AutoCloner

Multiple sequence alignment - TraesCS7D01G070800

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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	TraesCS7D01G070800	chr7D	100.000	3388	0	0	1	3388	41602955	41599568	0.000000e+00	6257.0
1	TraesCS7D01G070800	chr7A	93.599	1406	72	8	1012	2408	41048869	41047473	0.000000e+00	2082.0
2	TraesCS7D01G070800	chr7A	92.743	937	50	11	2457	3388	41047467	41046544	0.000000e+00	1338.0
3	TraesCS7D01G070800	chr7A	87.013	385	18	13	722	1106	41049475	41049123	4.070000e-109	405.0
4	TraesCS7D01G070800	chr4A	93.985	1330	67	5	1085	2408	661280758	661279436	0.000000e+00	2001.0
5	TraesCS7D01G070800	chr4A	92.426	1360	68	12	1071	2408	648795345	648793999	0.000000e+00	1908.0
6	TraesCS7D01G070800	chr4A	92.956	937	51	9	2457	3388	661279430	661278504	0.000000e+00	1351.0
7	TraesCS7D01G070800	chr4A	92.605	933	60	5	2457	3388	648793993	648793069	0.000000e+00	1332.0
8	TraesCS7D01G070800	chr4A	77.282	493	87	16	1857	2326	80405	79915	2.000000e-67	267.0
9	TraesCS7D01G070800	chr4A	90.909	77	7	0	723	799	648795686	648795610	1.660000e-18	104.0
10	TraesCS7D01G070800	chr4A	84.946	93	11	2	991	1080	661281320	661281228	1.290000e-14	91.6
11	TraesCS7D01G070800	chr4A	94.737	57	3	0	785	841	648795591	648795535	4.660000e-14	89.8
12	TraesCS7D01G070800	chr4A	94.737	57	3	0	785	841	661281463	661281407	4.660000e-14	89.8
13	TraesCS7D01G070800	chr4A	96.226	53	2	0	992	1044	648795449	648795397	1.670000e-13	87.9
14	TraesCS7D01G070800	chr5D	98.343	724	12	0	1	724	56056435	56055712	0.000000e+00	1271.0
15	TraesCS7D01G070800	chr5D	98.058	721	14	0	1	721	37358647	37359367	0.000000e+00	1254.0
16	TraesCS7D01G070800	chr5D	97.790	724	14	2	1	724	508569239	508568518	0.000000e+00	1247.0
17	TraesCS7D01G070800	chr2D	98.066	724	13	1	1	724	82907554	82906832	0.000000e+00	1258.0
18	TraesCS7D01G070800	chr2D	97.394	729	19	0	1	729	87448272	87447544	0.000000e+00	1242.0
19	TraesCS7D01G070800	chr2D	98.571	700	10	0	1	700	15332719	15332020	0.000000e+00	1238.0
20	TraesCS7D01G070800	chr2D	97.099	724	21	0	1	724	21620354	21619631	0.000000e+00	1221.0
21	TraesCS7D01G070800	chr4D	97.678	732	12	2	1	727	98939886	98939155	0.000000e+00	1253.0
22	TraesCS7D01G070800	chr6D	96.841	728	22	1	1	728	472795460	472794734	0.000000e+00	1216.0
23	TraesCS7D01G070800	chr6D	74.853	851	178	23	1522	2350	472766653	472765817	1.500000e-93	353.0
24	TraesCS7D01G070800	chr6D	78.337	457	73	12	1897	2347	2046849	2046413	4.310000e-69	272.0
25	TraesCS7D01G070800	chr6D	81.752	137	18	3	2597	2733	472763537	472763408	1.290000e-19	108.0
26	TraesCS7D01G070800	chr1D	81.425	1249	203	19	1116	2347	26270194	26268958	0.000000e+00	994.0
