AutoCloner

Multiple sequence alignment - TraesCS4D01G038400

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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	TraesCS4D01G038400	chr4D	100.000	2678	0	0	1	2678	16585948	16583271	0.000000e+00	4946.0
1	TraesCS4D01G038400	chr4D	97.199	607	13	3	2072	2675	16549426	16548821	0.000000e+00	1024.0
2	TraesCS4D01G038400	chr4D	97.030	606	13	5	2072	2675	362029320	362029922	0.000000e+00	1014.0
3	TraesCS4D01G038400	chr4B	93.568	1508	58	14	592	2068	28414525	28413026	0.000000e+00	2211.0
4	TraesCS4D01G038400	chr4B	94.303	509	23	2	1	503	28415067	28414559	0.000000e+00	774.0
5	TraesCS4D01G038400	chr4B	97.917	48	1	0	544	591	28414545	28414498	1.710000e-12	84.2
6	TraesCS4D01G038400	chr4A	94.575	1106	37	14	646	1742	583953488	583954579	0.000000e+00	1688.0
7	TraesCS4D01G038400	chr4A	95.866	508	14	4	1242	1742	583958338	583958845	0.000000e+00	815.0
8	TraesCS4D01G038400	chr4A	95.626	503	20	2	1	501	583952908	583953410	0.000000e+00	806.0
9	TraesCS4D01G038400	chr4A	88.629	299	20	5	1737	2024	583963062	583963357	4.240000e-93	351.0
10	TraesCS4D01G038400	chr4A	100.000	37	0	0	592	628	583953450	583953486	4.780000e-08	69.4
11	TraesCS4D01G038400	chr4A	97.297	37	1	0	555	591	583953441	583953477	2.230000e-06	63.9
12	TraesCS4D01G038400	chr1D	97.262	621	15	2	2059	2678	324715059	324714440	0.000000e+00	1051.0
13	TraesCS4D01G038400	chr1D	97.185	604	11	2	2072	2675	411072153	411072750	0.000000e+00	1016.0
14	TraesCS4D01G038400	chr2D	97.218	611	12	5	2070	2678	507250978	507250371	0.000000e+00	1029.0
15	TraesCS4D01G038400	chr2D	98.129	588	9	2	2074	2660	350770882	350770296	0.000000e+00	1024.0
16	TraesCS4D01G038400	chrUn	97.351	604	12	1	2072	2675	110679344	110679943	0.000000e+00	1024.0
17	TraesCS4D01G038400	chr3D	97.355	605	11	5	2072	2675	427993201	427993801	0.000000e+00	1024.0
18	TraesCS4D01G038400	chr3D	85.600	375	44	3	217	591	348134470	348134106	4.180000e-103	385.0
19	TraesCS4D01G038400	chr5D	96.865	606	13	6	2072	2675	450191239	450191840	0.000000e+00	1009.0
20	TraesCS4D01G038400	chr3A	86.133	375	41	4	217	591	467074277	467073914	6.950000e-106	394.0
21	TraesCS4D01G038400	chr3B	85.950	363	41	3	217	579	447936683	447936331	1.950000e-101	379.0
22	TraesCS4D01G038400	chr3B	81.191	319	49	6	142	458	472879578	472879269	2.060000e-61	246.0
23	TraesCS4D01G038400	chr6D	82.540	63	11	0	1862	1924	362869586	362869648	3.720000e-04	56.5

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	TraesCS4D01G038400	chr4D	16583271	16585948	2677	True	4946.000000	4946	100.000000	1	2678	1	chr4D.!!$R2	2677
1	TraesCS4D01G038400	chr4D	16548821	16549426	605	True	1024.000000	1024	97.199000	2072	2675	1	chr4D.!!$R1	603
