AutoCloner

Multiple sequence alignment - TraesCS5D01G364400

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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	TraesCS5D01G364400	chr5D	100.000	2671	0	0	1	2671	441910197	441907527	0.000000e+00	4933.0
1	TraesCS5D01G364400	chr5D	98.529	1020	15	0	1	1020	280545819	280546838	0.000000e+00	1801.0
2	TraesCS5D01G364400	chr5D	98.430	1019	16	0	1	1019	279153979	279154997	0.000000e+00	1794.0
3	TraesCS5D01G364400	chr5D	80.989	263	22	13	2109	2345	442915961	442916221	1.630000e-42	183.0
4	TraesCS5D01G364400	chr5D	76.712	292	55	10	1020	1303	441158938	441159224	1.660000e-32	150.0
5	TraesCS5D01G364400	chr5D	76.552	290	53	12	1020	1300	441327819	441328102	7.710000e-31	145.0
6	TraesCS5D01G364400	chr3D	98.135	1019	19	0	1	1019	402354538	402355556	0.000000e+00	1777.0
7	TraesCS5D01G364400	chr3D	88.235	153	18	0	2100	2252	614118561	614118713	1.630000e-42	183.0
8	TraesCS5D01G364400	chr2D	98.132	1017	19	0	1	1017	592280893	592281909	0.000000e+00	1773.0
9	TraesCS5D01G364400	chr2D	96.991	997	29	1	1	997	591546205	591547200	0.000000e+00	1674.0
10	TraesCS5D01G364400	chr2D	97.856	653	14	0	1	653	69270957	69270305	0.000000e+00	1129.0
11	TraesCS5D01G364400	chr2D	97.856	653	13	1	1	653	645847090	645846439	0.000000e+00	1127.0
12	TraesCS5D01G364400	chr2D	97.872	376	8	0	644	1019	645846325	645845950	0.000000e+00	651.0
13	TraesCS5D01G364400	chr6D	97.056	1019	10	1	1	1019	417475362	417474364	0.000000e+00	1698.0
14	TraesCS5D01G364400	chr6D	95.490	1020	17	13	1	1020	28332961	28333951	0.000000e+00	1602.0
15	TraesCS5D01G364400	chr6D	98.138	376	6	1	644	1019	436110931	436110557	0.000000e+00	654.0
16	TraesCS5D01G364400	chr4D	95.252	1011	27	4	1	1010	397102402	397101412	0.000000e+00	1581.0
17	TraesCS5D01G364400	chr5B	90.013	741	49	2	1088	1824	537955003	537954284	0.000000e+00	935.0
18	TraesCS5D01G364400	chr5B	81.609	261	28	11	2105	2345	107364783	107364523	5.830000e-47	198.0
19	TraesCS5D01G364400	chr5B	80.370	270	31	13	2105	2352	447837955	447838224	4.540000e-43	185.0
20	TraesCS5D01G364400	chr5B	76.364	275	54	9	1020	1287	537506804	537507074	1.290000e-28	137.0
21	TraesCS5D01G364400	chr5B	73.720	293	62	12	1020	1303	536847873	536848159	1.690000e-17	100.0
22	TraesCS5D01G364400	chr5A	90.869	679	30	8	2007	2656	558302064	558301389	0.000000e+00	881.0
23	TraesCS5D01G364400	chr5A	91.525	472	39	1	1023	1494	558304736	558304266	0.000000e+00	649.0
24	TraesCS5D01G364400	chr5A	89.293	467	35	14	2007	2459	558303713	558303248	2.980000e-159	571.0
25	TraesCS5D01G364400	chr5A	92.040	402	18	7	1609	2005	558304214	558303822	1.080000e-153	553.0
26	TraesCS5D01G364400	chr5A	92.245	245	14	2	1766	2005	558302417	558302173	2.550000e-90	342.0
