AutoCloner

Multiple sequence alignment - TraesCS1A01G335000

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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	TraesCS1A01G335000	chr1A	100.000	2860	0	0	1	2860	522238289	522235430	0.000000e+00	5282
1	TraesCS1A01G335000	chr1A	93.855	716	26	2	1	699	104232352	104231638	0.000000e+00	1062
2	TraesCS1A01G335000	chr1A	96.575	146	3	2	2716	2860	121132521	121132665	1.020000e-59	241
3	TraesCS1A01G335000	chr2D	95.641	1583	50	6	1	1565	114668253	114666672	0.000000e+00	2523
4	TraesCS1A01G335000	chr2D	93.805	1582	72	16	1	1570	562577654	562576087	0.000000e+00	2355
5	TraesCS1A01G335000	chr2D	95.559	1261	37	3	328	1570	82210877	82209618	0.000000e+00	2001
6	TraesCS1A01G335000	chr2D	94.406	1162	47	11	1564	2716	82209591	82208439	0.000000e+00	1770
7	TraesCS1A01G335000	chr2D	94.315	1161	54	5	1564	2716	114666640	114665484	0.000000e+00	1768
8	TraesCS1A01G335000	chr5D	95.337	1587	53	3	1	1567	363005559	363007144	0.000000e+00	2501
9	TraesCS1A01G335000	chr5D	93.964	1607	54	18	1	1564	134489679	134488073	0.000000e+00	2390
10	TraesCS1A01G335000	chr5D	95.000	1160	47	6	1564	2716	363007174	363008329	0.000000e+00	1810
11	TraesCS1A01G335000	chr5D	94.755	1163	48	8	1564	2716	320662310	320663469	0.000000e+00	1797
12	TraesCS1A01G335000	chr5D	94.497	1163	53	7	1564	2716	530734913	530736074	0.000000e+00	1783
13	TraesCS1A01G335000	chr3D	95.265	1584	58	3	1	1567	579163387	579164970	0.000000e+00	2494
14	TraesCS1A01G335000	chr3D	95.013	1163	46	8	1564	2716	252332340	252331180	0.000000e+00	1816
15	TraesCS1A01G335000	chr3D	96.897	580	18	0	1	580	68839860	68840439	0.000000e+00	972
16	TraesCS1A01G335000	chr3D	93.721	653	24	1	2	637	252333896	252333244	0.000000e+00	963
17	TraesCS1A01G335000	chr1D	95.190	1580	56	3	1	1560	309985195	309983616	0.000000e+00	2479
18	TraesCS1A01G335000	chr1D	94.927	1163	44	7	1564	2716	447754698	447753541	0.000000e+00	1807
19	TraesCS1A01G335000	chr1D	96.718	579	18	1	1	579	377957722	377958299	0.000000e+00	963
20	TraesCS1A01G335000	chr7D	95.063	1580	60	2	1	1563	604446544	604448122	0.000000e+00	2470
21	TraesCS1A01G335000	chr7D	95.185	1163	45	6	1564	2716	604461307	604462468	0.000000e+00	1827
22	TraesCS1A01G335000	chr5A	94.591	1590	65	3	1	1570	524632927	524631339	0.000000e+00	2440
23	TraesCS1A01G335000	chr5A	94.125	1600	59	5	1	1570	573662489	573660895	0.000000e+00	2401
24	TraesCS1A01G335000	chr2A	94.458	1588	71	1	1	1571	676711137	676712724	0.000000e+00	2429
25	TraesCS1A01G335000	chr2A	97.222	144	2	2	2717	2860	707746236	707746377	2.850000e-60	243
26	TraesCS1A01G335000	chr7A	93.976	1162	60	6	1564	2716	644739392	644738232	0.000000e+00	1749