2	TraesCS4D01G038400	chr4D	362029320	362029922	602	False	1014.000000	1014	97.030000	2072	2675	1	chr4D.!!$F1	603
3	TraesCS4D01G038400	chr4B	28413026	28415067	2041	True	1023.066667	2211	95.262667	1	2068	3	chr4B.!!$R1	2067
4	TraesCS4D01G038400	chr4A	583952908	583958845	5937	False	688.460000	1688	96.672800	1	1742	5	chr4A.!!$F2	1741
5	TraesCS4D01G038400	chr1D	324714440	324715059	619	True	1051.000000	1051	97.262000	2059	2678	1	chr1D.!!$R1	619
6	TraesCS4D01G038400	chr1D	411072153	411072750	597	False	1016.000000	1016	97.185000	2072	2675	1	chr1D.!!$F1	603
7	TraesCS4D01G038400	chr2D	507250371	507250978	607	True	1029.000000	1029	97.218000	2070	2678	1	chr2D.!!$R2	608
8	TraesCS4D01G038400	chr2D	350770296	350770882	586	True	1024.000000	1024	98.129000	2074	2660	1	chr2D.!!$R1	586
9	TraesCS4D01G038400	chrUn	110679344	110679943	599	False	1024.000000	1024	97.351000	2072	2675	1	chrUn.!!$F1	603
10	TraesCS4D01G038400	chr3D	427993201	427993801	600	False	1024.000000	1024	97.355000	2072	2675	1	chr3D.!!$F1	603
11	TraesCS4D01G038400	chr5D	450191239	450191840	601	False	1009.000000	1009	96.865000	2072	2675	1	chr5D.!!$F1	603

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
400	409	0.259065	AGTGGATCTCCGGCTACTCA	59.741	55.0	0.0	0.0	39.43	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1828	1852	1.275421	GGGCAGAGGAACCCTAAGCT	61.275	60.0	0.0	0.0	43.36	3.74	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
177	181	0.391661	GCTCGGTTTCATGCCTCTCA	60.392	55.000	0.00	0.00	0.00	3.27
178	182	1.363744	CTCGGTTTCATGCCTCTCAC	58.636	55.000	0.00	0.00	0.00	3.51
194	198	4.443621	CTCTCACTCATCTTGTCATGCAT	58.556	43.478	0.00	0.00	0.00	3.96
305	314	1.684248	GGTTCTACCGGAGCTACCTCA	60.684	57.143	9.46	0.00	39.96	3.86
400	409	0.259065	AGTGGATCTCCGGCTACTCA	59.741	55.000	0.00	0.00	39.43	3.41
409	418	1.906574	TCCGGCTACTCATCCAAGTTT	59.093	47.619	0.00	0.00	0.00	2.66
448	457	2.535317	AACAGCCCCACCCTGGAT	60.535	61.111	0.00	0.00	40.96	3.41
487	496	1.205893	GCCTACTGGTTCAGAGACCTG	59.794	57.143	1.59	0.00	42.44	4.00
510	519	4.809958	GCTGCAGCACTGATATATATGGAG	59.190	45.833	33.36	0.00	41.59	3.86
511	520	5.626347	GCTGCAGCACTGATATATATGGAGT	60.626	44.000	33.36	0.00	41.59	3.85
512	521	5.727434	TGCAGCACTGATATATATGGAGTG	58.273	41.667	19.00	19.00	37.65	3.51
519	528	7.834803	CACTGATATATATGGAGTGCTTCTGA	58.165	38.462	14.37	0.00	0.00	3.27
520	529	8.309656	CACTGATATATATGGAGTGCTTCTGAA	58.690	37.037	14.37	0.00	0.00	3.02
521	530	9.044646	ACTGATATATATGGAGTGCTTCTGAAT	57.955	33.333	0.00	0.00	0.00	2.57
522	531	9.887629	CTGATATATATGGAGTGCTTCTGAATT	57.112	33.333	0.00	0.00	0.00	2.17
526	535	3.350219	TGGAGTGCTTCTGAATTACCC	57.650	47.619	0.00	0.00	0.00	3.69