27	TraesCS7D01G070800	chr1D	83.045	578	59	14	2597	3162	26268812	26268262	3.930000e-134	488.0
28	TraesCS7D01G070800	chr1B	81.205	1245	195	19	1116	2344	41840576	41841797	0.000000e+00	966.0
29	TraesCS7D01G070800	chr1B	82.100	581	65	14	2597	3162	41841947	41842503	8.570000e-126	460.0
30	TraesCS7D01G070800	chr1A	80.994	463	60	11	2597	3048	27329618	27330063	3.240000e-90	342.0
31	TraesCS7D01G070800	chr1A	85.714	112	8	5	3052	3162	27330306	27330410	9.940000e-21	111.0
32	TraesCS7D01G070800	chr6B	74.337	830	159	35	1526	2325	4487473	4486668	1.530000e-78	303.0
33	TraesCS7D01G070800	chr6B	77.137	503	91	12	1526	2010	717906076	717905580	1.550000e-68	270.0
34	TraesCS7D01G070800	chr6B	78.354	328	51	10	2839	3162	4485736	4485425	9.590000e-46	195.0
35	TraesCS7D01G070800	chr3D	84.375	320	37	9	2597	2914	138901717	138901409	5.490000e-78	302.0
36	TraesCS7D01G070800	chr3D	83.630	281	46	0	1141	1421	520595042	520595322	7.210000e-67	265.0
37	TraesCS7D01G070800	chr3D	73.826	745	161	26	1524	2242	569119169	569118433	7.210000e-67	265.0
38	TraesCS7D01G070800	chr3D	82.222	315	40	9	1116	1419	569132398	569132707	1.210000e-64	257.0
39	TraesCS7D01G070800	chr3D	80.537	298	48	10	1132	1421	565641937	565642232	1.580000e-53	220.0
40	TraesCS7D01G070800	chr3D	79.193	322	55	8	2597	2916	567930744	567931055	2.650000e-51	213.0
41	TraesCS7D01G070800	chr3D	73.438	512	119	13	1738	2242	579399169	579399670	3.470000e-40	176.0
42	TraesCS7D01G070800	chr3D	81.061	132	17	7	3024	3152	567518295	567518421	7.740000e-17	99.0
43	TraesCS7D01G070800	chr3D	93.182	44	3	0	1470	1513	565088309	565088352	7.850000e-07	65.8
44	TraesCS7D01G070800	chr3D	90.909	44	4	0	1470	1513	564151211	564151254	3.650000e-05	60.2
45	TraesCS7D01G070800	chr3A	84.062	320	39	9	2597	2914	157039956	157039647	7.110000e-77	298.0
46	TraesCS7D01G070800	chr3A	81.646	316	45	11	1117	1421	702407884	702407571	2.020000e-62	250.0
47	TraesCS7D01G070800	chr3A	81.379	290	52	2	1132	1420	700739300	700739588	5.650000e-58	235.0
48	TraesCS7D01G070800	chr3A	75.397	504	104	15	1741	2237	700739921	700740411	3.400000e-55	226.0
49	TraesCS7D01G070800	chr3A	77.717	184	31	9	1470	1648	699533663	699533841	1.660000e-18	104.0
50	TraesCS7D01G070800	chr3A	79.433	141	21	7	3025	3162	701644744	701644879	3.600000e-15	93.5
51	TraesCS7D01G070800	chr3A	94.286	35	2	0	1479	1513	698739993	698740027	2.000000e-03	54.7
52	TraesCS7D01G070800	chrUn	74.631	745	149	30	1524	2242	287633682	287634412	3.310000e-75	292.0
53	TraesCS7D01G070800	chr3B	83.974	312	39	7	2605	2914	201998556	201998254	4.280000e-74	289.0
54	TraesCS7D01G070800	chr3B	80.447	179	32	3	2069	2246	773882183	773882007	2.120000e-27	134.0
