AutoCloner

Multiple sequence alignment - TraesCS4D01G045100

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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	TraesCS4D01G045100	chr4D	100.000	2243	0	0	1	2243	20536743	20534501	0.000000e+00	4143.0
1	TraesCS4D01G045100	chr4D	87.791	516	51	5	1	511	497608597	497608089	5.330000e-166	593.0
2	TraesCS4D01G045100	chr4A	87.350	1581	138	28	563	2126	581150541	581152076	0.000000e+00	1755.0
3	TraesCS4D01G045100	chr4B	91.264	870	43	13	569	1410	32487594	32486730	0.000000e+00	1155.0
4	TraesCS4D01G045100	chr2D	89.709	515	46	5	1	511	441033173	441033684	0.000000e+00	651.0
5	TraesCS4D01G045100	chr2D	87.873	503	56	5	13	511	503232156	503232657	8.920000e-164	586.0
6	TraesCS4D01G045100	chr2D	81.045	670	114	8	1571	2239	304267286	304267943	2.550000e-144	521.0
7	TraesCS4D01G045100	chr2D	79.333	150	27	4	1555	1702	288618358	288618211	3.940000e-18	102.0
8	TraesCS4D01G045100	chr7D	89.307	505	44	7	13	509	106128703	106128201	1.890000e-175	625.0
9	TraesCS4D01G045100	chr7D	81.223	687	120	5	1555	2241	74954470	74955147	1.510000e-151	545.0
10	TraesCS4D01G045100	chr3D	89.691	485	41	7	13	489	550206383	550205900	5.300000e-171	610.0
11	TraesCS4D01G045100	chr1D	88.132	514	52	7	1	511	414397904	414397397	8.860000e-169	603.0
12	TraesCS4D01G045100	chr1D	86.923	520	56	6	1	511	395886796	395887312	6.950000e-160	573.0
13	TraesCS4D01G045100	chr1D	80.292	685	128	7	1558	2239	62440835	62440155	5.530000e-141	510.0
14	TraesCS4D01G045100	chr5D	88.200	500	44	10	13	511	423509445	423509930	1.150000e-162	582.0
15	TraesCS4D01G045100	chr6D	87.426	509	55	8	9	511	107954443	107953938	5.370000e-161	577.0
16	TraesCS4D01G045100	chr6D	82.372	607	97	10	1638	2239	433362498	433361897	9.180000e-144	520.0
17	TraesCS4D01G045100	chr5A	81.315	669	118	6	1571	2238	403706575	403705913	9.120000e-149	536.0
18	TraesCS4D01G045100	chr1B	82.993	588	96	4	1637	2223	161986948	161987532	1.530000e-146	529.0
19	TraesCS4D01G045100	chr7B	80.763	655	118	8	1556	2207	483025419	483026068	2.570000e-139	505.0
20	TraesCS4D01G045100	chr7B	81.048	248	44	3	1758	2004	54476358	54476113	6.320000e-46	195.0
21	TraesCS4D01G045100	chr7B	95.556	45	2	0	1554	1598	707994890	707994846	3.090000e-09	73.1
22	TraesCS4D01G045100	chr1A	80.363	662	120	10	1554	2212	12419125	12419779	5.560000e-136	494.0
