AutoCloner

Multiple sequence alignment - TraesCS3D01G406100

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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	TraesCS3D01G406100	chr3D	100.000	2852	0	0	1	2852	520244710	520247561	0.000000e+00	5267.0
1	TraesCS3D01G406100	chr3D	93.016	1217	67	10	703	1913	519951239	519950035	0.000000e+00	1760.0
2	TraesCS3D01G406100	chr3D	94.141	1024	51	3	899	1913	520280811	520281834	0.000000e+00	1550.0
3	TraesCS3D01G406100	chr3D	86.327	746	52	21	1181	1913	500090704	500091412	0.000000e+00	767.0
4	TraesCS3D01G406100	chr3D	89.899	495	36	6	1427	1913	500019020	500019508	2.410000e-175	625.0
5	TraesCS3D01G406100	chr3D	79.359	499	71	19	2333	2808	520282257	520282746	3.540000e-84	322.0
6	TraesCS3D01G406100	chr3D	75.092	546	90	19	2208	2719	519949708	519949175	2.230000e-51	213.0
7	TraesCS3D01G406100	chr3D	91.667	48	4	0	2805	2852	60785539	60785492	1.830000e-07	67.6
8	TraesCS3D01G406100	chr3A	92.456	1193	70	8	734	1913	655668324	655669509	0.000000e+00	1687.0
9	TraesCS3D01G406100	chr3A	94.221	796	40	1	1124	1913	655786352	655787147	0.000000e+00	1210.0
10	TraesCS3D01G406100	chr3A	94.789	403	7	6	662	1059	655785569	655785962	1.450000e-172	616.0
11	TraesCS3D01G406100	chr3A	76.106	565	75	33	2205	2719	655787381	655787935	1.020000e-59	241.0
12	TraesCS3D01G406100	chr3B	90.140	1217	84	16	701	1913	684620858	684619674	0.000000e+00	1550.0
13	TraesCS3D01G406100	chr3B	89.308	1272	77	22	649	1913	685066457	685067676	0.000000e+00	1541.0
14	TraesCS3D01G406100	chr3B	86.019	844	69	13	1974	2808	684619533	684618730	0.000000e+00	859.0
15	TraesCS3D01G406100	chr3B	93.365	422	21	2	1499	1913	661757601	661758022	4.040000e-173	617.0
16	TraesCS3D01G406100	chr3B	94.444	234	12	1	1236	1469	661757384	661757616	2.700000e-95	359.0
17	TraesCS3D01G406100	chr3B	93.590	234	14	1	1236	1469	661785912	661786144	5.850000e-92	348.0
18	TraesCS3D01G406100	chr3B	90.123	243	24	0	1181	1423	661568059	661568301	1.650000e-82	316.0
19	TraesCS3D01G406100	chr7B	92.879	646	45	1	2	646	602105609	602106254	0.000000e+00	937.0
20	TraesCS3D01G406100	chr1B	92.991	642	44	1	8	648	13405172	13404531	0.000000e+00	935.0
21	TraesCS3D01G406100	chr1B	92.523	642	47	1	8	648	13356866	13356225	0.000000e+00	918.0
22	TraesCS3D01G406100	chrUn	92.284	648	49	1	2	648	344894097	344894744	0.000000e+00	918.0
23	TraesCS3D01G406100	chrUn	92.212	642	49	1	8	648	342016218	342015577	0.000000e+00	907.0
24	TraesCS3D01G406100	chr5D	92.154	650	48	2	1	649	98682345	98681698	0.000000e+00	915.0
