AutoCloner

Multiple sequence alignment - TraesCS6D01G074600

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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	TraesCS6D01G074600	chr6D	100.000	3050	0	0	1	3050	38124259	38121210	0.000000e+00	5633.0
1	TraesCS6D01G074600	chr6D	92.230	296	21	2	2308	2602	37929138	37928844	4.700000e-113	418.0
2	TraesCS6D01G074600	chr6D	94.393	107	6	0	2171	2277	37936311	37936205	6.770000e-37	165.0
3	TraesCS6D01G074600	chr6D	91.589	107	9	0	2171	2277	37929338	37929232	6.810000e-32	148.0
4	TraesCS6D01G074600	chr6D	93.750	48	3	0	2308	2355	37936111	37936064	4.220000e-09	73.1
5	TraesCS6D01G074600	chr6D	97.500	40	1	0	2266	2305	37936190	37936151	5.460000e-08	69.4
6	TraesCS6D01G074600	chr6D	94.872	39	2	0	1972	2010	37926442	37926404	9.130000e-06	62.1
7	TraesCS6D01G074600	chr6B	94.801	1154	52	4	966	2118	88821717	88820571	0.000000e+00	1792.0
8	TraesCS6D01G074600	chr6B	84.416	539	36	20	2171	2665	88819871	88819337	1.270000e-133	486.0
9	TraesCS6D01G074600	chr6B	93.243	296	18	2	2308	2602	88722322	88722028	4.670000e-118	435.0
10	TraesCS6D01G074600	chr6B	95.327	107	5	0	2171	2277	88769868	88769762	1.450000e-38	171.0
11	TraesCS6D01G074600	chr6B	93.458	107	7	0	2171	2277	88722513	88722407	3.150000e-35	159.0
12	TraesCS6D01G074600	chr6B	86.905	84	11	0	1968	2051	88819052	88818969	9.000000e-16	95.3
13	TraesCS6D01G074600	chr6B	97.500	40	1	0	1971	2010	88716756	88716717	5.460000e-08	69.4
14	TraesCS6D01G074600	chr6B	97.436	39	1	0	1972	2010	88723774	88723736	1.960000e-07	67.6
15	TraesCS6D01G074600	chr6A	90.727	798	41	14	2266	3050	49554603	49553826	0.000000e+00	1033.0
16	TraesCS6D01G074600	chr6A	92.857	658	27	6	1531	2178	49555516	49554869	0.000000e+00	937.0
17	TraesCS6D01G074600	chr6A	92.500	520	30	6	966	1478	49574051	49573534	0.000000e+00	736.0
18	TraesCS6D01G074600	chr6A	87.852	461	40	10	1727	2184	49427920	49427473	7.490000e-146	527.0
19	TraesCS6D01G074600	chr6A	88.862	413	22	13	2644	3049	49204531	49204136	1.270000e-133	486.0
20	TraesCS6D01G074600	chr6A	94.030	134	8	0	2308	2441	49502733	49502600	1.430000e-48	204.0
21	TraesCS6D01G074600	chr6A	93.284	134	9	0	2308	2441	49506338	49506205	6.670000e-47	198.0
22	TraesCS6D01G074600	chr6A	88.000	150	11	1	2269	2411	49204680	49204531	1.450000e-38	171.0
23	TraesCS6D01G074600	chr6A	94.000	100	6	0	2178	2277	49506531	49506432	5.270000e-33	152.0
24	TraesCS6D01G074600	chr6A	92.308	104	8	0	2178	2281	49502926	49502823	6.810000e-32	148.0
25	TraesCS6D01G074600	chr6A	93.023	86	5	1	2965	3050	49555734	49555650	1.150000e-24	124.0
26	TraesCS6D01G074600	chr6A	92.000	75	6	0	2201	2275	49554694	49554620	4.160000e-19	106.0
27	TraesCS6D01G074600	chr6A	88.235	85	10	0	2171	2255	49427326	49427242	5.380000e-18	102.0