23	TraesCS4D01G045100	chr6B	74.269	342	80	6	1555	1893	715177525	715177189	1.080000e-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	TraesCS4D01G045100	chr4D	20534501	20536743	2242	True	4143	4143	100.000	1	2243	1	chr4D.!!$R1	2242
1	TraesCS4D01G045100	chr4D	497608089	497608597	508	True	593	593	87.791	1	511	1	chr4D.!!$R2	510
2	TraesCS4D01G045100	chr4A	581150541	581152076	1535	False	1755	1755	87.350	563	2126	1	chr4A.!!$F1	1563
3	TraesCS4D01G045100	chr4B	32486730	32487594	864	True	1155	1155	91.264	569	1410	1	chr4B.!!$R1	841
4	TraesCS4D01G045100	chr2D	441033173	441033684	511	False	651	651	89.709	1	511	1	chr2D.!!$F2	510
5	TraesCS4D01G045100	chr2D	503232156	503232657	501	False	586	586	87.873	13	511	1	chr2D.!!$F3	498
6	TraesCS4D01G045100	chr2D	304267286	304267943	657	False	521	521	81.045	1571	2239	1	chr2D.!!$F1	668
7	TraesCS4D01G045100	chr7D	106128201	106128703	502	True	625	625	89.307	13	509	1	chr7D.!!$R1	496
8	TraesCS4D01G045100	chr7D	74954470	74955147	677	False	545	545	81.223	1555	2241	1	chr7D.!!$F1	686
9	TraesCS4D01G045100	chr1D	414397397	414397904	507	True	603	603	88.132	1	511	1	chr1D.!!$R2	510
10	TraesCS4D01G045100	chr1D	395886796	395887312	516	False	573	573	86.923	1	511	1	chr1D.!!$F1	510
11	TraesCS4D01G045100	chr1D	62440155	62440835	680	True	510	510	80.292	1558	2239	1	chr1D.!!$R1	681
12	TraesCS4D01G045100	chr6D	107953938	107954443	505	True	577	577	87.426	9	511	1	chr6D.!!$R1	502
13	TraesCS4D01G045100	chr6D	433361897	433362498	601	True	520	520	82.372	1638	2239	1	chr6D.!!$R2	601
14	TraesCS4D01G045100	chr5A	403705913	403706575	662	True	536	536	81.315	1571	2238	1	chr5A.!!$R1	667
15	TraesCS4D01G045100	chr1B	161986948	161987532	584	False	529	529	82.993	1637	2223	1	chr1B.!!$F1	586
16	TraesCS4D01G045100	chr7B	483025419	483026068	649	False	505	505	80.763	1556	2207	1	chr7B.!!$F1	651
17	TraesCS4D01G045100	chr1A	12419125	12419779	654	False	494	494	80.363	1554	2212	1	chr1A.!!$F1	658

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
385	406	0.037605	ACTTCTTCGCCCCGTAGTTG	60.038	55.0	0.0	0.0	0.0	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1813	1883	0.460311	CGTGTCCCATGTCCTACTCC	59.54	60.0	0.0	0.0	0.0	3.85	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
209	211	2.915659	AAGGGAGCGTGGTCGTCA	60.916	61.111	0.00	0.00	39.49	4.35
227	229	1.198178	TCATCGATGACAACGACGACA	59.802	47.619	23.99	0.00	42.37	4.35