27	TraesCS5D01G364400	chr5A	91.228	57	0	1	1538	1589	558304269	558304213	3.690000e-09	73.1
28	TraesCS5D01G364400	chr7D	97.606	376	9	0	644	1019	469895583	469895958	0.000000e+00	645.0
29	TraesCS5D01G364400	chr2A	82.745	255	26	8	2109	2345	726323531	726323277	7.490000e-51	211.0
30	TraesCS5D01G364400	chr6B	81.509	265	28	6	2101	2345	120657794	120657531	5.830000e-47	198.0
31	TraesCS5D01G364400	chr1B	81.452	248	40	5	2101	2345	151467238	151467482	5.830000e-47	198.0
32	TraesCS5D01G364400	chr4A	81.061	264	30	11	2103	2346	68849646	68849383	2.710000e-45	193.0
33	TraesCS5D01G364400	chr4A	80.989	263	27	12	2103	2345	736068218	736068477	1.260000e-43	187.0
34	TraesCS5D01G364400	chr3A	81.154	260	28	6	2104	2342	346172190	346171931	3.510000e-44	189.0
35	TraesCS5D01G364400	chr3A	81.423	253	25	9	2104	2334	346292017	346291765	1.260000e-43	187.0
36	TraesCS5D01G364400	chr6A	81.250	256	26	8	2099	2334	584970481	584970734	1.260000e-43	187.0
37	TraesCS5D01G364400	chr7A	88.742	151	17	0	2103	2253	559187101	559187251	4.540000e-43	185.0
38	TraesCS5D01G364400	chr7B	77.186	263	37	11	2103	2344	408413673	408413413	6.000000e-27	132.0

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	TraesCS5D01G364400	chr5D	441907527	441910197	2670	True	4933.000000	4933	100.000	1	2671	1	chr5D.!!$R1	2670
1	TraesCS5D01G364400	chr5D	280545819	280546838	1019	False	1801.000000	1801	98.529	1	1020	1	chr5D.!!$F2	1019
2	TraesCS5D01G364400	chr5D	279153979	279154997	1018	False	1794.000000	1794	98.430	1	1019	1	chr5D.!!$F1	1018
3	TraesCS5D01G364400	chr3D	402354538	402355556	1018	False	1777.000000	1777	98.135	1	1019	1	chr3D.!!$F1	1018
4	TraesCS5D01G364400	chr2D	592280893	592281909	1016	False	1773.000000	1773	98.132	1	1017	1	chr2D.!!$F2	1016
5	TraesCS5D01G364400	chr2D	591546205	591547200	995	False	1674.000000	1674	96.991	1	997	1	chr2D.!!$F1	996
6	TraesCS5D01G364400	chr2D	69270305	69270957	652	True	1129.000000	1129	97.856	1	653	1	chr2D.!!$R1	652
7	TraesCS5D01G364400	chr2D	645845950	645847090	1140	True	889.000000	1127	97.864	1	1019	2	chr2D.!!$R2	1018
8	TraesCS5D01G364400	chr6D	417474364	417475362	998	True	1698.000000	1698	97.056	1	1019	1	chr6D.!!$R1	1018
9	TraesCS5D01G364400	chr6D	28332961	28333951	990	False	1602.000000	1602	95.490	1	1020	1	chr6D.!!$F1	1019
10	TraesCS5D01G364400	chr4D	397101412	397102402	990	True	1581.000000	1581	95.252	1	1010	1	chr4D.!!$R1	1009
11	TraesCS5D01G364400	chr5B	537954284	537955003	719	True	935.000000	935	90.013	1088	1824	1	chr5B.!!$R2	736
12	TraesCS5D01G364400	chr5A	558301389	558304736	3347	True	511.516667	881	91.200	1023	2656	6	chr5A.!!$R1	1633

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
182	183	0.672342	GCGTACCATCGACATACCCT	59.328	55.0	0.00	0.0	0.00	4.34	F