55	TraesCS7D01G070800	chr3B	94.286	35	2	0	1479	1513	751943144	751943178	2.000000e-03	54.7
56	TraesCS7D01G070800	chr4B	77.485	493	86	16	1857	2326	121722	121232	4.310000e-69	272.0
57	TraesCS7D01G070800	chr6A	79.670	364	55	11	1855	2217	617040201	617040546	9.390000e-61	244.0

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	TraesCS7D01G070800	chr7D	41599568	41602955	3387	True	6257.00	6257	100.000000	1	3388	1	chr7D.!!$R1	3387
1	TraesCS7D01G070800	chr7A	41046544	41049475	2931	True	1275.00	2082	91.118333	722	3388	3	chr7A.!!$R1	2666
2	TraesCS7D01G070800	chr4A	661278504	661281463	2959	True	883.35	2001	91.656000	785	3388	4	chr4A.!!$R3	2603
3	TraesCS7D01G070800	chr4A	648793069	648795686	2617	True	704.34	1908	93.380600	723	3388	5	chr4A.!!$R2	2665
4	TraesCS7D01G070800	chr5D	56055712	56056435	723	True	1271.00	1271	98.343000	1	724	1	chr5D.!!$R1	723
5	TraesCS7D01G070800	chr5D	37358647	37359367	720	False	1254.00	1254	98.058000	1	721	1	chr5D.!!$F1	720
6	TraesCS7D01G070800	chr5D	508568518	508569239	721	True	1247.00	1247	97.790000	1	724	1	chr5D.!!$R2	723
7	TraesCS7D01G070800	chr2D	82906832	82907554	722	True	1258.00	1258	98.066000	1	724	1	chr2D.!!$R3	723
8	TraesCS7D01G070800	chr2D	87447544	87448272	728	True	1242.00	1242	97.394000	1	729	1	chr2D.!!$R4	728
9	TraesCS7D01G070800	chr2D	15332020	15332719	699	True	1238.00	1238	98.571000	1	700	1	chr2D.!!$R1	699
10	TraesCS7D01G070800	chr2D	21619631	21620354	723	True	1221.00	1221	97.099000	1	724	1	chr2D.!!$R2	723
11	TraesCS7D01G070800	chr4D	98939155	98939886	731	True	1253.00	1253	97.678000	1	727	1	chr4D.!!$R1	726
12	TraesCS7D01G070800	chr6D	472794734	472795460	726	True	1216.00	1216	96.841000	1	728	1	chr6D.!!$R2	727
13	TraesCS7D01G070800	chr6D	472763408	472766653	3245	True	230.50	353	78.302500	1522	2733	2	chr6D.!!$R3	1211
14	TraesCS7D01G070800	chr1D	26268262	26270194	1932	True	741.00	994	82.235000	1116	3162	2	chr1D.!!$R1	2046
15	TraesCS7D01G070800	chr1B	41840576	41842503	1927	False	713.00	966	81.652500	1116	3162	2	chr1B.!!$F1	2046
16	TraesCS7D01G070800	chr1A	27329618	27330410	792	False	226.50	342	83.354000	2597	3162	2	chr1A.!!$F1	565
17	TraesCS7D01G070800	chr6B	4485425	4487473	2048	True	249.00	303	76.345500	1526	3162	2	chr6B.!!$R2	1636
18	TraesCS7D01G070800	chr3D	569118433	569119169	736	True	265.00	265	73.826000	1524	2242	1	chr3D.!!$R2	718
19	TraesCS7D01G070800	chr3A	700739300	700740411	1111	False	230.50	235	78.388000	1132	2237	2	chr3A.!!$F4	1105
20	TraesCS7D01G070800	chrUn	287633682	287634412	730	False	292.00	292	74.631000	1524	2242	1	chrUn.!!$F1	718

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
