AutoCloner

Multiple sequence alignment - TraesCS2A01G431500

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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	TraesCS2A01G431500	chr2A	100.000	4164	0	0	1	4164	684887642	684891805	0.000000e+00	7690.0
1	TraesCS2A01G431500	chr2A	85.882	1530	181	22	536	2044	684907591	684909106	0.000000e+00	1596.0
2	TraesCS2A01G431500	chr2A	86.456	1137	104	33	2063	3172	684909216	684910329	0.000000e+00	1201.0
3	TraesCS2A01G431500	chr2A	89.250	707	40	17	3182	3858	108550540	108551240	0.000000e+00	852.0
4	TraesCS2A01G431500	chr2B	95.434	3614	128	21	1	3605	646956217	646959802	0.000000e+00	5725.0
5	TraesCS2A01G431500	chr2B	86.453	1528	174	24	536	2044	646973091	646974604	0.000000e+00	1644.0
6	TraesCS2A01G431500	chr2B	85.100	1255	122	41	2063	3309	646974715	646975912	0.000000e+00	1221.0
7	TraesCS2A01G431500	chr2B	89.362	564	35	7	3620	4164	646959853	646960410	0.000000e+00	686.0
8	TraesCS2A01G431500	chr2D	93.342	3935	158	51	1	3898	541471893	541475760	0.000000e+00	5720.0
9	TraesCS2A01G431500	chr2D	86.726	1454	165	22	536	1973	541545199	541546640	0.000000e+00	1591.0
10	TraesCS2A01G431500	chr2D	90.828	447	34	5	143	586	624268910	624269352	3.580000e-165	592.0
11	TraesCS2A01G431500	chr2D	88.866	485	41	6	2063	2535	541546806	541547289	6.000000e-163	584.0
12	TraesCS2A01G431500	chr2D	92.097	329	25	1	2535	2862	541547541	541547869	2.930000e-126	462.0
13	TraesCS2A01G431500	chr2D	81.186	590	68	19	2924	3510	541547877	541548426	6.390000e-118	435.0
14	TraesCS2A01G431500	chr2D	96.000	125	5	0	14	138	624268621	624268745	1.960000e-48	204.0
15	TraesCS2A01G431500	chr2D	92.029	138	8	1	4030	4164	541475776	541475913	1.530000e-44	191.0
16	TraesCS2A01G431500	chr3A	89.437	710	35	19	3182	3858	670995746	670996448	0.000000e+00	859.0
17	TraesCS2A01G431500	chr3A	88.999	709	39	20	3182	3858	190073627	190074328	0.000000e+00	841.0
18	TraesCS2A01G431500	chr3A	88.810	706	42	18	3182	3858	189428189	189427492	0.000000e+00	832.0
19	TraesCS2A01G431500	chr5B	89.422	709	36	19	3182	3858	343343315	343344016	0.000000e+00	857.0
20	TraesCS2A01G431500	chr6A	89.685	698	35	17	3192	3858	192012426	192011735	0.000000e+00	856.0
21	TraesCS2A01G431500	chr7B	88.983	708	39	19	3182	3858	677490515	677489816	0.000000e+00	839.0
22	TraesCS2A01G431500	chr4B	92.190	589	39	5	1	586	193972314	193971730	0.000000e+00	826.0
23	TraesCS2A01G431500	chr6B	88.434	709	43	19	3182	3858	67071718	67072419	0.000000e+00	819.0