28	TraesCS6D01G074600	chr7D	97.040	473	11	2	495	966	30142705	30142235	0.000000e+00	793.0
29	TraesCS6D01G074600	chr7D	93.836	292	12	5	1	291	30144563	30144277	4.670000e-118	435.0
30	TraesCS6D01G074600	chr3D	93.133	466	12	3	500	965	580912703	580912258	0.000000e+00	665.0
31	TraesCS6D01G074600	chr3D	90.217	276	12	7	173	447	580914235	580913974	2.250000e-91	346.0
32	TraesCS6D01G074600	chr3D	91.908	173	5	2	1	173	580918419	580918256	1.830000e-57	233.0
33	TraesCS6D01G074600	chr1D	95.402	87	2	1	879	965	6981923	6981839	1.470000e-28	137.0

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	TraesCS6D01G074600	chr6D	38121210	38124259	3049	True	5633.000000	5633	100.000000	1	3050	1	chr6D.!!$R1	3049
1	TraesCS6D01G074600	chr6D	37926404	37929338	2934	True	209.366667	418	92.897000	1972	2602	3	chr6D.!!$R2	630
2	TraesCS6D01G074600	chr6B	88818969	88821717	2748	True	791.100000	1792	88.707333	966	2665	3	chr6B.!!$R4	1699
3	TraesCS6D01G074600	chr6B	88722028	88723774	1746	True	220.533333	435	94.712333	1972	2602	3	chr6B.!!$R3	630
4	TraesCS6D01G074600	chr6A	49573534	49574051	517	True	736.000000	736	92.500000	966	1478	1	chr6A.!!$R1	512
5	TraesCS6D01G074600	chr6A	49553826	49555734	1908	True	550.000000	1033	92.151750	1531	3050	4	chr6A.!!$R5	1519
6	TraesCS6D01G074600	chr6A	49204136	49204680	544	True	328.500000	486	88.431000	2269	3049	2	chr6A.!!$R2	780
7	TraesCS6D01G074600	chr6A	49427242	49427920	678	True	314.500000	527	88.043500	1727	2255	2	chr6A.!!$R3	528
8	TraesCS6D01G074600	chr7D	30142235	30144563	2328	True	614.000000	793	95.438000	1	966	2	chr7D.!!$R1	965
9	TraesCS6D01G074600	chr3D	580912258	580914235	1977	True	505.500000	665	91.675000	173	965	2	chr3D.!!$R2	792

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
292	293	0.03582	ACCGCGTCTTCTCTCTCTCT	60.036	55.0	4.92	0.0	0.0	3.1	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2055	4332	3.118223	TGGTGGACAAACAGATACACACA	60.118	43.478	0.0	0.0	0.0	3.72	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
44	45	5.068723	TCCAGGGATCTTTACGAGTCATTAC	59.931	44.000	0.00	0.00	0.00	1.89
98	99	6.544928	TTATTCTGCACTATCTTGTCCTGA	57.455	37.500	0.00	0.00	0.00	3.86
161	162	2.435069	CCTCTCTCTCTCCATGCATGTT	59.565	50.000	24.58	0.00	0.00	2.71
179	180	2.163412	TGTTTTCTGCCGCATGTATTCC	59.837	45.455	0.00	0.00	0.00	3.01
232	233	1.687612	CTGCATGTGACCCCCTCTT	59.312	57.895	0.00	0.00	0.00	2.85
236	237	1.272147	GCATGTGACCCCCTCTTTCTT	60.272	52.381	0.00	0.00	0.00	2.52
237	238	2.819348	GCATGTGACCCCCTCTTTCTTT	60.819	50.000	0.00	0.00	0.00	2.52
238	239	2.951229	TGTGACCCCCTCTTTCTTTC	57.049	50.000	0.00	0.00	0.00	2.62
239	240	1.423921	TGTGACCCCCTCTTTCTTTCC	59.576	52.381	0.00	0.00	0.00	3.13
241	242	2.910977	GTGACCCCCTCTTTCTTTCCTA	59.089	50.000	0.00	0.00	0.00	2.94
