AutoCloner

Multiple sequence alignment - TraesCS1D01G277000

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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	TraesCS1D01G277000	chr1D	100.000	3746	0	0	1	3746	373994306	373998051	0.000000e+00	6918.0
1	TraesCS1D01G277000	chr1D	93.624	298	12	3	2885	3175	374022959	374023256	4.440000e-119	438.0
2	TraesCS1D01G277000	chr1D	95.455	154	7	0	3592	3745	334454132	334454285	2.890000e-61	246.0
3	TraesCS1D01G277000	chr1D	92.248	129	10	0	3388	3516	334454002	334454130	2.300000e-42	183.0
4	TraesCS1D01G277000	chr1A	95.250	2463	84	18	731	3175	473414880	473417327	0.000000e+00	3869.0
5	TraesCS1D01G277000	chr1A	88.810	420	43	3	314	732	473408363	473408779	2.580000e-141	512.0
6	TraesCS1D01G277000	chr1A	86.544	327	30	3	3203	3516	133202257	133201932	7.700000e-92	348.0
7	TraesCS1D01G277000	chr1A	92.308	195	11	2	731	921	473408937	473409131	1.330000e-69	274.0
8	TraesCS1D01G277000	chr1A	94.805	154	8	0	3592	3745	133201930	133201777	1.340000e-59	241.0
9	TraesCS1D01G277000	chr1B	95.309	1343	54	5	1841	3175	498853570	498854911	0.000000e+00	2122.0
10	TraesCS1D01G277000	chr1B	95.851	1157	39	6	737	1884	498852426	498853582	0.000000e+00	1862.0
11	TraesCS1D01G277000	chr1B	85.000	740	75	22	3	734	669060139	669060850	0.000000e+00	719.0
12	TraesCS1D01G277000	chr1B	96.104	154	6	0	3592	3745	129137355	129137508	6.210000e-63	252.0
13	TraesCS1D01G277000	chr1B	83.399	253	16	10	3194	3422	129137039	129137289	1.050000e-50	211.0
14	TraesCS1D01G277000	chr2D	85.714	756	83	11	3	742	498875646	498874900	0.000000e+00	774.0
15	TraesCS1D01G277000	chr7B	83.730	756	87	26	3	742	690933167	690933902	0.000000e+00	682.0
16	TraesCS1D01G277000	chr7B	88.235	425	40	8	313	730	19142723	19142302	2.010000e-137	499.0
17	TraesCS1D01G277000	chr5D	87.589	564	55	8	3197	3746	435969902	435969340	1.130000e-179	640.0
18	TraesCS1D01G277000	chr4A	81.487	713	94	31	3	704	162767526	162768211	5.470000e-153	551.0
19	TraesCS1D01G277000	chr4A	88.060	335	28	1	3194	3516	640910781	640911115	1.630000e-103	387.0
20	TraesCS1D01G277000	chr4A	95.425	153	7	0	3592	3744	640911117	640911269	1.040000e-60	244.0
21	TraesCS1D01G277000	chr5A	81.096	730	101	23	7	730	381300477	381301175	1.970000e-152	549.0
22	TraesCS1D01G277000	chr3D	82.515	652	87	24	52	695	31978101	31977469	7.070000e-152	547.0
23	TraesCS1D01G277000	chr3D	93.367	196	12	1	3447	3641	31095872	31096067	4.730000e-74	289.0
24	TraesCS1D01G277000	chr3B	83.477	581	61	18	176	729	153817471	153816899	3.340000e-140	508.0
