AutoCloner

Multiple sequence alignment - TraesCS6D01G158700

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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	TraesCS6D01G158700	chr6D	100.000	4244	0	0	1	4244	135456995	135461238	0.000000e+00	7838
1	TraesCS6D01G158700	chr3B	98.304	3597	55	5	653	4244	101917982	101914387	0.000000e+00	6300
2	TraesCS6D01G158700	chr3B	97.443	3598	85	5	653	4244	201533832	201530236	0.000000e+00	6128
3	TraesCS6D01G158700	chr3B	95.050	101	4	1	653	752	689894844	689894944	1.580000e-34	158
4	TraesCS6D01G158700	chr5D	98.081	3596	64	5	653	4244	503225021	503221427	0.000000e+00	6253
5	TraesCS6D01G158700	chr5D	95.721	631	26	1	1	630	481101773	481101143	0.000000e+00	1014
6	TraesCS6D01G158700	chr3A	98.053	3595	65	5	654	4244	66010820	66014413	0.000000e+00	6246
7	TraesCS6D01G158700	chr3A	97.246	3595	96	3	653	4244	672903210	672906804	0.000000e+00	6087
8	TraesCS6D01G158700	chrUn	97.775	3595	75	4	653	4244	216511804	216515396	0.000000e+00	6191
9	TraesCS6D01G158700	chrUn	97.775	3595	75	4	653	4244	286271579	286267987	0.000000e+00	6191
10	TraesCS6D01G158700	chrUn	95.404	631	27	2	1	630	25470952	25471581	0.000000e+00	1003
11	TraesCS6D01G158700	chr2B	97.636	3595	80	5	653	4244	474915245	474911653	0.000000e+00	6163
12	TraesCS6D01G158700	chr3D	98.020	3536	65	5	713	4244	589270214	589273748	0.000000e+00	6137
13	TraesCS6D01G158700	chr3D	95.404	631	28	1	1	630	168320067	168319437	0.000000e+00	1003
14	TraesCS6D01G158700	chr1D	95.721	631	26	1	1	630	150817438	150816808	0.000000e+00	1014
15	TraesCS6D01G158700	chr7D	95.563	631	27	1	1	630	395337947	395338577	0.000000e+00	1009
16	TraesCS6D01G158700	chr7D	95.404	631	28	1	1	630	476728173	476727543	0.000000e+00	1003
17	TraesCS6D01G158700	chr2D	95.563	631	27	1	1	630	282385066	282385696	0.000000e+00	1009
18	TraesCS6D01G158700	chr2D	95.404	631	28	1	1	630	560163863	560163233	0.000000e+00	1003
19	TraesCS6D01G158700	chr4D	95.404	631	28	1	1	630	66272533	66271903	0.000000e+00	1003

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	TraesCS6D01G158700	chr6D	135456995	135461238	4243	False	7838	7838	100.000	1	4244	1	chr6D.!!$F1	4243
1	TraesCS6D01G158700	chr3B	101914387	101917982	3595	True	6300	6300	98.304	653	4244	1	chr3B.!!$R1	3591
2	TraesCS6D01G158700	chr3B	201530236	201533832	3596	True	6128	6128	97.443	653	4244	1	chr3B.!!$R2	3591
3	TraesCS6D01G158700	chr5D	503221427	503225021	3594	True	6253	6253	98.081	653	4244	1	chr5D.!!$R2	3591
4	TraesCS6D01G158700	chr5D	481101143	481101773	630	True	1014	1014	95.721	1	630	1	chr5D.!!$R1	629
5	TraesCS6D01G158700	chr3A	66010820	66014413	3593	False	6246	6246	98.053	654	4244	1	chr3A.!!$F1	3590
