AutoCloner

Multiple sequence alignment - TraesCS1A01G262500

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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	TraesCS1A01G262500	chr1A	100.000	1700	0	0	922	2621	457945246	457946945	0.000000e+00	3140.0
1	TraesCS1A01G262500	chr1A	100.000	772	0	0	1	772	457944325	457945096	0.000000e+00	1426.0
2	TraesCS1A01G262500	chr1A	89.177	462	37	4	930	1387	457372111	457372563	4.900000e-157	564.0
3	TraesCS1A01G262500	chr1A	88.301	359	34	3	1402	1752	457372947	457373305	8.670000e-115	424.0
4	TraesCS1A01G262500	chr1A	92.208	77	3	1	1455	1531	457372886	457372959	3.570000e-19	106.0
5	TraesCS1A01G262500	chr1D	92.130	1169	72	11	1448	2601	356860261	356861424	0.000000e+00	1631.0
6	TraesCS1A01G262500	chr1D	96.484	512	15	1	937	1448	356859288	356859796	0.000000e+00	843.0
7	TraesCS1A01G262500	chr1D	88.367	490	48	3	924	1413	356361202	356360722	4.860000e-162	580.0
8	TraesCS1A01G262500	chr1D	89.548	354	27	6	1402	1752	356360646	356360300	8.610000e-120	440.0
9	TraesCS1A01G262500	chr1D	96.000	75	3	0	692	766	356859145	356859219	3.540000e-24	122.0
10	TraesCS1A01G262500	chr1B	92.076	1161	70	14	923	2073	480326674	480327822	0.000000e+00	1615.0
11	TraesCS1A01G262500	chr1B	86.939	490	55	3	924	1413	479793139	479793619	2.290000e-150	542.0
12	TraesCS1A01G262500	chr1B	90.504	337	27	3	1418	1752	479794007	479794340	8.610000e-120	440.0
13	TraesCS1A01G262500	chr1B	85.714	210	24	6	1	209	548651095	548651299	1.580000e-52	217.0
14	TraesCS1A01G262500	chr1B	96.591	88	3	0	682	769	480326540	480326627	2.100000e-31	147.0
15	TraesCS1A01G262500	chr1B	91.837	49	2	2	2384	2430	480328166	480328214	1.680000e-07	67.6
16	TraesCS1A01G262500	chr1B	96.970	33	0	1	2196	2227	476911943	476911975	1.000000e-03	54.7
17	TraesCS1A01G262500	chr3D	84.559	680	76	21	1	657	556115081	556115754	0.000000e+00	647.0
18	TraesCS1A01G262500	chr3D	83.485	551	63	19	123	657	8467175	8466637	3.030000e-134	488.0
19	TraesCS1A01G262500	chr4A	88.341	446	41	10	1	440	620945221	620944781	2.310000e-145	525.0
20	TraesCS1A01G262500	chr4A	83.488	539	66	16	129	655	93922683	93922156	5.070000e-132	481.0
21	TraesCS1A01G262500	chr4A	80.143	559	76	25	122	655	695793670	695793122	4.090000e-103	385.0
22	TraesCS1A01G262500	chr2D	88.315	445	38	13	4	442	497917424	497917860	2.990000e-144	521.0
23	TraesCS1A01G262500	chr4D	87.805	451	42	12	1	442	475196930	475197376	1.390000e-142	516.0