242	243	3.523972	GTGACCCCCTCTTTCTTTCCTAT	59.476	47.826	0.00	0.00	0.00	2.57
243	244	3.523564	TGACCCCCTCTTTCTTTCCTATG	59.476	47.826	0.00	0.00	0.00	2.23
244	245	3.780850	GACCCCCTCTTTCTTTCCTATGA	59.219	47.826	0.00	0.00	0.00	2.15
273	274	1.302431	CACCACAGGCATGGACGAA	60.302	57.895	14.15	0.00	43.02	3.85
287	288	4.059136	CGAACCGCGTCTTCTCTC	57.941	61.111	4.92	0.00	34.64	3.20
288	289	1.502640	CGAACCGCGTCTTCTCTCT	59.497	57.895	4.92	0.00	34.64	3.10
289	290	0.521659	CGAACCGCGTCTTCTCTCTC	60.522	60.000	4.92	0.00	34.64	3.20
290	291	0.806241	GAACCGCGTCTTCTCTCTCT	59.194	55.000	4.92	0.00	0.00	3.10
291	292	0.806241	AACCGCGTCTTCTCTCTCTC	59.194	55.000	4.92	0.00	0.00	3.20
292	293	0.035820	ACCGCGTCTTCTCTCTCTCT	60.036	55.000	4.92	0.00	0.00	3.10
293	294	0.655733	CCGCGTCTTCTCTCTCTCTC	59.344	60.000	4.92	0.00	0.00	3.20
299	300	4.759782	CGTCTTCTCTCTCTCTCTCTCTT	58.240	47.826	0.00	0.00	0.00	2.85
315	316	9.177608	CTCTCTCTCTTTCTGAATTCTTCTCTA	57.822	37.037	7.05	0.00	0.00	2.43
346	1397	7.855784	TCTCTGAATGGCTTATATTGTAGGA	57.144	36.000	0.00	0.00	0.00	2.94
382	1433	2.526304	TCTTGTGTGCGCTAGTCTTT	57.474	45.000	9.73	0.00	0.00	2.52
412	1463	4.640647	GGGTTGGATCTACATCAGGAAAAC	59.359	45.833	0.00	0.00	0.00	2.43
466	1517	5.772393	TTTACCACTCTCTCTCTCTCTCT	57.228	43.478	0.00	0.00	0.00	3.10
467	1518	3.914426	ACCACTCTCTCTCTCTCTCTC	57.086	52.381	0.00	0.00	0.00	3.20
468	1519	3.454858	ACCACTCTCTCTCTCTCTCTCT	58.545	50.000	0.00	0.00	0.00	3.10
469	1520	3.452627	ACCACTCTCTCTCTCTCTCTCTC	59.547	52.174	0.00	0.00	0.00	3.20
470	1521	3.708631	CCACTCTCTCTCTCTCTCTCTCT	59.291	52.174	0.00	0.00	0.00	3.10
472	1523	4.648762	CACTCTCTCTCTCTCTCTCTCTCT	59.351	50.000	0.00	0.00	0.00	3.10
473	1524	4.892934	ACTCTCTCTCTCTCTCTCTCTCTC	59.107	50.000	0.00	0.00	0.00	3.20
474	1525	5.136068	TCTCTCTCTCTCTCTCTCTCTCT	57.864	47.826	0.00	0.00	0.00	3.10
475	1526	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
476	1527	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
477	1528	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
478	1529	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
479	1530	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
480	1531	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
482	1533	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
483	1534	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
486	1537	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
487	1538	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
489	1540	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
490	1541	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
491	1542	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
492	1543	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