855	894	0.666577	AGAAACCAGAGTACGCGCAC	60.667	55.0	5.73	2.54	0.0	5.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2794	5837	0.391661	GAGCTGAGCCGGACAATGAA	60.392	55.0	5.05	0.0	0.0	2.57	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
332	338	0.838554	TGGGTGGTCGGGAGAAATCA	60.839	55.000	0.00	0.00	42.89	2.57
513	519	0.955905	GGTGTTGTTTGGTATGCGGT	59.044	50.000	0.00	0.00	0.00	5.68
855	894	0.666577	AGAAACCAGAGTACGCGCAC	60.667	55.000	5.73	2.54	0.00	5.34
901	940	1.269831	ACTGGTTGTCGTTGAGAGAGC	60.270	52.381	0.00	0.00	0.00	4.09
909	948	6.535508	GGTTGTCGTTGAGAGAGCTTATTATT	59.464	38.462	0.00	0.00	0.00	1.40
912	951	9.817809	TTGTCGTTGAGAGAGCTTATTATTATT	57.182	29.630	0.00	0.00	0.00	1.40
986	1025	4.087182	AGAAATACCGTTGAGAGAGGTGA	58.913	43.478	0.00	0.00	38.90	4.02
987	1026	3.870633	AATACCGTTGAGAGAGGTGAC	57.129	47.619	0.00	0.00	38.90	3.67
1081	1120	1.813513	CTACAAGCCCACAACTCCAG	58.186	55.000	0.00	0.00	0.00	3.86
1152	2005	1.077357	GGAGCGACTCCTCTCCTCA	60.077	63.158	15.90	0.00	46.41	3.86
1373	2226	1.154016	CGTCACGCTCTTCGACCAT	60.154	57.895	0.00	0.00	41.67	3.55
1475	2337	4.459390	GAGTTTCACTCCCCTCTTCTAC	57.541	50.000	0.00	0.00	39.28	2.59
1484	2346	1.686110	CCTCTTCTACCCGGTGGCT	60.686	63.158	0.00	0.00	33.59	4.75
1757	2661	0.606604	TTCTGTTCCGTGGTAGCCTC	59.393	55.000	0.00	0.00	0.00	4.70
2048	2958	3.763897	AGGAAGTGATGGTTGTTAATGGC	59.236	43.478	0.00	0.00	0.00	4.40
2247	3163	1.200020	CGCCTTTCATTTGACCAGACC	59.800	52.381	0.00	0.00	0.00	3.85
2335	3272	4.630069	GTCCACATGACCTGTTGTATGTAC	59.370	45.833	0.00	0.00	38.09	2.90
2344	3281	6.268158	TGACCTGTTGTATGTACCAACTAGAA	59.732	38.462	12.68	0.00	0.00	2.10
2408	5082	6.981762	AAAGTATGATCAAGAAGCTGTGAG	57.018	37.500	0.00	0.00	0.00	3.51
2410	5084	5.417811	AGTATGATCAAGAAGCTGTGAGTG	58.582	41.667	0.00	0.00	0.00	3.51
2412	5086	3.396560	TGATCAAGAAGCTGTGAGTGTG	58.603	45.455	0.00	0.00	0.00	3.82
2413	5087	2.245159	TCAAGAAGCTGTGAGTGTGG	57.755	50.000	0.00	0.00	0.00	4.17
2414	5088	1.762370	TCAAGAAGCTGTGAGTGTGGA	59.238	47.619	0.00	0.00	0.00	4.02
2415	5089	2.369860	TCAAGAAGCTGTGAGTGTGGAT	59.630	45.455	0.00	0.00	0.00	3.41
2416	5090	3.144506	CAAGAAGCTGTGAGTGTGGATT	58.855	45.455	0.00	0.00	0.00	3.01
2417	5091	3.498774	AGAAGCTGTGAGTGTGGATTT	57.501	42.857	0.00	0.00	0.00	2.17
2418	5092	3.825328	AGAAGCTGTGAGTGTGGATTTT	58.175	40.909	0.00	0.00	0.00	1.82
2419	5093	3.817647	AGAAGCTGTGAGTGTGGATTTTC	59.182	43.478	0.00	0.00	0.00	2.29
2420	5094	3.213206	AGCTGTGAGTGTGGATTTTCA	57.787	42.857	0.00	0.00	0.00	2.69
2421	5095	3.759581	AGCTGTGAGTGTGGATTTTCAT	58.240	40.909	0.00	0.00	0.00	2.57
2422	5096	4.910195	AGCTGTGAGTGTGGATTTTCATA	58.090	39.130	0.00	0.00	0.00	2.15