24	TraesCS1A01G262500	chr6D	83.700	546	73	10	124	657	126427479	126426938	3.890000e-138	501.0
25	TraesCS1A01G262500	chr5B	80.568	669	106	17	1	657	659187927	659187271	6.520000e-136	494.0
26	TraesCS1A01G262500	chr5B	83.520	358	43	12	1	354	55486278	55486623	1.170000e-83	320.0
27	TraesCS1A01G262500	chr5B	83.427	356	48	9	1	351	478122217	478122566	1.170000e-83	320.0
28	TraesCS1A01G262500	chr6A	83.122	551	70	18	123	657	12090997	12090454	5.070000e-132	481.0
29	TraesCS1A01G262500	chr5A	82.904	544	69	20	125	657	452518842	452518312	3.950000e-128	468.0
30	TraesCS1A01G262500	chr2B	80.364	550	78	20	124	657	12883331	12882796	8.800000e-105	390.0
31	TraesCS1A01G262500	chr7A	79.044	544	74	25	131	657	658179797	658179277	1.160000e-88	337.0
32	TraesCS1A01G262500	chr6B	85.714	196	26	2	1014	1208	69707797	69707991	3.420000e-49	206.0

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	TraesCS1A01G262500	chr1A	457944325	457946945	2620	False	2283.000000	3140	100.000000	1	2621	2	chr1A.!!$F2	2620
1	TraesCS1A01G262500	chr1A	457372111	457373305	1194	False	364.666667	564	89.895333	930	1752	3	chr1A.!!$F1	822
2	TraesCS1A01G262500	chr1D	356859145	356861424	2279	False	865.333333	1631	94.871333	692	2601	3	chr1D.!!$F1	1909
3	TraesCS1A01G262500	chr1D	356360300	356361202	902	True	510.000000	580	88.957500	924	1752	2	chr1D.!!$R1	828
4	TraesCS1A01G262500	chr1B	480326540	480328214	1674	False	609.866667	1615	93.501333	682	2430	3	chr1B.!!$F4	1748
5	TraesCS1A01G262500	chr1B	479793139	479794340	1201	False	491.000000	542	88.721500	924	1752	2	chr1B.!!$F3	828
6	TraesCS1A01G262500	chr3D	556115081	556115754	673	False	647.000000	647	84.559000	1	657	1	chr3D.!!$F1	656
7	TraesCS1A01G262500	chr3D	8466637	8467175	538	True	488.000000	488	83.485000	123	657	1	chr3D.!!$R1	534
8	TraesCS1A01G262500	chr4A	93922156	93922683	527	True	481.000000	481	83.488000	129	655	1	chr4A.!!$R1	526
9	TraesCS1A01G262500	chr4A	695793122	695793670	548	True	385.000000	385	80.143000	122	655	1	chr4A.!!$R3	533
10	TraesCS1A01G262500	chr6D	126426938	126427479	541	True	501.000000	501	83.700000	124	657	1	chr6D.!!$R1	533
11	TraesCS1A01G262500	chr5B	659187271	659187927	656	True	494.000000	494	80.568000	1	657	1	chr5B.!!$R1	656
12	TraesCS1A01G262500	chr6A	12090454	12090997	543	True	481.000000	481	83.122000	123	657	1	chr6A.!!$R1	534
