AutoCloner

Multiple sequence alignment - TraesCS5D01G051500

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	TraesCS5D01G051500	chr5D	100.000	2575	0	0	498	3072	49305481	49308055	0.000000e+00	4756.0
1	TraesCS5D01G051500	chr5D	100.000	131	0	0	1	131	49304984	49305114	3.060000e-60	243.0
2	TraesCS5D01G051500	chr5D	88.235	187	12	3	528	705	555919579	555919764	6.670000e-52	215.0
3	TraesCS5D01G051500	chr5D	93.617	47	0	3	1626	1669	49306525	49306571	1.980000e-07	67.6
4	TraesCS5D01G051500	chr5D	93.617	47	0	3	1542	1588	49306609	49306652	1.980000e-07	67.6
5	TraesCS5D01G051500	chr5A	91.848	1742	78	22	743	2441	38796420	38798140	0.000000e+00	2372.0
6	TraesCS5D01G051500	chr5A	89.713	593	53	6	2487	3072	38798140	38798731	0.000000e+00	750.0
7	TraesCS5D01G051500	chr5A	90.272	257	16	2	498	745	482618448	482618192	8.210000e-86	327.0
8	TraesCS5D01G051500	chr5A	95.575	113	5	0	1	113	6205152	6205264	6.770000e-42	182.0
9	TraesCS5D01G051500	chr5A	87.500	56	6	1	1227	1282	666949895	666949949	2.560000e-06	63.9
10	TraesCS5D01G051500	chr5A	91.489	47	1	3	1542	1588	38797346	38797389	9.200000e-06	62.1
11	TraesCS5D01G051500	chr5A	92.105	38	3	0	1255	1292	528368670	528368707	2.000000e-03	54.7
12	TraesCS5D01G051500	chr5A	96.875	32	1	0	1675	1706	568167294	568167263	2.000000e-03	54.7
13	TraesCS5D01G051500	chr5A	96.970	33	0	1	1675	1707	646010868	646010899	2.000000e-03	54.7
14	TraesCS5D01G051500	chr5B	87.854	601	39	18	1580	2164	51975057	51975639	0.000000e+00	675.0
15	TraesCS5D01G051500	chr5B	92.448	384	17	10	758	1129	51974369	51974752	3.490000e-149	538.0
16	TraesCS5D01G051500	chr5B	83.663	606	59	15	2489	3072	51977978	51978565	4.510000e-148	534.0
17	TraesCS5D01G051500	chr5B	89.896	386	25	8	1281	1653	51974797	51975181	4.610000e-133	484.0
18	TraesCS5D01G051500	chr5B	93.243	222	10	2	2277	2495	51975903	51976122	3.820000e-84	322.0
19	TraesCS5D01G051500	chr5B	87.000	100	11	1	2161	2258	51975812	51975911	9.000000e-21	111.0
20	TraesCS5D01G051500	chr5B	91.935	62	2	1	1629	1687	51975064	51975125	1.960000e-12	84.2
21	TraesCS5D01G051500	chr5B	96.000	50	1	1	1140	1188	321218097	321218048	2.540000e-11	80.5
22	TraesCS5D01G051500	chr5B	97.297	37	0	1	1669	1705	705799122	705799087	9.200000e-06	62.1
23	TraesCS5D01G051500	chr2D	89.764	254	13	5	498	743	576404255	576404503	2.300000e-81	313.0
24	TraesCS5D01G051500	chr2D	89.328	253	18	4	498	743	576422821	576423071	2.970000e-80	309.0
25	TraesCS5D01G051500	chr2D	88.933	253	19	4	498	743	576404912	576405162	1.380000e-78	303.0