527	536	2.642311	TGGAGTGCTTCTGAATTACCCA	59.358	45.455	0.00	1.53	0.00	4.51
528	537	3.073798	TGGAGTGCTTCTGAATTACCCAA	59.926	43.478	0.00	0.00	0.00	4.12
529	538	3.440522	GGAGTGCTTCTGAATTACCCAAC	59.559	47.826	0.00	0.00	0.00	3.77
530	539	3.421844	AGTGCTTCTGAATTACCCAACC	58.578	45.455	0.00	0.00	0.00	3.77
531	540	3.153919	GTGCTTCTGAATTACCCAACCA	58.846	45.455	0.00	0.00	0.00	3.67
532	541	3.763897	GTGCTTCTGAATTACCCAACCAT	59.236	43.478	0.00	0.00	0.00	3.55
533	542	4.016444	TGCTTCTGAATTACCCAACCATC	58.984	43.478	0.00	0.00	0.00	3.51
534	543	3.381590	GCTTCTGAATTACCCAACCATCC	59.618	47.826	0.00	0.00	0.00	3.51
535	544	4.860022	CTTCTGAATTACCCAACCATCCT	58.140	43.478	0.00	0.00	0.00	3.24
536	545	4.235079	TCTGAATTACCCAACCATCCTG	57.765	45.455	0.00	0.00	0.00	3.86
537	546	3.849574	TCTGAATTACCCAACCATCCTGA	59.150	43.478	0.00	0.00	0.00	3.86
538	547	4.478317	TCTGAATTACCCAACCATCCTGAT	59.522	41.667	0.00	0.00	0.00	2.90
539	548	4.535781	TGAATTACCCAACCATCCTGATG	58.464	43.478	0.00	0.00	38.51	3.07
540	549	4.017591	TGAATTACCCAACCATCCTGATGT	60.018	41.667	6.40	0.00	37.11	3.06
541	550	4.608170	ATTACCCAACCATCCTGATGTT	57.392	40.909	6.40	0.00	37.11	2.71
542	551	2.220653	ACCCAACCATCCTGATGTTG	57.779	50.000	6.40	9.75	37.11	3.33
562	571	5.997129	TGTTGTCATCATCTTGCTGAGTTTA	59.003	36.000	0.00	0.00	0.00	2.01
563	572	6.656270	TGTTGTCATCATCTTGCTGAGTTTAT	59.344	34.615	0.00	0.00	0.00	1.40
565	574	5.065602	TGTCATCATCTTGCTGAGTTTATGC	59.934	40.000	0.00	0.00	0.00	3.14
566	575	4.577693	TCATCATCTTGCTGAGTTTATGCC	59.422	41.667	0.00	0.00	0.00	4.40
568	577	5.357742	TCATCTTGCTGAGTTTATGCCTA	57.642	39.130	0.00	0.00	0.00	3.93
569	578	5.118990	TCATCTTGCTGAGTTTATGCCTAC	58.881	41.667	0.00	0.00	0.00	3.18
570	579	4.826274	TCTTGCTGAGTTTATGCCTACT	57.174	40.909	0.00	0.00	0.00	2.57
571	580	4.507710	TCTTGCTGAGTTTATGCCTACTG	58.492	43.478	0.00	0.00	0.00	2.74
572	581	3.981071	TGCTGAGTTTATGCCTACTGT	57.019	42.857	0.00	0.00	0.00	3.55
573	582	4.286297	TGCTGAGTTTATGCCTACTGTT	57.714	40.909	0.00	0.00	0.00	3.16
574	583	4.002982	TGCTGAGTTTATGCCTACTGTTG	58.997	43.478	0.00	0.00	0.00	3.33
575	584	4.003648	GCTGAGTTTATGCCTACTGTTGT	58.996	43.478	0.00	0.00	0.00	3.32
576	585	4.455877	GCTGAGTTTATGCCTACTGTTGTT	59.544	41.667	0.00	0.00	0.00	2.83
577	586	5.390991	GCTGAGTTTATGCCTACTGTTGTTC	60.391	44.000	0.00	0.00	0.00	3.18
578	587	4.688879	TGAGTTTATGCCTACTGTTGTTCG	59.311	41.667	0.00	0.00	0.00	3.95
579	588	4.890088	AGTTTATGCCTACTGTTGTTCGA	58.110	39.130	0.00	0.00	0.00	3.71
580	589	5.302360	AGTTTATGCCTACTGTTGTTCGAA	58.698	37.500	0.00	0.00	0.00	3.71
581	590	5.938125	AGTTTATGCCTACTGTTGTTCGAAT	59.062	36.000	0.00	0.00	0.00	3.34
582	591	5.794687	TTATGCCTACTGTTGTTCGAATG	57.205	39.130	0.00	0.00	0.00	2.67
