AutoCloner

Multiple sequence alignment - TraesCS7D01G413800

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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	TraesCS7D01G413800	chr7D	100.000	7446	0	0	1	7446	532256372	532263817	0.000000e+00	13751.0
1	TraesCS7D01G413800	chr7D	88.613	2863	238	50	2795	5624	532363474	532366281	0.000000e+00	3400.0
2	TraesCS7D01G413800	chr7D	90.013	1522	90	30	1	1518	532360585	532362048	0.000000e+00	1912.0
3	TraesCS7D01G413800	chr7D	87.307	1166	85	27	1535	2661	532362038	532363179	0.000000e+00	1275.0
4	TraesCS7D01G413800	chr7D	88.165	1090	101	16	6361	7446	532367152	532368217	0.000000e+00	1273.0
5	TraesCS7D01G413800	chr7D	85.688	545	59	14	5602	6139	532366292	532366824	2.350000e-154	556.0
6	TraesCS7D01G413800	chr7D	88.276	290	23	8	6136	6421	532366871	532367153	3.330000e-88	337.0
7	TraesCS7D01G413800	chr7D	88.406	69	6	1	413	481	532256592	532256658	1.720000e-11	82.4
8	TraesCS7D01G413800	chr7D	88.406	69	6	1	221	287	532256784	532256852	1.720000e-11	82.4
9	TraesCS7D01G413800	chr7D	88.406	69	6	1	413	481	532360805	532360871	1.720000e-11	82.4
10	TraesCS7D01G413800	chr7B	96.556	7462	194	21	1	7446	572631520	572638934	0.000000e+00	12297.0
11	TraesCS7D01G413800	chr7B	88.792	2864	232	51	2795	5624	572645630	572648438	0.000000e+00	3428.0
12	TraesCS7D01G413800	chr7B	88.380	1136	83	22	386	1518	572643115	572644204	0.000000e+00	1321.0
13	TraesCS7D01G413800	chr7B	87.136	1166	88	28	1535	2661	572644194	572645336	0.000000e+00	1266.0
14	TraesCS7D01G413800	chr7B	87.912	1092	105	17	6361	7446	572649312	572650382	0.000000e+00	1260.0
15	TraesCS7D01G413800	chr7B	87.475	495	49	10	5649	6139	572648496	572648981	6.530000e-155	558.0
16	TraesCS7D01G413800	chr7B	94.429	359	16	2	1	358	572642773	572643128	3.930000e-152	549.0
17	TraesCS7D01G413800	chr7B	87.671	292	24	8	6136	6421	572649028	572649313	5.570000e-86	329.0
18	TraesCS7D01G413800	chr7B	88.172	93	8	3	2672	2762	675025638	675025729	2.840000e-19	108.0
19	TraesCS7D01G413800	chr7B	89.474	76	6	2	2687	2762	740074532	740074605	2.210000e-15	95.3
20	TraesCS7D01G413800	chr7B	88.889	72	6	1	413	484	572631737	572631806	3.700000e-13	87.9
21	TraesCS7D01G413800	chr7A	95.836	2858	75	17	4619	7446	612582200	612585043	0.000000e+00	4578.0
22	TraesCS7D01G413800	chr7A	88.219	2869	227	59	2795	5624	612592444	612595240	0.000000e+00	3323.0
23	TraesCS7D01G413800	chr7A	92.568	1803	125	4	2795	4590	612579732	612581532	0.000000e+00	2579.0