25	TraesCS1D01G277000	chr3B	79.545	748	108	25	9	730	808073360	808074088	3.360000e-135	492.0
26	TraesCS1D01G277000	chr3B	96.774	31	1	0	2514	2544	173364735	173364765	7.000000e-03	52.8
27	TraesCS1D01G277000	chr2A	87.798	336	27	4	3194	3516	519348030	519348364	7.590000e-102	381.0
28	TraesCS1D01G277000	chr2A	87.463	335	30	1	3194	3516	643200181	643199847	3.530000e-100	375.0
29	TraesCS1D01G277000	chr2A	94.771	153	8	0	3592	3744	519348366	519348518	4.840000e-59	239.0
30	TraesCS1D01G277000	chr6A	87.164	335	31	1	3194	3516	49744275	49743941	1.640000e-98	370.0
31	TraesCS1D01G277000	chr4B	87.137	241	19	1	3194	3422	624403457	624403697	2.870000e-66	263.0
32	TraesCS1D01G277000	chr4B	95.455	154	7	0	3592	3745	120504680	120504527	2.890000e-61	246.0
33	TraesCS1D01G277000	chr4B	95.455	154	7	0	3592	3745	624403763	624403916	2.890000e-61	246.0
34	TraesCS1D01G277000	chr4B	89.375	160	11	1	3269	3422	120504905	120504746	2.950000e-46	196.0
35	TraesCS1D01G277000	chr7A	96.078	153	6	0	3592	3744	643251789	643251941	2.230000e-62	250.0
36	TraesCS1D01G277000	chr7A	92.793	111	8	0	3405	3515	643251676	643251786	1.080000e-35	161.0

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	TraesCS1D01G277000	chr1D	373994306	373998051	3745	False	6918	6918	100.000	1	3746	1	chr1D.!!$F1	3745
1	TraesCS1D01G277000	chr1A	473414880	473417327	2447	False	3869	3869	95.250	731	3175	1	chr1A.!!$F1	2444
2	TraesCS1D01G277000	chr1A	473408363	473409131	768	False	393	512	90.559	314	921	2	chr1A.!!$F2	607
3	TraesCS1D01G277000	chr1B	498852426	498854911	2485	False	1992	2122	95.580	737	3175	2	chr1B.!!$F3	2438
4	TraesCS1D01G277000	chr1B	669060139	669060850	711	False	719	719	85.000	3	734	1	chr1B.!!$F1	731
5	TraesCS1D01G277000	chr2D	498874900	498875646	746	True	774	774	85.714	3	742	1	chr2D.!!$R1	739
6	TraesCS1D01G277000	chr7B	690933167	690933902	735	False	682	682	83.730	3	742	1	chr7B.!!$F1	739
7	TraesCS1D01G277000	chr5D	435969340	435969902	562	True	640	640	87.589	3197	3746	1	chr5D.!!$R1	549
8	TraesCS1D01G277000	chr4A	162767526	162768211	685	False	551	551	81.487	3	704	1	chr4A.!!$F1	701
9	TraesCS1D01G277000	chr5A	381300477	381301175	698	False	549	549	81.096	7	730	1	chr5A.!!$F1	723
10	TraesCS1D01G277000	chr3D	31977469	31978101	632	True	547	547	82.515	52	695	1	chr3D.!!$R1	643
11	TraesCS1D01G277000	chr3B	153816899	153817471	572	True	508	508	83.477	176	729	1	chr3B.!!$R1	553
12	TraesCS1D01G277000	chr3B	808073360	808074088	728	False	492	492	79.545	9	730	1	chr3B.!!$F2	721