24	TraesCS2A01G431500	chr6B	88.551	559	45	5	1	559	297544981	297545520	0.000000e+00	660.0
25	TraesCS2A01G431500	chr1A	90.196	51	3	2	4063	4111	580437464	580437414	9.660000e-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	TraesCS2A01G431500	chr2A	684887642	684891805	4163	False	7690.0	7690	100.00000	1	4164	1	chr2A.!!$F2	4163
1	TraesCS2A01G431500	chr2A	684907591	684910329	2738	False	1398.5	1596	86.16900	536	3172	2	chr2A.!!$F3	2636
2	TraesCS2A01G431500	chr2A	108550540	108551240	700	False	852.0	852	89.25000	3182	3858	1	chr2A.!!$F1	676
3	TraesCS2A01G431500	chr2B	646956217	646960410	4193	False	3205.5	5725	92.39800	1	4164	2	chr2B.!!$F1	4163
4	TraesCS2A01G431500	chr2B	646973091	646975912	2821	False	1432.5	1644	85.77650	536	3309	2	chr2B.!!$F2	2773
5	TraesCS2A01G431500	chr2D	541471893	541475913	4020	False	2955.5	5720	92.68550	1	4164	2	chr2D.!!$F1	4163
6	TraesCS2A01G431500	chr2D	541545199	541548426	3227	False	768.0	1591	87.21875	536	3510	4	chr2D.!!$F2	2974
7	TraesCS2A01G431500	chr2D	624268621	624269352	731	False	398.0	592	93.41400	14	586	2	chr2D.!!$F3	572
8	TraesCS2A01G431500	chr3A	670995746	670996448	702	False	859.0	859	89.43700	3182	3858	1	chr3A.!!$F2	676
9	TraesCS2A01G431500	chr3A	190073627	190074328	701	False	841.0	841	88.99900	3182	3858	1	chr3A.!!$F1	676
10	TraesCS2A01G431500	chr3A	189427492	189428189	697	True	832.0	832	88.81000	3182	3858	1	chr3A.!!$R1	676
11	TraesCS2A01G431500	chr5B	343343315	343344016	701	False	857.0	857	89.42200	3182	3858	1	chr5B.!!$F1	676
12	TraesCS2A01G431500	chr6A	192011735	192012426	691	True	856.0	856	89.68500	3192	3858	1	chr6A.!!$R1	666
13	TraesCS2A01G431500	chr7B	677489816	677490515	699	True	839.0	839	88.98300	3182	3858	1	chr7B.!!$R1	676
14	TraesCS2A01G431500	chr4B	193971730	193972314	584	True	826.0	826	92.19000	1	586	1	chr4B.!!$R1	585
15	TraesCS2A01G431500	chr6B	67071718	67072419	701	False	819.0	819	88.43400	3182	3858	1	chr6B.!!$F1	676
16	TraesCS2A01G431500	chr6B	297544981	297545520	539	False	660.0	660	88.55100	1	559	1	chr6B.!!$F2	558

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	Hairpin	End Stability	Orientation
265	426	0.684153	CCCCCAATCAATTCCGCAGT	60.684	55.000	0.00	0.00	4.40	F
318	479	2.110967	CCCTCACTGCTCCATTGCG	61.111	63.158	0.00	35.36	4.85	F
960	1146	2.159462	GCTTGATTACACTTCAGCTGGC	60.159	50.000	15.13	0.00	4.85	F