6	TraesCS6D01G158700	chr3A	672903210	672906804	3594	False	6087	6087	97.246	653	4244	1	chr3A.!!$F2	3591
7	TraesCS6D01G158700	chrUn	216511804	216515396	3592	False	6191	6191	97.775	653	4244	1	chrUn.!!$F2	3591
8	TraesCS6D01G158700	chrUn	286267987	286271579	3592	True	6191	6191	97.775	653	4244	1	chrUn.!!$R1	3591
9	TraesCS6D01G158700	chrUn	25470952	25471581	629	False	1003	1003	95.404	1	630	1	chrUn.!!$F1	629
10	TraesCS6D01G158700	chr2B	474911653	474915245	3592	True	6163	6163	97.636	653	4244	1	chr2B.!!$R1	3591
11	TraesCS6D01G158700	chr3D	589270214	589273748	3534	False	6137	6137	98.020	713	4244	1	chr3D.!!$F1	3531
12	TraesCS6D01G158700	chr3D	168319437	168320067	630	True	1003	1003	95.404	1	630	1	chr3D.!!$R1	629
13	TraesCS6D01G158700	chr1D	150816808	150817438	630	True	1014	1014	95.721	1	630	1	chr1D.!!$R1	629
14	TraesCS6D01G158700	chr7D	395337947	395338577	630	False	1009	1009	95.563	1	630	1	chr7D.!!$F1	629
15	TraesCS6D01G158700	chr7D	476727543	476728173	630	True	1003	1003	95.404	1	630	1	chr7D.!!$R1	629
16	TraesCS6D01G158700	chr2D	282385066	282385696	630	False	1009	1009	95.563	1	630	1	chr2D.!!$F1	629
17	TraesCS6D01G158700	chr2D	560163233	560163863	630	True	1003	1003	95.404	1	630	1	chr2D.!!$R1	629
18	TraesCS6D01G158700	chr4D	66271903	66272533	630	True	1003	1003	95.404	1	630	1	chr4D.!!$R1	629

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	End Stability	Orientation
639	641	0.541392	AGTCGCATCCATAAGCCACA	59.459	50.000	4.17	F
642	644	0.877071	CGCATCCATAAGCCACATCC	59.123	55.000	3.51	F
647	649	1.347707	TCCATAAGCCACATCCGATCC	59.652	52.381	3.36	F
648	650	1.349026	CCATAAGCCACATCCGATCCT	59.651	52.381	3.24	F
649	651	2.224621	CCATAAGCCACATCCGATCCTT	60.225	50.000	3.36	F
651	653	2.514458	AAGCCACATCCGATCCTTTT	57.486	45.000	2.27	F
2676	2684	2.731217	ACTCAAACAAGCATGAAACGC	58.269	42.857	4.84	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2479	2487	0.545548	GGAGTGGGGGAGTCAGAGTT	60.546	60.000	0.00	0.0	0.00	3.01	R
2653	2661	4.737765	GCGTTTCATGCTTGTTTGAGTAAA	59.262	37.500	0.00	0.0	0.00	2.01	R
2676	2684	3.909776	ATGGACGAATATGCAAGCATG	57.090	42.857	17.26	3.4	37.82	4.06	R
2776	2784	9.828691	TCCTAGATTCATGGAGATATAGAACAA	57.171	33.333	0.00	0.0	0.00	2.83	R
2834	2842	5.301045	TCTCGAATGTTATCAGTTCCGGTAT	59.699	40.000	0.00	0.0	0.00	2.73	R
2960	2968	6.453943	CATCCACACCAGAATAGATAGAGTG	58.546	44.000	0.00	0.0	0.00	3.51	R
3946	3954	3.070576	GCGCCAGGCCCAGATTTT	61.071	61.111	5.63	0.0	34.80	1.82	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
106	107	2.483188	GGTATCTGACCGCCGAAATCTT	60.483	50.000	0.00	0.00	38.87	2.40