27	TraesCS1A01G335000	chr7B	99.306	144	0	1	2717	2860	186862155	186862013	2.830000e-65	259
28	TraesCS1A01G335000	chr6A	99.306	144	0	1	2717	2860	531713830	531713972	2.830000e-65	259
29	TraesCS1A01G335000	chr5B	97.931	145	2	1	2716	2860	377191413	377191556	1.700000e-62	250
30	TraesCS1A01G335000	chr3B	97.917	144	3	0	2717	2860	554099177	554099320	1.700000e-62	250
31	TraesCS1A01G335000	chr3B	97.241	145	2	2	2716	2860	682170872	682171014	7.920000e-61	244
32	TraesCS1A01G335000	chr3B	97.222	144	3	1	2717	2860	695554749	695554607	2.850000e-60	243
33	TraesCS1A01G335000	chr6B	97.241	145	2	2	2717	2860	37648157	37648014	7.920000e-61	244

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	TraesCS1A01G335000	chr1A	522235430	522238289	2859	True	5282.0	5282	100.0000	1	2860	1	chr1A.!!$R2	2859
1	TraesCS1A01G335000	chr1A	104231638	104232352	714	True	1062.0	1062	93.8550	1	699	1	chr1A.!!$R1	698
2	TraesCS1A01G335000	chr2D	562576087	562577654	1567	True	2355.0	2355	93.8050	1	1570	1	chr2D.!!$R1	1569
3	TraesCS1A01G335000	chr2D	114665484	114668253	2769	True	2145.5	2523	94.9780	1	2716	2	chr2D.!!$R3	2715
4	TraesCS1A01G335000	chr2D	82208439	82210877	2438	True	1885.5	2001	94.9825	328	2716	2	chr2D.!!$R2	2388
5	TraesCS1A01G335000	chr5D	134488073	134489679	1606	True	2390.0	2390	93.9640	1	1564	1	chr5D.!!$R1	1563
6	TraesCS1A01G335000	chr5D	363005559	363008329	2770	False	2155.5	2501	95.1685	1	2716	2	chr5D.!!$F3	2715
7	TraesCS1A01G335000	chr5D	320662310	320663469	1159	False	1797.0	1797	94.7550	1564	2716	1	chr5D.!!$F1	1152
8	TraesCS1A01G335000	chr5D	530734913	530736074	1161	False	1783.0	1783	94.4970	1564	2716	1	chr5D.!!$F2	1152
9	TraesCS1A01G335000	chr3D	579163387	579164970	1583	False	2494.0	2494	95.2650	1	1567	1	chr3D.!!$F2	1566
10	TraesCS1A01G335000	chr3D	252331180	252333896	2716	True	1389.5	1816	94.3670	2	2716	2	chr3D.!!$R1	2714
11	TraesCS1A01G335000	chr3D	68839860	68840439	579	False	972.0	972	96.8970	1	580	1	chr3D.!!$F1	579
12	TraesCS1A01G335000	chr1D	309983616	309985195	1579	True	2479.0	2479	95.1900	1	1560	1	chr1D.!!$R1	1559
13	TraesCS1A01G335000	chr1D	447753541	447754698	1157	True	1807.0	1807	94.9270	1564	2716	1	chr1D.!!$R2	1152
14	TraesCS1A01G335000	chr1D	377957722	377958299	577	False	963.0	963	96.7180	1	579	1	chr1D.!!$F1	578
15	TraesCS1A01G335000	chr7D	604446544	604448122	1578	False	2470.0	2470	95.0630	1	1563	1	chr7D.!!$F1	1562
16	TraesCS1A01G335000	chr7D	604461307	604462468	1161	False	1827.0	1827	95.1850	1564	2716	1	chr7D.!!$F2	1152
17	TraesCS1A01G335000	chr5A	524631339	524632927	1588	True	2440.0	2440	94.5910	1	1570	1	chr5A.!!$R1	1569
