AutoCloner

Multiple sequence alignment - TraesCS5D01G312100

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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	TraesCS5D01G312100	chr5D	100.000	3511	0	0	1	3511	408218020	408221530	0.000000e+00	6484.0
1	TraesCS5D01G312100	chr5D	86.047	688	89	7	1763	2445	407988379	407987694	0.000000e+00	732.0
2	TraesCS5D01G312100	chr5D	97.384	344	9	0	509	852	394123773	394124116	1.400000e-163	586.0
3	TraesCS5D01G312100	chr5D	91.821	379	22	4	136	513	394114829	394115199	1.440000e-143	520.0
4	TraesCS5D01G312100	chr5A	91.939	1774	124	15	885	2642	514003061	514004831	0.000000e+00	2466.0
5	TraesCS5D01G312100	chr5A	85.229	677	93	7	1774	2445	513869844	513869170	0.000000e+00	689.0
6	TraesCS5D01G312100	chr5A	87.778	540	50	11	320	852	705829492	705830022	4.980000e-173	617.0
7	TraesCS5D01G312100	chr5A	86.948	521	35	14	2944	3461	514006734	514007224	3.960000e-154	555.0
8	TraesCS5D01G312100	chr5A	90.244	287	23	5	136	420	705829191	705829474	1.540000e-98	370.0
9	TraesCS5D01G312100	chr5A	90.377	239	17	3	2657	2890	514004814	514005051	3.400000e-80	309.0
10	TraesCS5D01G312100	chr5A	93.130	131	7	2	2	130	514002563	514002693	1.290000e-44	191.0
11	TraesCS5D01G312100	chr5A	88.800	125	13	1	1	124	38147781	38147657	6.070000e-33	152.0
12	TraesCS5D01G312100	chr5A	86.667	135	17	1	1	134	464193821	464193687	7.850000e-32	148.0
13	TraesCS5D01G312100	chr5B	92.642	1658	105	7	882	2526	489522642	489524295	0.000000e+00	2370.0
14	TraesCS5D01G312100	chr5B	90.189	1743	115	27	898	2622	489574285	489575989	0.000000e+00	2220.0
15	TraesCS5D01G312100	chr5B	86.100	777	61	25	2707	3465	489576228	489576975	0.000000e+00	793.0
16	TraesCS5D01G312100	chr5B	87.596	653	35	24	2820	3465	489534275	489534888	0.000000e+00	715.0
17	TraesCS5D01G312100	chr5B	87.596	653	35	24	2820	3465	489540279	489540892	0.000000e+00	715.0
18	TraesCS5D01G312100	chr5B	84.884	688	97	7	1763	2445	489313170	489312485	0.000000e+00	688.0
19	TraesCS5D01G312100	chr5B	87.143	420	20	21	3052	3465	489537013	489537404	2.490000e-121	446.0
20	TraesCS5D01G312100	chr5B	97.297	37	1	0	2783	2819	489534174	489534210	2.930000e-06	63.9
21	TraesCS5D01G312100	chr5B	97.297	37	1	0	2783	2819	489540178	489540214	2.930000e-06	63.9
22	TraesCS5D01G312100	chr3D	96.932	717	16	1	136	852	554726118	554725408	0.000000e+00	1197.0
23	TraesCS5D01G312100	chr7A	90.041	723	56	11	136	852	123276352	123277064	0.000000e+00	922.0
