AutoCloner

Multiple sequence alignment - TraesCS7B01G369500

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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	TraesCS7B01G369500	chr7B	100.000	3121	0	0	1	3121	633895576	633898696	0.000000e+00	5764.0
1	TraesCS7B01G369500	chr7B	89.086	733	57	12	2393	3121	633785027	633785740	0.000000e+00	889.0
2	TraesCS7B01G369500	chr7B	89.241	725	59	10	2393	3116	634053780	634054486	0.000000e+00	889.0
3	TraesCS7B01G369500	chr7B	85.284	863	96	17	2205	3053	634060428	634061273	0.000000e+00	861.0
4	TraesCS7B01G369500	chr7B	85.390	794	58	24	1319	2096	633783877	633784628	0.000000e+00	771.0
5	TraesCS7B01G369500	chr7B	86.774	620	62	10	2390	3003	633845208	633845813	0.000000e+00	673.0
6	TraesCS7B01G369500	chr7B	86.139	606	78	4	1793	2397	633843885	633844485	0.000000e+00	649.0
7	TraesCS7B01G369500	chr7B	84.559	680	63	17	1	655	633759105	633759767	1.220000e-178	636.0
8	TraesCS7B01G369500	chr7B	84.258	667	83	11	2458	3120	633926220	633926868	5.680000e-177	630.0
9	TraesCS7B01G369500	chr7B	81.276	721	86	23	1706	2399	633925525	633926223	3.540000e-149	538.0
10	TraesCS7B01G369500	chr7B	93.197	294	5	7	738	1020	633783559	633783848	4.810000e-113	418.0
11	TraesCS7B01G369500	chr7B	89.529	191	15	4	1071	1259	633929662	633929849	1.450000e-58	237.0
12	TraesCS7B01G369500	chr7B	85.650	223	18	8	1030	1242	634059264	634059482	4.050000e-54	222.0
13	TraesCS7B01G369500	chr7B	91.262	103	9	0	1470	1572	633843597	633843699	1.170000e-29	141.0
14	TraesCS7B01G369500	chr7B	81.595	163	10	6	1545	1691	633925309	633925467	1.970000e-22	117.0
15	TraesCS7B01G369500	chr7B	84.906	106	8	4	1312	1417	633929866	633929963	1.980000e-17	100.0
16	TraesCS7B01G369500	chr7B	84.286	70	10	1	2331	2400	633846594	633846662	2.010000e-07	67.6
17	TraesCS7B01G369500	chrUn	89.497	2447	157	41	677	3072	92628348	92630745	0.000000e+00	3003.0
18	TraesCS7B01G369500	chrUn	94.444	90	3	1	3032	3121	92630746	92630833	1.510000e-28	137.0
19	TraesCS7B01G369500	chr7A	90.653	1316	94	10	1810	3121	664111043	664112333	0.000000e+00	1722.0
20	TraesCS7B01G369500	chr7A	85.627	981	60	35	673	1616	664004335	664005271	0.000000e+00	955.0
21	TraesCS7B01G369500	chr7A	87.396	722	77	8	2332	3050	664098248	664098958	0.000000e+00	817.0
22	TraesCS7B01G369500	chr7A	88.043	644	53	11	1624	2267	664005312	664005931	0.000000e+00	741.0