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
133	134	0.039764	AGGTCGTCATGGAGGACTCA	59.960	55.0	15.88	0.0	43.97	3.41	F
1476	1748	0.388649	CCACCGAGTCACTGCACTAC	60.389	60.0	0.00	0.0	0.00	2.73	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1669	1941	2.031333	GCCAATAAGTGCTGCAGCTATC	60.031	50.0	36.61	25.62	42.66	2.08	R
2947	3256	0.179936	AGCCAAGATGACTAGCCTGC	59.820	55.0	0.00	0.00	0.00	4.85	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
32	33	2.993008	TGAGGATCAGTGGCCTGC	59.007	61.111	3.32	0.00	42.56	4.85
101	102	3.360423	ATGACGGCCGAGGAGGAGA	62.360	63.158	35.90	5.88	45.00	3.71
106	107	2.348888	GGCCGAGGAGGAGAAACGA	61.349	63.158	0.00	0.00	45.00	3.85
133	134	0.039764	AGGTCGTCATGGAGGACTCA	59.960	55.000	15.88	0.00	43.97	3.41
149	150	2.240160	GACTCAGAGAGGGAGTACAGGA	59.760	54.545	3.79	0.00	45.21	3.86
172	173	2.596851	GGAGGAGGAGCAGTGGCAA	61.597	63.158	0.00	0.00	44.61	4.52
274	288	1.072505	GGTCAAGGCGGAGGTGAAA	59.927	57.895	0.00	0.00	0.00	2.69
487	526	1.194781	ATGGCGAGGTCTTCTGTGGT	61.195	55.000	0.00	0.00	0.00	4.16
871	1137	1.614241	AAACCCTCGGTCCATCTCGG	61.614	60.000	0.00	0.00	33.12	4.63
890	1159	0.652592	GCATCGATGAACAACCTCCG	59.347	55.000	29.20	0.00	0.00	4.63
926	1195	1.600076	GATCCGAGATCCCGACCGA	60.600	63.158	0.00	0.00	0.00	4.69
1274	1546	1.656095	GCTCAACTTCCATCGTCTTCG	59.344	52.381	0.00	0.00	38.55	3.79
1476	1748	0.388649	CCACCGAGTCACTGCACTAC	60.389	60.000	0.00	0.00	0.00	2.73
1587	1859	1.268999	TGCTTGTTTTCATCACGCACC	60.269	47.619	0.00	0.00	35.69	5.01
1669	1941	2.279851	TGTTGCACCGGACGTCAG	60.280	61.111	18.91	13.87	0.00	3.51
1722	1994	3.209097	GTGCAGTGCAACGGTGGT	61.209	61.111	21.67	0.00	45.86	4.16
1769	2041	5.400188	CACATGCAATTCAGTTGTGTTACTG	59.600	40.000	6.25	0.00	45.46	2.74
1799	2071	8.192774	TGCAATGATTTCTGAATTTAGTCATCC	58.807	33.333	3.31	0.61	0.00	3.51
1806	2078	5.052481	TCTGAATTTAGTCATCCGCTCATG	58.948	41.667	0.00	0.00	0.00	3.07
2182	2490	2.222013	GGACGGTCAAGGGAAGGGT	61.222	63.158	10.76	0.00	0.00	4.34
2481	2789	8.818141	ACAACGATAATATAGGTGACAATGAG	57.182	34.615	5.43	0.00	0.00	2.90
2498	2806	3.697619	TGAGTCTGAGGTCGTAGAGAA	57.302	47.619	0.00	0.00	36.95	2.87
2515	2823	7.831193	TCGTAGAGAACTACTTACCCTATGTTT	59.169	37.037	0.00	0.00	44.65	2.83
2589	2897	2.103941	GCTAAGAAGAGCAGTGGCCTAT	59.896	50.000	3.32	0.00	42.36	2.57
2644	2952	5.815740	GGTAATATATGGCCCAATGACTACG	59.184	44.000	0.00	0.00	0.00	3.51
2646	2954	5.957771	ATATATGGCCCAATGACTACGAT	57.042	39.130	0.00	0.00	0.00	3.73
2668	2976	4.626081	GGCACGCGGGAGGCATAT	62.626	66.667	15.48	0.00	43.84	1.78