24	TraesCS5D01G312100	chr7A	94.954	436	16	2	417	852	547123065	547122636	0.000000e+00	678.0
25	TraesCS5D01G312100	chr7A	97.626	337	7	1	136	471	735815702	735816038	8.450000e-161	577.0
26	TraesCS5D01G312100	chr7A	90.816	294	22	5	136	428	547142785	547142496	4.250000e-104	388.0
27	TraesCS5D01G312100	chr7A	87.407	135	16	1	1	134	566034482	566034348	1.690000e-33	154.0
28	TraesCS5D01G312100	chr7A	84.615	130	16	4	2119	2246	543432132	543432259	3.680000e-25	126.0
29	TraesCS5D01G312100	chr6A	89.365	724	61	11	136	852	52370617	52371331	0.000000e+00	896.0
30	TraesCS5D01G312100	chr4B	89.088	724	62	12	136	852	665863369	665864082	0.000000e+00	883.0
31	TraesCS5D01G312100	chr1A	88.935	723	65	12	136	852	541073034	541072321	0.000000e+00	878.0
32	TraesCS5D01G312100	chr1A	85.484	124	14	4	2136	2257	551156450	551156329	3.680000e-25	126.0
33	TraesCS5D01G312100	chr7D	88.812	724	58	15	136	852	461236264	461235557	0.000000e+00	867.0
34	TraesCS5D01G312100	chr2D	89.630	135	13	1	1	134	627516581	627516447	1.680000e-38	171.0
35	TraesCS5D01G312100	chr2D	75.510	147	30	6	1534	1677	30456722	30456865	2.260000e-07	67.6
36	TraesCS5D01G312100	chr6D	91.129	124	10	1	1	123	402325182	402325305	2.170000e-37	167.0
37	TraesCS5D01G312100	chr3A	88.148	135	15	1	1	134	670825795	670825661	3.630000e-35	159.0
38	TraesCS5D01G312100	chr2B	89.764	127	10	3	1	124	134369453	134369327	3.630000e-35	159.0
39	TraesCS5D01G312100	chr2B	74.830	147	31	6	1534	1677	49909335	49909478	1.050000e-05	62.1
40	TraesCS5D01G312100	chr2B	89.362	47	5	0	1631	1677	50194835	50194789	3.780000e-05	60.2
41	TraesCS5D01G312100	chr7B	87.407	135	16	1	1	134	24405831	24405697	1.690000e-33	154.0
42	TraesCS5D01G312100	chr1B	73.766	385	80	19	1883	2257	630466648	630466275	7.910000e-27	132.0

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	TraesCS5D01G312100	chr5D	408218020	408221530	3510	False	6484.00	6484	100.0000	1	3511	1	chr5D.!!$F3	3510
1	TraesCS5D01G312100	chr5D	407987694	407988379	685	True	732.00	732	86.0470	1763	2445	1	chr5D.!!$R1	682
2	TraesCS5D01G312100	chr5A	514002563	514007224	4661	False	880.25	2466	90.5985	2	3461	4	chr5A.!!$F1	3459
3	TraesCS5D01G312100	chr5A	513869170	513869844	674	True	689.00	689	85.2290	1774	2445	1	chr5A.!!$R3	671
4	TraesCS5D01G312100	chr5A	705829191	705830022	831	False	493.50	617	89.0110	136	852	2	chr5A.!!$F2	716