24	TraesCS7D01G413800	chr7A	90.163	1535	92	32	1	1518	612576857	612578349	0.000000e+00	1943.0
25	TraesCS7D01G413800	chr7A	89.888	1523	101	24	1	1518	612589537	612591011	0.000000e+00	1910.0
26	TraesCS7D01G413800	chr7A	88.648	1198	82	20	1637	2797	612578407	612579587	0.000000e+00	1410.0
27	TraesCS7D01G413800	chr7A	88.047	1096	105	15	6361	7446	612596322	612597401	0.000000e+00	1275.0
28	TraesCS7D01G413800	chr7A	86.604	1172	89	29	1535	2661	612591001	612592149	0.000000e+00	1232.0
29	TraesCS7D01G413800	chr7A	88.158	380	35	7	5649	6025	612595298	612595670	1.910000e-120	444.0
30	TraesCS7D01G413800	chr7A	86.159	289	28	7	6136	6421	612596044	612596323	1.210000e-77	302.0
31	TraesCS7D01G413800	chr7A	89.855	69	5	1	413	481	612577075	612577141	3.700000e-13	87.9
32	TraesCS7D01G413800	chr2D	76.098	1343	240	45	3974	5272	467972962	467971657	1.760000e-175	627.0
33	TraesCS7D01G413800	chr2D	79.027	329	53	13	2797	3114	467974258	467973935	2.100000e-50	211.0
34	TraesCS7D01G413800	chr6D	74.915	295	49	16	967	1254	68906953	68907229	2.200000e-20	111.0
35	TraesCS7D01G413800	chr3B	89.744	78	4	3	2691	2765	699099354	699099278	6.150000e-16	97.1
36	TraesCS7D01G413800	chr3B	88.158	76	9	0	2687	2762	753168869	753168944	2.860000e-14	91.6
37	TraesCS7D01G413800	chr3B	89.041	73	8	0	2690	2762	824393300	824393228	2.860000e-14	91.6
38	TraesCS7D01G413800	chr6B	89.189	74	6	2	2690	2762	87415218	87415146	2.860000e-14	91.6
39	TraesCS7D01G413800	chr6B	87.671	73	9	0	1182	1254	143995163	143995235	1.330000e-12	86.1
40	TraesCS7D01G413800	chr6A	87.671	73	9	0	1182	1254	87243966	87244038	1.330000e-12	86.1
41	TraesCS7D01G413800	chr5B	86.486	74	9	1	2690	2762	21592355	21592282	6.190000e-11	80.5

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	TraesCS7D01G413800	chr7D	532256372	532263817	7445	False	13751.000000	13751	100.000000	1	7446	1	chr7D.!!$F1	7445
1	TraesCS7D01G413800	chr7D	532360585	532368217	7632	False	1262.200000	3400	88.066857	1	7446	7	chr7D.!!$F3	7445
2	TraesCS7D01G413800	chr7B	572631520	572638934	7414	False	12297.000000	12297	96.556000	1	7446	1	chr7B.!!$F1	7445
3	TraesCS7D01G413800	chr7B	572642773	572650382	7609	False	1244.428571	3428	88.827857	1	7446	7	chr7B.!!$F5	7445
4	TraesCS7D01G413800	chr7A	612576857	612585043	8186	False	2119.580000	4578	91.414000	1	7446	5	chr7A.!!$F1	7445
5	TraesCS7D01G413800	chr7A	612589537	612597401	7864	False	1414.333333	3323	87.845833	1	7446	6	chr7A.!!$F2	7445