25	TraesCS3D01G406100	chr5D	79.137	139	20	6	2340	2470	547831670	547831807	1.410000e-13	87.9
26	TraesCS3D01G406100	chr4A	91.420	641	54	1	9	648	743597979	743597339	0.000000e+00	878.0
27	TraesCS3D01G406100	chr6A	91.063	649	56	2	1	648	550761030	550761677	0.000000e+00	876.0
28	TraesCS3D01G406100	chr1A	90.909	649	56	2	1	647	393617873	393617226	0.000000e+00	869.0
29	TraesCS3D01G406100	chr4D	89.243	502	35	10	1428	1913	499213755	499213257	6.760000e-171	610.0
30	TraesCS3D01G406100	chr4D	95.455	44	2	0	2809	2852	92420461	92420504	1.420000e-08	71.3
31	TraesCS3D01G406100	chr4D	100.000	36	0	0	2817	2852	443535616	443535581	1.830000e-07	67.6
32	TraesCS3D01G406100	chr2D	86.842	76	9	1	2340	2415	187039372	187039298	1.820000e-12	84.2
33	TraesCS3D01G406100	chr2D	100.000	36	0	0	2817	2852	310764346	310764311	1.830000e-07	67.6
34	TraesCS3D01G406100	chr2D	100.000	36	0	0	2817	2852	507650515	507650550	1.830000e-07	67.6
35	TraesCS3D01G406100	chr7A	97.561	41	1	0	2812	2852	202680868	202680828	1.420000e-08	71.3
36	TraesCS3D01G406100	chr6D	100.000	36	0	0	2817	2852	10524443	10524478	1.830000e-07	67.6
37	TraesCS3D01G406100	chr2A	95.122	41	2	0	2812	2852	414943864	414943824	6.600000e-07	65.8
38	TraesCS3D01G406100	chr2A	97.368	38	1	0	2815	2852	601854001	601854038	6.600000e-07	65.8

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	TraesCS3D01G406100	chr3D	520244710	520247561	2851	False	5267.0	5267	100.0000	1	2852	1	chr3D.!!$F3	2851
1	TraesCS3D01G406100	chr3D	519949175	519951239	2064	True	986.5	1760	84.0540	703	2719	2	chr3D.!!$R2	2016
2	TraesCS3D01G406100	chr3D	520280811	520282746	1935	False	936.0	1550	86.7500	899	2808	2	chr3D.!!$F4	1909
3	TraesCS3D01G406100	chr3D	500090704	500091412	708	False	767.0	767	86.3270	1181	1913	1	chr3D.!!$F2	732
4	TraesCS3D01G406100	chr3A	655668324	655669509	1185	False	1687.0	1687	92.4560	734	1913	1	chr3A.!!$F1	1179
5	TraesCS3D01G406100	chr3A	655785569	655787935	2366	False	689.0	1210	88.3720	662	2719	3	chr3A.!!$F2	2057
6	TraesCS3D01G406100	chr3B	685066457	685067676	1219	False	1541.0	1541	89.3080	649	1913	1	chr3B.!!$F3	1264
7	TraesCS3D01G406100	chr3B	684618730	684620858	2128	True	1204.5	1550	88.0795	701	2808	2	chr3B.!!$R1	2107
8	TraesCS3D01G406100	chr3B	661757384	661758022	638	False	488.0	617	93.9045	1236	1913	2	chr3B.!!$F4	677
9	TraesCS3D01G406100	chr7B	602105609	602106254	645	False	937.0	937	92.8790	2	646	1	chr7B.!!$F1	644
10	TraesCS3D01G406100	chr1B	13404531	13405172	641	True	935.0	935	92.9910	8	648	1	chr1B.!!$R2	640
11	TraesCS3D01G406100	chr1B	13356225	13356866	641	True	918.0	918	92.5230	8	648	1	chr1B.!!$R1	640