493	1544	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
535	2804	6.611642	TGGATCTGCCTGTACTAGAAAACTAT	59.388	38.462	0.00	0.00	37.63	2.12
541	2810	6.043411	GCCTGTACTAGAAAACTATGTCTGG	58.957	44.000	0.00	0.00	0.00	3.86
548	2817	4.652822	AGAAAACTATGTCTGGGTGGTTC	58.347	43.478	0.00	0.00	0.00	3.62
586	2855	0.615331	TGGTCTCCTTGAGCACCATC	59.385	55.000	9.75	0.00	46.77	3.51
628	2897	0.817229	GGCTTGCTATGCTCACCTCC	60.817	60.000	0.00	0.00	0.00	4.30
680	2949	0.463474	GGTGCAGGGATCAGCTCTTC	60.463	60.000	0.00	0.00	0.00	2.87
994	3265	2.627945	GAGTTGCACCATCGATAACCA	58.372	47.619	0.00	0.00	0.00	3.67
1139	3416	2.280389	CGATGAGGCCATGGACGG	60.280	66.667	18.40	0.00	32.09	4.79
1722	3999	2.364842	ATCAGCGGCCCTCTCTGT	60.365	61.111	0.00	0.00	0.00	3.41
1794	4071	2.119495	GTCTGGGAGGAATTCAGGCTA	58.881	52.381	7.93	0.00	31.16	3.93
1902	4179	1.203075	AGTCCCCCTATCGACAGATCC	60.203	57.143	0.00	0.00	38.26	3.36
2010	4287	2.002586	CACAGGTCCAAGCGTATCAAG	58.997	52.381	0.00	0.00	0.00	3.02
2013	4290	2.416547	CAGGTCCAAGCGTATCAAGTTG	59.583	50.000	0.00	0.00	0.00	3.16
2020	4297	3.895232	AGCGTATCAAGTTGGACAGAT	57.105	42.857	2.34	0.00	0.00	2.90
2022	4299	4.184629	AGCGTATCAAGTTGGACAGATTC	58.815	43.478	2.34	0.00	0.00	2.52
2052	4329	6.166984	CACATAACATGGGTACTCTGATCT	57.833	41.667	0.00	0.00	33.60	2.75
2053	4330	5.987953	CACATAACATGGGTACTCTGATCTG	59.012	44.000	0.00	0.00	33.60	2.90
2054	4331	5.899547	ACATAACATGGGTACTCTGATCTGA	59.100	40.000	0.00	2.03	33.60	3.27
2055	4332	6.556495	ACATAACATGGGTACTCTGATCTGAT	59.444	38.462	2.43	0.00	33.60	2.90
2069	4400	6.939622	TCTGATCTGATGTGTGTATCTGTTT	58.060	36.000	0.00	0.00	0.00	2.83
2075	4406	4.754618	TGATGTGTGTATCTGTTTGTCCAC	59.245	41.667	0.00	0.00	0.00	4.02
2079	4410	4.154195	GTGTGTATCTGTTTGTCCACCATC	59.846	45.833	0.00	0.00	0.00	3.51
2130	5334	5.756833	CCTAGGGAAAATACACGGTTGATAC	59.243	44.000	0.00	0.00	0.00	2.24
2139	5346	4.067972	ACACGGTTGATACAAGTTGTCT	57.932	40.909	12.82	1.97	0.00	3.41
2140	5347	4.448210	ACACGGTTGATACAAGTTGTCTT	58.552	39.130	12.82	1.00	0.00	3.01
2169	5376	8.950210	AGGTTCAGTTAGTTTCATACATCAATG	58.050	33.333	0.00	0.00	0.00	2.82
2247	5808	7.449395	TCTTCTGAATGTTCATTTCTCCATGTT	59.551	33.333	0.00	0.00	36.46	2.71
2272	5859	3.007723	TGCTTCTGAATGTTCTGCTCTCT	59.992	43.478	0.00	0.00	0.00	3.10
2433	6237	5.046735	CCCTTGAGAGAGATCAGACTTTCAA	60.047	44.000	14.59	14.59	35.78	2.69
2437	6241	8.915057	TTGAGAGAGATCAGACTTTCAAAAAT	57.085	30.769	13.67	0.00	35.42	1.82
2464	6268	2.447443	TGTTGGCAAACACCAGTACAA	58.553	42.857	1.39	0.00	41.41	2.41
2484	6289	9.178758	AGTACAATTTCCTTTCAGGTGATAATC	57.821	33.333	0.00	0.00	36.53	1.75
2485	6290	7.088589	ACAATTTCCTTTCAGGTGATAATCG	57.911	36.000	0.00	0.00	36.53	3.34