18	TraesCS1A01G335000	chr5A	573660895	573662489	1594	True	2401.0	2401	94.1250	1	1570	1	chr5A.!!$R2	1569
19	TraesCS1A01G335000	chr2A	676711137	676712724	1587	False	2429.0	2429	94.4580	1	1571	1	chr2A.!!$F1	1570
20	TraesCS1A01G335000	chr7A	644738232	644739392	1160	True	1749.0	1749	93.9760	1564	2716	1	chr7A.!!$R1	1152

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
321	324	0.321653	GGCGTTCATCTTCCACCACT	60.322	55.0	0.0	0.0	0.0	4.0	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2266	2403	0.462789	GCATTGGCTTCTTCCCATGG	59.537	55.0	4.14	4.14	36.96	3.66	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
29	30	4.020617	CCTCGTGAGCCTGGCCAA	62.021	66.667	16.57	0.00	0.00	4.52
207	210	1.067142	CACCATTCTTCCTCCGTTCGA	60.067	52.381	0.00	0.00	0.00	3.71
321	324	0.321653	GGCGTTCATCTTCCACCACT	60.322	55.000	0.00	0.00	0.00	4.00
371	374	1.280421	GGCCTCTGTGAGTTCAATCCT	59.720	52.381	0.00	0.00	0.00	3.24
518	522	2.474816	GTAGGGCTAGATGTTCAAGCG	58.525	52.381	0.00	0.00	37.11	4.68
787	844	1.375908	ATGACCACGCAGACGCAAT	60.376	52.632	0.00	0.00	45.53	3.56
894	951	3.999663	CTGATTCAGAGGTGTTCAAGTCC	59.000	47.826	8.00	0.00	32.44	3.85
913	970	1.541233	CCGATTCCCTCTATGTGCCAC	60.541	57.143	0.00	0.00	0.00	5.01
962	1046	1.079543	CCGCTGCACTCAAGCTAGT	60.080	57.895	0.00	0.00	34.99	2.57
1035	1119	0.599060	TCATGTCCACGTTCGTGCTA	59.401	50.000	18.14	7.09	35.03	3.49
1051	1135	3.120546	CGTGCTAAACAAGATGTGTGAGG	60.121	47.826	0.00	0.00	40.60	3.86
1291	1375	4.157120	ACTACGCCGGCCATGTCC	62.157	66.667	23.46	0.00	0.00	4.02
1326	1410	2.685388	GCCCTCTTCCTTTTCATACTGC	59.315	50.000	0.00	0.00	0.00	4.40
1590	1708	5.473849	TGATAGGAAGAGGAAGAGAGGAA	57.526	43.478	0.00	0.00	0.00	3.36
1598	1716	3.206412	AGAGGAAGAGAGGAAGCCTGATA	59.794	47.826	0.00	0.00	31.76	2.15
1763	1881	3.303189	GCAGCTCTCAGCCACCTA	58.697	61.111	0.00	0.00	43.77	3.08
1803	1921	0.466372	TGTTGGGTTCGTTGCCATGA	60.466	50.000	0.00	0.00	0.00	3.07
1898	2016	4.545706	GCATGATCCCCGACGGCA	62.546	66.667	8.86	0.63	0.00	5.69
1900	2018	1.227943	CATGATCCCCGACGGCAAT	60.228	57.895	8.86	3.40	0.00	3.56
1901	2019	1.227943	ATGATCCCCGACGGCAATG	60.228	57.895	8.86	0.00	0.00	2.82
1902	2020	2.591715	GATCCCCGACGGCAATGG	60.592	66.667	8.86	4.25	0.00	3.16
1990	2120	7.403312	TTTGATGGTCTGTATATTTTGGTGG	57.597	36.000	0.00	0.00	0.00	4.61
2063	2194	0.890683	CACCCTCTTTTGGATGTGGC	59.109	55.000	0.00	0.00	0.00	5.01
2133	2270	4.898320	TGCATGCTTTACTTCTCTTCTGA	58.102	39.130	20.33	0.00	0.00	3.27
2135	2272	5.942236	TGCATGCTTTACTTCTCTTCTGATT	59.058	36.000	20.33	0.00	0.00	2.57
2147	2284	9.342308	ACTTCTCTTCTGATTCATTGTTGTTTA	57.658	29.630	0.00	0.00	0.00	2.01