197	198	1.075896	CTTCCTCCGAGGGCTAGGT	60.076	63.158	14.76	0.00	35.59	3.08
264	265	4.314121	GCTCGATTTCCATGATCTAGCTT	58.686	43.478	10.44	0.00	38.54	3.74
310	311	2.666344	CGTTTATCGTCGTGTGTGAGGA	60.666	50.000	0.00	0.00	37.20	3.71
328	329	1.899437	GACTTCCTCCGCATCACCCA	61.899	60.000	0.00	0.00	0.00	4.51
350	351	2.292267	CACTTCGGCTTATGGCTCAAT	58.708	47.619	0.63	0.00	41.46	2.57
358	359	3.817647	GGCTTATGGCTCAATACCTTCAG	59.182	47.826	0.00	0.00	41.46	3.02
438	439	4.916293	GCGCCGATGCTCCATGGA	62.916	66.667	15.27	15.27	34.43	3.41
494	495	2.159382	CAGCGGGAGTGGTTTTACATT	58.841	47.619	0.00	0.00	0.00	2.71
498	499	3.502979	GCGGGAGTGGTTTTACATTACAA	59.497	43.478	0.00	0.00	0.00	2.41
503	504	6.489022	GGGAGTGGTTTTACATTACAACTCTT	59.511	38.462	9.04	0.00	42.46	2.85
516	517	8.027771	ACATTACAACTCTTCGAAGTACTAAGG	58.972	37.037	23.85	15.68	0.00	2.69
528	529	0.757935	TACTAAGGGGGTAGCTGCCG	60.758	60.000	15.22	2.09	0.00	5.69
617	619	2.087501	TAATGACGTGCCGACATTGT	57.912	45.000	23.76	10.39	46.86	2.71
630	632	3.165058	GACATTGTAGAGTCGCATCCA	57.835	47.619	0.00	0.00	0.00	3.41
631	633	3.722147	GACATTGTAGAGTCGCATCCAT	58.278	45.455	0.00	0.00	0.00	3.41
632	634	4.871513	GACATTGTAGAGTCGCATCCATA	58.128	43.478	0.00	0.00	0.00	2.74
633	635	5.276461	ACATTGTAGAGTCGCATCCATAA	57.724	39.130	0.00	0.00	0.00	1.90
634	636	5.292765	ACATTGTAGAGTCGCATCCATAAG	58.707	41.667	0.00	0.00	0.00	1.73
635	637	3.371102	TGTAGAGTCGCATCCATAAGC	57.629	47.619	0.00	0.00	0.00	3.09
636	638	2.035961	TGTAGAGTCGCATCCATAAGCC	59.964	50.000	0.00	0.00	0.00	4.35
637	639	1.123077	AGAGTCGCATCCATAAGCCA	58.877	50.000	0.00	0.00	0.00	4.75
638	640	1.202580	AGAGTCGCATCCATAAGCCAC	60.203	52.381	0.00	0.00	0.00	5.01
639	641	0.541392	AGTCGCATCCATAAGCCACA	59.459	50.000	0.00	0.00	0.00	4.17
640	642	1.141657	AGTCGCATCCATAAGCCACAT	59.858	47.619	0.00	0.00	0.00	3.21
641	643	1.532868	GTCGCATCCATAAGCCACATC	59.467	52.381	0.00	0.00	0.00	3.06
642	644	0.877071	CGCATCCATAAGCCACATCC	59.123	55.000	0.00	0.00	0.00	3.51
643	645	0.877071	GCATCCATAAGCCACATCCG	59.123	55.000	0.00	0.00	0.00	4.18
644	646	1.543208	GCATCCATAAGCCACATCCGA	60.543	52.381	0.00	0.00	0.00	4.55
645	647	2.877300	GCATCCATAAGCCACATCCGAT	60.877	50.000	0.00	0.00	0.00	4.18
646	648	2.839486	TCCATAAGCCACATCCGATC	57.161	50.000	0.00	0.00	0.00	3.69
647	649	1.347707	TCCATAAGCCACATCCGATCC	59.652	52.381	0.00	0.00	0.00	3.36
648	650	1.349026	CCATAAGCCACATCCGATCCT	59.651	52.381	0.00	0.00	0.00	3.24
649	651	2.224621	CCATAAGCCACATCCGATCCTT	60.225	50.000	0.00	0.00	0.00	3.36
650	652	3.480470	CATAAGCCACATCCGATCCTTT	58.520	45.455	0.00	0.00	0.00	3.11