26	TraesCS5D01G051500	chr2D	88.933	253	16	5	498	743	576439952	576440199	4.980000e-78	302.0
27	TraesCS5D01G051500	chr2D	88.235	255	16	5	498	743	576422163	576422412	3.000000e-75	292.0
28	TraesCS5D01G051500	chr2D	88.793	232	15	6	528	749	68735718	68735948	1.090000e-69	274.0
29	TraesCS5D01G051500	chr2D	88.406	207	16	3	498	697	576440605	576440810	3.060000e-60	243.0
30	TraesCS5D01G051500	chr2D	91.603	131	9	2	1	131	576404786	576404914	2.430000e-41	180.0
31	TraesCS5D01G051500	chr2D	91.603	131	9	2	1	131	576422695	576422823	2.430000e-41	180.0
32	TraesCS5D01G051500	chr2D	92.126	127	9	1	1	127	576404116	576404241	8.750000e-41	178.0
33	TraesCS5D01G051500	chr2D	92.126	127	9	1	1	127	576422024	576422149	8.750000e-41	178.0
34	TraesCS5D01G051500	chr2D	92.126	127	9	1	1	127	576439813	576439938	8.750000e-41	178.0
35	TraesCS5D01G051500	chr2D	95.455	110	4	1	1	110	576440482	576440590	1.130000e-39	174.0
36	TraesCS5D01G051500	chr2D	94.444	54	2	1	1140	1192	622871020	622871073	7.060000e-12	82.4
37	TraesCS5D01G051500	chr2A	88.889	252	21	3	498	743	650962528	650962778	1.380000e-78	303.0
38	TraesCS5D01G051500	chrUn	90.222	225	13	2	529	745	411700073	411700296	5.010000e-73	285.0
39	TraesCS5D01G051500	chrUn	100.000	36	0	0	498	533	411699883	411699918	1.980000e-07	67.6
40	TraesCS5D01G051500	chrUn	100.000	36	0	0	498	533	421210658	421210623	1.980000e-07	67.6
41	TraesCS5D01G051500	chrUn	100.000	29	0	0	1675	1703	304156375	304156403	2.000000e-03	54.7
42	TraesCS5D01G051500	chr2B	89.956	229	12	4	528	745	26818245	26818473	5.010000e-73	285.0
43	TraesCS5D01G051500	chr2B	94.656	131	6	1	1	131	26759188	26759317	5.190000e-48	202.0
44	TraesCS5D01G051500	chr2B	96.154	52	1	1	1135	1185	57036471	57036420	1.960000e-12	84.2
45	TraesCS5D01G051500	chr3B	89.035	228	15	6	528	745	765383571	765383798	1.090000e-69	274.0
46	TraesCS5D01G051500	chr3B	90.769	130	12	0	2	131	765383000	765383129	1.130000e-39	174.0
47	TraesCS5D01G051500	chr3B	100.000	37	0	0	94	130	61587263	61587299	5.500000e-08	69.4
48	TraesCS5D01G051500	chr7D	97.872	47	1	0	1139	1185	535555476	535555522	7.060000e-12	82.4
49	TraesCS5D01G051500	chr7D	94.231	52	2	1	1142	1193	549121433	549121483	9.130000e-11	78.7
50	TraesCS5D01G051500	chr7A	96.000	50	1	1	1140	1188	47011016	47011065	2.540000e-11	80.5
51	TraesCS5D01G051500	chr7A	100.000	30	0	0	1675	1704	736434274	736434245	4.280000e-04	56.5
52	TraesCS5D01G051500	chr4B	91.525	59	3	2	1143	1200	34029088	34029145	2.540000e-11	80.5