23	TraesCS7B01G369500	chr7A	85.665	579	72	8	1767	2342	664097279	664097849	1.600000e-167	599.0
24	TraesCS7B01G369500	chr7A	87.988	333	40	0	1771	2103	664120789	664121121	8.110000e-106	394.0
25	TraesCS7B01G369500	chr7A	91.573	178	15	0	1068	1245	664096758	664096935	2.400000e-61	246.0
26	TraesCS7B01G369500	chr7A	76.265	514	70	34	750	1227	664117910	664118407	3.130000e-55	226.0
27	TraesCS7B01G369500	chr7A	91.463	164	13	1	474	636	664004168	664004331	1.130000e-54	224.0
28	TraesCS7B01G369500	chr7A	79.330	179	15	12	993	1157	664108948	664109118	4.260000e-19	106.0
29	TraesCS7B01G369500	chr7A	75.355	211	30	14	2195	2400	664099591	664099784	7.170000e-12	82.4
30	TraesCS7B01G369500	chr7A	100.000	28	0	0	993	1020	664096661	664096688	6.000000e-03	52.8
31	TraesCS7B01G369500	chr7D	89.966	887	62	11	1	869	574232237	574231360	0.000000e+00	1120.0
32	TraesCS7B01G369500	chr7D	83.227	471	38	17	944	1400	574231338	574230895	8.110000e-106	394.0
33	TraesCS7B01G369500	chr7D	86.842	304	34	3	1714	2014	574230886	574230586	4.990000e-88	335.0
34	TraesCS7B01G369500	chr7D	84.740	308	40	5	381	685	574063026	574063329	5.060000e-78	302.0
35	TraesCS7B01G369500	chr1B	75.610	369	59	16	2771	3120	557795793	557795437	1.500000e-33	154.0

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	TraesCS7B01G369500	chr7B	633895576	633898696	3120	False	5764.000000	5764	100.000000	1	3121	1	chr7B.!!$F2	3120
1	TraesCS7B01G369500	chr7B	634053780	634054486	706	False	889.000000	889	89.241000	2393	3116	1	chr7B.!!$F3	723
2	TraesCS7B01G369500	chr7B	633783559	633785740	2181	False	692.666667	889	89.224333	738	3121	3	chr7B.!!$F4	2383
3	TraesCS7B01G369500	chr7B	633759105	633759767	662	False	636.000000	636	84.559000	1	655	1	chr7B.!!$F1	654
4	TraesCS7B01G369500	chr7B	634059264	634061273	2009	False	541.500000	861	85.467000	1030	3053	2	chr7B.!!$F7	2023
5	TraesCS7B01G369500	chr7B	633843597	633846662	3065	False	382.650000	673	87.115250	1470	3003	4	chr7B.!!$F5	1533
6	TraesCS7B01G369500	chr7B	633925309	633929963	4654	False	324.400000	630	84.312800	1071	3120	5	chr7B.!!$F6	2049
7	TraesCS7B01G369500	chrUn	92628348	92630833	2485	False	1570.000000	3003	91.970500	677	3121	2	chrUn.!!$F1	2444
8	TraesCS7B01G369500	chr7A	664108948	664112333	3385	False	914.000000	1722	84.991500	993	3121	2	chr7A.!!$F3	2128
9	TraesCS7B01G369500	chr7A	664004168	664005931	1763	False	640.000000	955	88.377667	474	2267	3	chr7A.!!$F1	1793