651	653	2.514458	AAGCCACATCCGATCCTTTT	57.486	45.000	0.00	0.00	0.00	2.27
682	684	3.549794	AGAATGGCAGAGGCAAATAGAC	58.450	45.455	0.00	0.00	42.43	2.59
779	782	9.401058	GGAAAAGAATCAATAGAAGGAGAATCA	57.599	33.333	0.00	0.00	36.25	2.57
852	856	6.753913	AATCATGATCAACTAAGCCCTCTA	57.246	37.500	9.06	0.00	0.00	2.43
961	965	7.985634	ATATCCCATTTCAAAAATCGAAACG	57.014	32.000	0.00	0.00	35.31	3.60
989	993	3.420893	ACTTTTCGGAGATTGGATGCAA	58.579	40.909	0.79	0.79	35.04	4.08
1102	1106	5.852827	TCAATGGAAGTTTCATTTTCCCAC	58.147	37.500	6.65	0.00	41.75	4.61
1232	1236	2.925724	CATAACGGCCCTATTGTTCCA	58.074	47.619	0.00	0.00	0.00	3.53
1531	1535	5.766174	ACCAAGAGAGATCTACGGTCTAATC	59.234	44.000	0.00	0.00	0.00	1.75
1541	1545	5.933617	TCTACGGTCTAATCAGGCTACTAA	58.066	41.667	0.00	0.00	0.00	2.24
1721	1729	2.902608	TCCATCACTGTAGGACTTGGT	58.097	47.619	0.00	0.00	0.00	3.67
1866	1874	5.821470	CCATAGACATGCAGAAGAGAAATGT	59.179	40.000	0.00	0.00	34.28	2.71
1879	1887	4.375313	AGAGAAATGTTATCCCCACTCCT	58.625	43.478	0.00	0.00	0.00	3.69
1891	1899	3.471306	TCCCCACTCCTACCAAGATAGAT	59.529	47.826	0.00	0.00	0.00	1.98
1892	1900	4.673132	TCCCCACTCCTACCAAGATAGATA	59.327	45.833	0.00	0.00	0.00	1.98
1893	1901	5.137255	TCCCCACTCCTACCAAGATAGATAA	59.863	44.000	0.00	0.00	0.00	1.75
1973	1981	6.094186	GGGTCAGGAACAATGAATCTCTTTAC	59.906	42.308	0.00	0.00	0.00	2.01
2029	2037	4.529377	ACGGGTAGTTCCTACAAAGAATCA	59.471	41.667	4.01	0.00	38.58	2.57
2281	2289	3.019564	CAACCACTGATGAAGGATTCCC	58.980	50.000	0.00	0.00	46.93	3.97
2287	2295	4.713321	CACTGATGAAGGATTCCCCAAAAT	59.287	41.667	0.00	0.00	46.93	1.82
2653	2661	2.999185	TTTGGGGAATCTCCTTGCTT	57.001	45.000	0.00	0.00	36.57	3.91
2676	2684	2.731217	ACTCAAACAAGCATGAAACGC	58.269	42.857	0.00	0.00	0.00	4.84
2701	2709	3.557054	GCTTGCATATTCGTCCATAGGGA	60.557	47.826	0.00	0.00	42.29	4.20
2834	2842	7.121907	TGCTTGCATTGTATTATTTGGTCTACA	59.878	33.333	0.00	0.00	0.00	2.74
2960	2968	2.737252	CACTAGCAGGTTTCTTCGGAAC	59.263	50.000	0.00	0.00	33.18	3.62
3050	3058	7.612677	ACGAGTGTTCTTTCCATCTACTATTT	58.387	34.615	0.00	0.00	0.00	1.40
3353	3361	5.169295	GGCGCTAGGGTTATGAACTTATAG	58.831	45.833	7.64	0.00	0.00	1.31
3368	3376	8.459911	TGAACTTATAGTCATGGAATCGACTA	57.540	34.615	0.00	0.00	45.99	2.59
3408	3416	5.104941	AGTTCATTCCATATCGAACCAGACA	60.105	40.000	0.00	0.00	38.80	3.41
3414	3422	3.461061	CATATCGAACCAGACAGTGCAT	58.539	45.455	0.00	0.00	0.00	3.96
3548	3556	6.988580	CAGACCTGCTTTTGACATATCTATCA	59.011	38.462	0.00	0.00	0.00	2.15
3608	3616	7.128976	GCTTCTATTGAATCGAGAAATTGGAC	58.871	38.462	0.00	0.00	0.00	4.02
3611	3619	4.685169	TTGAATCGAGAAATTGGACTGC	57.315	40.909	0.00	0.00	0.00	4.40