583	592	2.422597	TGCCTACTGTTGTTCGAATGG	58.577	47.619	0.00	0.00	0.00	3.16
584	593	2.037902	TGCCTACTGTTGTTCGAATGGA	59.962	45.455	0.00	0.00	0.00	3.41
585	594	3.071479	GCCTACTGTTGTTCGAATGGAA	58.929	45.455	0.00	0.00	0.00	3.53
629	638	6.538742	TCGAATGGAACCATAATTCAGACTTC	59.461	38.462	6.77	0.00	35.31	3.01
638	647	5.277876	CCATAATTCAGACTTCAGAGCATGC	60.278	44.000	10.51	10.51	0.00	4.06
668	678	7.970614	GCTCTACCAAATGAGAATAAAAGTTGG	59.029	37.037	0.00	0.00	39.92	3.77
669	679	7.826690	TCTACCAAATGAGAATAAAAGTTGGC	58.173	34.615	1.36	0.00	38.04	4.52
670	680	6.418057	ACCAAATGAGAATAAAAGTTGGCA	57.582	33.333	1.36	0.00	38.04	4.92
671	681	7.008021	ACCAAATGAGAATAAAAGTTGGCAT	57.992	32.000	1.36	0.00	38.04	4.40
672	682	6.875195	ACCAAATGAGAATAAAAGTTGGCATG	59.125	34.615	1.36	0.00	38.04	4.06
673	683	7.098477	CCAAATGAGAATAAAAGTTGGCATGA	58.902	34.615	0.00	0.00	0.00	3.07
674	684	7.767198	CCAAATGAGAATAAAAGTTGGCATGAT	59.233	33.333	0.00	0.00	0.00	2.45
675	685	9.806203	CAAATGAGAATAAAAGTTGGCATGATA	57.194	29.630	0.00	0.00	0.00	2.15
705	715	4.141981	TGTTGCATTTCATGTGTTCTTGGT	60.142	37.500	0.00	0.00	0.00	3.67
707	717	3.635836	TGCATTTCATGTGTTCTTGGTCA	59.364	39.130	0.00	0.00	0.00	4.02
756	766	1.265236	CCCCAAAATTAGGCAGTGCA	58.735	50.000	18.61	0.00	0.00	4.57
759	769	1.547372	CCAAAATTAGGCAGTGCAGCT	59.453	47.619	18.61	8.32	34.17	4.24
761	771	2.490903	CAAAATTAGGCAGTGCAGCTCT	59.509	45.455	18.61	7.16	34.17	4.09
806	817	1.153745	ATTCGTCTCTGTCCGCTGC	60.154	57.895	0.00	0.00	0.00	5.25
947	959	1.486211	CCATCTCCACGGTCCTAAGT	58.514	55.000	0.00	0.00	0.00	2.24
1662	1680	1.971695	GTGGGAGAAGGCAAACCCG	60.972	63.158	0.00	0.00	44.70	5.28
1742	1766	7.039434	CCTGTATGTATGATGGTGATGTAGAGT	60.039	40.741	0.00	0.00	0.00	3.24
1783	1807	9.085250	GTATGATGTAGACTATGCAATGAGATG	57.915	37.037	0.00	0.00	0.00	2.90
1828	1852	9.462174	GACACACTTGAATTTGACATGAAAATA	57.538	29.630	0.00	0.00	0.00	1.40
1853	1877	2.224159	GGTTCCTCTGCCCCTGTCA	61.224	63.158	0.00	0.00	0.00	3.58
2016	2048	6.039382	GTGAAGGTTGAATAAGGTTGACTGTT	59.961	38.462	0.00	0.00	0.00	3.16
2024	2056	2.802787	AGGTTGACTGTTGAGAGACG	57.197	50.000	0.00	0.00	0.00	4.18
2045	2085	2.281208	CTTTCGTGAACCCCCGCA	60.281	61.111	0.00	0.00	0.00	5.69
2090	2130	5.396660	GGGAATGTTGGGGAACGTAGTAATA	60.397	44.000	0.00	0.00	45.00	0.98
2611	6172	4.844349	TCCTTGTTGGATTAGGAGAAGG	57.156	45.455	0.00	0.00	40.56	3.46
2675	6239	0.548510	CTCCCCCTCCTTGTCCAATC	59.451	60.000	0.00	0.00	0.00	2.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	3.906720	AAGCCAGTTAGAATTCGCCTA	57.093	42.857	0.00	0.00	0.00	3.93
177	181	7.875041	GGTTAGTATATGCATGACAAGATGAGT	59.125	37.037	10.16	0.00	0.00	3.41