6	TraesCS7D01G413800	chr2D	467971657	467974258	2601	True	419.000000	627	77.562500	2797	5272	2	chr2D.!!$R1	2475

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
521	532	0.033366	GAATGTTTGTTGCCCCGCTT	59.967	50.000	0.00	0.00	0.00	4.68	F
1804	1852	0.308993	GCTGCAACCTCAACAGTGTC	59.691	55.000	0.00	0.00	33.87	3.67	F
2640	2732	1.452651	CTGTCCGGATGGCAATGCT	60.453	57.895	7.81	0.00	34.14	3.79	F
3004	3321	2.097304	TCATCAACGCCAATTGAATCCG	59.903	45.455	7.12	6.62	41.78	4.18	F
4305	4782	0.179111	TCATCTGATTGGCGGTCGAC	60.179	55.000	7.13	7.13	0.00	4.20	F
5318	6463	4.829064	TCGCAGCTTCTTGTACAATTTT	57.171	36.364	9.13	0.00	0.00	1.82	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
2425	2511	1.923864	CCTCCGCAACAACAACAAAAC	59.076	47.619	0.00	0.00	2.43	R
3537	3949	0.542702	CTGCCAGTTTCCACCCCAAT	60.543	55.000	0.00	0.00	3.16	R
4120	4588	0.320421	CGCAAGGATATGGTACCCCG	60.320	60.000	10.07	0.00	5.73	R
4445	4922	1.337703	TGTCCTGCAACAAGAACATGC	59.662	47.619	0.00	40.45	4.06	R
5359	6505	1.429148	GCAGGCACCGAAACGATAGG	61.429	60.000	0.00	43.77	2.57	R
6909	8420	1.516864	GCTTTTTGAAACGTGCTTCCG	59.483	47.619	0.00	0.00	4.30	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
318	321	0.808755	ACCAAATTCGGTTCGGATGC	59.191	50.000	0.00	0.00	34.91	3.91
335	338	1.298339	GCAAGTGTTTGTCGCGCTT	60.298	52.632	5.56	0.00	37.18	4.68
346	357	1.300931	TCGCGCTTCTGCTCAGTTT	60.301	52.632	5.56	0.00	36.97	2.66
369	380	0.836606	TCTCCTGCACCACTGTCAAA	59.163	50.000	0.00	0.00	0.00	2.69
410	421	2.097825	GTCTCCTGCTTAGTTCCGGTA	58.902	52.381	0.00	0.00	0.00	4.02
475	486	1.908066	GCGCGAAAACCAGATTCCGT	61.908	55.000	12.10	0.00	0.00	4.69
486	497	1.927174	CAGATTCCGTGTGATCCGTTC	59.073	52.381	0.00	0.00	0.00	3.95
502	513	0.228238	GTTCTCTCGATTCGCATGCG	59.772	55.000	33.61	33.61	41.35	4.73
515	526	0.439600	GCATGCGAATGTTTGTTGCC	59.560	50.000	0.00	0.00	0.00	4.52
521	532	0.033366	GAATGTTTGTTGCCCCGCTT	59.967	50.000	0.00	0.00	0.00	4.68
527	538	1.241315	TTGTTGCCCCGCTTCTTAGC	61.241	55.000	0.00	0.00	44.21	3.09
548	559	2.145397	TGTAGTCTCCTGCACCCTAG	57.855	55.000	0.00	0.00	0.00	3.02
575	586	2.357952	GGGTTGATTGCTCGATTTACCC	59.642	50.000	0.00	0.00	37.41	3.69
585	596	1.202557	TCGATTTACCCACCGGTATGC	60.203	52.381	6.87	0.00	44.34	3.14
598	609	1.386533	GGTATGCACTGCAATCTGCT	58.613	50.000	8.03	0.00	45.31	4.24
606	617	0.460811	CTGCAATCTGCTGGCGAGTA	60.461	55.000	0.00	0.00	45.31	2.59
611	622	3.862264	GCAATCTGCTGGCGAGTATATGA	60.862	47.826	0.00	0.00	40.96	2.15