1457	1643	2.978278	CTCTCCCTCCAATGCTTCCTAT	59.022	50.000	0.00	0.00	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1991	2199	0.860203	CGCATTGCAACAGATGAGCG	60.860	55.000	0.00	5.69	37.91	5.03	R
2149	2453	6.014925	TGCTACATGTGGAACTAAGTGACTAA	60.015	38.462	14.15	0.00	38.04	2.24	R
2691	3283	1.095228	CATATGGTGTCACCCGTGCC	61.095	60.000	19.57	0.00	37.50	5.01	R
3233	3838	0.037734	ATCAAACCCAACCCGAGGTC	59.962	55.000	0.00	0.00	33.12	3.85	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
59	60	3.305110	CCCGCACAGTAATGAAACAAAC	58.695	45.455	0.00	0.00	0.00	2.93
70	71	3.665173	TGAAACAAACGCATTTTTGGC	57.335	38.095	7.21	0.00	40.25	4.52
140	301	8.355169	CAAGACATACATAAATGCCAGCTAAAT	58.645	33.333	0.00	0.00	0.00	1.40
141	302	8.469309	AGACATACATAAATGCCAGCTAAATT	57.531	30.769	0.00	0.00	0.00	1.82
234	395	4.095932	CCGCTCTCCTAAAATTAACCCAAC	59.904	45.833	0.00	0.00	0.00	3.77
265	426	0.684153	CCCCCAATCAATTCCGCAGT	60.684	55.000	0.00	0.00	0.00	4.40
315	476	2.207501	CTGCCCCTCACTGCTCCATT	62.208	60.000	0.00	0.00	0.00	3.16
318	479	2.110967	CCCTCACTGCTCCATTGCG	61.111	63.158	0.00	0.00	35.36	4.85
442	605	6.335471	TGATTGCATTGTCTTTTCATGACT	57.665	33.333	0.00	0.00	35.63	3.41
571	739	3.364565	GGAAACACAAATGTATGACGCGT	60.365	43.478	13.85	13.85	38.45	6.01
655	825	7.650504	TGCATCAATTTTCTAATTAGCTCATGC	59.349	33.333	7.67	12.66	32.75	4.06
706	880	8.601546	TGTAAAAGCCATTCATTTAAAATCCCT	58.398	29.630	0.00	0.00	0.00	4.20
729	909	7.226441	CCTTGGATGATCAGTATTATTGTGGA	58.774	38.462	0.09	0.00	0.00	4.02
730	910	7.173907	CCTTGGATGATCAGTATTATTGTGGAC	59.826	40.741	0.09	0.00	0.00	4.02
731	911	7.379059	TGGATGATCAGTATTATTGTGGACT	57.621	36.000	0.09	0.00	0.00	3.85
733	913	7.716560	TGGATGATCAGTATTATTGTGGACTTG	59.283	37.037	0.09	0.00	0.00	3.16
734	914	7.716998	GGATGATCAGTATTATTGTGGACTTGT	59.283	37.037	0.09	0.00	0.00	3.16
735	915	7.848223	TGATCAGTATTATTGTGGACTTGTG	57.152	36.000	0.00	0.00	0.00	3.33
736	916	6.823182	TGATCAGTATTATTGTGGACTTGTGG	59.177	38.462	0.00	0.00	0.00	4.17
737	917	6.121776	TCAGTATTATTGTGGACTTGTGGT	57.878	37.500	0.00	0.00	0.00	4.16
740	920	6.655003	CAGTATTATTGTGGACTTGTGGTTCT	59.345	38.462	0.00	0.00	0.00	3.01
742	922	8.380099	AGTATTATTGTGGACTTGTGGTTCTTA	58.620	33.333	0.00	0.00	0.00	2.10
743	923	6.870971	TTATTGTGGACTTGTGGTTCTTAC	57.129	37.500	0.00	0.00	0.00	2.34
744	924	4.497291	TTGTGGACTTGTGGTTCTTACT	57.503	40.909	0.00	0.00	0.00	2.24
745	925	4.497291	TGTGGACTTGTGGTTCTTACTT	57.503	40.909	0.00	0.00	0.00	2.24