2266	2403	3.778629	TGAGGTTCCAGGGGTTTATAGTC	59.221	47.826	0.00	0.00	0.00	2.59
2392	2529	1.964448	CACGGAGGCAGTAGTGTCA	59.036	57.895	4.71	0.00	0.00	3.58
2457	2594	2.613691	GATCGTCAGTTCGGCCTAAAA	58.386	47.619	0.00	0.00	0.00	1.52
2555	2692	2.565834	GTGGGTAAGCTCACCAACTAGA	59.434	50.000	8.72	0.00	40.15	2.43
2609	2746	1.942677	ACCAAACGTCGTGTTCATGA	58.057	45.000	0.00	0.00	40.84	3.07
2611	2748	1.864711	CCAAACGTCGTGTTCATGAGT	59.135	47.619	0.00	0.00	40.84	3.41
2665	2804	4.804139	GTGCACTTGCGTATTACTAGATGT	59.196	41.667	10.32	0.00	45.83	3.06
2717	2856	2.038387	GCATATGGCGTATTAGGGGG	57.962	55.000	4.56	0.00	0.00	5.40
2718	2857	1.557832	GCATATGGCGTATTAGGGGGA	59.442	52.381	4.56	0.00	0.00	4.81
2719	2858	2.679930	GCATATGGCGTATTAGGGGGAC	60.680	54.545	4.56	0.00	0.00	4.46
2720	2859	1.259609	TATGGCGTATTAGGGGGACG	58.740	55.000	0.00	0.00	39.55	4.79
2730	2869	3.547513	GGGGGACGCGGCTAATCT	61.548	66.667	13.91	0.00	0.00	2.40
2731	2870	2.280186	GGGGACGCGGCTAATCTG	60.280	66.667	13.91	0.00	0.00	2.90
2732	2871	2.967615	GGGACGCGGCTAATCTGC	60.968	66.667	13.91	0.00	43.66	4.26
2737	2876	3.272334	GCGGCTAATCTGCACCCG	61.272	66.667	0.00	0.00	46.35	5.28
2738	2877	2.499205	CGGCTAATCTGCACCCGA	59.501	61.111	0.00	0.00	41.34	5.14
2739	2878	1.592669	CGGCTAATCTGCACCCGAG	60.593	63.158	0.00	0.00	41.34	4.63
2740	2879	1.889573	GGCTAATCTGCACCCGAGC	60.890	63.158	0.00	0.00	34.04	5.03
2741	2880	1.144936	GCTAATCTGCACCCGAGCT	59.855	57.895	0.00	0.00	34.99	4.09
2742	2881	0.878086	GCTAATCTGCACCCGAGCTC	60.878	60.000	2.73	2.73	34.99	4.09
2743	2882	0.461548	CTAATCTGCACCCGAGCTCA	59.538	55.000	15.40	0.00	34.99	4.26
2744	2883	1.069823	CTAATCTGCACCCGAGCTCAT	59.930	52.381	15.40	0.00	34.99	2.90
2745	2884	1.123077	AATCTGCACCCGAGCTCATA	58.877	50.000	15.40	0.00	34.99	2.15
2746	2885	1.346062	ATCTGCACCCGAGCTCATAT	58.654	50.000	15.40	0.00	34.99	1.78
2747	2886	0.390492	TCTGCACCCGAGCTCATATG	59.610	55.000	15.40	9.02	34.99	1.78
2748	2887	1.226686	CTGCACCCGAGCTCATATGC	61.227	60.000	20.59	20.59	34.99	3.14
2763	2902	2.749682	TGCTCCCGCATGAACAGT	59.250	55.556	0.00	0.00	42.25	3.55
2764	2903	1.979262	TGCTCCCGCATGAACAGTA	59.021	52.632	0.00	0.00	42.25	2.74
2765	2904	0.323302	TGCTCCCGCATGAACAGTAA	59.677	50.000	0.00	0.00	42.25	2.24
2766	2905	1.271108	TGCTCCCGCATGAACAGTAAA	60.271	47.619	0.00	0.00	42.25	2.01
2767	2906	1.810151	GCTCCCGCATGAACAGTAAAA	59.190	47.619	0.00	0.00	35.78	1.52
2768	2907	2.423538	GCTCCCGCATGAACAGTAAAAT	59.576	45.455	0.00	0.00	35.78	1.82
2769	2908	3.487544	GCTCCCGCATGAACAGTAAAATC	60.488	47.826	0.00	0.00	35.78	2.17
2770	2909	2.675844	TCCCGCATGAACAGTAAAATCG	59.324	45.455	0.00	0.00	0.00	3.34
