.478	0.00	0.00	0.00	1.82
2586	2678	3.562182	CCCTTTTTCCACCAGTGTTAGT	58.438	45.455	0.00	0.00	0.00	2.24
2587	2679	2.296190	GCCCTTTTTCCACCAGTGTTAG	59.704	50.000	0.00	0.00	0.00	2.34
2588	2680	2.312390	GCCCTTTTTCCACCAGTGTTA	58.688	47.619	0.00	0.00	0.00	2.41
2589	2681	1.119684	GCCCTTTTTCCACCAGTGTT	58.880	50.000	0.00	0.00	0.00	3.32
2590	2682	0.759060	GGCCCTTTTTCCACCAGTGT	60.759	55.000	0.00	0.00	0.00	3.55
2591	2683	0.469892	AGGCCCTTTTTCCACCAGTG	60.470	55.000	0.00	0.00	0.00	3.66
2592	2684	0.264657	AAGGCCCTTTTTCCACCAGT	59.735	50.000	0.00	0.00	0.00	4.00
2593	2685	1.070601	CAAAGGCCCTTTTTCCACCAG	59.929	52.381	5.84	0.00	30.60	4.00
2594	2686	1.127343	CAAAGGCCCTTTTTCCACCA	58.873	50.000	5.84	0.00	30.60	4.17
2595	2687	0.396435	CCAAAGGCCCTTTTTCCACC	59.604	55.000	5.84	0.00	30.60	4.61
2596	2688	1.070134	GACCAAAGGCCCTTTTTCCAC	59.930	52.381	5.84	0.00	30.60	4.02
2597	2689	1.419381	GACCAAAGGCCCTTTTTCCA	58.581	50.000	5.84	0.00	30.60	3.53
2598	2690	0.317160	CGACCAAAGGCCCTTTTTCC	59.683	55.000	5.84	0.00	30.60	3.13
2599	2691	0.319555	GCGACCAAAGGCCCTTTTTC	60.320	55.000	5.84	5.31	30.60	2.29
2600	2692	1.745890	GCGACCAAAGGCCCTTTTT	59.254	52.632	5.84	0.00	30.60	1.94
2601	2693	2.561037	CGCGACCAAAGGCCCTTTT	61.561	57.895	5.84	0.00	30.60	2.27
2602	2694	2.983592	CGCGACCAAAGGCCCTTT	60.984	61.111	1.93	1.93	33.58	3.11
2606	2698	3.733960	GAACCGCGACCAAAGGCC	61.734	66.667	8.23	0.00	0.00	5.19
2607	2699	4.084888	CGAACCGCGACCAAAGGC	62.085	66.667	8.23	0.00	44.57	4.35
2608	2700	4.084888	GCGAACCGCGACCAAAGG	62.085	66.667	8.23	0.00	44.55	3.11
2618	2710	0.096976	CTAATGGCAGTTGCGAACCG	59.903	55.000	0.00	0.00	43.26	4.44
2619	2711	1.130561	GACTAATGGCAGTTGCGAACC	59.869	52.381	0.00	0.00	43.26	3.62
2620	2712	1.201921	CGACTAATGGCAGTTGCGAAC	60.202	52.381	0.00	0.00	43.26	3.95
2621	2713	1.075542	CGACTAATGGCAGTTGCGAA	58.924	50.000	0.00	0.00	43.26	4.70
2622	2714	1.358725	GCGACTAATGGCAGTTGCGA	61.359	55.000	14.22	0.00	44.02	5.10
2623	2715	1.060937	GCGACTAATGGCAGTTGCG	59.939	57.895	0.00	0.70	44.02	4.85
2625	2717	1.019278	ACCGCGACTAATGGCAGTTG	61.019	55.000	8.23	0.00	33.66	3.16
2626	2718	0.321298	AACCGCGACTAATGGCAGTT	60.321	50.000	8.23	0.00	0.00	3.16
2627	2719	1.019278	CAACCGCGACTAATGGCAGT	61.019	55.000	8.23	0.00	0.00	4.40
2628	2720	1.715585	CAACCGCGACTAATGGCAG	59.284	57.895	8.23	0.00	0.00	4.85
2629	2721	2.395360	GCAACCGCGACTAATGGCA	61.395	57.895	8.23	0.00	0.00	4.92
2630	2722	2.403586	GCAACCGCGACTAATGGC	59.596	61.111	8.23	0.00	0.00	4.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.