746	926	5.617528	TGTGGACTTGTGGTTCTTACTTA	57.382	39.130	0.00	0.00	0.00	2.24
747	927	5.991861	TGTGGACTTGTGGTTCTTACTTAA	58.008	37.500	0.00	0.00	0.00	1.85
748	928	5.818857	TGTGGACTTGTGGTTCTTACTTAAC	59.181	40.000	0.00	0.00	0.00	2.01
749	929	5.818857	GTGGACTTGTGGTTCTTACTTAACA	59.181	40.000	0.00	0.00	0.00	2.41
750	930	6.485648	GTGGACTTGTGGTTCTTACTTAACAT	59.514	38.462	0.00	0.00	0.00	2.71
751	931	6.708949	TGGACTTGTGGTTCTTACTTAACATC	59.291	38.462	0.00	0.00	0.00	3.06
752	932	6.708949	GGACTTGTGGTTCTTACTTAACATCA	59.291	38.462	0.00	0.00	0.00	3.07
753	933	7.227910	GGACTTGTGGTTCTTACTTAACATCAA	59.772	37.037	0.00	0.00	0.00	2.57
754	934	8.691661	ACTTGTGGTTCTTACTTAACATCAAT	57.308	30.769	0.00	0.00	0.00	2.57
812	993	9.553064	AAGTGATTATCTCTTGGTCACATATTC	57.447	33.333	8.49	0.00	41.12	1.75
825	1006	6.819146	TGGTCACATATTCGCAAAATGTACTA	59.181	34.615	0.00	0.00	32.70	1.82
960	1146	2.159462	GCTTGATTACACTTCAGCTGGC	60.159	50.000	15.13	0.00	0.00	4.85
1110	1296	4.391683	TGGATCCAATGTGATGCCATAT	57.608	40.909	13.46	0.00	32.61	1.78
1227	1413	4.702131	CCTTCGAGAAATCCTTCATTTGGT	59.298	41.667	0.00	0.00	34.60	3.67
1457	1643	2.978278	CTCTCCCTCCAATGCTTCCTAT	59.022	50.000	0.00	0.00	0.00	2.57
1991	2199	5.521906	TCATCCTGTTCTACTGAGCATAC	57.478	43.478	0.00	0.00	33.10	2.39
2056	2308	9.924010	AACATAGTTGAGTACTATAAGAGTCCT	57.076	33.333	0.00	0.00	46.10	3.85
2077	2380	6.258068	GTCCTAGTCTGCACATAATTACCAAC	59.742	42.308	0.00	0.00	0.00	3.77
2079	2382	5.880054	AGTCTGCACATAATTACCAACAC	57.120	39.130	0.00	0.00	0.00	3.32
2101	2404	8.181904	ACACATCACCAAATTTCTGTATTTCT	57.818	30.769	0.00	0.00	0.00	2.52
2133	2437	8.938801	ATTCATGGTATAATTTGCATGGTAGA	57.061	30.769	0.00	0.00	0.00	2.59
2200	2505	4.200092	ACTCCTTGTCAGTTTTTGGAGAC	58.800	43.478	12.97	0.00	42.48	3.36
2472	2791	4.523083	ACAGCAGAGGTGAGTTTTGTTTA	58.477	39.130	2.94	0.00	34.87	2.01
2478	2799	7.014615	AGCAGAGGTGAGTTTTGTTTATTCATT	59.985	33.333	0.00	0.00	0.00	2.57
2483	2804	9.131791	AGGTGAGTTTTGTTTATTCATTAGTGT	57.868	29.630	0.00	0.00	0.00	3.55
2484	2805	9.180678	GGTGAGTTTTGTTTATTCATTAGTGTG	57.819	33.333	0.00	0.00	0.00	3.82
2555	3128	9.965824	CCAGTATAAAGATGTGTTGAAAAACTT	57.034	29.630	0.00	0.00	0.00	2.66
2567	3141	7.221838	TGTGTTGAAAAACTTTACTAATGCAGC	59.778	33.333	0.00	0.00	0.00	5.25
2652	3244	7.218963	GCGGTTGATTTCTACATTTCAGATTTC	59.781	37.037	0.00	0.00	0.00	2.17
2691	3283	0.764890	TGGTGAGAACAGGAAGTGGG	59.235	55.000	0.00	0.00	0.00	4.61