704	715	5.770663	TGGTAGTGCTGGTTTGCTTATTTTA	59.229	36.000	0.00	0.00	0.00	1.52
720	731	3.926821	TTTTACAAGGGTGCCGATTTC	57.073	42.857	0.00	0.00	0.00	2.17
760	771	3.181489	CGTTACGTCCCTCTGCTCTTAAT	60.181	47.826	0.00	0.00	0.00	1.40
821	832	4.445385	GTCATGCTTTCGCTGTTGAATTTT	59.555	37.500	0.00	0.00	36.97	1.82
827	838	6.150307	TGCTTTCGCTGTTGAATTTTCCTATA	59.850	34.615	0.00	0.00	36.97	1.31
870	889	9.731519	GATTTGATTTGTTCATTTCGAATGTTC	57.268	29.630	0.00	0.00	35.63	3.18
907	926	3.694043	TTGGACTGTAGCACTGCATTA	57.306	42.857	3.30	0.00	0.00	1.90
937	956	6.498304	ACAGCTAATATGCCATTTTTCTTCG	58.502	36.000	0.00	0.00	0.00	3.79
940	959	5.173854	GCTAATATGCCATTTTTCTTCGCAC	59.826	40.000	0.00	0.00	31.17	5.34
1282	1301	4.045636	ACCAAAGCACTGTTCAAACATC	57.954	40.909	0.00	0.00	38.41	3.06
1514	1545	6.648879	AATCTAGAGTAACAGCCTCATCTC	57.351	41.667	0.00	0.00	0.00	2.75
1520	1551	4.207165	AGTAACAGCCTCATCTCTCTCTC	58.793	47.826	0.00	0.00	0.00	3.20
1521	1552	3.386932	AACAGCCTCATCTCTCTCTCT	57.613	47.619	0.00	0.00	0.00	3.10
1522	1553	2.936202	ACAGCCTCATCTCTCTCTCTC	58.064	52.381	0.00	0.00	0.00	3.20
1523	1554	2.511218	ACAGCCTCATCTCTCTCTCTCT	59.489	50.000	0.00	0.00	0.00	3.10
1524	1555	3.144506	CAGCCTCATCTCTCTCTCTCTC	58.855	54.545	0.00	0.00	0.00	3.20
1525	1556	3.051581	AGCCTCATCTCTCTCTCTCTCT	58.948	50.000	0.00	0.00	0.00	3.10
1526	1557	3.072184	AGCCTCATCTCTCTCTCTCTCTC	59.928	52.174	0.00	0.00	0.00	3.20
1527	1558	3.072184	GCCTCATCTCTCTCTCTCTCTCT	59.928	52.174	0.00	0.00	0.00	3.10
1528	1559	4.802248	GCCTCATCTCTCTCTCTCTCTCTC	60.802	54.167	0.00	0.00	0.00	3.20
1529	1560	4.592351	CCTCATCTCTCTCTCTCTCTCTCT	59.408	50.000	0.00	0.00	0.00	3.10
1530	1561	5.279406	CCTCATCTCTCTCTCTCTCTCTCTC	60.279	52.000	0.00	0.00	0.00	3.20
1531	1562	5.462240	TCATCTCTCTCTCTCTCTCTCTCT	58.538	45.833	0.00	0.00	0.00	3.10
1532	1563	5.538053	TCATCTCTCTCTCTCTCTCTCTCTC	59.462	48.000	0.00	0.00	0.00	3.20
1533	1564	5.136068	TCTCTCTCTCTCTCTCTCTCTCT	57.864	47.826	0.00	0.00	0.00	3.10
1534	1565	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1535	1566	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1536	1567	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1537	1568	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1538	1569	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
1539	1570	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
1625	1664	3.744660	AGGGCGGTGATTAATCTTCATC	58.255	45.455	16.24	0.00	0.00	2.92
