AutoCloner

Multiple sequence alignment - TraesCS7D01G397200

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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	TraesCS7D01G397200	chr7D	100.000	3323	0	0	1	3323	511931907	511935229	0.000000e+00	6137.0
1	TraesCS7D01G397200	chr7D	84.061	916	94	37	1	887	568766392	568765500	0.000000e+00	835.0
2	TraesCS7D01G397200	chr7D	82.060	563	88	12	2673	3231	159075236	159074683	5.020000e-128	468.0
3	TraesCS7D01G397200	chr7B	92.370	2228	101	27	1	2208	541231724	541229546	0.000000e+00	3109.0
4	TraesCS7D01G397200	chr7B	93.506	77	3	1	2601	2677	541201496	541201422	2.710000e-21	113.0
5	TraesCS7D01G397200	chr7B	89.333	75	6	1	2603	2677	541201245	541201173	3.530000e-15	93.5
6	TraesCS7D01G397200	chr7A	94.002	1217	53	4	1164	2377	584379971	584381170	0.000000e+00	1825.0
7	TraesCS7D01G397200	chr7A	90.534	581	48	5	2652	3229	584382065	584382641	0.000000e+00	761.0
8	TraesCS7D01G397200	chr7A	88.616	571	37	19	1	561	584371782	584372334	0.000000e+00	669.0
9	TraesCS7D01G397200	chr7A	83.359	637	47	18	553	1168	584376018	584376616	4.880000e-148	534.0
10	TraesCS7D01G397200	chr7A	88.736	435	40	7	2892	3323	584382484	584382912	1.060000e-144	523.0
11	TraesCS7D01G397200	chr7A	93.889	180	9	2	2379	2558	584381394	584381571	1.520000e-68	270.0
12	TraesCS7D01G397200	chr7A	76.471	391	65	19	254	626	493376784	493376403	1.570000e-43	187.0
13	TraesCS7D01G397200	chr6D	79.213	813	127	34	2506	3309	362625004	362624225	8.170000e-146	527.0
14	TraesCS7D01G397200	chr6D	83.394	554	75	12	2760	3309	61591217	61591757	6.400000e-137	497.0
15	TraesCS7D01G397200	chr5D	82.078	664	67	28	266	883	504484637	504485294	1.370000e-143	520.0
16	TraesCS7D01G397200	chr1D	81.481	594	89	18	2649	3231	423891899	423891316	5.020000e-128	468.0
17	TraesCS7D01G397200	chr1D	80.311	579	87	21	2659	3231	247137675	247138232	2.390000e-111	412.0
18	TraesCS7D01G397200	chr4D	81.818	550	85	14	2689	3231	503608946	503609487	6.540000e-122	448.0
19	TraesCS7D01G397200	chr1A	81.109	577	85	17	2662	3231	300563522	300562963	1.090000e-119	440.0
20	TraesCS7D01G397200	chr2B	76.942	824	137	28	1408	2209	110091493	110090701	1.430000e-113	420.0
21	TraesCS7D01G397200	chr2D	77.245	646	116	16	1553	2185	72782715	72782088	1.900000e-92	350.0
22	TraesCS7D01G397200	chr1B	76.905	420	83	7	1692	2101	292413876	292413461	3.340000e-55	226.0
23	TraesCS7D01G397200	chr1B	76.667	420	84	7	1692	2101	292342389	292341974	1.550000e-53	220.0
24	TraesCS7D01G397200	chr3B	76.311	515	66	34	424	887	598996870	598996361	1.200000e-54	224.0
25	TraesCS7D01G397200	chr3B	77.642	246	46	9	84	323	599098430	599098672	1.240000e-29	141.0
26	TraesCS7D01G397200	chr3B	73.504	468	73	37	19	465	599081372	599080935	2.690000e-26	130.0