887	1019	1.302366	ACGCGTCGTCTGATACCATA	58.698	50.0	5.58	0.0	33.69	2.74	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1021	1153	0.031449	GCAGCATCTCCTCGTACCTC	59.969	60.0	0.00	0.0	0.00	3.85	R
2372	4286	1.629043	AGCGATCCTAATAAGGGCGA	58.371	50.0	10.38	0.0	43.84	5.54	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
182	183	0.672342	GCGTACCATCGACATACCCT	59.328	55.000	0.00	0.00	0.00	4.34
264	265	1.444553	GAGAGCTTCACCGTCACCG	60.445	63.158	0.00	0.00	0.00	4.94
336	337	1.450848	TCGTACGTCGGAGGAGCAT	60.451	57.895	16.05	0.00	40.32	3.79
887	1019	1.302366	ACGCGTCGTCTGATACCATA	58.698	50.000	5.58	0.00	33.69	2.74
1069	1201	3.562635	GGGAACGTCCGAAAGCTG	58.437	61.111	0.00	0.00	37.43	4.24
1223	1355	2.033194	CCCAACGACGCCTTCTTCC	61.033	63.158	0.00	0.00	0.00	3.46
1324	1456	4.020378	CGTGGCACGGGGTTTTCG	62.020	66.667	31.19	2.75	38.08	3.46
1327	1459	1.753463	TGGCACGGGGTTTTCGTTT	60.753	52.632	0.00	0.00	38.94	3.60
1329	1461	1.947146	GCACGGGGTTTTCGTTTGC	60.947	57.895	0.00	0.00	38.94	3.68
1337	1469	0.741915	GTTTTCGTTTGCCCACTCCA	59.258	50.000	0.00	0.00	0.00	3.86
1342	1474	2.115910	TTTGCCCACTCCAGCCAG	59.884	61.111	0.00	0.00	0.00	4.85
1403	1535	1.572941	GTTCGACGGCCCAAGAAAC	59.427	57.895	0.00	0.00	0.00	2.78
1468	1600	5.221067	CCATCTGGATTGAATCAAGCAAGAG	60.221	44.000	21.00	13.61	42.04	2.85
1476	1608	4.318332	TGAATCAAGCAAGAGTGTAGTGG	58.682	43.478	0.00	0.00	0.00	4.00
1591	1728	9.436957	AGTACATTGGTAAGAACAAGTATTCTG	57.563	33.333	0.00	0.00	38.95	3.02
1592	1729	9.431887	GTACATTGGTAAGAACAAGTATTCTGA	57.568	33.333	0.00	0.00	38.95	3.27
1602	1739	9.561069	AAGAACAAGTATTCTGATACAAAGTGT	57.439	29.630	0.07	0.00	40.51	3.55
1603	1740	9.561069	AGAACAAGTATTCTGATACAAAGTGTT	57.439	29.630	0.00	0.00	40.51	3.32
1606	1743	8.784043	ACAAGTATTCTGATACAAAGTGTTTCC	58.216	33.333	0.07	0.00	40.51	3.13
1607	1744	7.923414	AGTATTCTGATACAAAGTGTTTCCC	57.077	36.000	0.07	0.00	40.51	3.97
1608	1745	7.690256	AGTATTCTGATACAAAGTGTTTCCCT	58.310	34.615	0.07	0.00	40.51	4.20
1609	1746	8.164070	AGTATTCTGATACAAAGTGTTTCCCTT	58.836	33.333	0.07	0.00	40.51	3.95
1670	1807	6.995511	ATTAAGCTAAACCGTGCTCATTTA	57.004	33.333	0.00	0.00	38.75	1.40
1682	1819	8.687824	ACCGTGCTCATTTATTAAATTTTCAG	57.312	30.769	0.00	0.00	0.00	3.02
1733	1870	4.654915	TCTGCTTTCCATGTCATCTCAAA	58.345	39.130	0.00	0.00	0.00	2.69
1755	1892	7.180766	TCAAAAAGGGGAATAGATGCATTTTCT	59.819	33.333	0.00	0.00	0.00	2.52
1763	1900	7.826252	GGGAATAGATGCATTTTCTAGAGCATA	59.174	37.037	15.04	4.03	46.71	3.14
1814	1955	0.971386	CATGCTGGCCAAGAAACCTT	59.029	50.000	7.01	0.00	0.00	3.50
1843	1984	8.803235	GGAAACCATTCTTTTATTGTTACTCCT	58.197	33.333	0.00	0.00	35.79	3.69
1846	1987	9.588096	AACCATTCTTTTATTGTTACTCCTTCT	57.412	29.630	0.00	0.00	0.00	2.85
1965	3748	6.264518	ACATCACCAACTAAAAACCGATTTCT	59.735	34.615	0.00	0.00	0.00	2.52