1703	1742	5.463499	TTCGACCATTATCAACATCAACG	57.537	39.130	0.00	0.00	0.00	4.10
1804	1852	0.308993	GCTGCAACCTCAACAGTGTC	59.691	55.000	0.00	0.00	33.87	3.67
2425	2511	9.391006	TGGGTTATAGTATTGCTCTTAAGTTTG	57.609	33.333	1.63	0.00	0.00	2.93
2546	2632	9.997172	AAAAGAATGGAAGGTTAGATCCTAATT	57.003	29.630	0.00	0.00	36.74	1.40
2580	2666	9.549509	TCGTTTGTATTGCACAATTTCTTATAC	57.450	29.630	0.47	0.00	46.38	1.47
2621	2713	8.085296	CCTGTTCTGTAGTATGATATCCACTTC	58.915	40.741	11.19	7.87	0.00	3.01
2640	2732	1.452651	CTGTCCGGATGGCAATGCT	60.453	57.895	7.81	0.00	34.14	3.79
2857	3170	5.295045	TGTTAGAAAAGAAGTTCCGTCAACC	59.705	40.000	0.00	0.00	35.28	3.77
2925	3240	7.612244	TGTAGTTGGGCTTAAATATGCAAACTA	59.388	33.333	14.76	14.76	38.08	2.24
3004	3321	2.097304	TCATCAACGCCAATTGAATCCG	59.903	45.455	7.12	6.62	41.78	4.18
3013	3330	6.337356	ACGCCAATTGAATCCGAAATAAATT	58.663	32.000	7.12	0.00	0.00	1.82
3277	3665	3.888930	TCTTTTGATGGAGGTTTGGTGAC	59.111	43.478	0.00	0.00	0.00	3.67
3535	3947	7.696453	CGAGATTAAACTTGTGAACACTTGTTT	59.304	33.333	21.10	21.10	38.56	2.83
3719	4141	7.812669	GTGATTTTGAGGTCCGAAATTAAATGT	59.187	33.333	0.00	0.00	38.62	2.71
4102	4570	8.465273	AAGAATGCTTTACAGGAAGTAGTTTT	57.535	30.769	0.00	0.00	33.43	2.43
4120	4588	5.407502	AGTTTTTAACACCAAACTGAGTGC	58.592	37.500	2.87	0.00	40.87	4.40
4259	4736	6.957920	TTGTTTAGGTACCCCAGTTAAAAC	57.042	37.500	8.74	8.63	0.00	2.43
4305	4782	0.179111	TCATCTGATTGGCGGTCGAC	60.179	55.000	7.13	7.13	0.00	4.20
4666	5795	5.249163	CAGGGAATGATACATCTGTGGGATA	59.751	44.000	0.00	0.00	32.64	2.59
4784	5913	5.026121	TGGTGTGAAGAAGGACTATGATCT	58.974	41.667	0.00	0.00	0.00	2.75
5073	6215	6.972328	GCTTAAATCGCATTTCTCAATTACCA	59.028	34.615	0.00	0.00	33.82	3.25
5318	6463	4.829064	TCGCAGCTTCTTGTACAATTTT	57.171	36.364	9.13	0.00	0.00	1.82
5753	6936	4.154195	GCTGTACAATACCAACAAGTCCAG	59.846	45.833	0.00	0.00	0.00	3.86
5817	7002	2.972713	TCAGGAGCTCCTTTGTAGTTGT	59.027	45.455	33.33	5.13	46.09	3.32
5911	7096	5.435291	CTGAAGGATTAGGAGCTGAAATGT	58.565	41.667	0.00	0.00	0.00	2.71
6237	7688	3.507103	TTGCATCATCCATTTTGGTCG	57.493	42.857	0.00	0.00	39.03	4.79
6298	7750	7.531857	TTTGGTCTTACTTGATTATTGGCAA	57.468	32.000	0.68	0.68	0.00	4.52
6299	7751	6.509418	TGGTCTTACTTGATTATTGGCAAC	57.491	37.500	0.00	0.00	0.00	4.17
6300	7752	6.245408	TGGTCTTACTTGATTATTGGCAACT	58.755	36.000	0.00	0.00	37.61	3.16
6468	7979	0.250209	GACTGAGCCATGATGCGGAT	60.250	55.000	0.00	0.00	36.02	4.18