10	TraesCS7B01G369500	chr7A	664096661	664099784	3123	False	359.440000	817	87.997800	993	3050	5	chr7A.!!$F2	2057
11	TraesCS7B01G369500	chr7A	664117910	664121121	3211	False	310.000000	394	82.126500	750	2103	2	chr7A.!!$F4	1353
12	TraesCS7B01G369500	chr7D	574230586	574232237	1651	True	616.333333	1120	86.678333	1	2014	3	chr7D.!!$R1	2013

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
883	934	0.890996	CACCAAGCACTCTTCCCCAC	60.891	60.0	0.0	0.0	0.00	4.61	F
1671	5146	0.183492	AAGCACACCACACTGGACAT	59.817	50.0	0.0	0.0	40.96	3.06	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1765	5356	1.067743	CGCTCTCTGCACACACGTAG	61.068	60.000	0.00	0.00	43.06	3.51	R
3003	8196	3.904136	AACTCGGACTTCAATGCTTTG	57.096	42.857	5.99	5.99	0.00	2.77	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
38	39	9.945904	ATAAATAGATAGGAATTTTCTCCGACC	57.054	33.333	0.00	0.00	40.75	4.79
39	40	6.996180	ATAGATAGGAATTTTCTCCGACCA	57.004	37.500	0.00	0.00	40.75	4.02
40	41	5.693769	AGATAGGAATTTTCTCCGACCAA	57.306	39.130	0.00	0.00	40.75	3.67
76	86	6.134754	AGGTACGTAGAGGGTTGAAATAGAT	58.865	40.000	0.00	0.00	0.00	1.98
77	87	6.610425	AGGTACGTAGAGGGTTGAAATAGATT	59.390	38.462	0.00	0.00	0.00	2.40
79	89	6.540438	ACGTAGAGGGTTGAAATAGATTGA	57.460	37.500	0.00	0.00	0.00	2.57
80	90	6.574350	ACGTAGAGGGTTGAAATAGATTGAG	58.426	40.000	0.00	0.00	0.00	3.02
81	91	6.154706	ACGTAGAGGGTTGAAATAGATTGAGT	59.845	38.462	0.00	0.00	0.00	3.41
82	92	6.477033	CGTAGAGGGTTGAAATAGATTGAGTG	59.523	42.308	0.00	0.00	0.00	3.51
83	93	6.627087	AGAGGGTTGAAATAGATTGAGTGA	57.373	37.500	0.00	0.00	0.00	3.41
233	256	5.814764	TTACTAGGTGACTCGTGAAGATC	57.185	43.478	0.00	0.00	43.67	2.75
240	263	3.304559	GTGACTCGTGAAGATCATTTCCG	59.695	47.826	0.00	0.00	0.00	4.30
298	321	9.980780	ATGTATTTATTTTTATTTTTGGCACGC	57.019	25.926	0.00	0.00	0.00	5.34
362	386	5.755330	TTTGCTTGTTTTCGTTGTTCTTC	57.245	34.783	0.00	0.00	0.00	2.87
379	403	5.180492	TGTTCTTCGGACACATTTTATGACC	59.820	40.000	0.00	0.00	0.00	4.02
475	509	4.056050	GGTCGCCCATTGTGTAACTATAG	58.944	47.826	0.00	0.00	38.04	1.31
511	545	2.635981	CGCGTAAATTGCATGCGTT	58.364	47.368	14.09	7.79	44.36	4.84
574	609	7.253519	CGCACTTGGTTTTCTTAGTTTTGTTAC	60.254	37.037	0.00	0.00	0.00	2.50
601	637	4.324267	ACTTTCTATTTTCTCACCGTGGG	58.676	43.478	0.00	0.00	0.00	4.61
631	667	6.925165	ACATCAACACTCATTCAACCATTTTC	59.075	34.615	0.00	0.00	0.00	2.29