1967	3750	5.239963	TCACCAACTAAAAACCGATTTCTCC	59.760	40.000	0.00	0.00	0.00	3.71
1972	3755	7.367285	CAACTAAAAACCGATTTCTCCATTCA	58.633	34.615	0.00	0.00	0.00	2.57
2005	3788	6.169094	AGACACTTCTCCAAATGACATACTG	58.831	40.000	0.00	0.00	0.00	2.74
2022	3912	7.055667	ACATACTGTATTCTACTGGTCCATG	57.944	40.000	0.00	0.00	32.62	3.66
2034	3924	0.673644	GGTCCATGTCAACCAGTCCG	60.674	60.000	4.70	0.00	35.53	4.79
2092	3982	1.339631	TGCATGCAACCACCTACCTAC	60.340	52.381	20.30	0.00	0.00	3.18
2098	3988	3.135712	TGCAACCACCTACCTACCATATG	59.864	47.826	0.00	0.00	0.00	1.78
2240	4130	7.696992	ACCGTTAGATTCATTACCAAATGTT	57.303	32.000	0.00	0.00	42.66	2.71
2243	4133	9.418045	CCGTTAGATTCATTACCAAATGTTTTT	57.582	29.630	0.00	0.00	42.66	1.94
2343	4253	7.232534	TGCACAGTAAATAAAAATGAAGGGAGT	59.767	33.333	0.00	0.00	0.00	3.85
2355	4269	2.771943	TGAAGGGAGTATTTGATCGCCT	59.228	45.455	0.00	0.00	0.00	5.52
2369	4283	3.068165	TGATCGCCTTGTCTAATCACGAT	59.932	43.478	0.00	0.00	41.06	3.73
2372	4286	3.068165	TCGCCTTGTCTAATCACGATCAT	59.932	43.478	0.00	0.00	0.00	2.45
2374	4288	3.426859	GCCTTGTCTAATCACGATCATCG	59.573	47.826	5.22	5.22	46.93	3.84
2377	4291	2.288213	TGTCTAATCACGATCATCGCCC	60.288	50.000	7.05	0.00	45.12	6.13
2426	4340	4.436998	CGTCCTCCACCACCTCGC	62.437	72.222	0.00	0.00	0.00	5.03
2520	4434	4.154375	GCCATAGAAGAGATATCGTCGACA	59.846	45.833	17.16	3.13	0.00	4.35
2570	4484	2.202743	TAGCGTGGCATGCTCGTC	60.203	61.111	35.52	20.56	40.15	4.20
2656	4575	6.460953	GGAGTACATTAGAGCCTCAGAGAAAG	60.461	46.154	0.00	0.00	0.00	2.62
2657	4576	5.955355	AGTACATTAGAGCCTCAGAGAAAGT	59.045	40.000	0.00	0.00	0.00	2.66
2658	4577	5.083533	ACATTAGAGCCTCAGAGAAAGTG	57.916	43.478	0.00	0.00	0.00	3.16
2659	4578	4.774726	ACATTAGAGCCTCAGAGAAAGTGA	59.225	41.667	0.00	0.00	0.00	3.41
2660	4579	5.105392	ACATTAGAGCCTCAGAGAAAGTGAG	60.105	44.000	0.00	0.00	41.08	3.51
2661	4580	3.168035	AGAGCCTCAGAGAAAGTGAGA	57.832	47.619	0.00	0.00	43.65	3.27
2662	4581	3.505386	AGAGCCTCAGAGAAAGTGAGAA	58.495	45.455	0.00	0.00	43.65	2.87
2663	4582	3.900601	AGAGCCTCAGAGAAAGTGAGAAA	59.099	43.478	0.00	0.00	43.65	2.52
2664	4583	3.993736	GAGCCTCAGAGAAAGTGAGAAAC	59.006	47.826	0.00	0.00	43.65	2.78
2665	4584	3.070748	GCCTCAGAGAAAGTGAGAAACC	58.929	50.000	0.00	0.00	43.65	3.27
2666	4585	3.495100	GCCTCAGAGAAAGTGAGAAACCA	60.495	47.826	0.00	0.00	43.65	3.67
2667	4586	4.805609	GCCTCAGAGAAAGTGAGAAACCAT	60.806	45.833	0.00	0.00	43.65	3.55
2668	4587	5.312079	CCTCAGAGAAAGTGAGAAACCATT	58.688	41.667	0.00	0.00	43.65	3.16
2669	4588	5.767168	CCTCAGAGAAAGTGAGAAACCATTT	59.233	40.000	0.00	0.00	43.65	2.32
2670	4589	6.264067	CCTCAGAGAAAGTGAGAAACCATTTT	59.736	38.462	0.00	0.00	43.65	1.82

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