309	317	1.134699	TCGCGCAATCAAGAAGGAGAT	60.135	47.619	8.75	0.00	0.00	2.75
384	405	0.245813	GACTTCTTCGCCCCGTAGTT	59.754	55.000	0.00	0.00	0.00	2.24
385	406	0.037605	ACTTCTTCGCCCCGTAGTTG	60.038	55.000	0.00	0.00	0.00	3.16
386	407	0.739813	CTTCTTCGCCCCGTAGTTGG	60.740	60.000	0.00	0.00	0.00	3.77
387	408	1.474332	TTCTTCGCCCCGTAGTTGGT	61.474	55.000	0.00	0.00	0.00	3.67
388	409	1.004200	CTTCGCCCCGTAGTTGGTT	60.004	57.895	0.00	0.00	0.00	3.67
461	485	3.336468	TGCCGAATTTAGCCGAACTTTA	58.664	40.909	0.00	0.00	0.00	1.85
472	496	2.414957	GCCGAACTTTACCGAATTTGGG	60.415	50.000	16.44	5.84	31.63	4.12
519	549	2.267961	GGTGACCCTCGCCGATTT	59.732	61.111	0.00	0.00	37.29	2.17
520	550	1.376812	GGTGACCCTCGCCGATTTT	60.377	57.895	0.00	0.00	37.29	1.82
521	551	0.108041	GGTGACCCTCGCCGATTTTA	60.108	55.000	0.00	0.00	37.29	1.52
522	552	1.287425	GTGACCCTCGCCGATTTTAG	58.713	55.000	0.00	0.00	0.00	1.85
523	553	0.461339	TGACCCTCGCCGATTTTAGC	60.461	55.000	0.00	0.00	0.00	3.09
540	570	4.527366	CGCAGCGTAAAATCGTCG	57.473	55.556	6.65	0.00	0.00	5.12
546	576	0.850856	GCGTAAAATCGTCGCCTAGG	59.149	55.000	3.67	3.67	43.41	3.02
547	577	1.484356	CGTAAAATCGTCGCCTAGGG	58.516	55.000	11.72	0.44	0.00	3.53
548	578	1.861971	GTAAAATCGTCGCCTAGGGG	58.138	55.000	19.63	19.63	0.00	4.79
549	579	0.754472	TAAAATCGTCGCCTAGGGGG	59.246	55.000	24.48	10.56	36.96	5.40
573	603	1.402896	CGGCTGGGGATGCTCTAAGA	61.403	60.000	0.00	0.00	0.00	2.10
606	636	2.121963	TGGCTTCTGTGGAGGGGT	60.122	61.111	0.00	0.00	0.00	4.95
607	637	2.352805	GGCTTCTGTGGAGGGGTG	59.647	66.667	0.00	0.00	0.00	4.61
608	638	2.360475	GCTTCTGTGGAGGGGTGC	60.360	66.667	0.00	0.00	0.00	5.01
609	639	2.900106	GCTTCTGTGGAGGGGTGCT	61.900	63.158	0.00	0.00	0.00	4.40
610	640	1.553690	GCTTCTGTGGAGGGGTGCTA	61.554	60.000	0.00	0.00	0.00	3.49
654	684	2.357034	CACAACCCCACGAGACGG	60.357	66.667	0.00	0.00	0.00	4.79
706	746	4.119442	GGAACCATAAAGCGACAGAGTA	57.881	45.455	0.00	0.00	0.00	2.59
712	752	1.350193	AAAGCGACAGAGTATGCACG	58.650	50.000	0.00	1.52	35.86	5.34
721	761	4.569943	ACAGAGTATGCACGAACAAATCT	58.430	39.130	0.00	0.00	0.00	2.40
803	855	4.760047	TCTCCGAGGCCTTTGCGC	62.760	66.667	6.77	0.00	38.85	6.09
941	998	2.124151	GCACATCCGCCATTCCCT	60.124	61.111	0.00	0.00	0.00	4.20
950	1007	3.499737	CCATTCCCTGACGCGCAC	61.500	66.667	5.73	0.41	0.00	5.34
974	1031	2.896443	GTTCGGAGCTAGCAGGCT	59.104	61.111	18.83	3.10	46.11	4.58