2712	3304	1.948611	GCACGGGTGACACCATATGTT	60.949	52.381	25.75	0.32	43.56	2.71
2772	3364	5.511386	AGGACATGTCTCCTGAATTTCTT	57.489	39.130	24.50	0.00	39.40	2.52
2930	3522	4.240096	GGAAGATGTGTGCCAAAAAGATG	58.760	43.478	0.00	0.00	0.00	2.90
3127	3722	0.247736	AAGGACTGGTCGTGAGATGC	59.752	55.000	0.00	0.00	45.19	3.91
3229	3834	2.359900	GAATGTTGGCCTGTCGAATCT	58.640	47.619	3.32	0.00	0.00	2.40
3230	3835	2.496899	ATGTTGGCCTGTCGAATCTT	57.503	45.000	3.32	0.00	0.00	2.40
3231	3836	2.270352	TGTTGGCCTGTCGAATCTTT	57.730	45.000	3.32	0.00	0.00	2.52
3232	3837	2.582052	TGTTGGCCTGTCGAATCTTTT	58.418	42.857	3.32	0.00	0.00	2.27
3233	3838	2.293122	TGTTGGCCTGTCGAATCTTTTG	59.707	45.455	3.32	0.00	0.00	2.44
3234	3839	2.552315	GTTGGCCTGTCGAATCTTTTGA	59.448	45.455	3.32	0.00	0.00	2.69
3235	3840	2.151202	TGGCCTGTCGAATCTTTTGAC	58.849	47.619	3.32	1.43	43.09	3.18
3236	3841	1.468914	GGCCTGTCGAATCTTTTGACC	59.531	52.381	0.00	0.00	42.30	4.02
3237	3842	2.427506	GCCTGTCGAATCTTTTGACCT	58.572	47.619	5.41	0.00	42.30	3.85
3238	3843	2.416893	GCCTGTCGAATCTTTTGACCTC	59.583	50.000	5.41	0.00	42.30	3.85
3274	3879	9.475620	TTGATTGGTAGAGTATTAGAACTGAGA	57.524	33.333	0.00	0.00	0.00	3.27
3562	4172	4.462132	TGTATCCATGTTGTTGGTCCATTG	59.538	41.667	0.00	0.00	38.01	2.82
3570	4180	2.538222	TGTTGGTCCATTGCATCCATT	58.462	42.857	0.00	0.00	0.00	3.16
3582	4192	4.389890	TGCATCCATTATGTCTTTTGGC	57.610	40.909	0.00	0.00	37.93	4.52
3629	4275	2.367241	TCTTGCACTGCTGTTACCTGTA	59.633	45.455	1.98	0.00	0.00	2.74
3653	4300	5.591099	ACATTTCTGTGTCCACATTGTTTC	58.409	37.500	0.00	0.00	41.01	2.78
3726	4378	7.573710	TGTGACTTGCTTAATTAGGATATGGT	58.426	34.615	0.00	0.00	0.00	3.55
3821	4488	3.017048	TGTTTATGCCATTGGGAGAGG	57.983	47.619	4.53	0.00	35.59	3.69
3835	4502	4.370776	TGGGAGAGGAATTTACAGGATGA	58.629	43.478	0.00	0.00	39.69	2.92
3878	4545	7.918076	TGTTGAGATTGAGATTTAGTTAGGGT	58.082	34.615	0.00	0.00	0.00	4.34
3908	4575	3.895041	ACCCAAAACATAAGGTGGTGAAG	59.105	43.478	0.00	0.00	0.00	3.02
3933	4600	4.867047	CACACTGTGCTAGGAAATGTAGAG	59.133	45.833	7.90	0.00	0.00	2.43
3935	4602	4.160439	CACTGTGCTAGGAAATGTAGAGGA	59.840	45.833	0.00	0.00	0.00	3.71
3958	4625	0.388520	CCGATCTGCACGTGTCTTGA	60.389	55.000	18.38	10.46	0.00	3.02

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
70	71	4.142600	GCTACAGATTTTACCTGGCACTTG	60.143	45.833	0.00	0.00	36.03	3.16
140	301	6.523840	TCAGCTATCACACACATGCATATAA	58.476	36.000	0.00	0.00	0.00	0.98
141	302	6.100404	TCAGCTATCACACACATGCATATA	57.900	37.500	0.00	0.00	0.00	0.86