639	675	9.323985	CACTCATTCAACCATTTTCCTTAAAAA	57.676	29.630	0.00	0.00	40.98	1.94
729	767	5.049474	CCATGACTCTGAAATGTTCAAACGA	60.049	40.000	0.00	0.00	39.58	3.85
731	769	6.429791	TGACTCTGAAATGTTCAAACGAAA	57.570	33.333	0.00	0.00	39.58	3.46
732	770	6.847400	TGACTCTGAAATGTTCAAACGAAAA	58.153	32.000	0.00	0.00	39.58	2.29
848	899	4.585955	TTCCTCTATCATAGTCGGTTGC	57.414	45.455	0.00	0.00	0.00	4.17
883	934	0.890996	CACCAAGCACTCTTCCCCAC	60.891	60.000	0.00	0.00	0.00	4.61
1020	1099	1.216064	TGGAGGTATGCATGGCTTCT	58.784	50.000	10.16	0.00	0.00	2.85
1021	1100	1.565759	TGGAGGTATGCATGGCTTCTT	59.434	47.619	10.16	0.00	0.00	2.52
1022	1101	1.952296	GGAGGTATGCATGGCTTCTTG	59.048	52.381	10.16	0.00	0.00	3.02
1023	1102	1.336125	GAGGTATGCATGGCTTCTTGC	59.664	52.381	10.16	0.00	40.61	4.01
1040	1137	1.186267	TGCCCATGATGTTGCTTGCA	61.186	50.000	0.00	0.00	0.00	4.08
1041	1138	0.459585	GCCCATGATGTTGCTTGCAG	60.460	55.000	0.00	0.00	0.00	4.41
1042	1139	0.892755	CCCATGATGTTGCTTGCAGT	59.107	50.000	0.00	0.00	0.00	4.40
1043	1140	2.093890	CCCATGATGTTGCTTGCAGTA	58.906	47.619	0.00	0.00	0.00	2.74
1165	1469	2.910479	ACGACTGGTCCGTGCTGA	60.910	61.111	0.00	0.00	38.97	4.26
1182	1488	4.421479	ACCCAGCGCTTCGAGTCG	62.421	66.667	7.50	6.09	0.00	4.18
1206	1512	4.259131	CACACCCCGTTCCCCGTT	62.259	66.667	0.00	0.00	33.66	4.44
1256	1562	2.743938	GATCCACATGCTACGGTACTG	58.256	52.381	0.00	0.00	0.00	2.74
1290	1602	7.403671	TGGAGTAGTAGAGTTCAGATGTAAGT	58.596	38.462	0.00	0.00	0.00	2.24
1297	1609	6.672266	AGAGTTCAGATGTAAGTCTCCAAA	57.328	37.500	0.00	0.00	32.36	3.28
1298	1610	7.251321	AGAGTTCAGATGTAAGTCTCCAAAT	57.749	36.000	0.00	0.00	32.36	2.32
1300	1612	7.605691	AGAGTTCAGATGTAAGTCTCCAAATTG	59.394	37.037	0.00	0.00	32.36	2.32
1302	1614	7.173907	AGTTCAGATGTAAGTCTCCAAATTGTG	59.826	37.037	0.00	0.00	0.00	3.33
1303	1615	6.533730	TCAGATGTAAGTCTCCAAATTGTGT	58.466	36.000	0.00	0.00	0.00	3.72
1305	1617	8.154203	TCAGATGTAAGTCTCCAAATTGTGTTA	58.846	33.333	0.00	0.00	0.00	2.41
1306	1618	8.446273	CAGATGTAAGTCTCCAAATTGTGTTAG	58.554	37.037	0.00	0.00	0.00	2.34
1307	1619	8.375506	AGATGTAAGTCTCCAAATTGTGTTAGA	58.624	33.333	0.00	0.00	0.00	2.10
1310	1622	5.209818	AGTCTCCAAATTGTGTTAGACGA	57.790	39.130	0.00	0.00	40.65	4.20
1312	1624	4.989168	GTCTCCAAATTGTGTTAGACGACT	59.011	41.667	0.00	0.00	32.05	4.18
1313	1625	5.118817	GTCTCCAAATTGTGTTAGACGACTC	59.881	44.000	0.00	0.00	32.05	3.36