2597	6404	8.869897	CGATGTAAGTTCTGTTAGCTCAAATAA	58.130	33.333	0.00	0.00	0.00	1.40
2624	6441	0.039472	CCCATGGTGACCCACATTGA	59.961	55.000	11.73	0.00	45.65	2.57
2637	6454	4.221262	ACCCACATTGAAATTGGTCATCAG	59.779	41.667	0.00	0.00	0.00	2.90
2714	8125	5.804173	AGCAAATTCATTCGAAGAGATTCG	58.196	37.500	3.35	4.08	45.09	3.34
2727	8138	7.143340	TCGAAGAGATTCGTTAAGAAAACAGA	58.857	34.615	9.88	0.00	42.91	3.41
2900	8423	1.757118	TGGATAGCCAAGTTCCTCGAG	59.243	52.381	5.13	5.13	42.49	4.04
2901	8424	2.032620	GGATAGCCAAGTTCCTCGAGA	58.967	52.381	15.71	0.00	0.00	4.04
2902	8425	2.431057	GGATAGCCAAGTTCCTCGAGAA	59.569	50.000	15.71	3.49	0.00	2.87
2904	8427	2.930826	AGCCAAGTTCCTCGAGAAAA	57.069	45.000	15.71	4.98	35.85	2.29
2905	8428	2.772287	AGCCAAGTTCCTCGAGAAAAG	58.228	47.619	15.71	0.00	35.85	2.27
2906	8429	1.197949	GCCAAGTTCCTCGAGAAAAGC	59.802	52.381	15.71	3.54	35.85	3.51
2910	8433	4.022849	CCAAGTTCCTCGAGAAAAGCATTT	60.023	41.667	15.71	0.00	42.41	2.32
2911	8434	5.181245	CCAAGTTCCTCGAGAAAAGCATTTA	59.819	40.000	15.71	0.00	37.28	1.40
2912	8435	6.127897	CCAAGTTCCTCGAGAAAAGCATTTAT	60.128	38.462	15.71	0.00	37.28	1.40
2914	8437	6.410540	AGTTCCTCGAGAAAAGCATTTATCT	58.589	36.000	15.71	0.00	37.28	1.98
2915	8438	7.556844	AGTTCCTCGAGAAAAGCATTTATCTA	58.443	34.615	15.71	0.00	37.28	1.98
2916	8439	8.207545	AGTTCCTCGAGAAAAGCATTTATCTAT	58.792	33.333	15.71	0.00	37.28	1.98
2917	8440	9.477484	GTTCCTCGAGAAAAGCATTTATCTATA	57.523	33.333	15.71	0.00	37.28	1.31
3001	8524	9.698309	CCATGTAAGTTCTGTTATATCCAGTAG	57.302	37.037	0.00	0.00	0.00	2.57
3009	8532	7.843490	TCTGTTATATCCAGTAGCACAAAAC	57.157	36.000	3.10	0.00	0.00	2.43
3013	8890	8.293867	TGTTATATCCAGTAGCACAAAACAAAC	58.706	33.333	0.00	0.00	0.00	2.93

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
44	45	5.744345	CAGTCCATAGCTTTGTTACTACTCG	59.256	44.000	3.39	0.00	0.00	4.18
98	99	3.875727	GCATATGCAGAAGACACTCACAT	59.124	43.478	22.84	0.00	41.59	3.21
128	129	2.622942	GAGAGAGAGGGAGTACATGCAG	59.377	54.545	0.00	0.00	0.00	4.41
161	162	2.016318	CTGGAATACATGCGGCAGAAA	58.984	47.619	9.25	0.00	0.00	2.52
179	180	4.134379	TGCATAGAGGAAAAGAGAGCTG	57.866	45.455	0.00	0.00	0.00	4.24
273	274	0.035820	AGAGAGAGAGAAGACGCGGT	60.036	55.000	12.47	0.00	0.00	5.68
284	285	7.405292	AGAATTCAGAAAGAGAGAGAGAGAGA	58.595	38.462	8.44	0.00	0.00	3.10
285	286	7.636150	AGAATTCAGAAAGAGAGAGAGAGAG	57.364	40.000	8.44	0.00	0.00	3.20
286	287	8.055279	GAAGAATTCAGAAAGAGAGAGAGAGA	57.945	38.462	8.44	0.00	46.62	3.10
346	1397	9.034544	GCACACAAGAAATAAATGAAAAGAGTT	57.965	29.630	0.00	0.00	0.00	3.01
382	1433	4.712829	TGATGTAGATCCAACCCTCGTTTA	59.287	41.667	0.00	0.00	0.00	2.01
412	1463	3.094572	AGACAAGAATGGCCAATCCTTG	58.905	45.455	28.59	28.59	39.84	3.61
447	1498	3.452627	GAGAGAGAGAGAGAGAGAGTGGT	59.547	52.174	0.00	0.00	0.00	4.16