234	395	2.024080	TGATTGGGGGAGAAAGAATGGG	60.024	50.000	0.00	0.00	0.00	4.00
265	426	4.079253	GGTCCAAAGCAAGGTGAAGAATA	58.921	43.478	0.00	0.00	0.00	1.75
318	479	2.512515	GTGAGGGATGAGTGGCGC	60.513	66.667	0.00	0.00	0.00	6.53
442	605	4.702612	TGACACTGGAGTAAAAACTTGCAA	59.297	37.500	0.00	0.00	0.00	4.08
512	676	3.558418	TCAGACGACTTAACAAGCAAACC	59.442	43.478	0.00	0.00	0.00	3.27
571	739	9.408648	AGAACCAACTCTTCAGAGAAAATTTAA	57.591	29.630	10.93	0.00	44.74	1.52
655	825	7.406031	TCAGAGTGGGTTGACTATAGTAAAG	57.594	40.000	5.09	0.00	0.00	1.85
706	880	7.805163	AGTCCACAATAATACTGATCATCCAA	58.195	34.615	0.00	0.00	0.00	3.53
729	909	8.691661	ATTGATGTTAAGTAAGAACCACAAGT	57.308	30.769	0.00	0.00	30.46	3.16
730	910	9.965824	AAATTGATGTTAAGTAAGAACCACAAG	57.034	29.630	0.00	0.00	30.46	3.16
1227	1413	2.149383	AGAGTTGGAGGCAGCACCA	61.149	57.895	6.48	6.48	43.14	4.17
1457	1643	2.171237	CCAGATGTGATAAGCCCAGTCA	59.829	50.000	0.00	0.00	0.00	3.41
1962	2151	4.021104	TCAGTAGAACAGGATGAACACTGG	60.021	45.833	0.00	0.00	39.69	4.00
1967	2156	4.193826	TGCTCAGTAGAACAGGATGAAC	57.806	45.455	0.00	0.00	39.69	3.18
1991	2199	0.860203	CGCATTGCAACAGATGAGCG	60.860	55.000	0.00	5.69	37.91	5.03
2048	2300	6.552445	AATTATGTGCAGACTAGGACTCTT	57.448	37.500	0.00	0.00	0.00	2.85
2056	2308	6.468543	TGTGTTGGTAATTATGTGCAGACTA	58.531	36.000	0.00	0.00	0.00	2.59
2077	2380	9.480053	AAAGAAATACAGAAATTTGGTGATGTG	57.520	29.630	0.00	0.00	0.00	3.21
2145	2449	7.280356	ACATGTGGAACTAAGTGACTAAAAGT	58.720	34.615	0.00	0.00	38.04	2.66
2149	2453	6.014925	TGCTACATGTGGAACTAAGTGACTAA	60.015	38.462	14.15	0.00	38.04	2.24
2200	2505	7.062956	TGTCAACTTGTAGATTAATGTACGCAG	59.937	37.037	15.69	15.39	29.86	5.18
2472	2791	9.793252	GCATCATTTTTCTACACACTAATGAAT	57.207	29.630	0.00	0.00	36.11	2.57
2631	3223	8.868522	ACTGGAAATCTGAAATGTAGAAATCA	57.131	30.769	0.00	0.00	0.00	2.57
2652	3244	2.125350	GCTCGAAGCCCAGACTGG	60.125	66.667	15.15	15.15	34.48	4.00
2691	3283	1.095228	CATATGGTGTCACCCGTGCC	61.095	60.000	19.57	0.00	37.50	5.01
2712	3304	5.898174	ACGTCAATTACTACCGATTCATCA	58.102	37.500	0.00	0.00	0.00	3.07
2772	3364	3.383825	GGTTCCTTTCTCGTAGCCATCTA	59.616	47.826	0.00	0.00	0.00	1.98
2906	3498	1.974265	TTTTGGCACACATCTTCCGA	58.026	45.000	0.00	0.00	39.29	4.55
2908	3500	4.240096	CATCTTTTTGGCACACATCTTCC	58.760	43.478	0.00	0.00	39.29	3.46
2952	3546	4.469586	TGTATCTGCAGGTACAAGATGGAA	59.530	41.667	32.60	10.94	0.00	3.53