5	TraesCS5D01G312100	chr5B	489522642	489524295	1653	False	2370.00	2370	92.6420	882	2526	1	chr5B.!!$F1	1644
6	TraesCS5D01G312100	chr5B	489574285	489576975	2690	False	1506.50	2220	88.1445	898	3465	2	chr5B.!!$F3	2567
7	TraesCS5D01G312100	chr5B	489312485	489313170	685	True	688.00	688	84.8840	1763	2445	1	chr5B.!!$R1	682
8	TraesCS5D01G312100	chr5B	489534174	489540892	6718	False	400.76	715	91.3858	2783	3465	5	chr5B.!!$F2	682
9	TraesCS5D01G312100	chr3D	554725408	554726118	710	True	1197.00	1197	96.9320	136	852	1	chr3D.!!$R1	716
10	TraesCS5D01G312100	chr7A	123276352	123277064	712	False	922.00	922	90.0410	136	852	1	chr7A.!!$F1	716
11	TraesCS5D01G312100	chr6A	52370617	52371331	714	False	896.00	896	89.3650	136	852	1	chr6A.!!$F1	716
12	TraesCS5D01G312100	chr4B	665863369	665864082	713	False	883.00	883	89.0880	136	852	1	chr4B.!!$F1	716
13	TraesCS5D01G312100	chr1A	541072321	541073034	713	True	878.00	878	88.9350	136	852	1	chr1A.!!$R1	716
14	TraesCS5D01G312100	chr7D	461235557	461236264	707	True	867.00	867	88.8120	136	852	1	chr7D.!!$R1	716

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
239	309	1.128188	AAACGAAGCTGTCTCCCCCT	61.128	55.0	0.00	0.00	0.00	4.79	F
1011	1282	0.393537	AACTAGCCATGGCAGCTCAC	60.394	55.0	37.18	7.37	44.88	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1608	1886	0.179134	CGTCGAGGCCTAAGAACTGG	60.179	60.0	4.42	0.0	0.0	4.00	R
2537	2830	0.033504	ACATCAAACGACGGACAGCT	59.966	50.0	0.00	0.0	0.0	4.24	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
130	133	3.390135	TGCAGACTAAAAAGGTCGTGAG	58.610	45.455	0.00	0.00	38.58	3.51
131	134	2.737252	GCAGACTAAAAAGGTCGTGAGG	59.263	50.000	0.00	0.00	38.58	3.86
132	135	3.326747	CAGACTAAAAAGGTCGTGAGGG	58.673	50.000	0.00	0.00	38.58	4.30
133	136	3.006537	CAGACTAAAAAGGTCGTGAGGGA	59.993	47.826	0.00	0.00	38.58	4.20
239	309	1.128188	AAACGAAGCTGTCTCCCCCT	61.128	55.000	0.00	0.00	0.00	4.79
348	420	4.338815	GGAAACCTAAGGCCTGGC	57.661	61.111	5.69	11.05	0.00	4.85
381	455	1.210478	CCCAGCACTAGCATTACAGGT	59.790	52.381	0.00	0.00	45.49	4.00
471	668	6.303370	CGAAGGACCAAAACAAAAACAAAAG	58.697	36.000	0.00	0.00	0.00	2.27
472	669	5.621197	AGGACCAAAACAAAAACAAAAGC	57.379	34.783	0.00	0.00	0.00	3.51
473	670	5.066593	AGGACCAAAACAAAAACAAAAGCA	58.933	33.333	0.00	0.00	0.00	3.91
474	671	5.181056	AGGACCAAAACAAAAACAAAAGCAG	59.819	36.000	0.00	0.00	0.00	4.24
475	672	5.180304	GGACCAAAACAAAAACAAAAGCAGA	59.820	36.000	0.00	0.00	0.00	4.26