27	TraesCS7D01G397200	chr3A	73.282	655	112	42	7	627	597963608	597962983	7.320000e-42	182.0
28	TraesCS7D01G397200	chr3A	73.624	527	95	34	380	887	597932655	597932154	2.650000e-36	163.0
29	TraesCS7D01G397200	chr2A	84.000	175	28	0	1274	1448	71438823	71438649	5.700000e-38	169.0
30	TraesCS7D01G397200	chr6B	74.558	452	74	32	65	502	677566493	677566069	3.430000e-35	159.0

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	TraesCS7D01G397200	chr7D	511931907	511935229	3322	False	6137.000000	6137	100.000	1	3323	1	chr7D.!!$F1	3322
1	TraesCS7D01G397200	chr7D	568765500	568766392	892	True	835.000000	835	84.061	1	887	1	chr7D.!!$R2	886
2	TraesCS7D01G397200	chr7D	159074683	159075236	553	True	468.000000	468	82.060	2673	3231	1	chr7D.!!$R1	558
3	TraesCS7D01G397200	chr7B	541229546	541231724	2178	True	3109.000000	3109	92.370	1	2208	1	chr7B.!!$R1	2207
4	TraesCS7D01G397200	chr7A	584371782	584382912	11130	False	763.666667	1825	89.856	1	3323	6	chr7A.!!$F1	3322
5	TraesCS7D01G397200	chr6D	362624225	362625004	779	True	527.000000	527	79.213	2506	3309	1	chr6D.!!$R1	803
6	TraesCS7D01G397200	chr6D	61591217	61591757	540	False	497.000000	497	83.394	2760	3309	1	chr6D.!!$F1	549
7	TraesCS7D01G397200	chr5D	504484637	504485294	657	False	520.000000	520	82.078	266	883	1	chr5D.!!$F1	617
8	TraesCS7D01G397200	chr1D	423891316	423891899	583	True	468.000000	468	81.481	2649	3231	1	chr1D.!!$R1	582
9	TraesCS7D01G397200	chr1D	247137675	247138232	557	False	412.000000	412	80.311	2659	3231	1	chr1D.!!$F1	572
10	TraesCS7D01G397200	chr4D	503608946	503609487	541	False	448.000000	448	81.818	2689	3231	1	chr4D.!!$F1	542
11	TraesCS7D01G397200	chr1A	300562963	300563522	559	True	440.000000	440	81.109	2662	3231	1	chr1A.!!$R1	569
12	TraesCS7D01G397200	chr2B	110090701	110091493	792	True	420.000000	420	76.942	1408	2209	1	chr2B.!!$R1	801
13	TraesCS7D01G397200	chr2D	72782088	72782715	627	True	350.000000	350	77.245	1553	2185	1	chr2D.!!$R1	632
14	TraesCS7D01G397200	chr3B	598996361	598996870	509	True	224.000000	224	76.311	424	887	1	chr3B.!!$R1	463

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
982	4821	0.938168	GATACGAACACCGATCGCCC	60.938	60.000	10.32	0.0	43.88	6.13	F
1494	8697	2.034532	TCACTACCTCGGCGACCA	59.965	61.111	4.99	0.0	0.00	4.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1990	9208	0.037326	CGCCCTCGTGCCACATATAT	60.037	55.000	0.00	0.00	0.00	0.86	R
2368	9598	2.028763	GCAAATTCGCAACATGCATGAG	59.971	45.455	32.75	23.31	45.36	2.90	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
33	34	8.609617	TTCTCTAGGGAAGAATGAATTAGTGA	57.390	34.615	0.00	0.00	32.46	3.41
208	225	9.918630	ATTTTCTTGAAAGTAATGAATGAGTGG	57.081	29.630	0.00	0.00	0.00	4.00