53	TraesCS5D01G051500	chr4B	100.000	30	0	0	1253	1282	652003493	652003464	4.280000e-04	56.5
54	TraesCS5D01G051500	chr3A	97.826	46	1	0	1140	1185	18825548	18825593	2.540000e-11	80.5
55	TraesCS5D01G051500	chr7B	92.308	39	3	0	1245	1283	131737155	131737193	4.280000e-04	56.5
56	TraesCS5D01G051500	chr6A	100.000	29	0	0	1675	1703	915483	915455	2.000000e-03	54.7
57	TraesCS5D01G051500	chr4D	94.286	35	2	0	1255	1289	6207683	6207649	2.000000e-03	54.7
58	TraesCS5D01G051500	chr3D	100.000	29	0	0	1255	1283	462811531	462811559	2.000000e-03	54.7
59	TraesCS5D01G051500	chr3D	100.000	29	0	0	1255	1283	525535647	525535675	2.000000e-03	54.7
60	TraesCS5D01G051500	chr3D	100.000	29	0	0	1255	1283	593227289	593227317	2.000000e-03	54.7

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	TraesCS5D01G051500	chr5D	49304984	49308055	3071	False	1283.550000	4756	96.808500	1	3072	4	chr5D.!!$F2	3071
1	TraesCS5D01G051500	chr5A	38796420	38798731	2311	False	1061.366667	2372	91.016667	743	3072	3	chr5A.!!$F5	2329
2	TraesCS5D01G051500	chr5B	51974369	51978565	4196	False	392.600000	675	89.434143	758	3072	7	chr5B.!!$F1	2314
3	TraesCS5D01G051500	chr2D	576404116	576405162	1046	False	243.500000	313	90.606500	1	743	4	chr2D.!!$F3	742
4	TraesCS5D01G051500	chr2D	576422024	576423071	1047	False	239.750000	309	90.323000	1	743	4	chr2D.!!$F4	742
5	TraesCS5D01G051500	chr2D	576439813	576440810	997	False	224.250000	302	91.230000	1	743	4	chr2D.!!$F5	742
6	TraesCS5D01G051500	chr3B	765383000	765383798	798	False	224.000000	274	89.902000	2	745	2	chr3B.!!$F2	743

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
656	713	1.007118	GGGGGATGACTGGGAAAATGT	59.993	52.381	0.00	0.0	0.00	2.71	F
1505	1580	0.250234	CGTCAAGGCCATCAGGAAGA	59.750	55.000	5.01	0.0	36.89	2.87	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1885	2282	0.042188	GTGCTGCGTAATATGGTGCG	60.042	55.0	0.0	0.0	0.00	5.34	R
2766	5236	0.389948	AGAAAGCGGGTTAGTGCTCG	60.390	55.0	0.0	0.0	41.46	5.03	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
34	35	3.878519	CCTCGTCGTCTCCTCCGC	61.879	72.222	0.00	0.00	0.00	5.54
572	619	3.500642	CAGCGAGCTCGAGTCCGA	61.501	66.667	38.74	0.00	43.02	4.55
656	713	1.007118	GGGGGATGACTGGGAAAATGT	59.993	52.381	0.00	0.00	0.00	2.71
689	746	1.884075	AAAAATTTCGCCGGGGCCTC	61.884	55.000	14.85	0.00	37.98	4.70
728	787	2.528818	CCTCCTGGAGGGCACAACA	61.529	63.158	31.49	0.00	45.43	3.33
745	804	3.008375	ACAACAGCTGGAGATGCTCTTAA	59.992	43.478	19.93	0.00	38.92	1.85
787	846	1.067142	GGGCACGACTACAACTCATGA	60.067	52.381	0.00	0.00	0.00	3.07