476	673	6.293680	GGACCAAAACAAAAACAAAAGCAGAA	60.294	34.615	0.00	0.00	0.00	3.02
606	805	2.032178	GTGCTGCTCGAAACACTTCTTT	59.968	45.455	0.00	0.00	0.00	2.52
718	921	2.210116	AGTAACAAGTTGACAGGCACG	58.790	47.619	10.54	0.00	0.00	5.34
852	1055	3.372440	AGTTTTAGCCCAATCCCTCAG	57.628	47.619	0.00	0.00	0.00	3.35
854	1057	3.054065	AGTTTTAGCCCAATCCCTCAGAG	60.054	47.826	0.00	0.00	0.00	3.35
856	1059	1.794714	TAGCCCAATCCCTCAGAGTC	58.205	55.000	0.00	0.00	0.00	3.36
857	1060	1.144936	GCCCAATCCCTCAGAGTCG	59.855	63.158	0.00	0.00	0.00	4.18
1005	1276	1.813862	GCGGATTAACTAGCCATGGCA	60.814	52.381	37.18	21.91	44.88	4.92
1011	1282	0.393537	AACTAGCCATGGCAGCTCAC	60.394	55.000	37.18	7.37	44.88	3.51
1022	1293	2.034376	AGCTCACGACTCGGACCT	59.966	61.111	2.98	0.00	0.00	3.85
1080	1351	2.362889	CAGGGCCACATCAACCCC	60.363	66.667	6.18	0.00	45.48	4.95
1081	1352	2.863484	AGGGCCACATCAACCCCA	60.863	61.111	6.18	0.00	45.48	4.96
1215	1486	1.433879	CGAGATCTCCGACGGCTTT	59.566	57.895	17.13	0.00	0.00	3.51
1571	1842	1.961277	CGTCGTTCTTGGCCAAGCT	60.961	57.895	36.24	0.00	38.28	3.74
1593	1864	3.142838	GAGTGCCCCGCGTACCTA	61.143	66.667	4.92	0.00	0.00	3.08
1685	1963	1.737793	GCAGCCACTGGTATGTGTTAC	59.262	52.381	0.00	0.00	36.30	2.50
1697	1975	5.187772	TGGTATGTGTTACTTGAGCTCATCT	59.812	40.000	19.04	8.08	0.00	2.90
1705	1983	3.672808	ACTTGAGCTCATCTTTCACTGG	58.327	45.455	19.04	1.04	0.00	4.00
1721	2003	0.964700	CTGGCACTCACTCTCACTCA	59.035	55.000	0.00	0.00	0.00	3.41
1733	2015	7.179338	ACTCACTCTCACTCACTACCAATTAAT	59.821	37.037	0.00	0.00	0.00	1.40
1745	2032	7.972277	TCACTACCAATTAATTACTGAGACGTC	59.028	37.037	7.70	7.70	0.00	4.34
1747	2034	5.957798	ACCAATTAATTACTGAGACGTCGA	58.042	37.500	10.46	0.00	0.00	4.20
1754	2041	6.432607	AATTACTGAGACGTCGACAATCTA	57.567	37.500	17.16	2.83	0.00	1.98
1771	2061	5.529060	ACAATCTATCTTGAAAGGAATCGGC	59.471	40.000	0.00	0.00	0.00	5.54
1772	2062	4.753516	TCTATCTTGAAAGGAATCGGCA	57.246	40.909	0.00	0.00	0.00	5.69
1793	2083	3.080765	ATGGCGTCGATGTGGGGA	61.081	61.111	6.48	0.00	0.00	4.81
2466	2759	3.816580	GAGTTTCTCCGTGGACTCC	57.183	57.895	0.00	0.00	34.00	3.85
2526	2819	3.318275	TCTGTAGTCTCGTGCTGTTTCTT	59.682	43.478	0.00	0.00	0.00	2.52
2537	2830	4.681744	GTGCTGTTTCTTGTGGAAAATCA	58.318	39.130	0.00	0.00	44.34	2.57
2575	2869	5.635280	TGATGTCTCGTGTCATTTTTCTCTC	59.365	40.000	0.00	0.00	0.00	3.20
2622	2916	5.244755	AGAGCTTCCTGTTGAATTTCTCTC	58.755	41.667	0.00	0.00	32.94	3.20