13	TraesCS1A01G262500	chr5A	452518312	452518842	530	True	468.000000	468	82.904000	125	657	1	chr5A.!!$R1	532
14	TraesCS1A01G262500	chr2B	12882796	12883331	535	True	390.000000	390	80.364000	124	657	1	chr2B.!!$R1	533
15	TraesCS1A01G262500	chr7A	658179277	658179797	520	True	337.000000	337	79.044000	131	657	1	chr7A.!!$R1	526

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
626	682	0.31716	ACGTGGCGAATGACTGAGAA	59.683	50.0	0.0	0.0	0.0	2.87	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1627	2877	0.24746	CACTCAGATCTGACGGGCAA	59.753	55.0	21.67	0.0	35.46	4.52	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
61	62	8.089625	TCAAAACTAGATCCCATGTTGATAGA	57.910	34.615	0.00	0.00	0.00	1.98
96	98	3.889196	TTTTCATGAGAAAACCGGACG	57.111	42.857	9.46	0.00	45.97	4.79
97	99	2.823924	TTCATGAGAAAACCGGACGA	57.176	45.000	9.46	0.00	0.00	4.20
98	100	2.823924	TCATGAGAAAACCGGACGAA	57.176	45.000	9.46	0.00	0.00	3.85
172	174	1.345176	GCCTCTCGCGAAAATCACG	59.655	57.895	11.33	0.00	0.00	4.35
182	184	1.862602	GAAAATCACGCCCGTGCCTT	61.863	55.000	15.39	8.83	45.04	4.35
200	202	1.332375	CTTTCGTGGAAGCAAAACCGA	59.668	47.619	0.00	0.00	0.00	4.69
501	542	6.727824	TTTGATCGAAAAGCTAAGGAAGAG	57.272	37.500	0.00	0.00	0.00	2.85
502	543	5.661056	TGATCGAAAAGCTAAGGAAGAGA	57.339	39.130	0.00	0.00	0.00	3.10
512	558	6.641169	AGCTAAGGAAGAGAAAAACCAAAG	57.359	37.500	0.00	0.00	0.00	2.77
526	574	0.666374	CCAAAGCGTCGAAAAACCCT	59.334	50.000	0.00	0.00	0.00	4.34
601	657	3.502123	TCCGGAAAGAGTGTCCAAAAT	57.498	42.857	0.00	0.00	34.56	1.82
626	682	0.317160	ACGTGGCGAATGACTGAGAA	59.683	50.000	0.00	0.00	0.00	2.87
630	686	0.737715	GGCGAATGACTGAGAACGCT	60.738	55.000	0.00	0.00	44.31	5.07
632	688	1.734047	GCGAATGACTGAGAACGCTCT	60.734	52.381	0.00	0.00	41.84	4.09
657	713	2.815211	GCTGATCGTTGCGAGGCA	60.815	61.111	0.00	0.00	39.91	4.75
658	714	2.806856	GCTGATCGTTGCGAGGCAG	61.807	63.158	15.12	15.12	40.61	4.85
659	715	2.806856	CTGATCGTTGCGAGGCAGC	61.807	63.158	9.85	0.00	40.61	5.25
660	716	2.510238	GATCGTTGCGAGGCAGCT	60.510	61.111	6.54	0.00	40.61	4.24
661	717	2.510238	ATCGTTGCGAGGCAGCTC	60.510	61.111	6.54	0.00	40.61	4.09
662	718	2.897641	GATCGTTGCGAGGCAGCTCT	62.898	60.000	6.54	0.00	40.61	4.09
663	719	2.897641	ATCGTTGCGAGGCAGCTCTC	62.898	60.000	6.54	0.00	40.61	3.20
672	728	3.073144	GAGGCAGCTCTCGTTAACTAG	57.927	52.381	3.71	2.14	0.00	2.57