2771	2910	2.675844	CCCGCATGAACAGTAAAATCGA	59.324	45.455	0.00	0.00	0.00	3.59
2772	2911	3.126171	CCCGCATGAACAGTAAAATCGAA	59.874	43.478	0.00	0.00	0.00	3.71
2773	2912	4.378978	CCCGCATGAACAGTAAAATCGAAA	60.379	41.667	0.00	0.00	0.00	3.46
2774	2913	5.150683	CCGCATGAACAGTAAAATCGAAAA	58.849	37.500	0.00	0.00	0.00	2.29
2775	2914	5.627367	CCGCATGAACAGTAAAATCGAAAAA	59.373	36.000	0.00	0.00	0.00	1.94
2824	2963	9.487790	TTTTTGAGAGAAACATTGACAAAAGTT	57.512	25.926	0.00	0.00	37.18	2.66
2825	2964	8.687824	TTTGAGAGAAACATTGACAAAAGTTC	57.312	30.769	9.09	5.33	0.00	3.01
2826	2965	7.630242	TGAGAGAAACATTGACAAAAGTTCT	57.370	32.000	9.09	9.17	0.00	3.01
2827	2966	8.731275	TGAGAGAAACATTGACAAAAGTTCTA	57.269	30.769	9.09	0.00	0.00	2.10
2828	2967	9.173021	TGAGAGAAACATTGACAAAAGTTCTAA	57.827	29.630	9.09	0.00	0.00	2.10
2829	2968	9.657121	GAGAGAAACATTGACAAAAGTTCTAAG	57.343	33.333	9.09	0.00	0.00	2.18
2830	2969	9.178758	AGAGAAACATTGACAAAAGTTCTAAGT	57.821	29.630	9.09	0.00	0.00	2.24
2831	2970	9.226345	GAGAAACATTGACAAAAGTTCTAAGTG	57.774	33.333	9.09	0.00	0.00	3.16
2832	2971	7.702348	AGAAACATTGACAAAAGTTCTAAGTGC	59.298	33.333	9.09	0.00	0.00	4.40
2833	2972	5.831997	ACATTGACAAAAGTTCTAAGTGCC	58.168	37.500	0.00	0.00	0.00	5.01
2834	2973	5.594317	ACATTGACAAAAGTTCTAAGTGCCT	59.406	36.000	0.00	0.00	0.00	4.75
2835	2974	5.499139	TTGACAAAAGTTCTAAGTGCCTG	57.501	39.130	0.00	0.00	0.00	4.85
2836	2975	3.315191	TGACAAAAGTTCTAAGTGCCTGC	59.685	43.478	0.00	0.00	0.00	4.85
2837	2976	3.287222	ACAAAAGTTCTAAGTGCCTGCA	58.713	40.909	0.00	0.00	0.00	4.41
2838	2977	3.699038	ACAAAAGTTCTAAGTGCCTGCAA	59.301	39.130	0.00	0.00	0.00	4.08
2839	2978	4.159506	ACAAAAGTTCTAAGTGCCTGCAAA	59.840	37.500	0.00	0.00	0.00	3.68
2840	2979	5.108517	CAAAAGTTCTAAGTGCCTGCAAAA	58.891	37.500	0.00	0.00	0.00	2.44
2841	2980	5.337578	AAAGTTCTAAGTGCCTGCAAAAA	57.662	34.783	0.00	0.00	0.00	1.94
2842	2981	5.535753	AAGTTCTAAGTGCCTGCAAAAAT	57.464	34.783	0.00	0.00	0.00	1.82
2843	2982	5.535753	AGTTCTAAGTGCCTGCAAAAATT	57.464	34.783	0.00	0.00	0.00	1.82
2844	2983	5.532557	AGTTCTAAGTGCCTGCAAAAATTC	58.467	37.500	0.00	0.00	0.00	2.17
2845	2984	4.159377	TCTAAGTGCCTGCAAAAATTCG	57.841	40.909	0.00	0.00	0.00	3.34
2846	2985	2.888834	AAGTGCCTGCAAAAATTCGT	57.111	40.000	0.00	0.00	0.00	3.85
2847	2986	2.422276	AGTGCCTGCAAAAATTCGTC	57.578	45.000	0.00	0.00	0.00	4.20
2848	2987	1.680735	AGTGCCTGCAAAAATTCGTCA	59.319	42.857	0.00	0.00	0.00	4.35
2849	2988	2.297033	AGTGCCTGCAAAAATTCGTCAT	59.703	40.909	0.00	0.00	0.00	3.06
2850	2989	2.409378	GTGCCTGCAAAAATTCGTCATG	59.591	45.455	0.00	0.00	0.00	3.07
2851	2990	2.295629	TGCCTGCAAAAATTCGTCATGA	59.704	40.909	0.00	0.00	0.00	3.07