2423	5097	4.697352	AGCTGTGAGTGTGGATTTTCATAC	59.303	41.667	0.00	0.00	0.00	2.39
2424	5098	4.697352	GCTGTGAGTGTGGATTTTCATACT	59.303	41.667	0.00	0.00	40.87	2.12
2425	5099	5.182001	GCTGTGAGTGTGGATTTTCATACTT	59.818	40.000	0.00	0.00	38.82	2.24
2426	5100	6.294176	GCTGTGAGTGTGGATTTTCATACTTT	60.294	38.462	0.00	0.00	38.82	2.66
2427	5101	6.969366	TGTGAGTGTGGATTTTCATACTTTG	58.031	36.000	0.00	0.00	38.82	2.77
2428	5102	6.545666	TGTGAGTGTGGATTTTCATACTTTGT	59.454	34.615	0.00	0.00	38.82	2.83
2429	5103	7.068103	TGTGAGTGTGGATTTTCATACTTTGTT	59.932	33.333	0.00	0.00	38.82	2.83
2430	5104	7.379529	GTGAGTGTGGATTTTCATACTTTGTTG	59.620	37.037	0.00	0.00	38.82	3.33
2431	5105	7.284261	TGAGTGTGGATTTTCATACTTTGTTGA	59.716	33.333	0.00	0.00	38.82	3.18
2432	5106	8.181904	AGTGTGGATTTTCATACTTTGTTGAT	57.818	30.769	0.00	0.00	35.98	2.57
2433	5107	8.299570	AGTGTGGATTTTCATACTTTGTTGATC	58.700	33.333	0.00	0.00	35.98	2.92
2434	5108	8.081633	GTGTGGATTTTCATACTTTGTTGATCA	58.918	33.333	0.00	0.00	0.00	2.92
2435	5109	8.637099	TGTGGATTTTCATACTTTGTTGATCAA	58.363	29.630	3.38	3.38	0.00	2.57
2436	5110	9.474920	GTGGATTTTCATACTTTGTTGATCAAA	57.525	29.630	10.35	0.00	42.79	2.69
2455	5129	8.623903	TGATCAAAAAGTATGATATTGAGTGCC	58.376	33.333	0.00	0.00	37.64	5.01
2565	5298	5.653507	TGAAATGTTTGCCTATTGATCTGC	58.346	37.500	0.00	0.00	0.00	4.26
2582	5315	4.002906	TCTGCCTCGTGTCTATGTTTTT	57.997	40.909	0.00	0.00	0.00	1.94
2755	5798	7.550551	TCTGGTGTTTGATCTTAAGATAAGCTG	59.449	37.037	17.94	13.29	34.37	4.24
2852	6027	3.423539	TTGATTCTGTAAGTGCCAGCT	57.576	42.857	0.00	0.00	33.76	4.24
2853	6028	2.703416	TGATTCTGTAAGTGCCAGCTG	58.297	47.619	6.78	6.78	33.76	4.24
2909	6085	1.988846	GAATTAGGCCCCCTATGAGCT	59.011	52.381	0.00	0.00	35.87	4.09
2919	6104	1.747355	CCCTATGAGCTGGCTTGTTTG	59.253	52.381	0.00	0.00	0.00	2.93
2954	6141	6.112058	AGACAAGTTATGATCAAGAAGCTCC	58.888	40.000	0.00	0.00	0.00	4.70
2968	6155	3.056313	GCTCCGGCTGTTTCATGGC	62.056	63.158	0.00	0.00	35.22	4.40
2997	6194	7.375053	GTGAAATTCATACTTACTTTTGGGCA	58.625	34.615	0.00	0.00	0.00	5.36
3052	6249	0.179134	TTGTTTTGGTCGGCGTTTGG	60.179	50.000	6.85	0.00	0.00	3.28
3079	6515	0.179062	GCCTGTCGATCTGCCTCATT	60.179	55.000	0.00	0.00	0.00	2.57
3162	6602	7.452880	TTCTTAAAGATCATCCAGTGGTTTG	57.547	36.000	9.54	8.70	0.00	2.93
3213	6654	4.451629	TCTCAGTACGAATTCTGGGAAC	57.548	45.455	3.52	0.00	38.10	3.62

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
513	519	1.379977	CTCCTAGCACTCCGGACCA	60.380	63.158	0.00	0.00	0.00	4.02
735	741	7.339953	CGTATCCAGTAATTAACGTAAAAGGC	58.660	38.462	0.00	0.00	0.00	4.35
736	742	7.339953	GCGTATCCAGTAATTAACGTAAAAGG	58.660	38.462	6.90	0.00	33.16	3.11