220	237	7.844493	AATGAATGAGTGGCATTGGTATTAT	57.156	32.000	0.00	0.00	46.90	1.28
395	437	5.220970	CGGTTGCATTGGTATTACCCTTAAG	60.221	44.000	10.37	0.00	37.50	1.85
471	515	6.211184	TGAGGAACAATGAATTAGTGCCATTT	59.789	34.615	0.00	0.00	33.10	2.32
472	516	7.395772	TGAGGAACAATGAATTAGTGCCATTTA	59.604	33.333	0.00	0.00	33.10	1.40
750	4573	2.083774	CAGCCCAGTAGCAAAATCGAA	58.916	47.619	0.00	0.00	34.23	3.71
753	4576	2.223572	GCCCAGTAGCAAAATCGAATGG	60.224	50.000	0.00	0.00	0.00	3.16
756	4580	1.670811	AGTAGCAAAATCGAATGGCCG	59.329	47.619	0.00	0.00	0.00	6.13
806	4642	5.164002	CCCAAAACAACTCAAAGAACAAACG	60.164	40.000	0.00	0.00	0.00	3.60
811	4647	2.572290	ACTCAAAGAACAAACGAGGGG	58.428	47.619	0.00	0.00	0.00	4.79
951	4790	1.115930	ACAGCTCGACTTGGAGTGGT	61.116	55.000	0.00	0.00	36.41	4.16
982	4821	0.938168	GATACGAACACCGATCGCCC	60.938	60.000	10.32	0.00	43.88	6.13
1188	8388	4.849329	GGACGGCTACAGCGTCCG	62.849	72.222	21.05	11.40	46.20	4.79
1477	8680	3.069586	TCTTCCTGTTCATCAACGACACT	59.930	43.478	0.00	0.00	34.95	3.55
1494	8697	2.034532	TCACTACCTCGGCGACCA	59.965	61.111	4.99	0.00	0.00	4.02
1534	8737	3.645660	TTGATCTGGGGGCGCACA	61.646	61.111	13.89	5.27	0.00	4.57
1538	8741	3.460672	ATCTGGGGGCGCACATACG	62.461	63.158	13.89	0.00	0.00	3.06
1663	8866	2.235016	CGACCGCACACTGTTCGTT	61.235	57.895	0.58	0.00	0.00	3.85
1966	9184	3.640407	AGGCTCGTGCACATGGGT	61.640	61.111	18.64	0.00	41.91	4.51
1981	9199	4.643387	GGTGGCGCCAGGTTCTGT	62.643	66.667	33.73	0.00	37.17	3.41
1990	9208	0.031585	CCAGGTTCTGTGTCGTCGAA	59.968	55.000	0.00	0.00	0.00	3.71
1995	9213	5.507482	CCAGGTTCTGTGTCGTCGAATATAT	60.507	44.000	0.00	0.00	0.00	0.86
2152	9373	3.463505	CGAGTTCGCAGTCGCAAT	58.536	55.556	0.00	0.00	38.98	3.56
2267	9497	1.293498	CTGCAAGCGAGGGTGTACT	59.707	57.895	0.00	0.00	0.00	2.73
2269	9499	1.185618	TGCAAGCGAGGGTGTACTCT	61.186	55.000	0.00	0.00	35.33	3.24
2270	9500	0.815734	GCAAGCGAGGGTGTACTCTA	59.184	55.000	0.00	0.00	35.33	2.43
2271	9501	1.202313	GCAAGCGAGGGTGTACTCTAG	60.202	57.143	0.00	0.00	35.33	2.43
2272	9502	1.104630	AAGCGAGGGTGTACTCTAGC	58.895	55.000	8.70	8.70	35.33	3.42
2273	9503	0.256464	AGCGAGGGTGTACTCTAGCT	59.744	55.000	12.87	12.87	35.33	3.32
2275	9505	2.092538	AGCGAGGGTGTACTCTAGCTTA	60.093	50.000	12.87	0.00	32.57	3.09
2276	9506	2.033174	GCGAGGGTGTACTCTAGCTTAC	59.967	54.545	9.38	0.00	35.33	2.34
2277	9507	3.276857	CGAGGGTGTACTCTAGCTTACA	58.723	50.000	0.00	0.00	35.33	2.41
2278	9508	3.065095	CGAGGGTGTACTCTAGCTTACAC	59.935	52.174	15.21	15.21	44.95	2.90
2283	9513	5.154215	GTGTACTCTAGCTTACACCGTAG	57.846	47.826	13.29	0.00	41.47	3.51
2284	9514	4.633565	GTGTACTCTAGCTTACACCGTAGT	59.366	45.833	13.29	1.82	41.47	2.73
2294	9524	1.226046	CACCGTAGTGCTCGACTCG	60.226	63.158	0.00	0.00	37.14	4.18
2296	9526	0.743701	ACCGTAGTGCTCGACTCGAT	60.744	55.000	0.62	0.00	35.96	3.59