6480	7991	2.358615	GCGGATGGTGCAGTGTCA	60.359	61.111	0.00	0.00	0.00	3.58
6533	8044	8.388484	AGCATATTAATACCTCTTGAAGCTTG	57.612	34.615	2.10	0.00	0.00	4.01
6747	8258	7.384477	ACACTAGTAAGATTTCCTGTGGTTAC	58.616	38.462	0.00	0.00	0.00	2.50
6764	8275	9.653287	CTGTGGTTACTTAAGTTTCAGATGATA	57.347	33.333	14.49	0.00	0.00	2.15
6909	8420	4.967084	ATGGTTTCCCTTTGGTTTTACC	57.033	40.909	0.00	0.00	39.22	2.85
7383	8928	5.470098	TGTTCAGTAACTTGATTCTTGCTCC	59.530	40.000	0.00	0.00	36.51	4.70

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
318	321	0.304705	AGAAGCGCGACAAACACTTG	59.695	50.000	12.10	0.00	38.61	3.16
335	338	3.306364	GCAGGAGACTAAAACTGAGCAGA	60.306	47.826	4.21	0.00	40.21	4.26
346	357	1.618837	GACAGTGGTGCAGGAGACTAA	59.381	52.381	0.00	0.00	40.21	2.24
369	380	4.466827	ACCAGAACCGAAACTAACCAAAT	58.533	39.130	0.00	0.00	0.00	2.32
486	497	4.308964	TCGCATGCGAATCGAGAG	57.691	55.556	38.48	8.77	46.01	3.20
502	513	0.033366	AAGCGGGGCAACAAACATTC	59.967	50.000	0.00	0.00	39.74	2.67
521	532	3.193691	GTGCAGGAGACTACAAGCTAAGA	59.806	47.826	4.09	0.00	40.21	2.10
527	538	1.270907	AGGGTGCAGGAGACTACAAG	58.729	55.000	0.00	0.00	40.21	3.16
548	559	1.066858	TCGAGCAATCAACCCAGAGAC	60.067	52.381	0.00	0.00	0.00	3.36
575	586	0.378257	GATTGCAGTGCATACCGGTG	59.622	55.000	20.50	1.57	38.76	4.94
598	609	4.511454	GCAACATTTCTCATATACTCGCCA	59.489	41.667	0.00	0.00	0.00	5.69
606	617	3.003068	GCAGAGCGCAACATTTCTCATAT	59.997	43.478	11.47	0.00	41.79	1.78
704	715	3.981308	CGAAATCGGCACCCTTGT	58.019	55.556	0.00	0.00	35.37	3.16
725	736	1.352156	CGTAACGAGCCTCCAACTGC	61.352	60.000	0.00	0.00	0.00	4.40
760	771	7.127186	TCTGATTTCATAGTATCCTGTCCCAAA	59.873	37.037	0.00	0.00	0.00	3.28
785	796	4.558538	AAGCATGACGCAATAGGAATTC	57.441	40.909	0.00	0.00	46.13	2.17
845	859	8.711457	GGAACATTCGAAATGAACAAATCAAAT	58.289	29.630	0.00	0.00	42.54	2.32
846	860	7.708322	TGGAACATTCGAAATGAACAAATCAAA	59.292	29.630	0.00	0.00	42.54	2.69
847	861	7.205992	TGGAACATTCGAAATGAACAAATCAA	58.794	30.769	0.00	0.00	42.54	2.57
848	862	6.743110	TGGAACATTCGAAATGAACAAATCA	58.257	32.000	0.00	0.00	43.67	2.57
870	889	2.369860	TCCAATAGCAGCAGTAGGATGG	59.630	50.000	0.00	0.00	32.19	3.51
907	926	6.780457	AAATGGCATATTAGCTGTTTGAGT	57.220	33.333	0.00	0.00	34.17	3.41
937	956	9.708222	CATTAATCACAGTTAACTATGAAGTGC	57.292	33.333	19.83	0.00	32.60	4.40
1158	1177	8.242053	ACAATAAGAACAGAAAATCATGAGCAG	58.758	33.333	0.09	0.00	0.00	4.24