12	TraesCS3D01G406100	chrUn	344894097	344894744	647	False	918.0	918	92.2840	2	648	1	chrUn.!!$F1	646
13	TraesCS3D01G406100	chrUn	342015577	342016218	641	True	907.0	907	92.2120	8	648	1	chrUn.!!$R1	640
14	TraesCS3D01G406100	chr5D	98681698	98682345	647	True	915.0	915	92.1540	1	649	1	chr5D.!!$R1	648
15	TraesCS3D01G406100	chr4A	743597339	743597979	640	True	878.0	878	91.4200	9	648	1	chr4A.!!$R1	639
16	TraesCS3D01G406100	chr6A	550761030	550761677	647	False	876.0	876	91.0630	1	648	1	chr6A.!!$F1	647
17	TraesCS3D01G406100	chr1A	393617226	393617873	647	True	869.0	869	90.9090	1	647	1	chr1A.!!$R1	646

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
231	232	0.539051	CCCGATCTTCCTCAGCACTT	59.461	55.0	0.0	0.0	0.0	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1861	2222	0.109272	TTGCTCGTGTCTGATCGACC	60.109	55.0	12.89	5.98	42.13	4.79	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
85	86	2.367241	GAGGCTATCTCCCTCCTTCAAC	59.633	54.545	0.00	0.00	42.46	3.18
196	197	3.216985	TTTGATGAAGGCCGGGGCA	62.217	57.895	23.67	1.94	44.11	5.36
231	232	0.539051	CCCGATCTTCCTCAGCACTT	59.461	55.000	0.00	0.00	0.00	3.16
263	264	2.004733	GTGTAAACCATACACGGGAGC	58.995	52.381	0.00	0.00	38.46	4.70
268	269	2.125326	CCATACACGGGAGCCTCGA	61.125	63.158	0.00	0.00	0.00	4.04
404	405	2.163818	TCTCGCCACAATTCTCGTTT	57.836	45.000	0.00	0.00	0.00	3.60
441	442	9.674068	CCTTTACTTTTAGAAATAGGAGAGCTT	57.326	33.333	0.00	0.00	0.00	3.74
451	453	7.106890	AGAAATAGGAGAGCTTTGTACCTTTC	58.893	38.462	0.00	0.00	32.90	2.62
511	513	3.529341	TTCCGGCGCATCTGTGTGT	62.529	57.895	10.83	0.00	38.13	3.72
727	732	3.871594	GAGCGTATAATTGCACCTGAACT	59.128	43.478	0.00	0.00	0.00	3.01
854	865	3.311322	GCACCGCTTATAGCAACACAATA	59.689	43.478	0.00	0.00	42.58	1.90
887	900	9.646427	AGAGATCTCTAATCTAACAACAACAAC	57.354	33.333	23.98	0.00	38.35	3.32
888	901	9.424319	GAGATCTCTAATCTAACAACAACAACA	57.576	33.333	15.80	0.00	0.00	3.33
889	902	9.778741	AGATCTCTAATCTAACAACAACAACAA	57.221	29.630	0.00	0.00	0.00	2.83
891	904	7.861630	TCTCTAATCTAACAACAACAACAAGC	58.138	34.615	0.00	0.00	0.00	4.01
892	905	6.655062	TCTAATCTAACAACAACAACAAGCG	58.345	36.000	0.00	0.00	0.00	4.68
893	906	5.493133	AATCTAACAACAACAACAAGCGA	57.507	34.783	0.00	0.00	0.00	4.93
894	907	5.689383	ATCTAACAACAACAACAAGCGAT	57.311	34.783	0.00	0.00	0.00	4.58
895	908	5.090652	TCTAACAACAACAACAAGCGATC	57.909	39.130	0.00	0.00	0.00	3.69
1191	1534	1.215647	GCACTACCCTGGACTCGTG	59.784	63.158	0.00	0.00	0.00	4.35
1234	1577	4.008933	GCCTGACGGTGGAGCACT	62.009	66.667	0.00	0.00	34.40	4.40