982	1041	2.028130	GAGCTAGCAGGCTGTCTTCTA	58.972	52.381	18.83	7.81	43.20	2.10
1041	1100	3.957586	CTGGTGTCCCTGCTGGCA	61.958	66.667	3.63	0.00	0.00	4.92
1244	1303	2.443390	GGACGGGCTGGGCTAGTA	60.443	66.667	0.00	0.00	0.00	1.82
1306	1372	0.377554	ATTCTCGTCGGCTCGTGTAG	59.622	55.000	0.00	0.00	0.00	2.74
1315	1381	1.153549	GCTCGTGTAGGAGGCCAAG	60.154	63.158	5.01	0.00	34.56	3.61
1321	1387	1.486726	GTGTAGGAGGCCAAGCAGTAT	59.513	52.381	5.01	0.00	0.00	2.12
1327	1393	1.754234	GGCCAAGCAGTATGGGGTG	60.754	63.158	0.00	0.00	38.44	4.61
1423	1492	6.291955	GCAGATAAATTTCATGTCGCAAATGG	60.292	38.462	0.00	0.00	0.00	3.16
1424	1493	5.750067	AGATAAATTTCATGTCGCAAATGGC	59.250	36.000	0.00	0.00	39.90	4.40
1425	1494	3.598019	AATTTCATGTCGCAAATGGCT	57.402	38.095	0.00	0.00	41.67	4.75
1440	1509	4.339872	AATGGCTTTTCTTCATGTTGCA	57.660	36.364	0.00	0.00	0.00	4.08
1441	1510	3.815856	TGGCTTTTCTTCATGTTGCAA	57.184	38.095	0.00	0.00	0.00	4.08
1455	1524	4.241590	TGTTGCAAATGTTAAGCAGAGG	57.758	40.909	0.00	0.00	39.72	3.69
1470	1539	3.575256	AGCAGAGGAATTTCATTGTTGCA	59.425	39.130	14.22	0.00	0.00	4.08
1488	1557	2.741122	CAAGTGTTGCCGTCGTTAAA	57.259	45.000	0.00	0.00	0.00	1.52
1493	1562	1.258458	TGTTGCCGTCGTTAAAAGTCG	59.742	47.619	0.00	0.00	0.00	4.18
1494	1563	0.860533	TTGCCGTCGTTAAAAGTCGG	59.139	50.000	11.50	11.50	41.80	4.79
1497	1566	2.058057	GCCGTCGTTAAAAGTCGGTAA	58.942	47.619	15.24	0.00	41.16	2.85
1503	1572	7.455447	CCGTCGTTAAAAGTCGGTAATTTATT	58.545	34.615	8.82	0.00	36.00	1.40
1512	1581	7.875327	AAGTCGGTAATTTATTATGGCTGTT	57.125	32.000	0.00	0.00	0.00	3.16
1515	1584	7.012044	AGTCGGTAATTTATTATGGCTGTTGTC	59.988	37.037	0.00	0.00	0.00	3.18
1531	1600	2.371910	TGTCACTGTCACAACACGAA	57.628	45.000	0.00	0.00	0.00	3.85
1532	1601	1.996898	TGTCACTGTCACAACACGAAC	59.003	47.619	0.00	0.00	0.00	3.95
1537	1606	4.048504	CACTGTCACAACACGAACAGATA	58.951	43.478	8.24	0.00	41.26	1.98
1541	1610	6.586463	ACTGTCACAACACGAACAGATAATAG	59.414	38.462	8.24	0.00	41.26	1.73
1603	1672	0.252789	TCCGACCCCTCAAATACCCA	60.253	55.000	0.00	0.00	0.00	4.51
1654	1724	5.577164	CAGTGACCGGTCAAGTCTTAAATAG	59.423	44.000	37.75	14.14	41.85	1.73
1685	1755	4.899502	ACAGCCGGATATCTCAAATTAGG	58.100	43.478	5.05	0.00	0.00	2.69
1691	1761	6.534634	CCGGATATCTCAAATTAGGAACCTT	58.465	40.000	0.00	0.00	0.00	3.50
1798	1868	1.074090	TCCCCAGAGTGTTGGTCCA	60.074	57.895	0.00	0.00	36.45	4.02
1888	1958	1.482593	CATGCCCTACTCTTCCTCGTT	59.517	52.381	0.00	0.00	0.00	3.85