673	729	2.683867	GAGGCAGCTCTCGTTAACTAGA	59.316	50.000	9.29	9.29	0.00	2.43
674	730	3.292460	AGGCAGCTCTCGTTAACTAGAT	58.708	45.455	10.01	0.00	0.00	1.98
675	731	3.067461	AGGCAGCTCTCGTTAACTAGATG	59.933	47.826	10.01	10.72	0.00	2.90
676	732	2.792116	GCAGCTCTCGTTAACTAGATGC	59.208	50.000	19.73	19.73	43.16	3.91
677	733	3.490078	GCAGCTCTCGTTAACTAGATGCT	60.490	47.826	23.81	21.48	45.38	3.79
678	734	4.286910	CAGCTCTCGTTAACTAGATGCTC	58.713	47.826	20.78	9.30	29.55	4.26
679	735	3.316868	AGCTCTCGTTAACTAGATGCTCC	59.683	47.826	19.21	6.24	0.00	4.70
680	736	3.551250	GCTCTCGTTAACTAGATGCTCCC	60.551	52.174	10.01	0.00	0.00	4.30
701	757	1.290324	GAGCAGGCGAGTGAACTCA	59.710	57.895	10.88	0.00	43.00	3.41
986	1055	3.136992	AGGGTTTTAGTCCTTCGTTTCCA	59.863	43.478	0.00	0.00	0.00	3.53
1218	1287	4.394712	GTCACCGCACCAGGAGGG	62.395	72.222	0.00	0.00	41.44	4.30
1621	2871	1.073284	GCCCCAACAAGACCAACTAGA	59.927	52.381	0.00	0.00	0.00	2.43
1626	2876	1.339097	ACAAGACCAACTAGACGGCT	58.661	50.000	0.00	0.00	0.00	5.52
1627	2877	1.692519	ACAAGACCAACTAGACGGCTT	59.307	47.619	0.00	1.97	0.00	4.35
1816	3069	1.306642	TGGTGGCGTGTTGTTCGTTT	61.307	50.000	0.00	0.00	0.00	3.60
1919	3178	8.668353	GTCAAGTTATGCTGTCTGATTTTGATA	58.332	33.333	0.00	0.00	0.00	2.15
1922	3181	8.969260	AGTTATGCTGTCTGATTTTGATATCA	57.031	30.769	0.00	0.00	33.66	2.15
1923	3182	9.570468	AGTTATGCTGTCTGATTTTGATATCAT	57.430	29.630	6.17	0.00	34.24	2.45
1938	3197	9.491675	TTTTGATATCATTGAAACTTGCATGTT	57.508	25.926	11.92	11.92	0.00	2.71
1939	3198	8.692110	TTGATATCATTGAAACTTGCATGTTC	57.308	30.769	17.34	11.63	0.00	3.18
1981	3241	5.516339	ACAAAAACAGCTGATCGTTTTTCAG	59.484	36.000	23.35	13.15	46.88	3.02
1989	3249	0.450482	ATCGTTTTTCAGTTCGCGCG	60.450	50.000	26.76	26.76	0.00	6.86
1995	3255	1.951181	TTTCAGTTCGCGCGGATTCG	61.951	55.000	31.69	14.06	39.81	3.34
1996	3256	3.179265	CAGTTCGCGCGGATTCGT	61.179	61.111	31.69	4.48	38.89	3.85
1999	3259	1.576867	GTTCGCGCGGATTCGTTTC	60.577	57.895	31.69	2.81	38.89	2.78
2020	3280	1.226746	CCAGTTGTTGGGTCTTCGTC	58.773	55.000	0.00	0.00	43.75	4.20
2076	3374	7.552687	CCAGGCTAGAATGTTCATTGTTTAGTA	59.447	37.037	2.63	0.00	0.00	1.82
2089	3387	5.611796	TTGTTTAGTAGCATGCTTGAGTG	57.388	39.130	28.02	0.00	29.76	3.51
2170	3494	6.402550	GCGTCATATTTCAGTCAGATTGTGTT	60.403	38.462	0.00	0.00	0.00	3.32
2171	3495	7.176075	CGTCATATTTCAGTCAGATTGTGTTC	58.824	38.462	0.00	0.00	0.00	3.18