4012	4020	5.284582	ACCATCTCCCTGAGAAAAGTAGAT	58.715	41.667	0.00	0.00	42.27	1.98
4089	4099	6.224584	CCTCGAAGGAGATAATAAAGAACCC	58.775	44.000	0.00	0.00	43.27	4.11
4191	4201	4.541779	CTCTATTGCTCTCGCGTAAAGAT	58.458	43.478	5.77	0.00	39.65	2.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
197	198	7.883311	CCTCTAACAAAGGGATCAAGACTAAAA	59.117	37.037	0.00	0.00	0.00	1.52
264	265	5.363868	ACGAGATGTGAAGGATGGAATCTAA	59.636	40.000	0.00	0.00	44.71	2.10
310	311	1.488705	TTGGGTGATGCGGAGGAAGT	61.489	55.000	0.00	0.00	0.00	3.01
328	329	1.003118	TGAGCCATAAGCCGAAGTGTT	59.997	47.619	0.00	0.00	45.47	3.32
358	359	1.590238	CGATCATCTTCGGCTTCACAC	59.410	52.381	0.00	0.00	35.50	3.82
438	439	1.458927	CCGGGAAGGAACCCTTTGT	59.541	57.895	0.00	0.00	44.82	2.83
494	495	5.416952	CCCCTTAGTACTTCGAAGAGTTGTA	59.583	44.000	31.08	10.95	38.43	2.41
498	499	3.245550	ACCCCCTTAGTACTTCGAAGAGT	60.246	47.826	31.08	18.30	38.43	3.24
503	504	2.243221	AGCTACCCCCTTAGTACTTCGA	59.757	50.000	0.00	0.00	0.00	3.71
617	619	2.035961	GTGGCTTATGGATGCGACTCTA	59.964	50.000	0.00	0.00	35.54	2.43
630	632	3.864789	AAAGGATCGGATGTGGCTTAT	57.135	42.857	0.00	0.00	0.00	1.73
631	633	3.278574	CAAAAGGATCGGATGTGGCTTA	58.721	45.455	0.00	0.00	0.00	3.09
632	634	2.094675	CAAAAGGATCGGATGTGGCTT	58.905	47.619	0.00	0.00	0.00	4.35
633	635	1.755179	CAAAAGGATCGGATGTGGCT	58.245	50.000	0.00	0.00	0.00	4.75
634	636	0.101219	GCAAAAGGATCGGATGTGGC	59.899	55.000	0.00	0.00	0.00	5.01
635	637	0.378257	CGCAAAAGGATCGGATGTGG	59.622	55.000	0.00	0.00	0.00	4.17
636	638	1.062587	GTCGCAAAAGGATCGGATGTG	59.937	52.381	0.00	0.00	0.00	3.21
637	639	1.066143	AGTCGCAAAAGGATCGGATGT	60.066	47.619	0.00	0.00	0.00	3.06
638	640	1.594862	GAGTCGCAAAAGGATCGGATG	59.405	52.381	0.00	0.00	0.00	3.51
639	641	1.207089	TGAGTCGCAAAAGGATCGGAT	59.793	47.619	0.00	0.00	0.00	4.18
640	642	0.606096	TGAGTCGCAAAAGGATCGGA	59.394	50.000	0.00	0.00	0.00	4.55
641	643	1.656652	ATGAGTCGCAAAAGGATCGG	58.343	50.000	0.00	0.00	0.00	4.18
642	644	3.706698	TCTATGAGTCGCAAAAGGATCG	58.293	45.455	0.00	0.00	0.00	3.69
643	645	5.049818	CCATTCTATGAGTCGCAAAAGGATC	60.050	44.000	0.00	0.00	0.00	3.36
644	646	4.818546	CCATTCTATGAGTCGCAAAAGGAT	59.181	41.667	0.00	0.00	0.00	3.24
645	647	4.191544	CCATTCTATGAGTCGCAAAAGGA	58.808	43.478	0.00	0.00	0.00	3.36
646	648	3.242870	GCCATTCTATGAGTCGCAAAAGG	60.243	47.826	0.00	0.00	0.00	3.11
647	649	3.374988	TGCCATTCTATGAGTCGCAAAAG	59.625	43.478	0.00	0.00	0.00	2.27
648	650	3.342719	TGCCATTCTATGAGTCGCAAAA	58.657	40.909	0.00	0.00	0.00	2.44
649	651	2.938451	CTGCCATTCTATGAGTCGCAAA	59.062	45.455	0.00	0.00	0.00	3.68
650	652	2.168313	TCTGCCATTCTATGAGTCGCAA	59.832	45.455	0.00	0.00	0.00	4.85