2624	2918	5.380043	AGCTTCCTGTTGAATTTCTCTCAA	58.620	37.500	0.00	0.00	31.06	3.02
2625	2919	6.008960	AGCTTCCTGTTGAATTTCTCTCAAT	58.991	36.000	0.00	0.00	35.36	2.57
2626	2920	7.170965	AGCTTCCTGTTGAATTTCTCTCAATA	58.829	34.615	0.00	0.00	35.36	1.90
2627	2921	7.667219	AGCTTCCTGTTGAATTTCTCTCAATAA	59.333	33.333	0.00	0.00	35.36	1.40
2628	2922	8.299570	GCTTCCTGTTGAATTTCTCTCAATAAA	58.700	33.333	0.00	0.00	35.36	1.40
2630	2924	9.965824	TTCCTGTTGAATTTCTCTCAATAAAAC	57.034	29.630	0.00	0.00	35.36	2.43
2631	2925	8.576442	TCCTGTTGAATTTCTCTCAATAAAACC	58.424	33.333	0.00	0.00	35.36	3.27
2632	2926	7.814587	CCTGTTGAATTTCTCTCAATAAAACCC	59.185	37.037	0.00	0.00	35.36	4.11
2633	2927	8.243961	TGTTGAATTTCTCTCAATAAAACCCA	57.756	30.769	0.00	0.00	35.36	4.51
2634	2928	8.359642	TGTTGAATTTCTCTCAATAAAACCCAG	58.640	33.333	0.00	0.00	35.36	4.45
2635	2929	8.360390	GTTGAATTTCTCTCAATAAAACCCAGT	58.640	33.333	0.00	0.00	35.36	4.00
2636	2930	8.110860	TGAATTTCTCTCAATAAAACCCAGTC	57.889	34.615	0.00	0.00	0.00	3.51
2637	2931	7.723616	TGAATTTCTCTCAATAAAACCCAGTCA	59.276	33.333	0.00	0.00	0.00	3.41
2638	2932	6.877611	TTTCTCTCAATAAAACCCAGTCAC	57.122	37.500	0.00	0.00	0.00	3.67
2639	2933	4.906618	TCTCTCAATAAAACCCAGTCACC	58.093	43.478	0.00	0.00	0.00	4.02
2640	2934	4.597507	TCTCTCAATAAAACCCAGTCACCT	59.402	41.667	0.00	0.00	0.00	4.00
2641	2935	5.073144	TCTCTCAATAAAACCCAGTCACCTT	59.927	40.000	0.00	0.00	0.00	3.50
2642	2936	5.313712	TCTCAATAAAACCCAGTCACCTTC	58.686	41.667	0.00	0.00	0.00	3.46
2643	2937	5.073144	TCTCAATAAAACCCAGTCACCTTCT	59.927	40.000	0.00	0.00	0.00	2.85
2644	2938	5.701224	TCAATAAAACCCAGTCACCTTCTT	58.299	37.500	0.00	0.00	0.00	2.52
2645	2939	6.133356	TCAATAAAACCCAGTCACCTTCTTT	58.867	36.000	0.00	0.00	0.00	2.52
2646	2940	6.609616	TCAATAAAACCCAGTCACCTTCTTTT	59.390	34.615	0.00	0.00	0.00	2.27
2647	2941	7.125053	TCAATAAAACCCAGTCACCTTCTTTTT	59.875	33.333	0.00	0.00	0.00	1.94
2676	2970	4.941873	GGTATAAAACCCAGTCACCTTGAG	59.058	45.833	0.00	0.00	43.16	3.02
2680	2974	0.759346	ACCCAGTCACCTTGAGTGTC	59.241	55.000	9.58	0.00	44.27	3.67
2681	2975	0.319900	CCCAGTCACCTTGAGTGTCG	60.320	60.000	9.58	0.00	44.27	4.35
2687	2981	0.109086	CACCTTGAGTGTCGAGCGAT	60.109	55.000	0.00	0.00	41.93	4.58
2748	3228	2.046023	CAATGCGAGTGGGCTGGA	60.046	61.111	0.00	0.00	0.00	3.86
2810	9356	4.984161	AGCAATTTGGACAAGTCGATTTTG	59.016	37.500	10.10	10.10	0.00	2.44
2811	9357	4.981674	GCAATTTGGACAAGTCGATTTTGA	59.018	37.500	16.52	0.00	0.00	2.69