882	941	4.183865	CAAACATTCCGTCTCAGCTCATA	58.816	43.478	0.00	0.00	0.00	2.15
1420	1495	1.079405	CGGCATTGACGGTGTAGGT	60.079	57.895	3.31	0.00	0.00	3.08
1439	1514	4.579869	AGGTGAGGTACATGTTGATCAAC	58.420	43.478	28.10	28.10	41.50	3.18
1505	1580	0.250234	CGTCAAGGCCATCAGGAAGA	59.750	55.000	5.01	0.00	36.89	2.87
1510	1585	1.302907	AGGCCATCAGGAAGACCAAT	58.697	50.000	5.01	0.00	38.94	3.16
1775	2172	3.726517	CTGAAACGCCAGCCACCG	61.727	66.667	0.00	0.00	0.00	4.94
1824	2221	0.321996	TACAGCCACCATGCGTACAA	59.678	50.000	0.00	0.00	36.02	2.41
1838	2235	1.523758	GTACAAAGGTCACTGGGCAG	58.476	55.000	0.00	0.00	0.00	4.85
1839	2236	1.136828	TACAAAGGTCACTGGGCAGT	58.863	50.000	0.00	0.00	43.61	4.40
1855	2252	1.293924	CAGTCCATCCGAGCAACATC	58.706	55.000	0.00	0.00	0.00	3.06
1885	2282	5.006455	CGTCAGATATGAATATGATGCTGCC	59.994	44.000	0.00	0.00	35.85	4.85
1918	2315	2.350868	CGCAGCACATAGTCGTAGCTAT	60.351	50.000	0.00	0.00	33.59	2.97
1925	2327	5.181622	GCACATAGTCGTAGCTATAGTCCTT	59.818	44.000	0.00	0.00	31.10	3.36
1929	2334	3.315749	AGTCGTAGCTATAGTCCTTGCAC	59.684	47.826	0.00	0.00	0.00	4.57
1947	2352	2.814269	CACATCAGAGTACGGACATGG	58.186	52.381	0.00	0.00	0.00	3.66
1957	2362	2.370445	CGGACATGGGGGCTCTTCT	61.370	63.158	0.00	0.00	0.00	2.85
2162	2741	5.532557	AGACAGATTTTGCTTTTTGCCTAC	58.467	37.500	0.00	0.00	42.00	3.18
2169	2752	8.313292	AGATTTTGCTTTTTGCCTACATATGAA	58.687	29.630	10.38	0.00	42.00	2.57
2258	2843	5.050091	CGCAGGTCGAATAATAAGATGCTTT	60.050	40.000	0.00	0.00	41.67	3.51
2260	2845	7.196331	GCAGGTCGAATAATAAGATGCTTTTT	58.804	34.615	0.00	0.00	0.00	1.94
2306	2895	8.077991	TGCTTGACTTGTGAGAGATAATTTTTG	58.922	33.333	0.00	0.00	0.00	2.44
2368	2957	1.227823	TCACAAAGCCGTGGTCCTG	60.228	57.895	0.00	0.00	37.50	3.86
2403	2992	1.153429	GAGCGGGCACGGAAATACT	60.153	57.895	11.92	0.00	41.36	2.12
2418	3007	5.616866	CGGAAATACTTTTCTGTGTTGCGAT	60.617	40.000	0.00	0.00	41.43	4.58
2444	3033	5.774630	AGTCCTAGAAAACTCTGACGAAAG	58.225	41.667	0.00	0.00	0.00	2.62
2450	3039	6.090483	AGAAAACTCTGACGAAAGATGAGA	57.910	37.500	0.00	0.00	0.00	3.27
2453	3042	5.913137	AACTCTGACGAAAGATGAGAGAT	57.087	39.130	0.00	0.00	36.13	2.75
2505	4957	3.306472	TGGCTAAGGGTTGTTTTCTGT	57.694	42.857	0.00	0.00	0.00	3.41
2516	4968	4.444720	GGTTGTTTTCTGTCTGAGACTACG	59.555	45.833	14.42	2.73	33.15	3.51
2529	4981	2.492484	GAGACTACGAGGGAGCAAAAGA	59.508	50.000	0.00	0.00	0.00	2.52
2542	4994	4.094442	GGAGCAAAAGACGGATTTTATCGT	59.906	41.667	0.28	0.00	42.67	3.73
2558	5010	1.352114	TCGTTTTTATGGAGACCGCG	58.648	50.000	0.00	0.00	0.00	6.46