737	743	7.339953	GGCGTATCCAGTAATTAACGTAAAAG	58.660	38.462	6.90	0.00	33.16	2.27
744	750	4.362279	TGACGGCGTATCCAGTAATTAAC	58.638	43.478	14.74	0.00	34.01	2.01
855	894	6.896088	CAGTTCTCGCAGAAAACAAAATTTTG	59.104	34.615	25.73	25.73	38.82	2.44
869	908	1.143305	CAACCAGTCAGTTCTCGCAG	58.857	55.000	0.00	0.00	0.00	5.18
960	999	4.865365	CCTCTCTCAACGGTATTTCTCAAC	59.135	45.833	0.00	0.00	0.00	3.18
986	1025	2.356667	GGCTGGGCTTGGCTTAGT	59.643	61.111	0.00	0.00	0.00	2.24
987	1026	2.440980	GGGCTGGGCTTGGCTTAG	60.441	66.667	4.29	0.00	0.00	2.18
988	1027	4.424711	CGGGCTGGGCTTGGCTTA	62.425	66.667	4.29	0.00	0.00	3.09
1063	1102	1.347707	CTCTGGAGTTGTGGGCTTGTA	59.652	52.381	0.00	0.00	0.00	2.41
1081	1120	0.177604	CCAGATCTGTGCCAGGACTC	59.822	60.000	21.11	0.00	31.51	3.36
1424	2280	2.269241	CCTTCCAAGGGAGCCGTC	59.731	66.667	0.00	0.00	42.66	4.79
1757	2661	3.301554	TTGCCGGTGTGCCAATGG	61.302	61.111	1.90	0.00	34.09	3.16
1838	2742	0.945813	GTCGTCCATAGTCCTCCTCG	59.054	60.000	0.00	0.00	0.00	4.63
1839	2743	1.950909	CAGTCGTCCATAGTCCTCCTC	59.049	57.143	0.00	0.00	0.00	3.71
1840	2744	1.285373	ACAGTCGTCCATAGTCCTCCT	59.715	52.381	0.00	0.00	0.00	3.69
1841	2745	1.765230	ACAGTCGTCCATAGTCCTCC	58.235	55.000	0.00	0.00	0.00	4.30
1892	2799	6.877611	ACGGTTGTCTTTTCATCATTAAGT	57.122	33.333	0.00	0.00	0.00	2.24
2247	3163	4.394920	ACCCTAAGCGTTGACAACATAATG	59.605	41.667	18.09	2.76	0.00	1.90
2335	3272	7.283329	AGAAGCCTTATAATGGTTCTAGTTGG	58.717	38.462	24.69	4.52	0.00	3.77
2344	3281	8.306761	CAAAGAACAAAGAAGCCTTATAATGGT	58.693	33.333	0.00	0.00	31.15	3.55
2352	3289	5.659440	TCAACAAAGAACAAAGAAGCCTT	57.341	34.783	0.00	0.00	0.00	4.35
2354	3291	5.591099	TCATCAACAAAGAACAAAGAAGCC	58.409	37.500	0.00	0.00	0.00	4.35
2408	5082	8.081633	TGATCAACAAAGTATGAAAATCCACAC	58.918	33.333	0.00	0.00	0.00	3.82
2410	5084	9.474920	TTTGATCAACAAAGTATGAAAATCCAC	57.525	29.630	7.89	0.00	42.57	4.02
2429	5103	8.623903	GGCACTCAATATCATACTTTTTGATCA	58.376	33.333	0.00	0.00	35.50	2.92
2430	5104	8.623903	TGGCACTCAATATCATACTTTTTGATC	58.376	33.333	0.00	0.00	35.50	2.92
2431	5105	8.523915	TGGCACTCAATATCATACTTTTTGAT	57.476	30.769	0.00	0.00	37.56	2.57
2432	5106	7.828717	TCTGGCACTCAATATCATACTTTTTGA	59.171	33.333	0.00	0.00	0.00	2.69
2433	5107	7.988737	TCTGGCACTCAATATCATACTTTTTG	58.011	34.615	0.00	0.00	0.00	2.44
2434	5108	8.627403	CATCTGGCACTCAATATCATACTTTTT	58.373	33.333	0.00	0.00	0.00	1.94
2435	5109	7.776969	ACATCTGGCACTCAATATCATACTTTT	59.223	33.333	0.00	0.00	0.00	2.27
2436	5110	7.285566	ACATCTGGCACTCAATATCATACTTT	58.714	34.615	0.00	0.00	0.00	2.66
2437	5111	6.835174	ACATCTGGCACTCAATATCATACTT	58.165	36.000	0.00	0.00	0.00	2.24
2438	5112	6.430962	ACATCTGGCACTCAATATCATACT	57.569	37.500	0.00	0.00	0.00	2.12