1254	1597	1.519234	CTACGCGCTCATGAAGGCA	60.519	57.895	5.73	0.00	0.00	4.75
1808	2158	3.850098	AAGGGCAGTTCGGTGGCAG	62.850	63.158	8.67	0.00	44.72	4.85
1856	2217	0.890683	GGCCTGCAGCATTAGTTGTT	59.109	50.000	8.66	0.00	46.50	2.83
1857	2218	1.135286	GGCCTGCAGCATTAGTTGTTC	60.135	52.381	8.66	0.00	46.50	3.18
1858	2219	1.466360	GCCTGCAGCATTAGTTGTTCG	60.466	52.381	8.66	0.00	42.97	3.95
1859	2220	2.076100	CCTGCAGCATTAGTTGTTCGA	58.924	47.619	8.66	0.00	0.00	3.71
1861	2222	1.459209	TGCAGCATTAGTTGTTCGACG	59.541	47.619	0.00	0.00	0.00	5.12
1863	2224	2.066262	CAGCATTAGTTGTTCGACGGT	58.934	47.619	0.00	0.00	0.00	4.83
1864	2225	2.092211	CAGCATTAGTTGTTCGACGGTC	59.908	50.000	0.00	0.00	0.00	4.79
1865	2226	1.058695	GCATTAGTTGTTCGACGGTCG	59.941	52.381	23.73	23.73	42.10	4.79
2006	2481	7.465513	GCATGGTAGTAGTAATCAAAACTTCCG	60.466	40.741	0.00	0.00	33.48	4.30
2081	2599	9.530633	GTAGTATGTATAAACTTCCAGTCAAGG	57.469	37.037	0.00	0.00	0.00	3.61
2085	2603	8.706322	ATGTATAAACTTCCAGTCAAGGTTTT	57.294	30.769	0.00	0.00	34.94	2.43
2150	2668	5.523916	GTCAACCATGTATCTTCTACGCAAT	59.476	40.000	0.00	0.00	0.00	3.56
2152	2670	6.597672	TCAACCATGTATCTTCTACGCAATTT	59.402	34.615	0.00	0.00	0.00	1.82
2153	2671	7.120579	TCAACCATGTATCTTCTACGCAATTTT	59.879	33.333	0.00	0.00	0.00	1.82
2193	2712	4.148825	ATCACCCTCGGACGCTGC	62.149	66.667	0.00	0.00	0.00	5.25
2248	2778	8.842358	TCCAACTTCGGATATATTATTTGTCC	57.158	34.615	0.00	0.00	0.00	4.02
2321	2854	4.082463	ACCGTAAACCTTCGTCCGTAATAA	60.082	41.667	0.00	0.00	0.00	1.40
2334	2888	9.976511	TTCGTCCGTAATAAAATAGATTCAGAT	57.023	29.630	0.00	0.00	0.00	2.90
2402	2956	7.488187	ACTGAATGATATTTCATCCGTTCAG	57.512	36.000	18.11	18.11	41.83	3.02
2449	3011	1.807886	GATGACCTCGTACGCCTGT	59.192	57.895	11.24	7.13	0.00	4.00
2522	3094	4.742201	CCACCTGGTGCTCGTCGG	62.742	72.222	21.47	1.76	31.34	4.79
2525	3097	3.461773	CCTGGTGCTCGTCGGGAT	61.462	66.667	0.00	0.00	0.00	3.85
2527	3099	2.994995	TGGTGCTCGTCGGGATGT	60.995	61.111	0.00	0.00	0.00	3.06
2544	3132	2.194212	GTCGCTCCGCATCCTCCTA	61.194	63.158	0.00	0.00	0.00	2.94
2549	3137	0.242286	CTCCGCATCCTCCTACATCG	59.758	60.000	0.00	0.00	0.00	3.84
2553	3141	0.941463	GCATCCTCCTACATCGTGCG	60.941	60.000	0.00	0.00	0.00	5.34
2654	3260	2.027073	CAAGGCAACGCAGTCGCTA	61.027	57.895	0.00	0.00	45.00	4.26
2655	3261	1.079127	AAGGCAACGCAGTCGCTAT	60.079	52.632	0.00	0.00	45.00	2.97
2683	3296	0.891373	CTCTGTGGTGGTCATCGACT	59.109	55.000	0.00	0.00	32.47	4.18
2808	3421	4.148079	TCTCCTATGTCGAGATGATGCTT	58.852	43.478	5.12	0.00	31.39	3.91
2809	3422	5.316987	TCTCCTATGTCGAGATGATGCTTA	58.683	41.667	5.12	0.00	31.39	3.09