2559	5011	0.372334	CGTTTTTATGGAGACCGCGG	59.628	55.000	26.86	26.86	0.00	6.46
2560	5012	1.729284	GTTTTTATGGAGACCGCGGA	58.271	50.000	35.90	9.64	0.00	5.54
2578	5030	3.000727	CGGAGCCTAACTTTACTTGGTG	58.999	50.000	0.00	0.00	0.00	4.17
2599	5051	5.510179	GGTGATATTACTTAACCGCTAGGCA	60.510	44.000	0.00	0.00	42.76	4.75
2601	5053	6.090898	GTGATATTACTTAACCGCTAGGCATG	59.909	42.308	0.00	0.00	42.76	4.06
2610	5062	1.071128	GCTAGGCATGCCTCCTCTG	59.929	63.158	41.83	25.81	44.43	3.35
2662	5131	7.611467	AGTTAATAGGCATTCACTTGATGTCAA	59.389	33.333	0.00	0.00	26.37	3.18
2725	5195	1.689813	TGAGGTCTAAACTTGACGGCA	59.310	47.619	0.00	0.00	35.45	5.69
2751	5221	2.957474	AGGGCTGTTGTTGTGGTTAAT	58.043	42.857	0.00	0.00	0.00	1.40
2800	5270	3.065371	CGCTTTCTTGACTGAGTTGGTTT	59.935	43.478	0.00	0.00	0.00	3.27
2825	5295	8.267620	TGTACTTGTGGAGATGAAAATGTATG	57.732	34.615	0.00	0.00	0.00	2.39
2841	5311	0.258484	TATGCATGGTTGTGGGAGGG	59.742	55.000	10.16	0.00	0.00	4.30
2845	5315	0.106519	CATGGTTGTGGGAGGGGATC	60.107	60.000	0.00	0.00	0.00	3.36
2857	5328	8.998957	TGTGGGAGGGGATCTAATATTATTTA	57.001	34.615	0.00	0.00	0.00	1.40
2942	5413	8.192774	TGCTATAATTGAAAATCTTGCCTTGAG	58.807	33.333	0.00	0.00	0.00	3.02
2943	5414	7.650903	GCTATAATTGAAAATCTTGCCTTGAGG	59.349	37.037	0.00	0.00	38.53	3.86
2944	5415	7.722949	ATAATTGAAAATCTTGCCTTGAGGA	57.277	32.000	0.06	0.00	37.39	3.71
2945	5416	6.616237	AATTGAAAATCTTGCCTTGAGGAT	57.384	33.333	0.06	0.00	37.39	3.24
2960	5432	4.451891	TGAGGATGATAGCTCTCTCAGT	57.548	45.455	0.00	0.00	0.00	3.41
3011	5483	8.564574	TCTTGCTACACCAACTTATTAAAAGTG	58.435	33.333	4.50	0.00	0.00	3.16
3026	5498	3.810896	GTGGGGTCGCATTTCGGC	61.811	66.667	0.00	0.00	43.18	5.54
3033	5505	0.727398	GTCGCATTTCGGCTAGCTTT	59.273	50.000	15.72	0.00	40.20	3.51

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
14	15	1.221293	GGAGGAGACGACGAGGAGA	59.779	63.158	0.00	0.00	0.00	3.71
556	603	3.501548	GTCGGACTCGAGCTCGCT	61.502	66.667	30.97	18.07	46.91	4.93
572	619	0.394938	TCTGTGCATACCCAACACGT	59.605	50.000	0.00	0.00	37.11	4.49
656	713	4.095185	CGAAATTTTTGGTATGGAGGCGTA	59.905	41.667	0.00	0.00	0.00	4.42
718	777	1.495579	ATCTCCAGCTGTTGTGCCCT	61.496	55.000	13.81	0.00	0.00	5.19
745	804	3.306780	CGTAAGTGGGTTCCAAGATGAGT	60.307	47.826	0.00	0.00	34.18	3.41
787	846	9.905713	TGATATATACAACCTGCTCTTCTTTTT	57.094	29.630	0.00	0.00	0.00	1.94
864	923	2.799412	GCTTATGAGCTGAGACGGAATG	59.201	50.000	1.49	0.00	45.65	2.67
998	1065	4.713792	ACCTCTGGTTCTGAAGTCATTT	57.286	40.909	0.00	0.00	27.29	2.32