2812	9358	5.117592	GCAATTTGGACAAGTCGATTTTGAG	59.882	40.000	16.52	0.00	0.00	3.02
2815	9361	3.399330	TGGACAAGTCGATTTTGAGTCC	58.601	45.455	16.93	16.93	43.24	3.85
2816	9362	3.399330	GGACAAGTCGATTTTGAGTCCA	58.601	45.455	18.16	0.00	42.65	4.02
2818	9364	4.455877	GGACAAGTCGATTTTGAGTCCATT	59.544	41.667	18.16	0.00	42.65	3.16
2832	9381	7.764141	TTGAGTCCATTCTGAATCAAAATCA	57.236	32.000	0.00	1.76	43.81	2.57
2929	11081	4.982295	GGATACTTGTGCTTGGTTTGAAAC	59.018	41.667	0.00	0.00	0.00	2.78
2977	11167	8.410141	CCTGGTAAGACATAAGACAAAAACAAA	58.590	33.333	0.00	0.00	0.00	2.83
3086	11277	8.671921	ACAAATAATGAAAACAATTGCACACAA	58.328	25.926	5.05	0.00	40.87	3.33
3195	11387	4.382386	ACTAGCATTGGTGTTACCCTTT	57.618	40.909	0.00	0.00	37.50	3.11
3198	11390	5.708697	ACTAGCATTGGTGTTACCCTTTAAC	59.291	40.000	0.00	0.00	37.50	2.01
3201	11393	4.379082	GCATTGGTGTTACCCTTTAACGAG	60.379	45.833	0.00	0.00	37.50	4.18
3348	11549	1.132834	TGCACACAACTTTGCACTGAG	59.867	47.619	0.00	0.00	43.79	3.35
3349	11550	1.401552	GCACACAACTTTGCACTGAGA	59.598	47.619	0.00	0.00	38.68	3.27
3354	11555	6.264832	CACACAACTTTGCACTGAGAAATTA	58.735	36.000	0.00	0.00	0.00	1.40
3502	11704	9.563898	GTAAAAAGTTACTTGCATTGGTATACC	57.436	33.333	15.50	15.50	37.27	2.73
3503	11705	6.769134	AAAGTTACTTGCATTGGTATACCC	57.231	37.500	19.42	4.24	34.29	3.69
3504	11706	5.710409	AGTTACTTGCATTGGTATACCCT	57.290	39.130	19.42	3.84	34.29	4.34
3505	11707	6.074698	AGTTACTTGCATTGGTATACCCTT	57.925	37.500	19.42	3.65	34.29	3.95
3506	11708	5.885912	AGTTACTTGCATTGGTATACCCTTG	59.114	40.000	19.42	16.34	34.29	3.61
3507	11709	4.584638	ACTTGCATTGGTATACCCTTGA	57.415	40.909	19.42	3.34	34.29	3.02
3508	11710	4.929479	ACTTGCATTGGTATACCCTTGAA	58.071	39.130	19.42	8.47	34.29	2.69
3509	11711	4.949856	ACTTGCATTGGTATACCCTTGAAG	59.050	41.667	19.42	18.99	34.29	3.02
3510	11712	4.853468	TGCATTGGTATACCCTTGAAGA	57.147	40.909	19.42	0.00	34.29	2.87

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
348	420	1.452108	GCTGGGACCGGATTTGAGG	60.452	63.158	9.46	0.00	0.00	3.86
381	455	8.747538	AGTTTCTGTTCTAAGGCTCTTAAAAA	57.252	30.769	0.00	0.00	0.00	1.94
465	662	4.040339	CCCCCACTATTTTTCTGCTTTTGT	59.960	41.667	0.00	0.00	0.00	2.83
606	805	0.744874	GCAGATCGGTGTAGTGGCTA	59.255	55.000	0.00	0.00	0.00	3.93
883	1135	5.124297	TGCATTTATAGAATGGCCGATGATG	59.876	40.000	0.00	0.00	0.00	3.07
979	1239	0.300789	GCTAGTTAATCCGCGTGCAC	59.699	55.000	6.82	6.82	0.00	4.57