161	162	1.881973	GGGTATGTCGATGGTACGCTA	59.118	52.381	11.78	0.00	0.00	4.26
182	183	3.508402	TGATGCGTAGTCACTACCTTGAA	59.492	43.478	9.49	0.00	33.79	2.69
264	265	0.955919	CCTTTCCACTTCGCTCACCC	60.956	60.000	0.00	0.00	0.00	4.61
336	337	1.286501	GATGCGCTGATTCCGTACAA	58.713	50.000	9.73	0.00	0.00	2.41
887	1019	8.485578	TTGTTCCAAACCCTAATCTGTTTAAT	57.514	30.769	0.00	0.00	33.57	1.40
1020	1152	1.393603	CAGCATCTCCTCGTACCTCA	58.606	55.000	0.00	0.00	0.00	3.86
1021	1153	0.031449	GCAGCATCTCCTCGTACCTC	59.969	60.000	0.00	0.00	0.00	3.85
1053	1185	2.677979	GCCAGCTTTCGGACGTTCC	61.678	63.158	0.00	0.00	0.00	3.62
1061	1193	2.174349	GAACTGCGCCAGCTTTCG	59.826	61.111	4.18	0.32	45.42	3.46
1123	1255	4.379243	AGCTCCACCACCGCTTCG	62.379	66.667	0.00	0.00	0.00	3.79
1129	1261	2.670934	CTGCACAGCTCCACCACC	60.671	66.667	0.00	0.00	0.00	4.61
1151	1283	0.891373	TCGAGGTTCTTGAGCCTCTG	59.109	55.000	24.11	18.77	46.75	3.35
1155	1287	4.921834	CCTCGAGGTTCTTGAGCC	57.078	61.111	24.04	0.00	39.87	4.70
1168	1300	2.027625	GCCGTTCCTGTTCACCTCG	61.028	63.158	0.00	0.00	0.00	4.63
1252	1384	2.202932	ATCTCCGGCGTCATGTGC	60.203	61.111	6.01	4.42	0.00	4.57
1308	1440	2.007113	AAACGAAAACCCCGTGCCAC	62.007	55.000	0.00	0.00	40.44	5.01
1315	1447	1.068417	GTGGGCAAACGAAAACCCC	59.932	57.895	0.00	0.00	42.07	4.95
1324	1456	2.203480	TGGCTGGAGTGGGCAAAC	60.203	61.111	0.00	0.00	36.34	2.93
1468	1600	3.202906	TGCAGAAAACAGACCACTACAC	58.797	45.455	0.00	0.00	0.00	2.90
1476	1608	3.065925	AGCTCAAACTGCAGAAAACAGAC	59.934	43.478	23.35	2.52	38.55	3.51
1589	1726	7.390440	TGATGTAAGGGAAACACTTTGTATCAG	59.610	37.037	0.00	0.00	0.00	2.90
1590	1727	7.227873	TGATGTAAGGGAAACACTTTGTATCA	58.772	34.615	0.00	0.00	0.00	2.15
1591	1728	7.681939	TGATGTAAGGGAAACACTTTGTATC	57.318	36.000	0.00	0.00	0.00	2.24
1592	1729	7.504238	TGTTGATGTAAGGGAAACACTTTGTAT	59.496	33.333	0.00	0.00	0.00	2.29
1593	1730	6.829298	TGTTGATGTAAGGGAAACACTTTGTA	59.171	34.615	0.00	0.00	0.00	2.41
1594	1731	5.654650	TGTTGATGTAAGGGAAACACTTTGT	59.345	36.000	0.00	0.00	0.00	2.83
1595	1732	5.977129	GTGTTGATGTAAGGGAAACACTTTG	59.023	40.000	9.16	0.00	44.48	2.77
1596	1733	5.068591	GGTGTTGATGTAAGGGAAACACTTT	59.931	40.000	14.47	0.00	46.18	2.66
1597	1734	4.583073	GGTGTTGATGTAAGGGAAACACTT	59.417	41.667	14.47	0.00	46.18	3.16
1598	1735	4.141251	AGGTGTTGATGTAAGGGAAACACT	60.141	41.667	14.47	1.63	46.18	3.55
1599	1736	4.142038	AGGTGTTGATGTAAGGGAAACAC	58.858	43.478	8.14	8.14	46.20	3.32
1600	1737	4.447138	AGGTGTTGATGTAAGGGAAACA	57.553	40.909	0.00	0.00	0.00	2.83
1601	1738	4.217767	GGAAGGTGTTGATGTAAGGGAAAC	59.782	45.833	0.00	0.00	0.00	2.78
1602	1739	4.141135	TGGAAGGTGTTGATGTAAGGGAAA	60.141	41.667	0.00	0.00	0.00	3.13
1603	1740	3.396276	TGGAAGGTGTTGATGTAAGGGAA	59.604	43.478	0.00	0.00	0.00	3.97
1604	1741	2.983192	TGGAAGGTGTTGATGTAAGGGA	59.017	45.455	0.00	0.00	0.00	4.20