651	653	1.756538	TCTGCCATTCTATGAGTCGCA	59.243	47.619	0.00	0.00	0.00	5.10
682	684	6.222389	TGGATTAACAAAAATGTGCAAGAGG	58.778	36.000	0.00	0.00	0.00	3.69
779	782	6.387465	TGTTTGTTCGAGAAAGATATCGTCT	58.613	36.000	10.68	10.68	40.97	4.18
852	856	3.521126	TCTTATTCTTCAGCAAGCCCTCT	59.479	43.478	0.00	0.00	0.00	3.69
961	965	2.866762	CAATCTCCGAAAAGTCCCGATC	59.133	50.000	0.00	0.00	0.00	3.69
989	993	9.224267	GTACATGCCAGATCATGAATTAGTAAT	57.776	33.333	0.00	0.00	44.94	1.89
1232	1236	9.165057	AGCTAATTATAGGTTCTTCTCTCCATT	57.835	33.333	0.00	0.00	36.47	3.16
1403	1407	4.554553	AACATTCCCCCTAGAGTAGCTA	57.445	45.455	0.00	0.00	0.00	3.32
1541	1545	5.705400	CCCCACCCATGAGTAAATATTTCT	58.295	41.667	3.39	2.14	0.00	2.52
1721	1729	1.639722	GGGCTGGGGAAAGCTTAAAA	58.360	50.000	0.00	0.00	43.06	1.52
1866	1874	3.788116	TCTTGGTAGGAGTGGGGATAA	57.212	47.619	0.00	0.00	0.00	1.75
1931	1939	2.755103	GACCCTGCTTCACCTTAATTGG	59.245	50.000	0.00	0.00	0.00	3.16
1973	1981	9.490663	GAACTTGTAAAATGGATCTGTTTATCG	57.509	33.333	0.00	0.00	0.00	2.92
1992	2000	9.139940	AGGAACTACCCGTAATAACGAACTTGT	62.140	40.741	0.00	0.00	46.10	3.16
2029	2037	7.700322	CAAGCATTGTATACGTCATTAGTCT	57.300	36.000	0.00	0.00	42.34	3.24
2144	2152	4.882427	CCAATAGCCATGAGATGATCATCC	59.118	45.833	28.23	20.44	46.01	3.51
2287	2295	9.985730	TCGAAAAAGAACTACTAATCCTTAACA	57.014	29.630	0.00	0.00	0.00	2.41
2479	2487	0.545548	GGAGTGGGGGAGTCAGAGTT	60.546	60.000	0.00	0.00	0.00	3.01
2653	2661	4.737765	GCGTTTCATGCTTGTTTGAGTAAA	59.262	37.500	0.00	0.00	0.00	2.01
2676	2684	3.909776	ATGGACGAATATGCAAGCATG	57.090	42.857	17.26	3.40	37.82	4.06
2776	2784	9.828691	TCCTAGATTCATGGAGATATAGAACAA	57.171	33.333	0.00	0.00	0.00	2.83
2834	2842	5.301045	TCTCGAATGTTATCAGTTCCGGTAT	59.699	40.000	0.00	0.00	0.00	2.73
2960	2968	6.453943	CATCCACACCAGAATAGATAGAGTG	58.546	44.000	0.00	0.00	0.00	3.51
3353	3361	6.018589	TGATGATCTAGTCGATTCCATGAC	57.981	41.667	0.00	0.00	35.33	3.06
3397	3405	3.195610	AGAATATGCACTGTCTGGTTCGA	59.804	43.478	0.00	0.00	0.00	3.71
3432	3440	3.904800	TTCCATAGGCTCGAATGAACA	57.095	42.857	0.00	0.00	0.00	3.18
3434	3442	5.551233	CCTATTTCCATAGGCTCGAATGAA	58.449	41.667	0.00	0.00	44.71	2.57
3572	3580	6.127897	CGATTCAATAGAAGCCCAAAGAAGTT	60.128	38.462	0.00	0.00	36.84	2.66
3575	3583	5.496556	TCGATTCAATAGAAGCCCAAAGAA	58.503	37.500	0.00	0.00	36.84	2.52
3608	3616	7.884816	AATCAAAAAGATGAAAGATGTGCAG	57.115	32.000	0.00	0.00	36.96	4.41
3946	3954	3.070576	GCGCCAGGCCCAGATTTT	61.071	61.111	5.63	0.00	34.80	1.82
4089	4099	3.812053	GCAGTAGGATACCATCTGCTTTG	59.188	47.826	20.35	0.00	44.47	2.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.