1314	1626	4.312443	TCCAAATTGTGTTAGACGACTCC	58.688	43.478	0.00	0.00	0.00	3.85
1315	1627	4.062293	CCAAATTGTGTTAGACGACTCCA	58.938	43.478	0.00	0.00	0.00	3.86
1316	1628	4.513692	CCAAATTGTGTTAGACGACTCCAA	59.486	41.667	0.00	0.00	0.00	3.53
1335	1647	3.426695	CCAAATTCCATTCGAGCAGTCAC	60.427	47.826	0.00	0.00	0.00	3.67
1341	1653	1.526887	CATTCGAGCAGTCACGTGTTT	59.473	47.619	16.51	1.80	0.00	2.83
1417	1749	2.428530	GTGGATCCTTGATTTGGAAGCC	59.571	50.000	14.23	0.00	37.13	4.35
1619	3850	4.219143	CACACCAGTGCATGCATATTAG	57.781	45.455	25.64	16.18	39.21	1.73
1620	3851	3.628942	CACACCAGTGCATGCATATTAGT	59.371	43.478	25.64	16.83	39.21	2.24
1622	3853	5.049886	CACACCAGTGCATGCATATTAGTAG	60.050	44.000	25.64	11.56	39.21	2.57
1671	5146	0.183492	AAGCACACCACACTGGACAT	59.817	50.000	0.00	0.00	40.96	3.06
1705	5265	2.740714	GCATCACCAAGGCGACGTC	61.741	63.158	5.18	5.18	0.00	4.34
1765	5356	4.035792	TCTCTAGCTTGACGACAGCTTATC	59.964	45.833	14.27	0.00	39.79	1.75
1916	5507	1.333619	ACGGCACACAAATCACTCAAC	59.666	47.619	0.00	0.00	0.00	3.18
2041	5636	1.443802	GAACTCTTCTCCTTTGCGGG	58.556	55.000	0.00	0.00	0.00	6.13
2062	5657	1.300620	TCAAGGCTGTTGACGACGG	60.301	57.895	0.00	0.00	37.71	4.79
2105	5700	2.586293	GCCCTGTGCCAAGCCAATT	61.586	57.895	0.00	0.00	0.00	2.32
2107	5702	1.593265	CCTGTGCCAAGCCAATTCC	59.407	57.895	0.00	0.00	0.00	3.01
2108	5703	1.186917	CCTGTGCCAAGCCAATTCCA	61.187	55.000	0.00	0.00	0.00	3.53
2134	5733	8.181573	AGTATGTAATTAATTTTCTGCGTGGTG	58.818	33.333	5.91	0.00	0.00	4.17
2143	5743	0.321210	TCTGCGTGGTGTATGGTTGG	60.321	55.000	0.00	0.00	0.00	3.77
2247	6038	8.184192	ACTTCAAGATTGTAACTTTCACAACAG	58.816	33.333	0.00	0.00	38.63	3.16
2268	6059	6.879400	ACAGAAGAACTCCAATCCTACATAC	58.121	40.000	0.00	0.00	0.00	2.39
2271	6062	6.440647	AGAAGAACTCCAATCCTACATACACA	59.559	38.462	0.00	0.00	0.00	3.72
2369	6570	9.893305	AACAAATTAACTGAAAATACTCCTTCG	57.107	29.630	0.00	0.00	0.00	3.79
2373	6574	4.537135	ACTGAAAATACTCCTTCGCTCA	57.463	40.909	0.00	0.00	0.00	4.26
2375	6576	6.222038	ACTGAAAATACTCCTTCGCTCATA	57.778	37.500	0.00	0.00	0.00	2.15
2376	6577	6.640518	ACTGAAAATACTCCTTCGCTCATAA	58.359	36.000	0.00	0.00	0.00	1.90
2377	6578	6.758886	ACTGAAAATACTCCTTCGCTCATAAG	59.241	38.462	0.00	0.00	0.00	1.73
2378	6579	6.640518	TGAAAATACTCCTTCGCTCATAAGT	58.359	36.000	0.00	0.00	0.00	2.24
2403	7582	8.521176	GTTTCTCTGTCAGTAAATAGTACTCCA	58.479	37.037	0.00	0.00	0.00	3.86