2852	2991	3.243670	TGCCTGCAAAAATTCGTCATGAA	60.244	39.130	0.00	0.00	41.81	2.57
2853	2992	3.740321	GCCTGCAAAAATTCGTCATGAAA	59.260	39.130	0.00	0.00	40.71	2.69
2854	2993	4.389687	GCCTGCAAAAATTCGTCATGAAAT	59.610	37.500	0.00	0.00	40.71	2.17
2855	2994	5.445010	GCCTGCAAAAATTCGTCATGAAATC	60.445	40.000	0.00	0.00	40.71	2.17
2856	2995	5.634439	CCTGCAAAAATTCGTCATGAAATCA	59.366	36.000	0.00	0.00	40.71	2.57
2857	2996	6.400303	CCTGCAAAAATTCGTCATGAAATCAC	60.400	38.462	0.00	0.00	40.71	3.06
2858	2997	5.981915	TGCAAAAATTCGTCATGAAATCACA	59.018	32.000	0.00	0.00	40.71	3.58
2859	2998	6.645827	TGCAAAAATTCGTCATGAAATCACAT	59.354	30.769	0.00	0.00	40.71	3.21

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
12	13	3.965539	CTTGGCCAGGCTCACGAGG	62.966	68.421	12.43	0.00	0.00	4.63
113	115	1.077429	GAGCCAAAATCCTCCCGCT	60.077	57.895	0.00	0.00	0.00	5.52
371	374	4.464597	GCTAGAAGGAACAGAGAGAAAGGA	59.535	45.833	0.00	0.00	0.00	3.36
518	522	7.222872	TCTACTACTAATCTAGCCTACCACAC	58.777	42.308	0.00	0.00	0.00	3.82
634	691	8.646004	ACATGCTTCATCACTATCATACTAAGT	58.354	33.333	0.00	0.00	0.00	2.24
673	730	5.558844	GCATACATGTACATGGTTCATCACG	60.559	44.000	33.32	15.23	42.91	4.35
787	844	2.693591	CGACAAGGGCCTGACTAAGATA	59.306	50.000	6.92	0.00	0.00	1.98
889	946	2.103263	GCACATAGAGGGAATCGGACTT	59.897	50.000	0.00	0.00	0.00	3.01
894	951	1.414181	AGTGGCACATAGAGGGAATCG	59.586	52.381	21.41	0.00	44.52	3.34
962	1046	1.888512	CCTTCTTTGCCTTTGCTGCTA	59.111	47.619	0.00	0.00	38.71	3.49
1051	1135	5.298276	CAGTCCTAACTCCACTAGAGATGAC	59.702	48.000	0.00	0.00	46.50	3.06
1187	1271	2.118679	TGGACACTTGGATCCATCGAT	58.881	47.619	17.06	1.64	40.17	3.59
1268	1352	3.524606	GGCCGGCGTAGTGCTCTA	61.525	66.667	22.54	0.00	45.43	2.43
1291	1375	2.125106	GGGCTGTGAGCTAACCGG	60.125	66.667	0.00	0.00	41.99	5.28
1326	1410	1.507140	TAGGAGTAGGCAATGGTGGG	58.493	55.000	0.00	0.00	0.00	4.61
1590	1708	2.721355	TGATCTCCTCCTCTATCAGGCT	59.279	50.000	0.00	0.00	43.08	4.58
1598	1716	4.650588	CAGAAGACATTGATCTCCTCCTCT	59.349	45.833	0.00	0.00	0.00	3.69
1665	1783	2.032681	GTCGAGGGGCTTGCACTT	59.967	61.111	0.00	0.00	0.00	3.16
1690	1808	1.070914	TGACAACGCCATACAGGTCAA	59.929	47.619	0.00	0.00	40.61	3.18
1763	1881	0.468029	CCTGGGCCTTGTTGTCAAGT	60.468	55.000	4.53	0.00	46.70	3.16
1803	1921	2.573869	CATCCTGTGAGCGTCGGT	59.426	61.111	0.00	0.00	0.00	4.69
1898	2016	2.282180	GTCGCCACCACCACCATT	60.282	61.111	0.00	0.00	0.00	3.16
1990	2120	4.529769	GTGAGGGGTTAGTATATACCACCC	59.470	50.000	28.54	28.54	44.19	4.61
2135	2272	9.062524	AGCAAAGTAGTACATAAACAACAATGA	57.937	29.630	2.52	0.00	0.00	2.57
2147	2284	6.147821	CACAAGTAGCAAGCAAAGTAGTACAT	59.852	38.462	2.52	0.00	0.00	2.29