1005	1276	2.034376	AGGTCCGAGTCGTGAGCT	59.966	61.111	22.01	22.01	33.05	4.09
1080	1351	1.372087	GCTTGCCGAACTGGAGGATG	61.372	60.000	0.00	0.00	42.00	3.51
1081	1352	1.078143	GCTTGCCGAACTGGAGGAT	60.078	57.895	0.00	0.00	42.00	3.24
1188	1459	2.026879	GAGATCTCGGCGAGGTGC	59.973	66.667	33.93	22.87	45.38	5.01
1608	1886	0.179134	CGTCGAGGCCTAAGAACTGG	60.179	60.000	4.42	0.00	0.00	4.00
1685	1963	2.419324	GCCAGTGAAAGATGAGCTCAAG	59.581	50.000	22.50	2.43	0.00	3.02
1697	1975	1.762370	TGAGAGTGAGTGCCAGTGAAA	59.238	47.619	0.00	0.00	0.00	2.69
1705	1983	2.094957	GGTAGTGAGTGAGAGTGAGTGC	60.095	54.545	0.00	0.00	0.00	4.40
1721	2003	6.971184	CGACGTCTCAGTAATTAATTGGTAGT	59.029	38.462	14.70	0.86	0.00	2.73
1733	2015	5.816258	AGATAGATTGTCGACGTCTCAGTAA	59.184	40.000	21.91	8.90	0.00	2.24
1745	2032	6.074088	CCGATTCCTTTCAAGATAGATTGTCG	60.074	42.308	0.00	0.00	0.00	4.35
1747	2034	5.529060	GCCGATTCCTTTCAAGATAGATTGT	59.471	40.000	0.00	0.00	0.00	2.71
1754	2041	4.780815	TGTATGCCGATTCCTTTCAAGAT	58.219	39.130	0.00	0.00	0.00	2.40
1771	2061	0.861185	CCACATCGACGCCATGTATG	59.139	55.000	2.25	0.00	32.48	2.39
1772	2062	0.249868	CCCACATCGACGCCATGTAT	60.250	55.000	2.25	0.00	32.48	2.29
1793	2083	3.400054	GGGCCTACCGTCTTGGCT	61.400	66.667	0.84	0.00	45.45	4.75
1994	2284	0.890996	CGCTGTTGAAAAGGCCCTCT	60.891	55.000	0.00	0.00	0.00	3.69
2466	2759	1.589196	GCTCGGATTTCCTCGACCG	60.589	63.158	3.66	3.66	45.61	4.79
2526	2819	1.202758	ACGGACAGCTGATTTTCCACA	60.203	47.619	23.35	0.00	0.00	4.17
2537	2830	0.033504	ACATCAAACGACGGACAGCT	59.966	50.000	0.00	0.00	0.00	4.24
2575	2869	3.239941	GCTAATACTCACGCGTACTTGTG	59.760	47.826	13.44	2.85	37.44	3.33
2622	2916	6.405278	AAAGAAGGTGACTGGGTTTTATTG	57.595	37.500	0.00	0.00	42.68	1.90
2653	2947	4.913784	TCAAGGTGACTGGGTTTTATACC	58.086	43.478	0.00	0.00	43.65	2.73
2654	2948	5.557866	ACTCAAGGTGACTGGGTTTTATAC	58.442	41.667	0.00	0.00	42.68	1.47
2655	2949	5.836024	ACTCAAGGTGACTGGGTTTTATA	57.164	39.130	0.00	0.00	42.68	0.98
2669	2963	0.109086	CATCGCTCGACACTCAAGGT	60.109	55.000	0.00	0.00	0.00	3.50
2676	2970	3.545481	CCACGCATCGCTCGACAC	61.545	66.667	0.00	0.00	0.00	3.67
2680	2974	1.805539	TTTCTCCACGCATCGCTCG	60.806	57.895	0.00	0.00	0.00	5.03
2681	2975	0.737715	AGTTTCTCCACGCATCGCTC	60.738	55.000	0.00	0.00	0.00	5.03
2687	2981	1.134220	ACCAGAAAGTTTCTCCACGCA	60.134	47.619	15.35	0.00	38.11	5.24
2732	3212	2.045926	GTCCAGCCCACTCGCATT	60.046	61.111	0.00	0.00	0.00	3.56