2301	9531	1.968704	AGTGCTCGACTCGATCCATA	58.031	50.000	0.62	0.00	34.61	2.74
2318	9548	6.401474	CGATCCATAGAATTAATCTTGTGGCG	60.401	42.308	8.98	5.78	40.17	5.69
2319	9549	5.680619	TCCATAGAATTAATCTTGTGGCGT	58.319	37.500	8.98	0.00	40.17	5.68
2434	9886	8.451908	AAATTGCAAGTACTTAGAACTTCTGT	57.548	30.769	8.04	0.00	34.99	3.41
2435	9887	8.451908	AATTGCAAGTACTTAGAACTTCTGTT	57.548	30.769	8.04	0.00	34.99	3.16
2493	9945	4.026640	CAGACAAAGTGAAAAATTGCACGG	60.027	41.667	0.00	0.00	39.88	4.94
2502	9954	5.804979	GTGAAAAATTGCACGGTAATGCTAT	59.195	36.000	0.00	0.00	46.28	2.97
2534	9986	4.844884	AGGTTGGCTCAAATAGGAAGTAC	58.155	43.478	0.00	0.00	0.00	2.73
2631	10360	5.960811	TCTCTCTCTCTCTCTCTCTCTCTTT	59.039	44.000	0.00	0.00	0.00	2.52
2633	10362	5.960811	TCTCTCTCTCTCTCTCTCTCTTTCT	59.039	44.000	0.00	0.00	0.00	2.52
2634	10363	6.441924	TCTCTCTCTCTCTCTCTCTCTTTCTT	59.558	42.308	0.00	0.00	0.00	2.52
2643	10372	5.413213	TCTCTCTCTCTTTCTTAGTTGACCG	59.587	44.000	0.00	0.00	0.00	4.79
2645	10374	5.048643	TCTCTCTCTTTCTTAGTTGACCGTG	60.049	44.000	0.00	0.00	0.00	4.94
2701	10560	2.041755	TGGCAGAACCACTCTCTCTCTA	59.958	50.000	0.00	0.00	46.36	2.43
2702	10561	3.295973	GGCAGAACCACTCTCTCTCTAT	58.704	50.000	0.00	0.00	38.86	1.98
2730	10589	8.698973	TCTCACAGTAAATCCAACCATTTTTA	57.301	30.769	0.00	0.00	0.00	1.52
2825	10687	5.104982	TGAACTCCTTGCATCAAAACCTTTT	60.105	36.000	0.00	0.00	0.00	2.27
2826	10688	5.357742	ACTCCTTGCATCAAAACCTTTTT	57.642	34.783	0.00	0.00	0.00	1.94
2828	10690	7.066307	ACTCCTTGCATCAAAACCTTTTTAT	57.934	32.000	0.00	0.00	0.00	1.40
2968	11010	9.634163	ATTTAAACATTCGGAACCTACATTTTC	57.366	29.630	0.00	0.00	0.00	2.29
2987	11029	8.040727	ACATTTTCCTTTTCACTAGCTTGTTTT	58.959	29.630	0.00	0.00	0.00	2.43
2991	11033	7.259290	TCCTTTTCACTAGCTTGTTTTACAG	57.741	36.000	0.00	0.00	0.00	2.74
2992	11034	6.262273	TCCTTTTCACTAGCTTGTTTTACAGG	59.738	38.462	0.00	1.53	0.00	4.00
3168	11215	9.352784	CATTTCACTTTTCACTGACTTGTTTAA	57.647	29.630	0.00	0.00	0.00	1.52
3257	11304	9.708222	GACATCAGTTTCACATTGATACATTAC	57.292	33.333	0.00	0.00	31.96	1.89

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
10	11	7.786030	TGTCACTAATTCATTCTTCCCTAGAG	58.214	38.462	0.00	0.00	33.51	2.43
182	199	9.918630	CCACTCATTCATTACTTTCAAGAAAAT	57.081	29.630	0.00	0.00	0.00	1.82
189	206	6.350361	CCAATGCCACTCATTCATTACTTTCA	60.350	38.462	0.00	0.00	43.21	2.69
192	209	5.018809	ACCAATGCCACTCATTCATTACTT	58.981	37.500	0.00	0.00	43.21	2.24
194	211	4.989279	ACCAATGCCACTCATTCATTAC	57.011	40.909	0.00	0.00	43.21	1.89
195	212	8.938801	ATAATACCAATGCCACTCATTCATTA	57.061	30.769	0.00	0.00	43.21	1.90
257	274	2.663808	TGTGTGCAAATTTGATCGCTG	58.336	42.857	22.31	0.00	0.00	5.18