448	1499	3.708631	AGAGAGAGAGAGAGAGAGAGTGG	59.291	52.174	0.00	0.00	0.00	4.00
449	1500	4.648762	AGAGAGAGAGAGAGAGAGAGAGTG	59.351	50.000	0.00	0.00	0.00	3.51
450	1501	4.877773	AGAGAGAGAGAGAGAGAGAGAGT	58.122	47.826	0.00	0.00	0.00	3.24
451	1502	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
452	1503	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
453	1504	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
455	1506	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
457	1508	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
459	1510	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
460	1511	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
461	1512	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
462	1513	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
464	1515	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
466	1517	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
467	1518	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
468	1519	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
469	1520	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
470	1521	5.103728	AGAGAGAGAGAGAGAGAGAGAGAGA	60.104	48.000	0.00	0.00	0.00	3.10
472	1523	5.136068	AGAGAGAGAGAGAGAGAGAGAGA	57.864	47.826	0.00	0.00	0.00	3.10
473	1524	4.280677	GGAGAGAGAGAGAGAGAGAGAGAG	59.719	54.167	0.00	0.00	0.00	3.20
474	1525	4.219115	GGAGAGAGAGAGAGAGAGAGAGA	58.781	52.174	0.00	0.00	0.00	3.10
475	1526	3.963374	TGGAGAGAGAGAGAGAGAGAGAG	59.037	52.174	0.00	0.00	0.00	3.20
476	1527	3.994317	TGGAGAGAGAGAGAGAGAGAGA	58.006	50.000	0.00	0.00	0.00	3.10
477	1528	4.760530	TTGGAGAGAGAGAGAGAGAGAG	57.239	50.000	0.00	0.00	0.00	3.20
478	1529	4.288366	TGTTTGGAGAGAGAGAGAGAGAGA	59.712	45.833	0.00	0.00	0.00	3.10
479	1530	4.588899	TGTTTGGAGAGAGAGAGAGAGAG	58.411	47.826	0.00	0.00	0.00	3.20
480	1531	4.649267	TGTTTGGAGAGAGAGAGAGAGA	57.351	45.455	0.00	0.00	0.00	3.10
482	1533	4.474394	TGTTGTTTGGAGAGAGAGAGAGA	58.526	43.478	0.00	0.00	0.00	3.10
483	1534	4.862902	TGTTGTTTGGAGAGAGAGAGAG	57.137	45.455	0.00	0.00	0.00	3.20
486	1537	3.967326	TCCTTGTTGTTTGGAGAGAGAGA	59.033	43.478	0.00	0.00	0.00	3.10
487	1538	4.342862	TCCTTGTTGTTTGGAGAGAGAG	57.657	45.455	0.00	0.00	0.00	3.20
489	1540	4.217118	CCAATCCTTGTTGTTTGGAGAGAG	59.783	45.833	0.00	0.00	40.89	3.20
490	1541	4.141274	TCCAATCCTTGTTGTTTGGAGAGA	60.141	41.667	0.00	0.00	41.95	3.10
491	1542	4.144297	TCCAATCCTTGTTGTTTGGAGAG	58.856	43.478	0.00	0.00	41.95	3.20
492	1543	4.177537	TCCAATCCTTGTTGTTTGGAGA	57.822	40.909	0.00	0.00	41.95	3.71
535	2804	1.347707	GATGAGTGAACCACCCAGACA	59.652	52.381	0.00	0.00	34.49	3.41
541	2810	2.859165	TCTTGGATGAGTGAACCACC	57.141	50.000	0.00	0.00	34.49	4.61