1957	2027	2.284995	GTCCTGGGAGGAGCTGGT	60.285	66.667	0.00	0.00	46.90	4.00
2119	2189	4.459331	CGCCATGTTTGCGTCGGG	62.459	66.667	6.66	0.00	46.59	5.14
2142	2212	3.009275	CCCATGGTGCATCCTCCA	58.991	61.111	11.73	0.00	38.83	3.86
2199	2271	2.126071	CGTTCGGATGCCAGACGT	60.126	61.111	0.00	0.00	30.46	4.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
192	193	2.227089	GATGACGACCACGCTCCCTT	62.227	60.000	0.00	0.00	43.96	3.95
209	211	2.341318	TTGTCGTCGTTGTCATCGAT	57.659	45.000	9.11	0.00	39.45	3.59
219	221	2.019951	GGCACGTCATTGTCGTCGT	61.020	57.895	5.98	0.58	39.55	4.34
244	252	3.785859	TCTCCATGGCAGACCGGC	61.786	66.667	6.96	0.00	39.70	6.13
288	296	1.134699	TCTCCTTCTTGATTGCGCGAT	60.135	47.619	12.10	10.69	0.00	4.58
289	297	0.246360	TCTCCTTCTTGATTGCGCGA	59.754	50.000	12.10	0.00	0.00	5.87
295	303	1.748591	GCGGCCATCTCCTTCTTGATT	60.749	52.381	2.24	0.00	0.00	2.57
417	439	8.629158	GGCAAACTTGACATAATATTGGACATA	58.371	33.333	0.00	0.00	35.83	2.29
479	507	2.591133	CCAGACGCGGGTTTTATTTTG	58.409	47.619	12.47	0.00	0.00	2.44
484	512	2.348243	CCCCAGACGCGGGTTTTA	59.652	61.111	12.47	0.00	45.80	1.52
512	542	1.758319	TACGCTGCGCTAAAATCGGC	61.758	55.000	23.51	0.00	0.00	5.54
513	543	0.648441	TTACGCTGCGCTAAAATCGG	59.352	50.000	23.51	0.00	0.00	4.18
514	544	2.429213	TTTACGCTGCGCTAAAATCG	57.571	45.000	23.51	5.50	0.00	3.34
515	545	3.414422	CGATTTTACGCTGCGCTAAAATC	59.586	43.478	35.28	35.28	40.67	2.17
516	546	3.181514	ACGATTTTACGCTGCGCTAAAAT	60.182	39.130	31.23	31.23	36.65	1.82
517	547	2.158058	ACGATTTTACGCTGCGCTAAAA	59.842	40.909	27.48	27.48	36.70	1.52
518	548	1.727880	ACGATTTTACGCTGCGCTAAA	59.272	42.857	23.51	21.09	36.70	1.85
519	549	1.322338	GACGATTTTACGCTGCGCTAA	59.678	47.619	23.51	16.07	36.70	3.09
520	550	0.918619	GACGATTTTACGCTGCGCTA	59.081	50.000	23.51	10.88	36.70	4.26
521	551	1.708027	GACGATTTTACGCTGCGCT	59.292	52.632	23.51	11.93	36.70	5.92
522	552	1.644364	CGACGATTTTACGCTGCGC	60.644	57.895	23.51	0.00	36.70	6.09
523	553	4.527366	CGACGATTTTACGCTGCG	57.473	55.556	21.91	21.91	36.70	5.18
528	558	1.484356	CCCTAGGCGACGATTTTACG	58.516	55.000	2.05	0.00	39.31	3.18
529	559	1.539712	CCCCCTAGGCGACGATTTTAC	60.540	57.143	2.05	0.00	0.00	2.01
530	560	0.754472	CCCCCTAGGCGACGATTTTA	59.246	55.000	2.05	0.00	0.00	1.52
531	561	1.525442	CCCCCTAGGCGACGATTTT	59.475	57.895	2.05	0.00	0.00	1.82