264	281	9.583530	CTTTTGTGTATATTGTGTGCAAATTTG	57.416	29.630	14.03	14.03	38.21	2.32
371	396	2.650322	AGGGTAATACCAATGCAACCG	58.350	47.619	12.03	0.00	41.02	4.44
639	4407	7.148490	GCCTTTTTGCTTTTGTTTTCTCTGTTA	60.148	33.333	0.00	0.00	0.00	2.41
750	4573	1.490490	ACTGACCACATATTCGGCCAT	59.510	47.619	2.24	0.00	0.00	4.40
753	4576	1.202371	TCGACTGACCACATATTCGGC	60.202	52.381	0.00	0.00	0.00	5.54
756	4580	5.180492	TGGTTTTTCGACTGACCACATATTC	59.820	40.000	8.46	0.00	37.26	1.75
932	4771	1.115930	ACCACTCCAAGTCGAGCTGT	61.116	55.000	0.00	0.00	32.79	4.40
982	4821	2.032860	ATGAAGCGAGGGATCGGGTG	62.033	60.000	0.00	0.00	0.00	4.61
1188	8388	0.389948	ATCGTCGAGTTCCACCTTGC	60.390	55.000	0.00	0.00	0.00	4.01
1477	8680	2.034532	TGGTCGCCGAGGTAGTGA	59.965	61.111	0.00	0.00	0.00	3.41
1663	8866	2.188469	GTCCAATAGGCGGCGGAA	59.812	61.111	9.78	0.00	33.74	4.30
1705	8908	2.646719	CGGTCCGTGTCGAAGGAA	59.353	61.111	2.08	0.00	38.41	3.36
1890	9105	3.764466	CCTCCGCGAGCTTCCAGT	61.764	66.667	8.23	0.00	0.00	4.00
1966	9184	3.825160	GACACAGAACCTGGCGCCA	62.825	63.158	30.59	30.59	35.51	5.69
1981	9199	3.377439	GTGCCACATATATTCGACGACA	58.623	45.455	0.00	0.00	0.00	4.35
1990	9208	0.037326	CGCCCTCGTGCCACATATAT	60.037	55.000	0.00	0.00	0.00	0.86
2152	9373	1.511850	CATGAGCTCGGTTGAACACA	58.488	50.000	9.64	0.00	0.00	3.72
2267	9497	2.681848	GAGCACTACGGTGTAAGCTAGA	59.318	50.000	0.00	0.00	44.65	2.43
2269	9499	1.399440	CGAGCACTACGGTGTAAGCTA	59.601	52.381	0.00	0.00	44.65	3.32
2270	9500	0.170561	CGAGCACTACGGTGTAAGCT	59.829	55.000	4.00	4.00	44.65	3.74
2271	9501	0.169672	TCGAGCACTACGGTGTAAGC	59.830	55.000	0.00	0.00	44.65	3.09
2272	9502	1.467734	AGTCGAGCACTACGGTGTAAG	59.532	52.381	0.00	0.00	44.65	2.34
2273	9503	1.466167	GAGTCGAGCACTACGGTGTAA	59.534	52.381	0.00	0.00	44.65	2.41
2275	9505	1.874562	GAGTCGAGCACTACGGTGT	59.125	57.895	0.00	0.00	44.65	4.16
2276	9506	1.226046	CGAGTCGAGCACTACGGTG	60.226	63.158	6.73	0.00	45.53	4.94
2277	9507	0.743701	ATCGAGTCGAGCACTACGGT	60.744	55.000	21.36	0.00	39.91	4.83
2278	9508	0.042013	GATCGAGTCGAGCACTACGG	60.042	60.000	24.86	0.00	42.09	4.02
2279	9509	0.042013	GGATCGAGTCGAGCACTACG	60.042	60.000	29.66	0.00	44.41	3.51
2280	9510	1.015109	TGGATCGAGTCGAGCACTAC	58.985	55.000	29.66	14.39	44.41	2.73
2281	9511	1.968704	ATGGATCGAGTCGAGCACTA	58.031	50.000	29.66	16.76	44.41	2.74
2282	9512	1.876799	CTATGGATCGAGTCGAGCACT	59.123	52.381	29.66	18.80	44.41	4.40
2283	9513	1.874231	TCTATGGATCGAGTCGAGCAC	59.126	52.381	29.66	19.67	44.41	4.40
2284	9514	2.256117	TCTATGGATCGAGTCGAGCA	57.744	50.000	29.66	17.23	44.41	4.26
2285	9515	3.840890	ATTCTATGGATCGAGTCGAGC	57.159	47.619	22.09	22.09	41.76	5.03
2286	9516	7.757526	AGATTAATTCTATGGATCGAGTCGAG	58.242	38.462	21.36	6.13	33.89	4.04
2287	9517	7.689446	AGATTAATTCTATGGATCGAGTCGA	57.311	36.000	19.06	19.06	34.59	4.20
