AutoCloner

Multiple sequence alignment - TraesCS2A01G359900

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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	TraesCS2A01G359900	chr2A	100.000	2563	0	0	1294	3856	603688624	603686062	0.000000e+00	4734
1	TraesCS2A01G359900	chr2A	100.000	1011	0	0	1	1011	603689917	603688907	0.000000e+00	1868
2	TraesCS2A01G359900	chr2A	96.552	116	4	0	1	116	187271286	187271171	3.930000e-45	193
3	TraesCS2A01G359900	chr2A	94.444	126	2	4	1	125	553339155	553339034	5.090000e-44	189
4	TraesCS2A01G359900	chr2B	95.483	2546	92	10	1328	3856	542356400	542353861	0.000000e+00	4043
5	TraesCS2A01G359900	chr2B	89.595	519	46	4	109	620	206293135	206292618	0.000000e+00	652
6	TraesCS2A01G359900	chr2B	86.126	382	35	10	631	1011	542357074	542356710	2.790000e-106	396
7	TraesCS2A01G359900	chr2D	95.304	2534	85	14	1346	3856	460779139	460776617	0.000000e+00	3989
8	TraesCS2A01G359900	chr2D	86.648	352	16	8	668	1011	460779795	460779467	1.020000e-95	361
9	TraesCS2A01G359900	chrUn	97.696	434	6	3	2599	3032	476327128	476327557	0.000000e+00	743
10	TraesCS2A01G359900	chrUn	98.387	62	1	0	2599	2660	305036885	305036824	4.070000e-20	110
11	TraesCS2A01G359900	chr5D	91.506	518	39	4	109	624	495795706	495796220	0.000000e+00	708
12	TraesCS2A01G359900	chr5D	93.023	129	4	4	1	128	375557788	375557664	2.370000e-42	183
13	TraesCS2A01G359900	chr7B	91.033	513	41	3	109	616	549933894	549934406	0.000000e+00	688
14	TraesCS2A01G359900	chr6D	90.020	511	46	3	109	616	944058	944566	0.000000e+00	656
15	TraesCS2A01G359900	chr6D	89.587	509	50	3	109	616	430885001	430885507	0.000000e+00	643
16	TraesCS2A01G359900	chr1D	89.729	516	45	8	109	619	139134754	139135266	0.000000e+00	652
17	TraesCS2A01G359900	chr1A	89.628	511	49	3	109	616	510459505	510460014	0.000000e+00	647
18	TraesCS2A01G359900	chr7D	89.784	509	45	6	114	619	207198270	207197766	0.000000e+00	645
19	TraesCS2A01G359900	chr6B	89.723	506	46	4	116	616	531787140	531787644	3.250000e-180	641
20	TraesCS2A01G359900	chr3D	97.391	115	3	0	1	115	177329870	177329984	3.040000e-46	196
21	TraesCS2A01G359900	chr5A	95.122	123	6	0	1	123	514146008	514146130	1.090000e-45	195
22	TraesCS2A01G359900	chr4D	94.400	125	6	1	1	124	192783020	192783144	1.410000e-44	191
23	TraesCS2A01G359900	chr4D	95.000	120	6	0	1	120	313579222	313579103	5.090000e-44	189
24	TraesCS2A01G359900	chr4D	97.170	106	3	0	1	106	57660920	57661025	3.060000e-41	180
25	TraesCS2A01G359900	chr4A	93.651	126	7	1	1	125	173903781	173903906	1.830000e-43	187

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	TraesCS2A01G359900	chr2A	603686062	603689917	3855	True	3301.0	4734	100.0000	1	3856	2	chr2A.!!$R3	3855
1	TraesCS2A01G359900	chr2B	542353861	542357074	3213	True	2219.5	4043	90.8045	631	3856	2	chr2B.!!$R2	3225
2	TraesCS2A01G359900	chr2B	206292618	206293135	517	True	652.0	652	89.5950	109	620	1	chr2B.!!$R1	511
3	TraesCS2A01G359900	chr2D	460776617	460779795	3178	True	2175.0	3989	90.9760	668	3856	2	chr2D.!!$R1	3188
4	TraesCS2A01G359900	chr5D	495795706	495796220	514	False	708.0	708	91.5060	109	624	1	chr5D.!!$F1	515
5	TraesCS2A01G359900	chr7B	549933894	549934406	512	False	688.0	688	91.0330	109	616	1	chr7B.!!$F1	507
6	TraesCS2A01G359900	chr6D	944058	944566	508	False	656.0	656	90.0200	109	616	1	chr6D.!!$F1	507
7	TraesCS2A01G359900	chr6D	430885001	430885507	506	False	643.0	643	89.5870	109	616	1	chr6D.!!$F2	507
8	TraesCS2A01G359900	chr1D	139134754	139135266	512	False	652.0	652	89.7290	109	619	1	chr1D.!!$F1	510
9	TraesCS2A01G359900	chr1A	510459505	510460014	509	False	647.0	647	89.6280	109	616	1	chr1A.!!$F1	507
10	TraesCS2A01G359900	chr7D	207197766	207198270	504	True	645.0	645	89.7840	114	619	1	chr7D.!!$R1	505
11	TraesCS2A01G359900	chr6B	531787140	531787644	504	False	641.0	641	89.7230	116	616	1	chr6B.!!$F1	500