2670	2978	1.079127	GCACGCGGGAGGCATATAT	60.079	57.895	15.48	0.00	43.84	0.86
2698	3006	5.708230	TCTTTTCTGTACACACCTTGTTTGT	59.292	36.000	0.00	0.00	39.91	2.83
2722	3030	5.813513	AGCAGATTTCCCAGAAAACAAAT	57.186	34.783	0.00	0.00	0.00	2.32
2725	3033	5.179929	GCAGATTTCCCAGAAAACAAATTGG	59.820	40.000	0.00	0.00	0.00	3.16
2738	3046	2.078392	CAAATTGGAAGCCCATGTTGC	58.922	47.619	0.00	0.00	43.12	4.17
2810	3119	7.173863	ACTTATGTCGTACTTGTGTTTTGAG	57.826	36.000	0.00	0.00	0.00	3.02
2814	3123	3.246936	GTCGTACTTGTGTTTTGAGTCCC	59.753	47.826	0.00	0.00	0.00	4.46
2870	3179	7.382898	ACAAACTTGTTTACAACCTGAATTGT	58.617	30.769	0.00	0.00	41.23	2.71
2877	3186	2.504367	ACAACCTGAATTGTCGAAGGG	58.496	47.619	3.73	0.00	38.44	3.95
2879	3188	0.693049	ACCTGAATTGTCGAAGGGCT	59.307	50.000	3.73	0.00	0.00	5.19
2978	3287	4.578105	GTCATCTTGGCTCAAAGAATAGGG	59.422	45.833	2.03	0.00	39.54	3.53
2994	3303	1.067916	GGGTTGGCTTGTTGCTGTG	59.932	57.895	0.00	0.00	42.39	3.66
2996	3305	1.067916	GTTGGCTTGTTGCTGTGGG	59.932	57.895	0.00	0.00	42.39	4.61
3090	3404	3.898123	TCCATAACATCCCTCTAGTCTGC	59.102	47.826	0.00	0.00	0.00	4.26
3093	3407	1.394618	ACATCCCTCTAGTCTGCGTC	58.605	55.000	0.00	0.00	0.00	5.19
3101	3415	5.889853	TCCCTCTAGTCTGCGTCTAAATTTA	59.110	40.000	0.00	0.00	0.00	1.40
3102	3416	5.978322	CCCTCTAGTCTGCGTCTAAATTTAC	59.022	44.000	0.00	0.00	0.00	2.01
3103	3417	6.405508	CCCTCTAGTCTGCGTCTAAATTTACA	60.406	42.308	0.00	0.00	0.00	2.41
3105	3419	7.221067	CCTCTAGTCTGCGTCTAAATTTACAAG	59.779	40.741	0.00	0.00	0.00	3.16
3106	3420	7.600065	TCTAGTCTGCGTCTAAATTTACAAGT	58.400	34.615	0.00	0.00	0.00	3.16
3107	3421	8.733458	TCTAGTCTGCGTCTAAATTTACAAGTA	58.267	33.333	0.00	0.00	0.00	2.24
3175	3491	4.299586	TGATTGCCTAGGTCACATTTGA	57.700	40.909	11.31	0.00	0.00	2.69
3176	3492	4.264253	TGATTGCCTAGGTCACATTTGAG	58.736	43.478	11.31	0.00	30.10	3.02
3187	3503	4.044426	GTCACATTTGAGCAGTTTGTTCC	58.956	43.478	0.00	0.00	30.10	3.62
3188	3504	3.068024	TCACATTTGAGCAGTTTGTTCCC	59.932	43.478	0.00	0.00	0.00	3.97
3189	3505	2.034558	ACATTTGAGCAGTTTGTTCCCG	59.965	45.455	0.00	0.00	0.00	5.14
3190	3506	0.383949	TTTGAGCAGTTTGTTCCCGC	59.616	50.000	0.00	0.00	0.00	6.13
3191	3507	1.781025	TTGAGCAGTTTGTTCCCGCG	61.781	55.000	0.00	0.00	0.00	6.46
3192	3508	1.959226	GAGCAGTTTGTTCCCGCGA	60.959	57.895	8.23	0.00	0.00	5.87
3193	3509	2.171489	GAGCAGTTTGTTCCCGCGAC	62.171	60.000	8.23	0.00	0.00	5.19
3194	3510	2.943653	CAGTTTGTTCCCGCGACC	59.056	61.111	8.23	0.00	0.00	4.79