2955	3550	5.604565	TGATGTATCTGCAGGTACAAGATG	58.395	41.667	36.51	0.00	34.77	2.90
3127	3722	5.595885	ACATCCATGTCTGAAGTATCTTCG	58.404	41.667	5.28	1.58	35.87	3.79
3229	3834	0.259356	AACCCAACCCGAGGTCAAAA	59.741	50.000	0.00	0.00	33.12	2.44
3230	3835	0.259356	AAACCCAACCCGAGGTCAAA	59.741	50.000	0.00	0.00	33.12	2.69
3231	3836	0.466555	CAAACCCAACCCGAGGTCAA	60.467	55.000	0.00	0.00	33.12	3.18
3232	3837	1.149627	CAAACCCAACCCGAGGTCA	59.850	57.895	0.00	0.00	33.12	4.02
3233	3838	0.037734	ATCAAACCCAACCCGAGGTC	59.962	55.000	0.00	0.00	33.12	3.85
3234	3839	0.481128	AATCAAACCCAACCCGAGGT	59.519	50.000	0.00	0.00	37.65	3.85
3235	3840	0.887933	CAATCAAACCCAACCCGAGG	59.112	55.000	0.00	0.00	0.00	4.63
3236	3841	0.887933	CCAATCAAACCCAACCCGAG	59.112	55.000	0.00	0.00	0.00	4.63
3237	3842	0.186386	ACCAATCAAACCCAACCCGA	59.814	50.000	0.00	0.00	0.00	5.14
3238	3843	1.816224	CTACCAATCAAACCCAACCCG	59.184	52.381	0.00	0.00	0.00	5.28
3562	4172	3.385755	AGGCCAAAAGACATAATGGATGC	59.614	43.478	5.01	0.00	39.39	3.91
3570	4180	5.009610	GTCTTCAAACAGGCCAAAAGACATA	59.990	40.000	5.01	0.00	41.27	2.29
3582	4192	1.000607	TCGACCGAGTCTTCAAACAGG	60.001	52.381	3.15	0.00	0.00	4.00
3629	4275	5.596836	AACAATGTGGACACAGAAATGTT	57.403	34.783	11.13	14.27	45.48	2.71
3778	4433	6.013725	ACAATGTTTACACAGAGAGGGTGATA	60.014	38.462	0.00	0.00	39.53	2.15
3785	4440	7.023575	GGCATAAACAATGTTTACACAGAGAG	58.976	38.462	19.36	5.32	37.93	3.20
3878	4545	6.893005	CCACCTTATGTTTTGGGTAATTAGGA	59.107	38.462	0.00	0.00	0.00	2.94
3908	4575	3.403038	ACATTTCCTAGCACAGTGTGTC	58.597	45.455	23.73	15.79	35.75	3.67
3918	4585	3.493524	GGCTGTCCTCTACATTTCCTAGC	60.494	52.174	0.00	0.00	37.50	3.42
3921	4588	1.482593	CGGCTGTCCTCTACATTTCCT	59.517	52.381	0.00	0.00	37.50	3.36
3933	4600	2.887568	CGTGCAGATCGGCTGTCC	60.888	66.667	18.74	3.79	46.62	4.02
3935	4602	2.433145	CACGTGCAGATCGGCTGT	60.433	61.111	18.74	13.78	46.62	4.40
3967	4634	4.338400	GGATAATCACTTACAGTTTGGCCC	59.662	45.833	0.00	0.00	0.00	5.80
3980	4647	8.960591	CAACCAACTCTAAAATGGATAATCACT	58.039	33.333	0.00	0.00	37.66	3.41
3981	4648	8.739972	ACAACCAACTCTAAAATGGATAATCAC	58.260	33.333	0.00	0.00	37.66	3.06
3986	4653	9.042450	TCTCTACAACCAACTCTAAAATGGATA	57.958	33.333	0.00	0.00	37.66	2.59
3999	4666	4.459337	CCCCTTTTCATCTCTACAACCAAC	59.541	45.833	0.00	0.00	0.00	3.77
4061	4728	3.425659	AGCCCAAGAAATCCTCTGTTTC	58.574	45.455	0.00	0.00	33.37	2.78

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.