1605	1742	3.009033	TCTGGAAGGTGTTGATGTAAGGG	59.991	47.826	0.00	0.00	0.00	3.95
1606	1743	4.286297	TCTGGAAGGTGTTGATGTAAGG	57.714	45.455	0.00	0.00	0.00	2.69
1607	1744	5.869753	CTTCTGGAAGGTGTTGATGTAAG	57.130	43.478	2.66	0.00	34.87	2.34
1682	1819	9.971922	ATAATAAAAAGCTGCATATGAAGGTTC	57.028	29.630	24.99	3.86	40.32	3.62
1733	1870	7.586349	TCTAGAAAATGCATCTATTCCCCTTT	58.414	34.615	0.00	0.00	0.00	3.11
1763	1900	4.082571	GCTAAATGATCAACAACCAGCAGT	60.083	41.667	0.00	0.00	33.02	4.40
1914	3697	4.041075	TGCTCCAATGTACAACCTCTGTAA	59.959	41.667	0.00	0.00	42.23	2.41
1915	3698	3.580895	TGCTCCAATGTACAACCTCTGTA	59.419	43.478	0.00	0.00	39.64	2.74
1925	3708	4.881273	TGGTGATGTATTGCTCCAATGTAC	59.119	41.667	0.94	0.00	35.54	2.90
1965	3748	7.056635	AGAAGTGTCTTCTTTTTCTGAATGGA	58.943	34.615	6.24	0.00	0.00	3.41
1967	3750	7.012704	TGGAGAAGTGTCTTCTTTTTCTGAATG	59.987	37.037	12.33	0.00	32.80	2.67
1972	3755	7.557719	TCATTTGGAGAAGTGTCTTCTTTTTCT	59.442	33.333	12.33	0.00	32.80	2.52
2005	3788	5.116882	GGTTGACATGGACCAGTAGAATAC	58.883	45.833	0.00	0.00	43.47	1.89
2034	3924	7.571080	TCAACGGGGATTTAATACATTTACC	57.429	36.000	0.00	0.00	0.00	2.85
2040	3930	5.761234	GCTACATCAACGGGGATTTAATACA	59.239	40.000	0.00	0.00	0.00	2.29
2092	3982	4.654262	ACAGAGGGTGTACTTACCATATGG	59.346	45.833	20.68	20.68	45.19	2.74
2098	3988	7.991084	AATAAAAACAGAGGGTGTACTTACC	57.009	36.000	0.00	0.00	39.03	2.85
2328	4238	7.201785	GGCGATCAAATACTCCCTTCATTTTTA	60.202	37.037	0.00	0.00	0.00	1.52
2331	4241	4.580580	GGCGATCAAATACTCCCTTCATTT	59.419	41.667	0.00	0.00	0.00	2.32
2332	4242	4.137543	GGCGATCAAATACTCCCTTCATT	58.862	43.478	0.00	0.00	0.00	2.57
2334	4244	2.771943	AGGCGATCAAATACTCCCTTCA	59.228	45.455	0.00	0.00	0.00	3.02
2335	4245	3.477210	AGGCGATCAAATACTCCCTTC	57.523	47.619	0.00	0.00	0.00	3.46
2337	4247	2.505819	ACAAGGCGATCAAATACTCCCT	59.494	45.455	0.00	0.00	0.00	4.20
2340	4250	6.701841	TGATTAGACAAGGCGATCAAATACTC	59.298	38.462	0.00	0.00	0.00	2.59
2343	4253	5.462068	CGTGATTAGACAAGGCGATCAAATA	59.538	40.000	0.00	0.00	0.00	1.40
2355	4269	3.381045	GGCGATGATCGTGATTAGACAA	58.619	45.455	16.83	0.00	42.81	3.18
2369	4283	2.094182	GCGATCCTAATAAGGGCGATGA	60.094	50.000	10.38	0.00	43.84	2.92
2372	4286	1.629043	AGCGATCCTAATAAGGGCGA	58.371	50.000	10.38	0.00	43.84	5.54
2374	4288	4.688021	CATCTAGCGATCCTAATAAGGGC	58.312	47.826	0.00	0.00	43.84	5.19
2493	4407	5.242069	ACGATATCTCTTCTATGGCATCG	57.758	43.478	1.65	0.00	39.77	3.84
2495	4409	4.944317	TCGACGATATCTCTTCTATGGCAT	59.056	41.667	4.88	4.88	0.00	4.40
2496	4410	4.154375	GTCGACGATATCTCTTCTATGGCA	59.846	45.833	0.00	0.00	0.00	4.92
2570	4484	5.137403	GGCTAAATTGAATGTATACGCACG	58.863	41.667	0.00	0.00	0.00	5.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.