2810	3423	5.414144	TCTCCTATGTCGAGATGATGCTTAG	59.586	44.000	5.12	0.00	31.39	2.18
2811	3424	5.073428	TCCTATGTCGAGATGATGCTTAGT	58.927	41.667	5.12	0.00	0.00	2.24
2812	3425	5.048434	TCCTATGTCGAGATGATGCTTAGTG	60.048	44.000	5.12	0.00	0.00	2.74
2813	3426	4.926140	ATGTCGAGATGATGCTTAGTGA	57.074	40.909	0.00	0.00	0.00	3.41
2814	3427	4.926140	TGTCGAGATGATGCTTAGTGAT	57.074	40.909	0.00	0.00	0.00	3.06
2815	3428	4.614946	TGTCGAGATGATGCTTAGTGATG	58.385	43.478	0.00	0.00	0.00	3.07
2816	3429	4.339247	TGTCGAGATGATGCTTAGTGATGA	59.661	41.667	0.00	0.00	0.00	2.92
2817	3430	4.916831	GTCGAGATGATGCTTAGTGATGAG	59.083	45.833	0.00	0.00	0.00	2.90
2818	3431	4.582240	TCGAGATGATGCTTAGTGATGAGT	59.418	41.667	0.00	0.00	0.00	3.41
2819	3432	4.680567	CGAGATGATGCTTAGTGATGAGTG	59.319	45.833	0.00	0.00	0.00	3.51
2820	3433	5.506982	CGAGATGATGCTTAGTGATGAGTGA	60.507	44.000	0.00	0.00	0.00	3.41
2821	3434	5.845103	AGATGATGCTTAGTGATGAGTGAG	58.155	41.667	0.00	0.00	0.00	3.51
2822	3435	4.397481	TGATGCTTAGTGATGAGTGAGG	57.603	45.455	0.00	0.00	0.00	3.86
2823	3436	3.133542	TGATGCTTAGTGATGAGTGAGGG	59.866	47.826	0.00	0.00	0.00	4.30
2824	3437	2.820178	TGCTTAGTGATGAGTGAGGGA	58.180	47.619	0.00	0.00	0.00	4.20
2825	3438	2.762887	TGCTTAGTGATGAGTGAGGGAG	59.237	50.000	0.00	0.00	0.00	4.30
2826	3439	2.763448	GCTTAGTGATGAGTGAGGGAGT	59.237	50.000	0.00	0.00	0.00	3.85
2827	3440	3.181480	GCTTAGTGATGAGTGAGGGAGTC	60.181	52.174	0.00	0.00	0.00	3.36
2828	3441	1.859302	AGTGATGAGTGAGGGAGTCC	58.141	55.000	0.00	0.00	0.00	3.85
2830	3443	1.480137	GTGATGAGTGAGGGAGTCCTG	59.520	57.143	9.58	0.00	45.05	3.86
2831	3444	1.118838	GATGAGTGAGGGAGTCCTGG	58.881	60.000	9.58	0.00	45.05	4.45
2832	3445	0.712979	ATGAGTGAGGGAGTCCTGGA	59.287	55.000	9.58	0.00	45.05	3.86
2833	3446	0.712979	TGAGTGAGGGAGTCCTGGAT	59.287	55.000	9.58	0.00	45.05	3.41
2834	3447	1.079490	TGAGTGAGGGAGTCCTGGATT	59.921	52.381	9.58	0.00	45.05	3.01
2835	3448	2.314852	TGAGTGAGGGAGTCCTGGATTA	59.685	50.000	9.58	0.00	45.05	1.75
2836	3449	2.696187	GAGTGAGGGAGTCCTGGATTAC	59.304	54.545	9.58	0.00	45.05	1.89
2837	3450	1.409427	GTGAGGGAGTCCTGGATTACG	59.591	57.143	9.58	0.00	45.05	3.18
2838	3451	1.041437	GAGGGAGTCCTGGATTACGG	58.959	60.000	9.58	0.00	45.05	4.02
2839	3452	2.371508	GAGGGAGTCCTGGATTACGGG	61.372	61.905	9.58	0.00	45.05	5.28
2840	3453	1.408453	GGGAGTCCTGGATTACGGGG	61.408	65.000	9.58	0.00	46.36	5.73
2841	3454	0.690077	GGAGTCCTGGATTACGGGGT	60.690	60.000	0.41	0.00	46.36	4.95
2842	3455	0.751452	GAGTCCTGGATTACGGGGTC	59.249	60.000	0.00	0.00	46.36	4.46