2428	7607	7.948034	TCCGATCCAAAATAAGTTAAACCAT	57.052	32.000	0.00	0.00	0.00	3.55
2429	7608	9.635404	ATCCGATCCAAAATAAGTTAAACCATA	57.365	29.630	0.00	0.00	0.00	2.74
2449	7628	7.279615	ACCATATGACACTTATTTTGGATCGA	58.720	34.615	3.65	0.00	0.00	3.59
2452	7631	8.777413	CATATGACACTTATTTTGGATCGATGT	58.223	33.333	0.54	0.00	0.00	3.06
2500	7679	7.335422	CAGTTAACTACTTGAGATTTGCTCCAT	59.665	37.037	8.04	0.00	37.68	3.41
2502	7681	9.331282	GTTAACTACTTGAGATTTGCTCCATAT	57.669	33.333	0.00	0.00	43.26	1.78
2763	7949	6.025749	TGGTAGTAGTGAGTTGATGACTTG	57.974	41.667	0.00	0.00	39.19	3.16
2826	8012	2.158827	TGAGCAACACTACCAAGCTGAA	60.159	45.455	0.00	0.00	35.36	3.02
2837	8025	6.364165	CACTACCAAGCTGAACAATTTGATTG	59.636	38.462	2.79	0.00	45.59	2.67
3003	8196	1.200484	GCCGCTCTAGTCATAGTAGGC	59.800	57.143	0.00	0.00	37.04	3.93
3028	8221	2.930682	GCATTGAAGTCCGAGTTACTCC	59.069	50.000	6.80	0.00	0.00	3.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	6.062258	TCTTATTGGTCGGAGAAAATTCCT	57.938	37.500	0.00	0.00	39.69	3.36
32	33	7.120285	CGTACCTCTATATTCTTATTGGTCGGA	59.880	40.741	0.00	0.00	0.00	4.55
33	34	7.094463	ACGTACCTCTATATTCTTATTGGTCGG	60.094	40.741	0.00	0.00	0.00	4.79
34	35	7.814642	ACGTACCTCTATATTCTTATTGGTCG	58.185	38.462	0.00	0.00	0.00	4.79
39	40	9.683870	CCCTCTACGTACCTCTATATTCTTATT	57.316	37.037	0.00	0.00	0.00	1.40
40	41	8.834733	ACCCTCTACGTACCTCTATATTCTTAT	58.165	37.037	0.00	0.00	0.00	1.73
108	118	5.844301	TTATGTTTCCGTTCCGACTTTAC	57.156	39.130	0.00	0.00	0.00	2.01
176	186	8.254508	ACACTTGACTTAGCAAAACCATTTTTA	58.745	29.630	0.00	0.00	32.90	1.52
272	295	9.980780	GCGTGCCAAAAATAAAAATAAATACAT	57.019	25.926	0.00	0.00	0.00	2.29
278	301	4.389077	CCCGCGTGCCAAAAATAAAAATAA	59.611	37.500	4.92	0.00	0.00	1.40
280	303	2.739379	CCCGCGTGCCAAAAATAAAAAT	59.261	40.909	4.92	0.00	0.00	1.82
285	308	0.959553	TTTCCCGCGTGCCAAAAATA	59.040	45.000	4.92	0.00	0.00	1.40
298	321	1.198867	TCATGCAATTGTCGTTTCCCG	59.801	47.619	7.40	0.00	38.13	5.14
353	377	6.577427	GTCATAAAATGTGTCCGAAGAACAAC	59.423	38.462	0.00	0.00	0.00	3.32
362	386	6.254281	AGAAAAGGTCATAAAATGTGTCCG	57.746	37.500	0.00	0.00	0.00	4.79
407	441	9.884636	ACAAGTGTGTACTATAATTATGCAAGA	57.115	29.630	8.28	0.00	35.72	3.02
424	458	2.657296	CGCGGACGACAAGTGTGT	60.657	61.111	0.00	0.00	43.93	3.72
428	462	4.578898	TGCACGCGGACGACAAGT	62.579	61.111	12.47	0.00	43.93	3.16