532	562	3.227250	CCCCCTAGGCGACGATTT	58.773	61.111	2.05	0.00	0.00	2.17
551	581	1.971505	TAGAGCATCCCCAGCCGTTG	61.972	60.000	0.00	0.00	33.66	4.10
552	582	1.271840	TTAGAGCATCCCCAGCCGTT	61.272	55.000	0.00	0.00	33.66	4.44
553	583	1.689233	TTAGAGCATCCCCAGCCGT	60.689	57.895	0.00	0.00	33.66	5.68
554	584	1.070445	CTTAGAGCATCCCCAGCCG	59.930	63.158	0.00	0.00	33.66	5.52
555	585	0.107643	GTCTTAGAGCATCCCCAGCC	59.892	60.000	0.00	0.00	33.66	4.85
556	586	0.107643	GGTCTTAGAGCATCCCCAGC	59.892	60.000	6.55	0.00	33.66	4.85
557	587	1.500474	TGGTCTTAGAGCATCCCCAG	58.500	55.000	10.28	0.00	35.04	4.45
558	588	1.965414	TTGGTCTTAGAGCATCCCCA	58.035	50.000	15.08	0.00	39.81	4.96
559	589	2.422093	CCTTTGGTCTTAGAGCATCCCC	60.422	54.545	15.08	0.00	39.81	4.81
560	590	2.422093	CCCTTTGGTCTTAGAGCATCCC	60.422	54.545	15.08	0.00	39.81	3.85
561	591	2.422093	CCCCTTTGGTCTTAGAGCATCC	60.422	54.545	15.08	0.00	39.81	3.51
573	603	4.351054	CAGCGCCTCCCCTTTGGT	62.351	66.667	2.29	0.00	34.77	3.67
606	636	4.451150	CCGGCGGTTGAGCTAGCA	62.451	66.667	19.97	0.00	37.29	3.49
607	637	3.447025	ATCCGGCGGTTGAGCTAGC	62.447	63.158	27.32	6.62	37.29	3.42
608	638	1.300233	GATCCGGCGGTTGAGCTAG	60.300	63.158	27.32	0.00	37.29	3.42
609	639	2.792947	GGATCCGGCGGTTGAGCTA	61.793	63.158	27.32	4.44	37.29	3.32
610	640	4.162690	GGATCCGGCGGTTGAGCT	62.163	66.667	27.32	4.72	37.29	4.09
654	684	2.750237	AATTCCAGTTCCGGCGCC	60.750	61.111	19.07	19.07	0.00	6.53
706	746	5.335191	GGAAGAAGAAGATTTGTTCGTGCAT	60.335	40.000	0.00	0.00	37.93	3.96
712	752	5.316987	TGGGAGGAAGAAGAAGATTTGTTC	58.683	41.667	0.00	0.00	33.48	3.18
721	761	3.858135	ACTGTACTGGGAGGAAGAAGAA	58.142	45.455	4.66	0.00	0.00	2.52
806	858	2.705220	CATGCATCGTGTGAGCGG	59.295	61.111	0.00	0.00	0.00	5.52
941	998	4.578898	ACGAACCTGTGCGCGTCA	62.579	61.111	8.43	6.98	30.15	4.35
950	1007	0.802607	GCTAGCTCCGAACGAACCTG	60.803	60.000	7.70	0.00	0.00	4.00
974	1031	2.872557	CGCCGACGGTAGAAGACA	59.127	61.111	16.73	0.00	34.97	3.41
1275	1341	1.069204	GACGAGAATGGAGCAGGCATA	59.931	52.381	0.00	0.00	0.00	3.14
1306	1372	1.152881	CCCATACTGCTTGGCCTCC	60.153	63.158	3.32	0.00	32.60	4.30
1315	1381	0.884704	CATACGGCACCCCATACTGC	60.885	60.000	0.00	0.00	0.00	4.40
1321	1387	1.001888	TACTCCATACGGCACCCCA	59.998	57.895	0.00	0.00	0.00	4.96
1327	1393	2.544267	GCAACAATCTACTCCATACGGC	59.456	50.000	0.00	0.00	0.00	5.68
1377	1443	7.331026	TCTGCTATCAGTAATTAGCAACAAGT	58.669	34.615	6.16	0.00	43.81	3.16