2172	3496	7.148590	CGTCATATTTCAGTCAGATTGTGTTCA	60.149	37.037	0.00	0.00	0.00	3.18
2191	3529	3.093814	TCAATGCATGAATGAACAGCCT	58.906	40.909	0.00	0.00	34.30	4.58
2227	3565	5.069119	TGTGTGTACTGAGATCACAAGAAGT	59.931	40.000	13.46	0.00	42.39	3.01
2267	3605	7.510549	TTGCTTACAGTTTCTCTATGCTTTT	57.489	32.000	0.00	0.00	0.00	2.27
2276	3614	8.567948	CAGTTTCTCTATGCTTTTTGTTCCTTA	58.432	33.333	0.00	0.00	0.00	2.69
2310	3648	6.293081	GCTTGCATCATTGTTCAGTATATCGT	60.293	38.462	0.00	0.00	0.00	3.73
2319	3657	7.915293	TTGTTCAGTATATCGTGGTTTTCAT	57.085	32.000	0.00	0.00	0.00	2.57
2464	3806	5.188434	TCTTTCATAGTCAAGCCCATTCAG	58.812	41.667	0.00	0.00	0.00	3.02
2479	3821	4.883585	CCCATTCAGCTCAGTATTTTAGCA	59.116	41.667	0.00	0.00	38.75	3.49
2513	3855	9.740239	TTTCTTCAGTTTTTCATTCTTCATGAG	57.260	29.630	0.00	0.00	43.15	2.90
2568	3910	6.317391	ACTTCTTTTGGTCTCTCTTTGTCTTG	59.683	38.462	0.00	0.00	0.00	3.02
2571	3913	6.540189	TCTTTTGGTCTCTCTTTGTCTTGAAG	59.460	38.462	0.00	0.00	0.00	3.02
2584	3929	7.716998	TCTTTGTCTTGAAGCTCTTATTCAGTT	59.283	33.333	0.00	0.00	37.91	3.16
2588	3933	9.337396	TGTCTTGAAGCTCTTATTCAGTTTTTA	57.663	29.630	0.00	0.00	37.91	1.52
2595	3940	8.183104	AGCTCTTATTCAGTTTTTAGCCTTTT	57.817	30.769	0.00	0.00	0.00	2.27
2602	3947	8.757164	ATTCAGTTTTTAGCCTTTTAATTCGG	57.243	30.769	0.00	0.00	0.00	4.30
2603	3948	6.153756	TCAGTTTTTAGCCTTTTAATTCGGC	58.846	36.000	0.00	0.00	44.09	5.54
2609	3954	2.876091	GCCTTTTAATTCGGCTTCACC	58.124	47.619	0.00	0.00	40.62	4.02
2610	3955	2.230266	GCCTTTTAATTCGGCTTCACCA	59.770	45.455	0.00	0.00	40.62	4.17
2611	3956	3.673323	GCCTTTTAATTCGGCTTCACCAG	60.673	47.826	0.00	0.00	40.62	4.00
2612	3957	3.506067	CCTTTTAATTCGGCTTCACCAGT	59.494	43.478	0.00	0.00	39.03	4.00
2613	3958	4.022329	CCTTTTAATTCGGCTTCACCAGTT	60.022	41.667	0.00	0.00	39.03	3.16
2614	3959	5.508994	CCTTTTAATTCGGCTTCACCAGTTT	60.509	40.000	0.00	0.00	39.03	2.66
2615	3960	4.759516	TTAATTCGGCTTCACCAGTTTC	57.240	40.909	0.00	0.00	39.03	2.78
2616	3961	2.568623	ATTCGGCTTCACCAGTTTCT	57.431	45.000	0.00	0.00	39.03	2.52
2617	3962	2.341846	TTCGGCTTCACCAGTTTCTT	57.658	45.000	0.00	0.00	39.03	2.52
2618	3963	2.341846	TCGGCTTCACCAGTTTCTTT	57.658	45.000	0.00	0.00	39.03	2.52
2619	3964	1.946768	TCGGCTTCACCAGTTTCTTTG	59.053	47.619	0.00	0.00	39.03	2.77
2620	3965	1.676006	CGGCTTCACCAGTTTCTTTGT	59.324	47.619	0.00	0.00	39.03	2.83

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	1.026584	TCGACGCGAGGAATCCAATA	58.973	50.000	15.93	0.00	0.00	1.90