2439	5113	8.783833	AATACATCTGGCACTCAATATCATAC	57.216	34.615	0.00	0.00	0.00	2.39
2440	5114	9.797642	AAAATACATCTGGCACTCAATATCATA	57.202	29.630	0.00	0.00	0.00	2.15
2441	5115	8.701908	AAAATACATCTGGCACTCAATATCAT	57.298	30.769	0.00	0.00	0.00	2.45
2442	5116	7.774625	TGAAAATACATCTGGCACTCAATATCA	59.225	33.333	0.00	0.00	0.00	2.15
2443	5117	8.158169	TGAAAATACATCTGGCACTCAATATC	57.842	34.615	0.00	0.00	0.00	1.63
2444	5118	8.701908	ATGAAAATACATCTGGCACTCAATAT	57.298	30.769	0.00	0.00	0.00	1.28
2445	5119	8.407832	CAATGAAAATACATCTGGCACTCAATA	58.592	33.333	0.00	0.00	0.00	1.90
2446	5120	7.123098	TCAATGAAAATACATCTGGCACTCAAT	59.877	33.333	0.00	0.00	0.00	2.57
2447	5121	6.433716	TCAATGAAAATACATCTGGCACTCAA	59.566	34.615	0.00	0.00	0.00	3.02
2448	5122	5.945191	TCAATGAAAATACATCTGGCACTCA	59.055	36.000	0.00	0.00	0.00	3.41
2449	5123	6.441093	TCAATGAAAATACATCTGGCACTC	57.559	37.500	0.00	0.00	0.00	3.51
2450	5124	6.839124	TTCAATGAAAATACATCTGGCACT	57.161	33.333	0.00	0.00	0.00	4.40
2451	5125	7.223387	GGAATTCAATGAAAATACATCTGGCAC	59.777	37.037	7.93	0.00	0.00	5.01
2452	5126	7.124599	AGGAATTCAATGAAAATACATCTGGCA	59.875	33.333	7.93	0.00	0.00	4.92
2453	5127	7.495055	AGGAATTCAATGAAAATACATCTGGC	58.505	34.615	7.93	0.00	0.00	4.85
2454	5128	9.880157	AAAGGAATTCAATGAAAATACATCTGG	57.120	29.630	7.93	0.00	0.00	3.86
2636	5676	5.935789	ACGCAAAAGCAGGACTATAAAAGTA	59.064	36.000	0.00	0.00	39.07	2.24
2637	5677	4.760204	ACGCAAAAGCAGGACTATAAAAGT	59.240	37.500	0.00	0.00	42.80	2.66
2638	5678	5.296813	ACGCAAAAGCAGGACTATAAAAG	57.703	39.130	0.00	0.00	0.00	2.27
2639	5679	5.457140	CAACGCAAAAGCAGGACTATAAAA	58.543	37.500	0.00	0.00	0.00	1.52
2640	5680	4.614993	GCAACGCAAAAGCAGGACTATAAA	60.615	41.667	0.00	0.00	0.00	1.40
2641	5681	3.119990	GCAACGCAAAAGCAGGACTATAA	60.120	43.478	0.00	0.00	0.00	0.98
2755	5798	8.178313	GCTTATCAGTACAAGTTTCATTTCTCC	58.822	37.037	0.00	0.00	0.00	3.71
2794	5837	0.391661	GAGCTGAGCCGGACAATGAA	60.392	55.000	5.05	0.00	0.00	2.57
2866	6041	0.813610	CACACTGTGCCGGTCAAAGA	60.814	55.000	19.14	0.00	34.06	2.52
2954	6141	2.703798	CCCAGCCATGAAACAGCCG	61.704	63.158	0.00	0.00	0.00	5.52
2968	6155	8.028938	CCAAAAGTAAGTATGAATTTCACCCAG	58.971	37.037	0.15	0.00	0.00	4.45
2997	6194	3.276857	CATCAACATGCTAGCCACTTCT	58.723	45.455	13.29	0.00	0.00	2.85
3079	6515	6.757897	TTTCAGAGAAAAACAAGCAGAGAA	57.242	33.333	0.00	0.00	0.00	2.87
3194	6634	3.830178	TGAGTTCCCAGAATTCGTACTGA	59.170	43.478	0.00	0.00	36.38	3.41
3343	6784	7.931015	ATTCACAAGTTGTAGGGATCCTATA	57.069	36.000	12.58	2.26	38.48	1.31
3345	6786	6.636454	AATTCACAAGTTGTAGGGATCCTA	57.364	37.500	12.58	0.00	34.61	2.94

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.