2151	2288	3.251004	GCACAAGTAGCAAGCAAAGTAGT	59.749	43.478	0.00	0.00	0.00	2.73
2266	2403	0.462789	GCATTGGCTTCTTCCCATGG	59.537	55.000	4.14	4.14	36.96	3.66
2457	2594	5.766670	TGCAAAGATGATGAAGTTCTTCAGT	59.233	36.000	21.74	12.02	34.64	3.41
2478	2615	0.943673	CAATGGTGACGAACTGTGCA	59.056	50.000	0.00	0.00	0.00	4.57
2481	2618	1.229428	CAGCAATGGTGACGAACTGT	58.771	50.000	6.59	0.00	32.22	3.55
2555	2692	4.714632	ACATGTTGTGCTTACCTTGTACT	58.285	39.130	0.00	0.00	0.00	2.73
2609	2746	2.190578	GCATTGGCCCTAGCGACT	59.809	61.111	0.00	0.00	41.24	4.18
2611	2748	2.190313	CTGCATTGGCCCTAGCGA	59.810	61.111	0.00	0.00	41.24	4.93
2665	2804	0.471971	GCCTGCATCCCTAGTCCCTA	60.472	60.000	0.00	0.00	0.00	3.53
2716	2855	2.202878	TGCAGATTAGCCGCGTCC	60.203	61.111	4.92	0.00	0.00	4.79
2717	2856	2.526120	GGTGCAGATTAGCCGCGTC	61.526	63.158	4.92	0.00	0.00	5.19
2718	2857	2.511600	GGTGCAGATTAGCCGCGT	60.512	61.111	4.92	0.00	0.00	6.01
2719	2858	3.272334	GGGTGCAGATTAGCCGCG	61.272	66.667	0.00	0.00	0.00	6.46
2722	2861	1.889573	GCTCGGGTGCAGATTAGCC	60.890	63.158	0.00	0.00	0.00	3.93
2723	2862	0.878086	GAGCTCGGGTGCAGATTAGC	60.878	60.000	0.00	0.00	34.99	3.09
2724	2863	0.461548	TGAGCTCGGGTGCAGATTAG	59.538	55.000	9.64	0.00	34.99	1.73
2725	2864	1.123077	ATGAGCTCGGGTGCAGATTA	58.877	50.000	9.64	0.00	34.99	1.75
2726	2865	1.123077	TATGAGCTCGGGTGCAGATT	58.877	50.000	9.64	0.00	34.99	2.40
2727	2866	1.001746	CATATGAGCTCGGGTGCAGAT	59.998	52.381	9.64	0.00	34.99	2.90
2728	2867	0.390492	CATATGAGCTCGGGTGCAGA	59.610	55.000	9.64	0.00	34.99	4.26
2729	2868	1.226686	GCATATGAGCTCGGGTGCAG	61.227	60.000	23.72	7.32	34.99	4.41
2730	2869	1.227645	GCATATGAGCTCGGGTGCA	60.228	57.895	23.72	2.95	34.99	4.57
2731	2870	1.070445	AGCATATGAGCTCGGGTGC	59.930	57.895	22.13	22.13	42.18	5.01
2748	2887	3.242413	CGATTTTACTGTTCATGCGGGAG	60.242	47.826	0.00	0.00	0.00	4.30
2749	2888	2.675844	CGATTTTACTGTTCATGCGGGA	59.324	45.455	0.00	0.00	0.00	5.14
2750	2889	2.675844	TCGATTTTACTGTTCATGCGGG	59.324	45.455	0.00	0.00	0.00	6.13
2751	2890	4.335082	TTCGATTTTACTGTTCATGCGG	57.665	40.909	0.00	0.00	0.00	5.69
2752	2891	6.667981	TTTTTCGATTTTACTGTTCATGCG	57.332	33.333	0.00	0.00	0.00	4.73
2798	2937	9.487790	AACTTTTGTCAATGTTTCTCTCAAAAA	57.512	25.926	0.00	0.00	34.51	1.94
2799	2938	9.139174	GAACTTTTGTCAATGTTTCTCTCAAAA	57.861	29.630	6.10	0.00	31.96	2.44
2800	2939	8.522830	AGAACTTTTGTCAATGTTTCTCTCAAA	58.477	29.630	6.10	0.00	31.96	2.69
2801	2940	8.055279	AGAACTTTTGTCAATGTTTCTCTCAA	57.945	30.769	6.10	0.00	31.96	3.02
2802	2941	7.630242	AGAACTTTTGTCAATGTTTCTCTCA	57.370	32.000	6.10	0.00	31.96	3.27
2803	2942	9.657121	CTTAGAACTTTTGTCAATGTTTCTCTC	57.343	33.333	6.42	0.00	31.96	3.20