3195	3511	2.663852	AGTTTGTTCCCGCGACCG	60.664	61.111	8.23	0.00	0.00	4.79
3196	3512	4.379143	GTTTGTTCCCGCGACCGC	62.379	66.667	8.23	4.06	37.85	5.68
3353	3681	4.778143	CCGTCCAAGGGCGAAGGG	62.778	72.222	15.66	0.00	0.00	3.95
3354	3682	4.016706	CGTCCAAGGGCGAAGGGT	62.017	66.667	7.44	0.00	0.00	4.34
3356	3684	3.646715	TCCAAGGGCGAAGGGTGG	61.647	66.667	0.00	0.00	0.00	4.61
3400	3728	4.699522	ACGGCACCTTCGGCTTCC	62.700	66.667	0.00	0.00	0.00	3.46
3401	3729	4.394712	CGGCACCTTCGGCTTCCT	62.395	66.667	0.00	0.00	0.00	3.36
3404	3732	1.743252	GCACCTTCGGCTTCCTCAG	60.743	63.158	0.00	0.00	0.00	3.35
3412	3740	4.048696	GCTTCCTCAGAGCCCTCT	57.951	61.111	0.00	0.00	41.37	3.69
3424	3752	2.443016	CCCTCTGCTCCCGCTACT	60.443	66.667	0.00	0.00	36.97	2.57
3454	3782	1.676635	CTCCGTCCTACCACCGTCA	60.677	63.158	0.00	0.00	0.00	4.35
3484	3812	0.658829	CGCTCATCATCGACTCGTCC	60.659	60.000	0.00	0.00	0.00	4.79
3489	3817	1.445716	ATCATCGACTCGTCCCCGAC	61.446	60.000	0.00	0.00	38.40	4.79
3492	3820	4.477975	CGACTCGTCCCCGACAGC	62.478	72.222	0.00	0.00	38.40	4.40
3532	3860	2.187946	GTGGCCCGTCTCCATCTG	59.812	66.667	0.00	0.00	35.81	2.90
3556	3884	2.583520	GCCTCACCTCTGCTCCAG	59.416	66.667	0.00	0.00	0.00	3.86
3559	3887	1.079266	CTCACCTCTGCTCCAGTGC	60.079	63.158	0.00	0.00	32.61	4.40
3579	3907	0.818040	GCGCCCCGTCCTTTCAATAT	60.818	55.000	0.00	0.00	0.00	1.28
3590	3919	4.334481	GTCCTTTCAATATACAACCGTGGG	59.666	45.833	0.00	0.00	0.00	4.61
3605	3934	2.203209	GGGCTTAGACATGGGGCG	60.203	66.667	0.00	0.00	0.00	6.13
3623	3952	2.048603	GGCATGTGTCCTGGGCTTC	61.049	63.158	0.00	0.00	0.00	3.86
3666	3995	3.053544	ACGATGAGGAAGAGGAGGAGTTA	60.054	47.826	0.00	0.00	0.00	2.24
3672	4001	0.417841	AAGAGGAGGAGTTAGCCCCA	59.582	55.000	0.00	0.00	0.00	4.96
3682	4011	0.751643	GTTAGCCCCATTGACGCCAT	60.752	55.000	0.00	0.00	0.00	4.40
3702	4031	1.799258	CGGCTGCCAAAAGCTCTGTT	61.799	55.000	20.29	0.00	43.06	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
106	107	1.005569	TCCATGACGACCTACAGGAGT	59.994	52.381	1.29	1.63	38.94	3.85
117	118	1.282157	TCTCTGAGTCCTCCATGACGA	59.718	52.381	4.32	0.00	40.26	4.20
133	134	0.260523	GGCTCCTGTACTCCCTCTCT	59.739	60.000	0.00	0.00	0.00	3.10
149	150	2.365370	CTGCTCCTCCTCCTGGCT	60.365	66.667	0.00	0.00	0.00	4.75
274	288	1.264045	GCTCCTGCTTGACCTCCTCT	61.264	60.000	0.00	0.00	36.03	3.69
451	488	4.794439	TCGCCAGATGCCGTCACG	62.794	66.667	0.00	0.00	36.24	4.35
463	500	3.371097	GAAGACCTCGCCATCGCCA	62.371	63.158	0.00	0.00	35.26	5.69
498	540	3.848726	ACAAGCAAAAGATAAATGCGGG	58.151	40.909	0.00	0.00	44.60	6.13