178	182	8.093307	AGGTTAGTATATGCATGACAAGATGAG	58.907	37.037	10.16	0.00	0.00	2.90
305	314	1.908340	ATGGCCTTCTTCAGCTCGCT	61.908	55.000	3.32	0.00	0.00	4.93
400	409	4.717310	CGTACACGATGCCAAACTTGGAT	61.717	47.826	12.78	3.30	46.28	3.41
409	418	1.154169	GTCGACGTACACGATGCCA	60.154	57.895	9.04	0.00	43.02	4.92
487	496	4.763073	TCCATATATATCAGTGCTGCAGC	58.237	43.478	31.89	31.89	42.50	5.25
503	512	5.132648	TGGGTAATTCAGAAGCACTCCATAT	59.867	40.000	0.00	0.00	0.00	1.78
505	514	3.266772	TGGGTAATTCAGAAGCACTCCAT	59.733	43.478	0.00	0.00	0.00	3.41
506	515	2.642311	TGGGTAATTCAGAAGCACTCCA	59.358	45.455	0.00	0.00	0.00	3.86
507	516	3.350219	TGGGTAATTCAGAAGCACTCC	57.650	47.619	0.00	0.00	0.00	3.85
508	517	3.440522	GGTTGGGTAATTCAGAAGCACTC	59.559	47.826	0.00	0.00	0.00	3.51
510	519	3.153919	TGGTTGGGTAATTCAGAAGCAC	58.846	45.455	0.00	0.00	0.00	4.40
511	520	3.517296	TGGTTGGGTAATTCAGAAGCA	57.483	42.857	0.00	0.00	0.00	3.91
512	521	3.381590	GGATGGTTGGGTAATTCAGAAGC	59.618	47.826	0.00	0.00	0.00	3.86
513	522	4.641989	CAGGATGGTTGGGTAATTCAGAAG	59.358	45.833	0.00	0.00	0.00	2.85
514	523	4.290985	TCAGGATGGTTGGGTAATTCAGAA	59.709	41.667	0.00	0.00	36.16	3.02
516	525	4.235079	TCAGGATGGTTGGGTAATTCAG	57.765	45.455	0.00	0.00	36.16	3.02
517	526	4.017591	ACATCAGGATGGTTGGGTAATTCA	60.018	41.667	13.40	0.00	42.91	2.57
518	527	4.536765	ACATCAGGATGGTTGGGTAATTC	58.463	43.478	13.40	0.00	42.91	2.17
519	528	4.608170	ACATCAGGATGGTTGGGTAATT	57.392	40.909	13.40	0.00	42.91	1.40
520	529	4.264352	ACAACATCAGGATGGTTGGGTAAT	60.264	41.667	13.40	0.00	42.91	1.89
521	530	3.075283	ACAACATCAGGATGGTTGGGTAA	59.925	43.478	13.40	0.00	42.91	2.85
522	531	2.647299	ACAACATCAGGATGGTTGGGTA	59.353	45.455	13.40	0.00	42.91	3.69
523	532	1.428912	ACAACATCAGGATGGTTGGGT	59.571	47.619	13.40	0.00	42.91	4.51
524	533	2.094675	GACAACATCAGGATGGTTGGG	58.905	52.381	13.40	0.00	42.91	4.12
525	534	2.794103	TGACAACATCAGGATGGTTGG	58.206	47.619	13.40	0.00	42.91	3.77
537	546	4.586884	ACTCAGCAAGATGATGACAACAT	58.413	39.130	0.00	0.00	37.93	2.71
538	547	4.011966	ACTCAGCAAGATGATGACAACA	57.988	40.909	0.00	0.00	37.93	3.33
539	548	5.368256	AAACTCAGCAAGATGATGACAAC	57.632	39.130	0.00	0.00	37.93	3.32
540	549	6.403964	GCATAAACTCAGCAAGATGATGACAA	60.404	38.462	0.00	0.00	37.93	3.18
541	550	5.065602	GCATAAACTCAGCAAGATGATGACA	59.934	40.000	0.00	0.00	37.93	3.58
542	551	5.505324	GGCATAAACTCAGCAAGATGATGAC	60.505	44.000	0.00	0.00	37.93	3.06
562	571	3.009723	CCATTCGAACAACAGTAGGCAT	58.990	45.455	0.00	0.00	0.00	4.40
563	572	2.037902	TCCATTCGAACAACAGTAGGCA	59.962	45.455	0.00	0.00	0.00	4.75
575	584	3.576078	AGGCATATGGTTCCATTCGAA	57.424	42.857	9.70	0.00	0.00	3.71
576	585	3.646162	AGTAGGCATATGGTTCCATTCGA	59.354	43.478	9.70	0.00	0.00	3.71