1282	1301	6.820656	AGATACTAACAGAAGGAAATGCACAG	59.179	38.462	0.00	0.00	0.00	3.66
1514	1545	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
1520	1551	5.009911	CAGAGAGAGAGAGAGAGAGAGAGAG	59.990	52.000	0.00	0.00	0.00	3.20
1521	1552	4.892345	CAGAGAGAGAGAGAGAGAGAGAGA	59.108	50.000	0.00	0.00	0.00	3.10
1522	1553	4.648762	ACAGAGAGAGAGAGAGAGAGAGAG	59.351	50.000	0.00	0.00	0.00	3.20
1523	1554	4.614475	ACAGAGAGAGAGAGAGAGAGAGA	58.386	47.826	0.00	0.00	0.00	3.10
1524	1555	5.350504	AACAGAGAGAGAGAGAGAGAGAG	57.649	47.826	0.00	0.00	0.00	3.20
1525	1556	6.686378	GCATAACAGAGAGAGAGAGAGAGAGA	60.686	46.154	0.00	0.00	0.00	3.10
1526	1557	5.468072	GCATAACAGAGAGAGAGAGAGAGAG	59.532	48.000	0.00	0.00	0.00	3.20
1527	1558	5.130975	AGCATAACAGAGAGAGAGAGAGAGA	59.869	44.000	0.00	0.00	0.00	3.10
1528	1559	5.237996	CAGCATAACAGAGAGAGAGAGAGAG	59.762	48.000	0.00	0.00	0.00	3.20
1529	1560	5.125356	CAGCATAACAGAGAGAGAGAGAGA	58.875	45.833	0.00	0.00	0.00	3.10
1530	1561	4.261322	GCAGCATAACAGAGAGAGAGAGAG	60.261	50.000	0.00	0.00	0.00	3.20
1531	1562	3.631686	GCAGCATAACAGAGAGAGAGAGA	59.368	47.826	0.00	0.00	0.00	3.10
1532	1563	3.380954	TGCAGCATAACAGAGAGAGAGAG	59.619	47.826	0.00	0.00	0.00	3.20
1533	1564	3.359950	TGCAGCATAACAGAGAGAGAGA	58.640	45.455	0.00	0.00	0.00	3.10
1534	1565	3.797451	TGCAGCATAACAGAGAGAGAG	57.203	47.619	0.00	0.00	0.00	3.20
1535	1566	3.513119	AGTTGCAGCATAACAGAGAGAGA	59.487	43.478	2.55	0.00	0.00	3.10
1536	1567	3.859443	AGTTGCAGCATAACAGAGAGAG	58.141	45.455	2.55	0.00	0.00	3.20
1537	1568	3.969287	AGTTGCAGCATAACAGAGAGA	57.031	42.857	2.55	0.00	0.00	3.10
1538	1569	4.331168	GGTTAGTTGCAGCATAACAGAGAG	59.669	45.833	17.04	0.00	32.27	3.20
1539	1570	4.020218	AGGTTAGTTGCAGCATAACAGAGA	60.020	41.667	17.04	0.00	32.27	3.10
1703	1742	5.779529	ATAAATCAGTTGATGGACCATGC	57.220	39.130	12.99	4.38	34.49	4.06
1804	1852	6.093219	AGCTATCTAGTTTGTGTCAAAGCATG	59.907	38.462	0.00	0.00	0.00	4.06
1821	1869	5.011982	ACTGGGTGCCTATTAGCTATCTA	57.988	43.478	0.00	0.00	0.00	1.98
1976	2027	9.547753	GGTGAATTAAATCTAGATGCTCACTTA	57.452	33.333	20.64	9.22	33.01	2.24
1979	2030	7.792374	TGGTGAATTAAATCTAGATGCTCAC	57.208	36.000	5.86	13.31	0.00	3.51
2425	2511	1.923864	CCTCCGCAACAACAACAAAAC	59.076	47.619	0.00	0.00	0.00	2.43
2580	2666	5.103000	CAGAACAGGGTACTATGAAGAACG	58.897	45.833	5.10	0.00	0.00	3.95
2621	2713	2.484062	GCATTGCCATCCGGACAGG	61.484	63.158	18.30	18.30	42.97	4.00
2640	2732	6.601741	AAAACGGAACTAACACGTGAAATA	57.398	33.333	25.01	11.05	41.12	1.40