2843	3456	0.690077	AGTCCTGGATTACGGGGTCC	60.690	60.000	0.00	0.00	46.36	4.46
2844	3457	0.690077	GTCCTGGATTACGGGGTCCT	60.690	60.000	0.00	0.00	46.36	3.85
2845	3458	0.398098	TCCTGGATTACGGGGTCCTC	60.398	60.000	0.00	0.00	46.36	3.71
2846	3459	1.740285	CTGGATTACGGGGTCCTCG	59.260	63.158	10.39	10.39	35.49	4.63
2847	3460	1.745320	CTGGATTACGGGGTCCTCGG	61.745	65.000	17.31	0.00	35.49	4.63
2848	3461	2.505167	GGATTACGGGGTCCTCGGG	61.505	68.421	17.31	0.00	0.00	5.14
2849	3462	3.159347	ATTACGGGGTCCTCGGGC	61.159	66.667	17.31	0.00	0.00	6.13

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
85	86	2.354403	CCAGGGTTTCCTTACGTGGTAG	60.354	54.545	0.00	0.00	42.67	3.18
196	197	3.325753	GGCCACTCCTCCAGCACT	61.326	66.667	0.00	0.00	0.00	4.40
231	232	3.149005	GGTTTACACCATGAACCCAGA	57.851	47.619	0.00	0.00	43.61	3.86
263	264	2.369860	TCCATCATCAAGGGATTCGAGG	59.630	50.000	0.00	0.00	0.00	4.63
268	269	2.512896	AGCACTCCATCATCAAGGGATT	59.487	45.455	0.00	0.00	0.00	3.01
404	405	8.927675	TTCTAAAAGTAAAGGAGCCACAATTA	57.072	30.769	0.00	0.00	0.00	1.40
727	732	5.761165	TCGAGTCAAATACGGTATCATCA	57.239	39.130	0.30	0.00	0.00	3.07
1034	1052	3.075005	GGGGAGCAGCGTGGTAGA	61.075	66.667	0.00	0.00	0.00	2.59
1254	1597	1.663702	CTTGAGGCCGTCGACGTTT	60.664	57.895	33.49	19.69	37.74	3.60
1808	2158	2.182030	CTCGGAACCTCTCCACGC	59.818	66.667	0.00	0.00	45.74	5.34
1857	2218	1.580385	CGTGTCTGATCGACCGTCG	60.580	63.158	14.94	14.94	42.13	5.12
1858	2219	0.247735	CTCGTGTCTGATCGACCGTC	60.248	60.000	18.01	0.00	42.13	4.79
1859	2220	1.794864	CTCGTGTCTGATCGACCGT	59.205	57.895	18.01	0.00	42.13	4.83
1861	2222	0.109272	TTGCTCGTGTCTGATCGACC	60.109	55.000	12.89	5.98	42.13	4.79
1863	2224	0.454452	CGTTGCTCGTGTCTGATCGA	60.454	55.000	0.00	0.00	34.52	3.59
1864	2225	1.983907	CGTTGCTCGTGTCTGATCG	59.016	57.895	0.00	0.15	34.52	3.69
1984	2459	6.401394	ACCGGAAGTTTTGATTACTACTACC	58.599	40.000	9.46	0.00	0.00	3.18
2006	2481	5.305585	TCACTCATCACTAAAACCTTGACC	58.694	41.667	0.00	0.00	0.00	4.02
2110	2628	5.830912	TGGTTGACAAAAACATCACTCATC	58.169	37.500	0.00	0.00	0.00	2.92
2113	2631	5.591099	ACATGGTTGACAAAAACATCACTC	58.409	37.500	0.00	0.00	0.00	3.51
2117	2635	8.299570	AGAAGATACATGGTTGACAAAAACATC	58.700	33.333	0.00	0.00	0.00	3.06
2180	2698	3.842923	AGATGCAGCGTCCGAGGG	61.843	66.667	11.25	0.00	0.00	4.30
2254	2784	0.599060	TATCACTGTTCGCGGACACA	59.401	50.000	18.26	11.22	0.00	3.72
2286	2819	4.568956	AGGTTTACGGTAAGCGTTGTATT	58.431	39.130	8.36	0.00	0.00	1.89
2289	2822	2.531522	AGGTTTACGGTAAGCGTTGT	57.468	45.000	8.36	0.00	0.00	3.32
2338	2892	6.925718	TCAAATTTATGTCCGTTTGCATGAAA	59.074	30.769	0.00	0.00	32.95	2.69