2288	9518	7.810282	ACAAGATTAATTCTATGGATCGAGTCG	59.190	37.037	6.09	6.09	33.05	4.18
2289	9519	8.920665	CACAAGATTAATTCTATGGATCGAGTC	58.079	37.037	0.00	0.00	33.05	3.36
2290	9520	7.875041	CCACAAGATTAATTCTATGGATCGAGT	59.125	37.037	0.00	0.00	33.05	4.18
2294	9524	6.428159	ACGCCACAAGATTAATTCTATGGATC	59.572	38.462	11.78	0.00	33.05	3.36
2296	9526	5.527214	CACGCCACAAGATTAATTCTATGGA	59.473	40.000	11.78	0.00	33.05	3.41
2301	9531	5.957842	TTTCACGCCACAAGATTAATTCT	57.042	34.783	0.00	0.00	35.70	2.40
2355	9585	7.645402	CAACATGCATGAGCTCTAATAATGAA	58.355	34.615	32.75	4.64	42.74	2.57
2368	9598	2.028763	GCAAATTCGCAACATGCATGAG	59.971	45.455	32.75	23.31	45.36	2.90
2434	9886	9.715121	ATCGACTAAACCAACACTTCTAATAAA	57.285	29.630	0.00	0.00	0.00	1.40
2435	9887	9.715121	AATCGACTAAACCAACACTTCTAATAA	57.285	29.630	0.00	0.00	0.00	1.40
2440	9892	5.236478	CACAATCGACTAAACCAACACTTCT	59.764	40.000	0.00	0.00	0.00	2.85
2493	9945	2.701587	TGCCGGTGCATAGCATTAC	58.298	52.632	1.90	0.00	44.23	1.89
2522	9974	7.624077	AGAGTGTTAGATGGGTACTTCCTATTT	59.376	37.037	0.00	0.00	37.53	1.40
2558	10010	7.509141	TCAGAGAATTGCAACACAAAGATAA	57.491	32.000	0.00	0.00	42.86	1.75
2568	10277	6.594937	AGAGAGAGAAATCAGAGAATTGCAAC	59.405	38.462	0.00	0.00	0.00	4.17
2631	10360	4.330944	ACAATGACACGGTCAACTAAGA	57.669	40.909	10.17	0.00	45.96	2.10
2633	10362	4.946445	TGTACAATGACACGGTCAACTAA	58.054	39.130	10.17	0.00	45.96	2.24
2634	10363	4.587584	TGTACAATGACACGGTCAACTA	57.412	40.909	10.17	0.00	45.96	2.24
2643	10372	4.683501	TGCATGTGATGTACAATGACAC	57.316	40.909	9.04	12.13	43.77	3.67
2645	10374	4.039703	GCATGCATGTGATGTACAATGAC	58.960	43.478	26.79	2.16	43.77	3.06
2701	10560	6.126863	TGGTTGGATTTACTGTGAGAGAAT	57.873	37.500	0.00	0.00	0.00	2.40
2702	10561	5.560722	TGGTTGGATTTACTGTGAGAGAA	57.439	39.130	0.00	0.00	0.00	2.87
2730	10589	6.496911	AGATGTTTTAATTTAGCCAAGGTGGT	59.503	34.615	0.00	0.00	40.46	4.16
2791	10650	9.859427	TTGATGCAAGGAGTTCAAATATAAAAG	57.141	29.630	0.00	0.00	0.00	2.27
2852	10714	3.426963	CGTCCGGATTTAAACATGGTTGG	60.427	47.826	7.81	0.00	0.00	3.77
2946	10810	5.773176	AGGAAAATGTAGGTTCCGAATGTTT	59.227	36.000	0.00	0.00	46.67	2.83
2949	10813	5.897377	AAGGAAAATGTAGGTTCCGAATG	57.103	39.130	0.00	0.00	46.67	2.67
2954	10996	6.650427	AGTGAAAAGGAAAATGTAGGTTCC	57.350	37.500	0.00	0.00	43.17	3.62
2967	11009	6.262273	CCTGTAAAACAAGCTAGTGAAAAGGA	59.738	38.462	0.00	0.00	0.00	3.36
2968	11010	6.262273	TCCTGTAAAACAAGCTAGTGAAAAGG	59.738	38.462	0.00	0.00	0.00	3.11
3116	11162	8.394121	GCAGGTTCTGAATTATGAAAGAGTAAG	58.606	37.037	0.00	0.00	32.44	2.34
3231	11278	9.708222	GTAATGTATCAATGTGAAACTGATGTC	57.292	33.333	0.00	0.00	38.04	3.06

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.