1135	1206	7.225145	AGCGTTTTTGACATTACACTAGTACAA	59.775	33.333	0.00	0.00	0.00	2.41
1308	1383	5.994054	GGTGTCTGCAGATTGATACATGTAT	59.006	40.000	21.47	18.31	0.00	2.29
1420	1495	4.908601	AGGTTGATCAACATGTACCTCA	57.091	40.909	33.42	5.23	42.85	3.86
1439	1514	2.346803	CACCGTGATCTTGTGGTTAGG	58.653	52.381	0.00	0.00	30.72	2.69
1482	1557	0.467384	CCTGATGGCCTTGACGATCT	59.533	55.000	3.32	0.00	0.00	2.75
1794	2191	2.310251	TGGCTGTATGGGCAGTCAT	58.690	52.632	0.00	0.00	44.95	3.06
1824	2221	1.770110	TGGACTGCCCAGTGACCTT	60.770	57.895	5.53	0.00	42.66	3.50
1838	2235	0.107703	TGGATGTTGCTCGGATGGAC	60.108	55.000	0.00	0.00	0.00	4.02
1839	2236	0.839277	ATGGATGTTGCTCGGATGGA	59.161	50.000	0.00	0.00	0.00	3.41
1855	2252	5.422145	TCATATTCATATCTGACGCCATGG	58.578	41.667	7.63	7.63	0.00	3.66
1885	2282	0.042188	GTGCTGCGTAATATGGTGCG	60.042	55.000	0.00	0.00	0.00	5.34
1918	2315	3.128764	CGTACTCTGATGTGCAAGGACTA	59.871	47.826	0.00	0.00	0.00	2.59
1925	2327	1.253100	TGTCCGTACTCTGATGTGCA	58.747	50.000	0.00	0.00	0.00	4.57
1929	2334	1.069204	CCCCATGTCCGTACTCTGATG	59.931	57.143	0.00	0.00	0.00	3.07
1957	2362	0.700564	AGCATCTTCCTTCTTGGGCA	59.299	50.000	0.00	0.00	36.20	5.36
2169	2752	9.010767	ACTAAACCCTATATCCATTTTACACCT	57.989	33.333	0.00	0.00	0.00	4.00
2263	2848	2.373540	GCATCTTTGCTCAATTGGCA	57.626	45.000	15.03	15.03	45.77	4.92
2274	2859	4.753610	TCTCTCACAAGTCAAGCATCTTTG	59.246	41.667	0.00	0.00	0.00	2.77
2275	2860	4.965814	TCTCTCACAAGTCAAGCATCTTT	58.034	39.130	0.00	0.00	0.00	2.52
2276	2861	4.613925	TCTCTCACAAGTCAAGCATCTT	57.386	40.909	0.00	0.00	0.00	2.40
2277	2862	4.822685	ATCTCTCACAAGTCAAGCATCT	57.177	40.909	0.00	0.00	0.00	2.90
2278	2863	7.551035	AATTATCTCTCACAAGTCAAGCATC	57.449	36.000	0.00	0.00	0.00	3.91
2279	2864	7.934855	AAATTATCTCTCACAAGTCAAGCAT	57.065	32.000	0.00	0.00	0.00	3.79
2280	2865	7.750229	AAAATTATCTCTCACAAGTCAAGCA	57.250	32.000	0.00	0.00	0.00	3.91
2281	2866	8.078596	ACAAAAATTATCTCTCACAAGTCAAGC	58.921	33.333	0.00	0.00	0.00	4.01
2282	2867	9.390795	CACAAAAATTATCTCTCACAAGTCAAG	57.609	33.333	0.00	0.00	0.00	3.02
2283	2868	8.352201	CCACAAAAATTATCTCTCACAAGTCAA	58.648	33.333	0.00	0.00	0.00	3.18
2284	2869	7.522073	GCCACAAAAATTATCTCTCACAAGTCA	60.522	37.037	0.00	0.00	0.00	3.41
2285	2870	6.803807	GCCACAAAAATTATCTCTCACAAGTC	59.196	38.462	0.00	0.00	0.00	3.01
2286	2871	6.265196	TGCCACAAAAATTATCTCTCACAAGT	59.735	34.615	0.00	0.00	0.00	3.16
2287	2872	6.680810	TGCCACAAAAATTATCTCTCACAAG	58.319	36.000	0.00	0.00	0.00	3.16