34	35	9.347240	CTATCAACATGGGATCTAGTTTTGAAT	57.653	33.333	5.52	0.00	0.00	2.57
106	108	4.415783	AACCATGCTCCCGGTTTC	57.584	55.556	0.00	0.00	42.99	2.78
129	131	0.320421	CGTGCCTCTTTCGGAAAGGA	60.320	55.000	25.66	14.00	39.01	3.36
173	175	2.281208	TTCCACGAAAGGCACGGG	60.281	61.111	0.00	0.00	34.93	5.28
182	184	0.941542	CTCGGTTTTGCTTCCACGAA	59.058	50.000	0.00	0.00	0.00	3.85
186	188	1.416401	AGAGTCTCGGTTTTGCTTCCA	59.584	47.619	0.00	0.00	0.00	3.53
246	253	2.035442	GGCCGTGCCTCTCAGAAAC	61.035	63.158	7.58	0.00	46.69	2.78
303	312	1.134226	CGCGAGAGTTACGGTTTTGT	58.866	50.000	0.00	0.00	0.00	2.83
415	434	6.639632	TTTTCTCTTTCCTGAAAGTCATGG	57.360	37.500	16.82	6.36	45.88	3.66
501	542	4.491280	GGTTTTTCGACGCTTTGGTTTTTC	60.491	41.667	0.00	0.00	0.00	2.29
502	543	3.368539	GGTTTTTCGACGCTTTGGTTTTT	59.631	39.130	0.00	0.00	0.00	1.94
512	558	2.478547	TTTTCAGGGTTTTTCGACGC	57.521	45.000	0.00	0.00	0.00	5.19
601	657	3.410516	CATTCGCCACGTGTCGCA	61.411	61.111	15.09	3.32	0.00	5.10
619	675	2.622436	GCCATTTAGAGCGTTCTCAGT	58.378	47.619	4.56	0.00	41.81	3.41
630	686	1.933181	CAACGATCAGCGCCATTTAGA	59.067	47.619	2.29	0.00	46.04	2.10
632	688	0.376852	GCAACGATCAGCGCCATTTA	59.623	50.000	2.29	0.00	46.04	1.40
657	713	3.316868	GGAGCATCTAGTTAACGAGAGCT	59.683	47.826	26.57	26.57	36.08	4.09
658	714	3.551250	GGGAGCATCTAGTTAACGAGAGC	60.551	52.174	20.81	21.06	31.33	4.09
659	715	3.304123	CGGGAGCATCTAGTTAACGAGAG	60.304	52.174	20.81	14.46	31.33	3.20
660	716	2.617308	CGGGAGCATCTAGTTAACGAGA	59.383	50.000	18.98	18.98	33.73	4.04
661	717	2.287668	CCGGGAGCATCTAGTTAACGAG	60.288	54.545	9.27	9.27	33.73	4.18
662	718	1.679680	CCGGGAGCATCTAGTTAACGA	59.320	52.381	0.00	0.00	33.73	3.85
663	719	1.269621	CCCGGGAGCATCTAGTTAACG	60.270	57.143	18.48	0.00	33.73	3.18
664	720	2.036089	CTCCCGGGAGCATCTAGTTAAC	59.964	54.545	36.90	0.00	35.31	2.01
665	721	2.317040	CTCCCGGGAGCATCTAGTTAA	58.683	52.381	36.90	3.17	35.31	2.01
666	722	1.996798	CTCCCGGGAGCATCTAGTTA	58.003	55.000	36.90	3.41	35.31	2.24
667	723	2.827715	CTCCCGGGAGCATCTAGTT	58.172	57.895	36.90	0.00	35.31	2.24
668	724	4.609098	CTCCCGGGAGCATCTAGT	57.391	61.111	36.90	0.00	35.31	2.57
680	736	4.069232	TTCACTCGCCTGCTCCCG	62.069	66.667	0.00	0.00	0.00	5.14
921	977	1.452833	GTGGCTGAGGAATGAGGGC	60.453	63.158	0.00	0.00	0.00	5.19
928	984	2.836154	GGTGTGGTGGCTGAGGAA	59.164	61.111	0.00	0.00	0.00	3.36