2748	3228	1.098712	AACCGTGGTCACATTTGCGT	61.099	50.000	1.90	0.00	0.00	5.24
2810	9356	7.824672	AGTTGATTTTGATTCAGAATGGACTC	58.175	34.615	7.12	0.00	36.16	3.36
2811	9357	7.771927	AGTTGATTTTGATTCAGAATGGACT	57.228	32.000	7.12	7.69	36.16	3.85
2812	9358	7.148689	GCAAGTTGATTTTGATTCAGAATGGAC	60.149	37.037	7.16	5.88	36.16	4.02
2815	9361	7.359765	GGTGCAAGTTGATTTTGATTCAGAATG	60.360	37.037	7.16	0.00	37.54	2.67
2816	9362	6.647895	GGTGCAAGTTGATTTTGATTCAGAAT	59.352	34.615	7.16	2.28	0.00	2.40
2818	9364	5.068855	TGGTGCAAGTTGATTTTGATTCAGA	59.931	36.000	7.16	0.00	0.00	3.27
2832	9381	0.835941	TGGCCAAATTGGTGCAAGTT	59.164	45.000	14.17	0.00	40.46	2.66
2867	9417	2.565834	TGGTTGCTAAGGACCTAGTGAC	59.434	50.000	0.00	0.00	36.86	3.67
2868	9418	2.565834	GTGGTTGCTAAGGACCTAGTGA	59.434	50.000	0.00	0.00	36.86	3.41
2929	11081	1.374252	CGGGTCAGTTCCTGTTCCG	60.374	63.158	11.24	11.24	39.67	4.30
3169	11361	6.490492	AGGGTAACACCAATGCTAGTTATTT	58.510	36.000	0.00	0.00	41.02	1.40
3177	11369	3.504520	CGTTAAAGGGTAACACCAATGCT	59.495	43.478	0.00	0.00	41.02	3.79
3354	11555	7.023197	ACTCTTTGCGTATTACAAAAAGTGT	57.977	32.000	14.22	14.22	37.03	3.55
3369	11570	5.103000	ACACTACTATGCTTACTCTTTGCG	58.897	41.667	0.00	0.00	0.00	4.85
3476	11678	9.563898	GGTATACCAATGCAAGTAACTTTTTAC	57.436	33.333	17.44	0.00	35.88	2.01
3477	11679	8.741841	GGGTATACCAATGCAAGTAACTTTTTA	58.258	33.333	23.33	0.00	39.85	1.52
3478	11680	7.453439	AGGGTATACCAATGCAAGTAACTTTTT	59.547	33.333	23.33	0.00	43.89	1.94
3479	11681	6.951778	AGGGTATACCAATGCAAGTAACTTTT	59.048	34.615	23.33	0.00	43.89	2.27
3480	11682	6.490492	AGGGTATACCAATGCAAGTAACTTT	58.510	36.000	23.33	0.00	43.89	2.66
3481	11683	6.074698	AGGGTATACCAATGCAAGTAACTT	57.925	37.500	23.33	0.00	43.89	2.66
3482	11684	5.710409	AGGGTATACCAATGCAAGTAACT	57.290	39.130	23.33	3.84	43.89	2.24
3483	11685	5.883673	TCAAGGGTATACCAATGCAAGTAAC	59.116	40.000	23.33	1.49	43.89	2.50
3484	11686	6.068461	TCAAGGGTATACCAATGCAAGTAA	57.932	37.500	23.33	2.25	43.89	2.24
3485	11687	5.702065	TCAAGGGTATACCAATGCAAGTA	57.298	39.130	23.33	2.89	43.89	2.24
3486	11688	4.584638	TCAAGGGTATACCAATGCAAGT	57.415	40.909	23.33	0.00	43.89	3.16
3487	11689	5.192927	TCTTCAAGGGTATACCAATGCAAG	58.807	41.667	23.33	20.50	43.89	4.01
3488	11690	5.186256	TCTTCAAGGGTATACCAATGCAA	57.814	39.130	23.33	14.23	43.89	4.08
3489	11691	4.853468	TCTTCAAGGGTATACCAATGCA	57.147	40.909	23.33	10.62	43.89	3.96

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.