2288	2873	6.647334	TGCCACAAAAATTATCTCTCACAA	57.353	33.333	0.00	0.00	0.00	3.33
2289	2874	6.647334	TTGCCACAAAAATTATCTCTCACA	57.353	33.333	0.00	0.00	0.00	3.58
2306	2895	6.142320	GCAATAAAAATAGCGACTATTGCCAC	59.858	38.462	12.05	0.00	44.54	5.01
2394	2983	3.906008	CGCAACACAGAAAAGTATTTCCG	59.094	43.478	0.00	0.00	44.96	4.30
2403	2992	3.496884	GGACTACATCGCAACACAGAAAA	59.503	43.478	0.00	0.00	0.00	2.29
2418	3007	5.311265	TCGTCAGAGTTTTCTAGGACTACA	58.689	41.667	0.00	0.00	33.61	2.74
2505	4957	0.618981	TGCTCCCTCGTAGTCTCAGA	59.381	55.000	0.00	0.00	0.00	3.27
2516	4968	2.115343	AATCCGTCTTTTGCTCCCTC	57.885	50.000	0.00	0.00	0.00	4.30
2529	4981	7.201670	GGTCTCCATAAAAACGATAAAATCCGT	60.202	37.037	0.00	0.00	41.14	4.69
2542	4994	2.010043	GCTCCGCGGTCTCCATAAAAA	61.010	52.381	27.15	0.00	0.00	1.94
2558	5010	4.281898	TCACCAAGTAAAGTTAGGCTCC	57.718	45.455	0.00	0.00	0.00	4.70
2559	5011	9.043079	GTAATATCACCAAGTAAAGTTAGGCTC	57.957	37.037	0.00	0.00	0.00	4.70
2560	5012	8.769359	AGTAATATCACCAAGTAAAGTTAGGCT	58.231	33.333	0.00	0.00	0.00	4.58
2567	5019	8.333186	GCGGTTAAGTAATATCACCAAGTAAAG	58.667	37.037	0.00	0.00	0.00	1.85
2578	5030	5.063564	GCATGCCTAGCGGTTAAGTAATATC	59.936	44.000	6.36	0.00	0.00	1.63
2610	5062	4.273318	AGCAAAATACACTCAATCTCCCC	58.727	43.478	0.00	0.00	0.00	4.81
2618	5070	9.817809	CTATTAACTCCTAGCAAAATACACTCA	57.182	33.333	0.00	0.00	0.00	3.41
2662	5131	6.745857	ACCTAATCCTCCATTTCCATTTTCT	58.254	36.000	0.00	0.00	0.00	2.52
2707	5177	3.074412	CAATGCCGTCAAGTTTAGACCT	58.926	45.455	0.00	0.00	32.41	3.85
2725	5195	3.091545	CCACAACAACAGCCCTATCAAT	58.908	45.455	0.00	0.00	0.00	2.57
2751	5221	2.040009	GCTCGGGTTATGCAGCCCTA	62.040	60.000	18.04	9.23	42.99	3.53
2766	5236	0.389948	AGAAAGCGGGTTAGTGCTCG	60.390	55.000	0.00	0.00	41.46	5.03
2800	5270	7.148255	GCATACATTTTCATCTCCACAAGTACA	60.148	37.037	0.00	0.00	0.00	2.90
2825	5295	2.228841	ATCCCCTCCCACAACCATGC	62.229	60.000	0.00	0.00	0.00	4.06
2942	5413	4.069304	ACGTACTGAGAGAGCTATCATCC	58.931	47.826	11.60	0.00	29.73	3.51
2943	5414	4.143200	CGACGTACTGAGAGAGCTATCATC	60.143	50.000	11.60	6.04	29.73	2.92
2944	5415	3.743911	CGACGTACTGAGAGAGCTATCAT	59.256	47.826	11.60	0.00	29.73	2.45
2945	5416	3.124560	CGACGTACTGAGAGAGCTATCA	58.875	50.000	11.60	3.39	0.00	2.15
2960	5432	4.517952	TTGTCCCAAGTAAATCGACGTA	57.482	40.909	0.00	0.00	0.00	3.57
3011	5483	1.887707	CTAGCCGAAATGCGACCCC	60.888	63.158	0.00	0.00	44.57	4.95
3026	5498	7.013750	GGAAAAATTATCCCCTCTCAAAGCTAG	59.986	40.741	0.00	0.00	0.00	3.42

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.