2380	2934	6.057533	AGCTGAACGGATGAAATATCATTCA	58.942	36.000	0.00	0.00	46.30	2.57
2393	2947	5.557866	AGTTTAGGTTTTAGCTGAACGGAT	58.442	37.500	0.00	0.00	43.92	4.18
2544	3132	4.129737	CGTCCCTCCGCACGATGT	62.130	66.667	0.00	0.00	38.32	3.06
2654	3260	0.318441	CACCACAGAGACGTCCACAT	59.682	55.000	13.01	0.00	0.00	3.21
2655	3261	1.739667	CACCACAGAGACGTCCACA	59.260	57.895	13.01	0.00	0.00	4.17
2683	3296	2.682494	GGCCTAGACCCGTGACCA	60.682	66.667	0.00	0.00	0.00	4.02
2721	3334	1.134907	ACGTTCACGAAGTCCAACACT	60.135	47.619	6.30	0.00	41.61	3.55
2808	3421	2.583101	AGGACTCCCTCACTCATCACTA	59.417	50.000	0.00	0.00	38.86	2.74
2809	3422	1.360852	AGGACTCCCTCACTCATCACT	59.639	52.381	0.00	0.00	38.86	3.41
2810	3423	1.480137	CAGGACTCCCTCACTCATCAC	59.520	57.143	0.00	0.00	42.02	3.06
2811	3424	1.620798	CCAGGACTCCCTCACTCATCA	60.621	57.143	0.00	0.00	42.02	3.07
2812	3425	1.118838	CCAGGACTCCCTCACTCATC	58.881	60.000	0.00	0.00	42.02	2.92
2813	3426	0.712979	TCCAGGACTCCCTCACTCAT	59.287	55.000	0.00	0.00	42.02	2.90
2814	3427	0.712979	ATCCAGGACTCCCTCACTCA	59.287	55.000	0.00	0.00	42.02	3.41
2815	3428	1.872773	AATCCAGGACTCCCTCACTC	58.127	55.000	0.00	0.00	42.02	3.51
2816	3429	2.753247	GTAATCCAGGACTCCCTCACT	58.247	52.381	0.00	0.00	42.02	3.41
2817	3430	1.409427	CGTAATCCAGGACTCCCTCAC	59.591	57.143	0.00	0.00	42.02	3.51
2818	3431	1.688311	CCGTAATCCAGGACTCCCTCA	60.688	57.143	0.00	0.00	42.02	3.86
2819	3432	1.041437	CCGTAATCCAGGACTCCCTC	58.959	60.000	0.00	0.00	42.02	4.30
2820	3433	0.398664	CCCGTAATCCAGGACTCCCT	60.399	60.000	0.00	0.00	45.74	4.20
2821	3434	1.408453	CCCCGTAATCCAGGACTCCC	61.408	65.000	0.00	0.00	0.00	4.30
2822	3435	0.690077	ACCCCGTAATCCAGGACTCC	60.690	60.000	0.00	0.00	0.00	3.85
2823	3436	0.751452	GACCCCGTAATCCAGGACTC	59.249	60.000	0.00	0.00	0.00	3.36
2824	3437	0.690077	GGACCCCGTAATCCAGGACT	60.690	60.000	0.00	0.00	34.87	3.85
2825	3438	0.690077	AGGACCCCGTAATCCAGGAC	60.690	60.000	0.00	0.00	37.47	3.85
2826	3439	0.398098	GAGGACCCCGTAATCCAGGA	60.398	60.000	0.00	0.00	37.47	3.86
2827	3440	1.745320	CGAGGACCCCGTAATCCAGG	61.745	65.000	0.00	0.00	37.47	4.45
2828	3441	1.740285	CGAGGACCCCGTAATCCAG	59.260	63.158	0.00	0.00	37.47	3.86
2829	3442	1.759299	CCGAGGACCCCGTAATCCA	60.759	63.158	0.00	0.00	37.47	3.41
2830	3443	2.505167	CCCGAGGACCCCGTAATCC	61.505	68.421	0.00	0.00	34.98	3.01
2831	3444	3.135814	CCCGAGGACCCCGTAATC	58.864	66.667	0.00	0.00	0.00	1.75
2832	3445	3.159347	GCCCGAGGACCCCGTAAT	61.159	66.667	0.00	0.00	0.00	1.89

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.