3013	3330	6.096141	TGAAACTTGACAATTTCCAGCACTAA	59.904	34.615	14.84	0.00	34.52	2.24
3535	3947	1.148027	TGCCAGTTTCCACCCCAATAA	59.852	47.619	0.00	0.00	0.00	1.40
3537	3949	0.542702	CTGCCAGTTTCCACCCCAAT	60.543	55.000	0.00	0.00	0.00	3.16
3719	4141	7.884877	AGAAGACATTGGAATTGATGTTAGTGA	59.115	33.333	0.00	0.00	36.67	3.41
3926	4352	6.270463	TGGAAACTATAGGTACAAACTGTCCA	59.730	38.462	4.43	2.12	0.00	4.02
4102	4570	1.944024	CCGCACTCAGTTTGGTGTTAA	59.056	47.619	0.00	0.00	36.03	2.01
4120	4588	0.320421	CGCAAGGATATGGTACCCCG	60.320	60.000	10.07	0.00	0.00	5.73
4259	4736	7.335422	ACCTAACAGATGAGCATGTCTTTTAAG	59.665	37.037	0.00	0.00	0.00	1.85
4305	4782	2.256461	GCTGGAGCTTTTGGCACG	59.744	61.111	0.00	0.00	44.79	5.34
4445	4922	1.337703	TGTCCTGCAACAAGAACATGC	59.662	47.619	0.00	0.00	40.45	4.06
4597	5087	9.636789	TTAGTAGTTAGTACTGGCATCTTATCA	57.363	33.333	5.39	0.00	42.37	2.15
4666	5795	4.154942	AGTTTGGCAAATCCTGAATCAGT	58.845	39.130	16.74	0.00	35.26	3.41
4784	5913	1.672898	GGTAGGGTGGCACGTACAA	59.327	57.895	22.72	2.77	34.36	2.41
5073	6215	4.724279	AAGGTGTTTGGGAGTTACTCAT	57.276	40.909	14.72	0.00	31.08	2.90
5318	6463	3.818210	TCTATGCTCCGCAACAAGAAAAA	59.182	39.130	0.00	0.00	43.62	1.94
5359	6505	1.429148	GCAGGCACCGAAACGATAGG	61.429	60.000	0.00	0.00	43.77	2.57
5713	6893	3.015327	ACAGCCTCTCTGAAATTCATGC	58.985	45.455	0.00	0.00	45.72	4.06
5753	6936	5.371115	TGGTTCATAAAAACTAGCTGCAC	57.629	39.130	1.02	0.00	0.00	4.57
5817	7002	6.361433	TCCACCTTTCACAAGTTTATCTGAA	58.639	36.000	0.00	0.00	0.00	3.02
5911	7096	1.748122	GCTCGAGGGACCGTACAGA	60.748	63.158	15.58	0.00	0.00	3.41
6164	7612	7.078249	TCTTAGCCTATTATGCTTCCATTGA	57.922	36.000	0.00	0.00	40.23	2.57
6167	7615	6.841601	TGTTCTTAGCCTATTATGCTTCCAT	58.158	36.000	0.00	0.00	40.23	3.41
6237	7688	3.057033	AGCATGTTCTTCAAGCACATTCC	60.057	43.478	0.00	0.00	42.35	3.01
6298	7750	3.340814	AGCAGCAAAGCATGTAGTAGT	57.659	42.857	0.00	0.00	36.85	2.73
6299	7751	3.937706	AGAAGCAGCAAAGCATGTAGTAG	59.062	43.478	0.00	0.00	36.85	2.57
6300	7752	3.942829	AGAAGCAGCAAAGCATGTAGTA	58.057	40.909	0.00	0.00	36.85	1.82
6468	7979	2.503331	CTAACCATTGACACTGCACCA	58.497	47.619	0.00	0.00	0.00	4.17
6533	8044	6.345920	ACCGATTTGATCAAACGTAATCTC	57.654	37.500	22.71	13.18	32.51	2.75
6764	8275	6.349611	CCTCACCTGAAATCAAACGAAATCAT	60.350	38.462	0.00	0.00	0.00	2.45
6909	8420	1.516864	GCTTTTTGAAACGTGCTTCCG	59.483	47.619	0.00	0.00	0.00	4.30

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.