689	789	3.948719	GTGTCGAGGGGCCCAACA	61.949	66.667	27.72	22.14	0.00	3.33
800	1060	0.656259	GGATTTAGCTTCGCCGGAAC	59.344	55.000	5.05	0.00	0.00	3.62
807	1067	4.327982	TCAGATCTGGGATTTAGCTTCG	57.672	45.455	22.42	0.00	0.00	3.79
871	1137	0.652592	CGGAGGTTGTTCATCGATGC	59.347	55.000	20.81	8.26	0.00	3.91
890	1159	0.251354	TCAGGTGAGATCAAGCAGGC	59.749	55.000	0.00	0.00	0.00	4.85
933	1202	2.586357	GTTGAGATCGCCGAGGGC	60.586	66.667	0.00	0.00	46.75	5.19
1429	1701	3.986006	AAGGTGCGGCTCGACGAA	61.986	61.111	0.00	0.00	35.47	3.85
1587	1859	2.046892	CTCTGTTCCCACTGCCCG	60.047	66.667	0.00	0.00	0.00	6.13
1629	1901	4.161295	TCGGAAGCCATCCCTGCG	62.161	66.667	0.76	0.00	46.39	5.18
1669	1941	2.031333	GCCAATAAGTGCTGCAGCTATC	60.031	50.000	36.61	25.62	42.66	2.08
1722	1994	5.001232	GGTGCTTACCTCATAACAGTGAAA	58.999	41.667	0.00	0.00	0.00	2.69
1769	2041	8.193250	ACTAAATTCAGAAATCATTGCATTGC	57.807	30.769	0.46	0.46	0.00	3.56
1799	2071	6.120157	CGTTACAAATACATACACATGAGCG	58.880	40.000	0.00	0.00	35.96	5.03
1806	2078	6.471839	ACATTCGCGTTACAAATACATACAC	58.528	36.000	5.77	0.00	0.00	2.90
2121	2429	6.566079	TCTGATTCCTCAATATCTGTTGGT	57.434	37.500	0.00	0.00	0.00	3.67
2152	2460	2.457598	TGACCGTCCTAGATGAAGCTT	58.542	47.619	0.00	0.00	0.00	3.74
2481	2789	4.863152	GTAGTTCTCTACGACCTCAGAC	57.137	50.000	0.00	0.00	37.41	3.51
2498	2806	9.063615	CAAGAAAACAAACATAGGGTAAGTAGT	57.936	33.333	0.00	0.00	0.00	2.73
2589	2897	6.463472	CCTGCACTATTGAGGTATTCAGATGA	60.463	42.308	0.00	0.00	37.07	2.92
2668	2976	8.426489	ACAAGGTGTGTACAGAAAAGACTTATA	58.574	33.333	0.00	0.00	39.29	0.98
2670	2978	6.646267	ACAAGGTGTGTACAGAAAAGACTTA	58.354	36.000	0.00	0.00	39.29	2.24
2698	3006	6.723298	TTTGTTTTCTGGGAAATCTGCTAA	57.277	33.333	0.00	0.00	0.00	3.09
2722	3030	1.186917	CCTGCAACATGGGCTTCCAA	61.187	55.000	12.08	0.00	44.86	3.53
2725	3033	2.575461	GCCTGCAACATGGGCTTC	59.425	61.111	6.66	0.00	42.31	3.86
2782	3091	8.757789	CAAAACACAAGTACGACATAAGTCTTA	58.242	33.333	0.00	0.00	42.73	2.10
2788	3097	6.201425	GGACTCAAAACACAAGTACGACATAA	59.799	38.462	0.00	0.00	0.00	1.90
2794	3103	3.247648	CAGGGACTCAAAACACAAGTACG	59.752	47.826	0.00	0.00	34.60	3.67
2803	3112	7.039270	ACATTAAAACAACAGGGACTCAAAAC	58.961	34.615	0.00	0.00	34.60	2.43
2804	3113	7.123547	AGACATTAAAACAACAGGGACTCAAAA	59.876	33.333	0.00	0.00	34.60	2.44
2810	3119	4.278419	AGCAGACATTAAAACAACAGGGAC	59.722	41.667	0.00	0.00	0.00	4.46
2814	3123	6.560253	AGGTAGCAGACATTAAAACAACAG	57.440	37.500	0.00	0.00	0.00	3.16
2860	3169	0.693049	AGCCCTTCGACAATTCAGGT	59.307	50.000	0.00	0.00	0.00	4.00