475	509	1.427020	GAAGGAGCGAGCATGCAAC	59.573	57.895	21.98	12.47	37.31	4.17
511	545	0.525761	GTAGTTACGTACGGGGTGCA	59.474	55.000	21.06	0.00	0.00	4.57
574	609	8.015658	CCACGGTGAGAAAATAGAAAGTAAAAG	58.984	37.037	10.28	0.00	0.00	2.27
601	637	2.480037	TGAATGAGTGTTGATGTCGTGC	59.520	45.455	0.00	0.00	0.00	5.34
631	667	6.705381	TGTGCAACTGATGGAAATTTTTAAGG	59.295	34.615	0.00	0.00	38.04	2.69
639	675	1.541147	CGGTGTGCAACTGATGGAAAT	59.459	47.619	0.00	0.00	37.33	2.17
732	770	2.250031	TCTCTGCCCATGTGCATTTTT	58.750	42.857	2.49	0.00	41.16	1.94
848	899	1.376037	GTGTGCCGAGGAAGGAAGG	60.376	63.158	0.00	0.00	0.00	3.46
904	957	1.065926	CAGAGGTGCCTATTGACTGCA	60.066	52.381	0.00	0.00	0.00	4.41
1020	1099	0.037139	GCAAGCAACATCATGGGCAA	60.037	50.000	6.36	0.00	0.00	4.52
1021	1100	1.186267	TGCAAGCAACATCATGGGCA	61.186	50.000	6.36	0.00	0.00	5.36
1022	1101	0.459585	CTGCAAGCAACATCATGGGC	60.460	55.000	0.00	0.00	0.00	5.36
1023	1102	0.892755	ACTGCAAGCAACATCATGGG	59.107	50.000	0.00	0.00	37.60	4.00
1122	1249	1.605453	GCCGTAGTTCCATTCCCCA	59.395	57.895	0.00	0.00	0.00	4.96
1165	1469	4.421479	CGACTCGAAGCGCTGGGT	62.421	66.667	12.58	4.94	0.00	4.51
1206	1512	1.812324	CGTACCTTGCAGGGTTTGTGA	60.812	52.381	27.05	4.31	40.58	3.58
1256	1562	7.108847	TGAACTCTACTACTCCAGGTAAGTAC	58.891	42.308	0.00	0.00	0.00	2.73
1290	1602	5.209818	AGTCGTCTAACACAATTTGGAGA	57.790	39.130	0.78	0.00	0.00	3.71
1297	1609	5.411669	GGAATTTGGAGTCGTCTAACACAAT	59.588	40.000	0.00	0.00	0.00	2.71
1298	1610	4.753107	GGAATTTGGAGTCGTCTAACACAA	59.247	41.667	0.00	0.00	0.00	3.33
1300	1612	4.312443	TGGAATTTGGAGTCGTCTAACAC	58.688	43.478	0.00	0.00	0.00	3.32
1302	1614	5.220416	CGAATGGAATTTGGAGTCGTCTAAC	60.220	44.000	0.00	0.00	36.07	2.34
1303	1615	4.868171	CGAATGGAATTTGGAGTCGTCTAA	59.132	41.667	0.00	0.00	36.07	2.10
1305	1617	3.056107	TCGAATGGAATTTGGAGTCGTCT	60.056	43.478	0.00	0.00	38.29	4.18
1306	1618	3.259064	TCGAATGGAATTTGGAGTCGTC	58.741	45.455	0.00	0.00	38.29	4.20
1307	1619	3.262420	CTCGAATGGAATTTGGAGTCGT	58.738	45.455	0.00	0.00	38.29	4.34
1310	1622	3.012518	CTGCTCGAATGGAATTTGGAGT	58.987	45.455	0.00	0.00	38.58	3.85
1312	1624	3.009723	GACTGCTCGAATGGAATTTGGA	58.990	45.455	0.00	0.00	38.29	3.53
1313	1625	2.749076	TGACTGCTCGAATGGAATTTGG	59.251	45.455	0.00	0.00	38.29	3.28
1314	1626	3.725895	CGTGACTGCTCGAATGGAATTTG	60.726	47.826	0.00	0.00	36.07	2.32