1056	1125	1.115930	CGTCCTCCGGGGAGATGAAT	61.116	60.000	16.29	0.00	46.10	2.57
1158	1227	2.678580	TCGCCGGTGATGACCTCA	60.679	61.111	15.21	0.00	40.58	3.86
1626	2876	0.976641	ACTCAGATCTGACGGGCAAA	59.023	50.000	21.67	0.00	35.46	3.68
1627	2877	0.247460	CACTCAGATCTGACGGGCAA	59.753	55.000	21.67	0.00	35.46	4.52
1816	3069	5.447624	TCAGACGACACAAGATAACTTCA	57.552	39.130	0.00	0.00	33.70	3.02
1872	3129	6.472016	TGACTTGCATAACTTAGTCCATTCA	58.528	36.000	10.63	0.00	36.94	2.57
1919	3178	7.711772	TGAAAAGAACATGCAAGTTTCAATGAT	59.288	29.630	8.95	0.00	33.37	2.45
1922	3181	8.441312	AATGAAAAGAACATGCAAGTTTCAAT	57.559	26.923	8.95	0.00	38.19	2.57
1923	3182	7.846644	AATGAAAAGAACATGCAAGTTTCAA	57.153	28.000	8.95	0.00	38.19	2.69
1981	3241	1.576867	GAAACGAATCCGCGCGAAC	60.577	57.895	34.63	17.43	39.95	3.95
1989	3249	4.147219	CAACAACTGGAGAAACGAATCC	57.853	45.455	0.00	0.00	36.05	3.01
2020	3280	1.146957	GAGCACGCTCTGAGATGCAG	61.147	60.000	26.25	10.05	46.31	4.41
2170	3494	3.093814	AGGCTGTTCATTCATGCATTGA	58.906	40.909	0.00	0.00	0.00	2.57
2171	3495	3.119280	TGAGGCTGTTCATTCATGCATTG	60.119	43.478	0.00	0.00	0.00	2.82
2172	3496	3.093814	TGAGGCTGTTCATTCATGCATT	58.906	40.909	0.00	0.00	0.00	3.56
2191	3529	8.575649	TCTCAGTACACACATCTAAATAGTGA	57.424	34.615	0.00	0.00	37.05	3.41
2267	3605	4.380531	CAAGCTGACAGACTAAGGAACAA	58.619	43.478	6.65	0.00	0.00	2.83
2276	3614	2.747989	CAATGATGCAAGCTGACAGACT	59.252	45.455	6.65	0.00	0.00	3.24
2382	3724	0.964358	GCCAGGCAAGAGCTCATTGT	60.964	55.000	17.77	0.46	41.70	2.71
2385	3727	1.980784	ATCGCCAGGCAAGAGCTCAT	61.981	55.000	17.77	0.00	41.70	2.90
2446	3788	2.877168	GAGCTGAATGGGCTTGACTATG	59.123	50.000	0.00	0.00	40.40	2.23
2447	3789	2.507058	TGAGCTGAATGGGCTTGACTAT	59.493	45.455	0.00	0.00	40.40	2.12
2456	3798	4.883585	TGCTAAAATACTGAGCTGAATGGG	59.116	41.667	0.00	0.00	37.12	4.00
2464	3806	4.508662	AGTGAGGTGCTAAAATACTGAGC	58.491	43.478	0.00	0.00	36.72	4.26
2479	3821	6.834168	TGAAAAACTGAAGAAAAGTGAGGT	57.166	33.333	0.00	0.00	0.00	3.85
2527	3869	2.634940	AGAAGTGCAAGTAGAGCCTTCA	59.365	45.455	10.81	0.00	39.55	3.02
2568	3910	7.384439	AGGCTAAAAACTGAATAAGAGCTTC	57.616	36.000	0.00	0.00	0.00	3.86
2571	3913	9.908152	TTAAAAGGCTAAAAACTGAATAAGAGC	57.092	29.630	0.00	0.00	0.00	4.09
2595	3940	4.015872	AGAAACTGGTGAAGCCGAATTA	57.984	40.909	0.00	0.00	41.21	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.