2862	3171	2.154462	ACAAGCCCTTCGACAATTCAG	58.846	47.619	0.00	0.00	0.00	3.02
2947	3256	0.179936	AGCCAAGATGACTAGCCTGC	59.820	55.000	0.00	0.00	0.00	4.85
2994	3303	8.011844	AGCCAATAGAATTTCTAAACAATCCC	57.988	34.615	10.07	0.00	31.96	3.85
2996	3305	9.508567	GTGAGCCAATAGAATTTCTAAACAATC	57.491	33.333	10.07	7.13	31.96	2.67
3075	3389	1.686355	AGACGCAGACTAGAGGGATG	58.314	55.000	0.00	0.00	0.00	3.51
3090	3404	7.067532	TGCCACATACTTGTAAATTTAGACG	57.932	36.000	0.00	0.00	33.76	4.18
3093	3407	7.995289	TGGATGCCACATACTTGTAAATTTAG	58.005	34.615	0.00	0.00	33.76	1.85
3175	3491	2.110213	TCGCGGGAACAAACTGCT	59.890	55.556	6.13	0.00	38.07	4.24
3176	3492	2.251371	GTCGCGGGAACAAACTGC	59.749	61.111	6.13	0.00	36.88	4.40
3177	3493	2.943653	GGTCGCGGGAACAAACTG	59.056	61.111	13.35	0.00	0.00	3.16
3178	3494	2.663852	CGGTCGCGGGAACAAACT	60.664	61.111	18.37	0.00	0.00	2.66
3179	3495	4.379143	GCGGTCGCGGGAACAAAC	62.379	66.667	18.37	2.35	0.00	2.93
3327	3655	3.691342	CTTGGACGGCTGGGTCGA	61.691	66.667	0.00	0.00	37.82	4.20
3338	3666	2.359975	CACCCTTCGCCCTTGGAC	60.360	66.667	0.00	0.00	0.00	4.02
3353	3681	4.509737	GAGGAGCGTACGGGCCAC	62.510	72.222	18.39	0.00	0.00	5.01
3446	3774	1.153489	CTGCTGGAGATGACGGTGG	60.153	63.158	0.00	0.00	0.00	4.61
3454	3782	1.069427	GATGAGCGCTGCTGGAGAT	59.931	57.895	18.48	0.00	39.88	2.75
3516	3844	3.083349	CCAGATGGAGACGGGCCA	61.083	66.667	4.39	0.00	40.24	5.36
3565	3893	4.033587	CACGGTTGTATATTGAAAGGACGG	59.966	45.833	0.00	0.00	0.00	4.79
3573	3901	3.637911	AAGCCCACGGTTGTATATTGA	57.362	42.857	0.00	0.00	0.00	2.57
3575	3903	4.162698	TGTCTAAGCCCACGGTTGTATATT	59.837	41.667	0.00	0.00	0.00	1.28
3579	3907	1.340088	TGTCTAAGCCCACGGTTGTA	58.660	50.000	0.00	0.00	0.00	2.41
3590	3919	2.902343	GCCGCCCCATGTCTAAGC	60.902	66.667	0.00	0.00	0.00	3.09
3605	3934	2.036256	AAGCCCAGGACACATGCC	59.964	61.111	0.00	0.00	0.00	4.40
3623	3952	0.324943	AACATCCTCGTCACCAAGGG	59.675	55.000	0.00	0.00	33.21	3.95
3637	3966	3.131223	TCCTCTTCCTCATCGTCAACATC	59.869	47.826	0.00	0.00	0.00	3.06
3666	3995	2.124151	GATGGCGTCAATGGGGCT	60.124	61.111	0.00	0.00	0.00	5.19
3682	4011	1.968017	CAGAGCTTTTGGCAGCCGA	60.968	57.895	7.03	0.62	44.79	5.54
3690	4019	0.239347	CTGCCGGAACAGAGCTTTTG	59.761	55.000	5.05	0.00	40.25	2.44
3702	4031	4.129737	GTACGCTGAGCTGCCGGA	62.130	66.667	5.05	0.00	0.00	5.14
3716	4045	2.069273	GCATCACACACTGGTCAGTAC	58.931	52.381	3.06	0.00	40.20	2.73
3717	4046	1.691434	TGCATCACACACTGGTCAGTA	59.309	47.619	3.06	0.00	40.20	2.74

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.