1315	1627	2.416547	CGTGACTGCTCGAATGGAATTT	59.583	45.455	0.00	0.00	36.07	1.82
1316	1628	2.002586	CGTGACTGCTCGAATGGAATT	58.997	47.619	0.00	0.00	40.93	2.17
1335	1647	8.707457	CAAATGTATTTGGAGTCGTCAAACACG	61.707	40.741	9.01	0.00	44.82	4.49
1341	1653	4.068599	TGCAAATGTATTTGGAGTCGTCA	58.931	39.130	16.53	4.21	45.44	4.35
1417	1749	0.109342	ACCCTGCTCAGACTTGGTTG	59.891	55.000	0.00	0.00	0.00	3.77
1705	5265	3.242944	CCAACACAGAAGATATGTACGCG	59.757	47.826	3.53	3.53	0.00	6.01
1765	5356	1.067743	CGCTCTCTGCACACACGTAG	61.068	60.000	0.00	0.00	43.06	3.51
1916	5507	3.930229	TGTCGTAACCATTGAATTCCTCG	59.070	43.478	2.27	0.00	0.00	4.63
2041	5636	1.070786	TCGTCAACAGCCTTGACCC	59.929	57.895	15.77	0.00	44.29	4.46
2105	5700	8.394877	CACGCAGAAAATTAATTACATACTGGA	58.605	33.333	0.01	0.00	0.00	3.86
2107	5702	8.181573	ACCACGCAGAAAATTAATTACATACTG	58.818	33.333	0.01	7.99	0.00	2.74
2108	5703	8.181573	CACCACGCAGAAAATTAATTACATACT	58.818	33.333	0.01	0.00	0.00	2.12
2134	5733	5.070770	TGAAACATGCAATCCAACCATAC	57.929	39.130	0.00	0.00	0.00	2.39
2143	5743	5.984926	TGAAAACTTCCTGAAACATGCAATC	59.015	36.000	0.00	0.00	0.00	2.67
2227	6018	8.398665	GTTCTTCTGTTGTGAAAGTTACAATCT	58.601	33.333	0.00	0.00	39.88	2.40
2247	6038	6.640518	TGTGTATGTAGGATTGGAGTTCTTC	58.359	40.000	0.00	0.00	0.00	2.87
2369	6570	7.891183	TTTACTGACAGAGAAACTTATGAGC	57.109	36.000	10.08	0.00	0.00	4.26
2376	6577	8.741841	GGAGTACTATTTACTGACAGAGAAACT	58.258	37.037	10.08	5.27	0.00	2.66
2377	6578	8.521176	TGGAGTACTATTTACTGACAGAGAAAC	58.479	37.037	10.08	0.77	0.00	2.78
2378	6579	8.645814	TGGAGTACTATTTACTGACAGAGAAA	57.354	34.615	10.08	9.35	0.00	2.52
2403	7582	7.948034	TGGTTTAACTTATTTTGGATCGGAT	57.052	32.000	0.00	0.00	0.00	4.18
2428	7607	7.226523	CCACATCGATCCAAAATAAGTGTCATA	59.773	37.037	0.00	0.00	0.00	2.15
2429	7608	6.038603	CCACATCGATCCAAAATAAGTGTCAT	59.961	38.462	0.00	0.00	0.00	3.06
2449	7628	9.707957	TGAAAATTTATTCCATACTACCCACAT	57.292	29.630	0.00	0.00	0.00	3.21
2452	7631	9.762381	AACTGAAAATTTATTCCATACTACCCA	57.238	29.630	0.00	0.00	0.00	4.51
2486	7665	8.435187	ACTCATAAAGATATGGAGCAAATCTCA	58.565	33.333	0.00	0.00	43.70	3.27
2671	7855	5.152623	TCATCTCTCGTTCCATCAAAACT	57.847	39.130	0.00	0.00	0.00	2.66
2837	8025	7.380602	GGCATGCATTTGTAGATTAACTTCATC	59.619	37.037	21.36	0.00	0.00	2.92
3003	8196	3.904136	AACTCGGACTTCAATGCTTTG	57.096	42.857	5.99	5.99	0.00	2.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.