1378	1447	7.776933	TCTGCTATCAGTAATTAGCAACAAG	57.223	36.000	6.16	0.00	43.81	3.16
1423	1492	5.662211	ACATTTGCAACATGAAGAAAAGC	57.338	34.783	20.96	0.00	0.00	3.51
1424	1493	7.795272	GCTTAACATTTGCAACATGAAGAAAAG	59.205	33.333	20.96	16.44	0.00	2.27
1425	1494	7.279536	TGCTTAACATTTGCAACATGAAGAAAA	59.720	29.630	20.96	0.00	33.48	2.29
1440	1509	8.370182	ACAATGAAATTCCTCTGCTTAACATTT	58.630	29.630	0.00	0.00	31.22	2.32
1441	1510	7.899973	ACAATGAAATTCCTCTGCTTAACATT	58.100	30.769	0.00	0.00	31.22	2.71
1470	1539	2.679336	ACTTTTAACGACGGCAACACTT	59.321	40.909	0.00	0.00	0.00	3.16
1482	1551	9.161684	GCCATAATAAATTACCGACTTTTAACG	57.838	33.333	0.00	0.00	0.00	3.18
1488	1557	7.338449	ACAACAGCCATAATAAATTACCGACTT	59.662	33.333	0.00	0.00	0.00	3.01
1493	1562	7.915397	CAGTGACAACAGCCATAATAAATTACC	59.085	37.037	0.00	0.00	0.00	2.85
1494	1563	8.458843	ACAGTGACAACAGCCATAATAAATTAC	58.541	33.333	0.00	0.00	0.00	1.89
1497	1566	6.658816	TGACAGTGACAACAGCCATAATAAAT	59.341	34.615	0.00	0.00	0.00	1.40
1503	1572	2.103941	TGTGACAGTGACAACAGCCATA	59.896	45.455	0.00	0.00	0.00	2.74
1512	1581	1.996898	GTTCGTGTTGTGACAGTGACA	59.003	47.619	0.00	0.00	36.20	3.58
1515	1584	2.267426	TCTGTTCGTGTTGTGACAGTG	58.733	47.619	0.00	0.00	40.21	3.66
1531	1600	4.575885	ACCGCACACAAACTATTATCTGT	58.424	39.130	0.00	0.00	0.00	3.41
1532	1601	4.870426	AGACCGCACACAAACTATTATCTG	59.130	41.667	0.00	0.00	0.00	2.90
1537	1606	4.890088	TCTAAGACCGCACACAAACTATT	58.110	39.130	0.00	0.00	0.00	1.73
1541	1610	1.194772	GCTCTAAGACCGCACACAAAC	59.805	52.381	0.00	0.00	0.00	2.93
1627	1696	2.313317	AGACTTGACCGGTCACTGTTA	58.687	47.619	36.40	20.57	39.66	2.41
1628	1697	1.120530	AGACTTGACCGGTCACTGTT	58.879	50.000	36.40	20.14	39.66	3.16
1654	1724	3.511934	AGATATCCGGCTGTAGAATGGAC	59.488	47.826	0.00	0.00	0.00	4.02
1691	1761	7.158697	ACGCTGCATGTAATAGTATGGATTTA	58.841	34.615	0.00	0.00	0.00	1.40
1813	1883	0.460311	CGTGTCCCATGTCCTACTCC	59.540	60.000	0.00	0.00	0.00	3.85
1888	1958	1.758514	GTCAGGGATCCGAGCTCCA	60.759	63.158	8.47	0.00	34.24	3.86
2004	2074	3.577313	GCATTCTTCGGCGCCTCC	61.577	66.667	26.68	0.00	0.00	4.30
2158	2228	1.227853	GCGAACACACAACCCCTCT	60.228	57.895	0.00	0.00	0.00	3.69
2199	2271	2.044650	ACTAGAGGCGGTGCGGTA	60.045	61.111	0.00	0.00	0.00	4.02
2213	2285	1.281577	TGTGCCATCATTGCCTCACTA	59.718	47.619	0.00	0.00	0.00	2.74

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.