577	586	3.748048	CAGTAGGCATATGGTTCCATTCG	59.252	47.826	9.70	3.22	0.00	3.34
578	587	4.718961	ACAGTAGGCATATGGTTCCATTC	58.281	43.478	9.70	0.77	0.00	2.67
579	588	4.796110	ACAGTAGGCATATGGTTCCATT	57.204	40.909	9.70	0.00	0.00	3.16
580	589	4.079787	ACAACAGTAGGCATATGGTTCCAT	60.080	41.667	9.37	9.37	0.00	3.41
581	590	3.265737	ACAACAGTAGGCATATGGTTCCA	59.734	43.478	4.56	0.00	0.00	3.53
582	591	3.886123	ACAACAGTAGGCATATGGTTCC	58.114	45.455	4.56	0.00	0.00	3.62
583	592	4.034048	CGAACAACAGTAGGCATATGGTTC	59.966	45.833	4.56	5.42	0.00	3.62
584	593	3.938963	CGAACAACAGTAGGCATATGGTT	59.061	43.478	4.56	0.00	0.00	3.67
585	594	3.196901	TCGAACAACAGTAGGCATATGGT	59.803	43.478	4.56	0.00	0.00	3.55
586	595	3.792401	TCGAACAACAGTAGGCATATGG	58.208	45.455	4.56	0.00	0.00	2.74
587	596	5.277490	CCATTCGAACAACAGTAGGCATATG	60.277	44.000	0.00	0.00	0.00	1.78
588	597	4.816385	CCATTCGAACAACAGTAGGCATAT	59.184	41.667	0.00	0.00	0.00	1.78
589	598	4.081365	TCCATTCGAACAACAGTAGGCATA	60.081	41.667	0.00	0.00	0.00	3.14
590	599	3.009723	CCATTCGAACAACAGTAGGCAT	58.990	45.455	0.00	0.00	0.00	4.40
638	647	9.565213	CTTTTATTCTCATTTGGTAGAGCAAAG	57.435	33.333	12.00	5.53	0.00	2.77
668	678	6.532302	TGAAATGCAACACTCAAATATCATGC	59.468	34.615	0.00	0.00	0.00	4.06
669	679	8.539674	CATGAAATGCAACACTCAAATATCATG	58.460	33.333	0.00	0.00	37.62	3.07
670	680	8.642908	CATGAAATGCAACACTCAAATATCAT	57.357	30.769	0.00	0.00	37.62	2.45
756	766	3.222287	CCTCTAGGAGGCAAGAGCT	57.778	57.895	0.34	0.00	43.29	4.09
793	804	0.612174	ACTTAGGCAGCGGACAGAGA	60.612	55.000	0.00	0.00	0.00	3.10
806	817	1.739067	CGGAGGAAGGCAAACTTAGG	58.261	55.000	0.00	0.00	40.21	2.69
1662	1680	3.320541	AGGATCATCAGGACGACATCTTC	59.679	47.826	0.00	0.00	0.00	2.87
1731	1755	3.876274	TCAGCTGGAACTCTACATCAC	57.124	47.619	15.13	0.00	0.00	3.06
1742	1766	4.164796	ACATCATACTGGAATCAGCTGGAA	59.835	41.667	15.13	0.00	44.59	3.53
1783	1807	6.256757	GTGTGTCTGTTCTCCTATTAATCAGC	59.743	42.308	0.00	0.00	0.00	4.26
1828	1852	1.275421	GGGCAGAGGAACCCTAAGCT	61.275	60.000	0.00	0.00	43.36	3.74
1930	1962	4.385358	AACACCTAAAACACAAAGCAGG	57.615	40.909	0.00	0.00	0.00	4.85
1959	1991	2.892425	CGCCTCGCCTCATGGAAC	60.892	66.667	0.00	0.00	34.57	3.62
1960	1992	4.161295	CCGCCTCGCCTCATGGAA	62.161	66.667	0.00	0.00	34.57	3.53
1985	2017	4.202430	ACCTTATTCAACCTTCACGGAGTT	60.202	41.667	0.00	0.00	41.61	3.01
2016	2048	1.906824	ACGAAAGGGGCGTCTCTCA	60.907	57.895	0.00	0.00	37.42	3.27
2024	2056	2.675423	GGGGTTCACGAAAGGGGC	60.675	66.667	0.00	0.00	33.12	5.80
2068	2108	6.987992	TGATATTACTACGTTCCCCAACATTC	59.012	38.462	0.00	0.00	32.14	2.67
2611	6172	0.692756	CTCCTCCTCCTCTTTCCCCC	60.693	65.000	0.00	0.00	0.00	5.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.