586	2855	1.280746	CGCATTGCCTCCAATAGCG	59.719	57.895	2.41	13.97	44.24	4.26
628	2897	4.038402	GCCAAAATGGTTGATAGAGATGGG	59.962	45.833	0.00	0.00	40.46	4.00
680	2949	1.945387	ACGAGCATGATGGCTACAAG	58.055	50.000	0.00	0.00	45.99	3.16
918	3187	2.522638	CCGGCCGCGTTATCTTGAC	61.523	63.158	22.85	0.00	0.00	3.18
919	3188	2.202824	CCGGCCGCGTTATCTTGA	60.203	61.111	22.85	0.00	0.00	3.02
1902	4179	4.814294	CGGTCCGGCTTCTTCCCG	62.814	72.222	2.34	0.00	45.17	5.14
2010	4287	3.820467	TGTGTCCATTGAATCTGTCCAAC	59.180	43.478	0.00	0.00	0.00	3.77
2013	4290	5.647658	TGTTATGTGTCCATTGAATCTGTCC	59.352	40.000	0.00	0.00	32.29	4.02
2020	4297	4.671831	ACCCATGTTATGTGTCCATTGAA	58.328	39.130	0.00	0.00	32.29	2.69
2022	4299	5.192927	AGTACCCATGTTATGTGTCCATTG	58.807	41.667	0.00	0.00	32.29	2.82
2051	4328	4.996758	TGGACAAACAGATACACACATCAG	59.003	41.667	0.00	0.00	0.00	2.90
2052	4329	4.754618	GTGGACAAACAGATACACACATCA	59.245	41.667	0.00	0.00	0.00	3.07
2053	4330	4.154195	GGTGGACAAACAGATACACACATC	59.846	45.833	0.00	0.00	0.00	3.06
2054	4331	4.072131	GGTGGACAAACAGATACACACAT	58.928	43.478	0.00	0.00	0.00	3.21
2055	4332	3.118223	TGGTGGACAAACAGATACACACA	60.118	43.478	0.00	0.00	0.00	3.72
2069	4400	4.358214	TCCATGTTACTAGATGGTGGACA	58.642	43.478	0.00	0.00	43.83	4.02
2075	4406	7.500992	ACATAACTGTCCATGTTACTAGATGG	58.499	38.462	0.00	0.00	44.57	3.51
2079	4410	8.547967	ACAAACATAACTGTCCATGTTACTAG	57.452	34.615	16.43	11.40	42.93	2.57
2139	5346	8.918202	ATGTATGAAACTAACTGAACCTTCAA	57.082	30.769	0.00	0.00	36.64	2.69
2140	5347	8.154203	TGATGTATGAAACTAACTGAACCTTCA	58.846	33.333	0.00	0.00	35.57	3.02
2144	5351	8.730680	ACATTGATGTATGAAACTAACTGAACC	58.269	33.333	0.00	0.00	39.68	3.62
2152	5359	9.586435	CAGTGTCTACATTGATGTATGAAACTA	57.414	33.333	16.93	0.00	41.92	2.24
2169	5376	6.216569	TGAGAAATTCAGTGACAGTGTCTAC	58.783	40.000	23.29	18.22	33.15	2.59
2247	5808	3.216800	AGCAGAACATTCAGAAGCACAA	58.783	40.909	0.00	0.00	0.00	3.33
2433	6237	7.830739	TGGTGTTTGCCAACAAAAATAATTTT	58.169	26.923	4.72	0.00	46.94	1.82
2437	6241	5.491982	ACTGGTGTTTGCCAACAAAAATAA	58.508	33.333	4.72	0.00	46.94	1.40
2484	6289	3.526931	TCTTGAGGAACTTGGCTATCG	57.473	47.619	0.00	0.00	41.55	2.92
2485	6290	5.392487	GCTTTTCTTGAGGAACTTGGCTATC	60.392	44.000	0.00	0.00	41.55	2.08
2532	6337	0.664224	TGCTGTTGTGAGTACGACGA	59.336	50.000	0.00	0.00	42.99	4.20
2624	6441	8.458573	TTGTAAGTAACACTGATGACCAATTT	57.541	30.769	0.00	0.00	38.00	1.82
2714	8125	6.417930	GGTTCACAATGCTCTGTTTTCTTAAC	59.582	38.462	0.00	0.00	0.00	2.01
2727	8138	1.133513	TGTCTTGGGGTTCACAATGCT	60.134	47.619	0.00	0.00	0.00	3.79
2936	8459	5.527582	GGTTCAACTGTTGTGAGTATGAAGT	59.472	40.000	19.12	0.00	0.00	3.01
3001	8524	2.898705	TCACCATGGTTTGTTTTGTGC	58.101	42.857	16.84	0.00	0.00	4.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.