2804	2943	9.178758	ACTTAGAACTTTTGTCAATGTTTCTCT	57.821	29.630	6.42	3.36	31.96	3.10
2805	2944	9.226345	CACTTAGAACTTTTGTCAATGTTTCTC	57.774	33.333	6.42	0.00	31.96	2.87
2806	2945	7.702348	GCACTTAGAACTTTTGTCAATGTTTCT	59.298	33.333	6.10	6.96	31.96	2.52
2807	2946	7.043391	GGCACTTAGAACTTTTGTCAATGTTTC	60.043	37.037	6.10	1.04	31.96	2.78
2808	2947	6.756542	GGCACTTAGAACTTTTGTCAATGTTT	59.243	34.615	6.10	0.00	31.96	2.83
2809	2948	6.096846	AGGCACTTAGAACTTTTGTCAATGTT	59.903	34.615	4.72	4.72	27.25	2.71
2810	2949	5.594317	AGGCACTTAGAACTTTTGTCAATGT	59.406	36.000	0.00	0.00	27.25	2.71
2811	2950	5.916883	CAGGCACTTAGAACTTTTGTCAATG	59.083	40.000	0.00	0.00	34.60	2.82
2812	2951	5.507985	GCAGGCACTTAGAACTTTTGTCAAT	60.508	40.000	0.00	0.00	34.60	2.57
2813	2952	4.202010	GCAGGCACTTAGAACTTTTGTCAA	60.202	41.667	0.00	0.00	34.60	3.18
2814	2953	3.315191	GCAGGCACTTAGAACTTTTGTCA	59.685	43.478	0.00	0.00	34.60	3.58
2815	2954	3.315191	TGCAGGCACTTAGAACTTTTGTC	59.685	43.478	0.00	0.00	34.60	3.18
2816	2955	3.287222	TGCAGGCACTTAGAACTTTTGT	58.713	40.909	0.00	0.00	34.60	2.83
2817	2956	3.988379	TGCAGGCACTTAGAACTTTTG	57.012	42.857	0.00	0.00	34.60	2.44
2818	2957	5.337578	TTTTGCAGGCACTTAGAACTTTT	57.662	34.783	0.00	0.00	34.60	2.27
2819	2958	5.337578	TTTTTGCAGGCACTTAGAACTTT	57.662	34.783	0.00	0.00	34.60	2.66
2820	2959	5.535753	ATTTTTGCAGGCACTTAGAACTT	57.464	34.783	0.00	0.00	34.60	2.66
2821	2960	5.532557	GAATTTTTGCAGGCACTTAGAACT	58.467	37.500	0.00	0.00	34.60	3.01
2822	2961	4.382754	CGAATTTTTGCAGGCACTTAGAAC	59.617	41.667	0.00	0.00	34.60	3.01
2823	2962	4.037446	ACGAATTTTTGCAGGCACTTAGAA	59.963	37.500	0.00	0.00	34.60	2.10
2824	2963	3.568007	ACGAATTTTTGCAGGCACTTAGA	59.432	39.130	0.00	0.00	34.60	2.10
2825	2964	3.900941	ACGAATTTTTGCAGGCACTTAG	58.099	40.909	0.00	0.00	34.60	2.18
2826	2965	3.316588	TGACGAATTTTTGCAGGCACTTA	59.683	39.130	0.00	0.00	34.60	2.24
2827	2966	2.100584	TGACGAATTTTTGCAGGCACTT	59.899	40.909	0.00	0.00	34.60	3.16
2828	2967	1.680735	TGACGAATTTTTGCAGGCACT	59.319	42.857	0.00	0.00	43.88	4.40
2829	2968	2.132740	TGACGAATTTTTGCAGGCAC	57.867	45.000	0.00	0.00	0.00	5.01
2830	2969	2.295629	TCATGACGAATTTTTGCAGGCA	59.704	40.909	0.00	0.00	0.00	4.75
2831	2970	2.945278	TCATGACGAATTTTTGCAGGC	58.055	42.857	0.00	0.00	0.00	4.85
2832	2971	5.634439	TGATTTCATGACGAATTTTTGCAGG	59.366	36.000	0.00	0.00	32.32	4.85
2833	2972	6.144241	TGTGATTTCATGACGAATTTTTGCAG	59.856	34.615	0.00	0.00	32.32	4.41
2834	2973	5.981915	TGTGATTTCATGACGAATTTTTGCA	59.018	32.000	0.00	0.00	32.32	4.08
2835	2974	6.450845	TGTGATTTCATGACGAATTTTTGC	57.549	33.333	0.00	0.00	32.32	3.68

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.