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
935	968	0.110104	CAGGCAGATCCATCCTTCCC	59.89	60.0	0.0	0.0	37.29	3.97	F
1922	1961	0.909610	AGGACATCCTCTTCCCGCAA	60.91	55.0	0.0	0.0	44.77	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2000	2039	0.179127	TCTTGAGCGAGCGGAGATTG	60.179	55.000	0.0	0.0	0.00	2.67	R
3053	3095	1.542915	GCATGTTGATCACCAGCAGTT	59.457	47.619	0.0	0.0	39.36	3.16	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
28	29	8.514330	AATTTCCGGTTAATACAATTCTAGCA	57.486	30.769	0.00	0.00	0.00	3.49
29	30	8.691661	ATTTCCGGTTAATACAATTCTAGCAT	57.308	30.769	0.00	0.00	0.00	3.79
30	31	7.490962	TTCCGGTTAATACAATTCTAGCATG	57.509	36.000	0.00	0.00	0.00	4.06
31	32	6.822442	TCCGGTTAATACAATTCTAGCATGA	58.178	36.000	0.00	0.00	0.00	3.07
32	33	7.276658	TCCGGTTAATACAATTCTAGCATGAA	58.723	34.615	0.00	0.00	0.00	2.57
33	34	7.936847	TCCGGTTAATACAATTCTAGCATGAAT	59.063	33.333	0.00	0.00	38.19	2.57
34	35	9.214957	CCGGTTAATACAATTCTAGCATGAATA	57.785	33.333	0.00	0.00	35.82	1.75
93	94	7.881775	AACAACTTTATTATTGCCTCTAGGG	57.118	36.000	0.00	0.00	35.18	3.53
106	107	3.931578	CCTCTAGGGCATATTTCCTTCG	58.068	50.000	0.00	0.00	34.75	3.79
107	108	3.307059	CCTCTAGGGCATATTTCCTTCGG	60.307	52.174	0.00	0.00	34.75	4.30
391	405	2.359900	GACGCACCAGATTTCCATCTT	58.640	47.619	0.00	0.00	37.71	2.40
452	469	4.731612	CTCGCGCCACACTGAGCT	62.732	66.667	0.00	0.00	0.00	4.09
492	509	2.501223	ATCCGAGCGTTTCCAGCGAA	62.501	55.000	0.00	0.00	40.04	4.70
503	520	2.659016	CAGCGAACCAGGCTCTGA	59.341	61.111	4.00	0.00	39.08	3.27
504	521	1.004560	CAGCGAACCAGGCTCTGAA	60.005	57.895	4.00	0.00	39.08	3.02
552	569	4.099419	GGTCCAACAGAAAAACCAGACAAT	59.901	41.667	0.00	0.00	0.00	2.71
557	574	6.762661	CCAACAGAAAAACCAGACAATCAAAT	59.237	34.615	0.00	0.00	0.00	2.32
563	580	3.018423	ACCAGACAATCAAATAGGCCC	57.982	47.619	0.00	0.00	0.00	5.80
567	584	4.467438	CCAGACAATCAAATAGGCCCTTTT	59.533	41.667	0.00	0.00	0.00	2.27
620	637	1.269831	GGCAACCAAACACGCCATAAA	60.270	47.619	0.00	0.00	44.25	1.40
624	641	4.302455	CAACCAAACACGCCATAAATGAA	58.698	39.130	0.00	0.00	0.00	2.57
625	642	4.799564	ACCAAACACGCCATAAATGAAT	57.200	36.364	0.00	0.00	0.00	2.57
626	643	4.493547	ACCAAACACGCCATAAATGAATG	58.506	39.130	0.00	0.00	0.00	2.67
627	644	4.219507	ACCAAACACGCCATAAATGAATGA	59.780	37.500	0.00	0.00	0.00	2.57
628	645	5.105392	ACCAAACACGCCATAAATGAATGAT	60.105	36.000	0.00	0.00	0.00	2.45
629	646	5.232626	CCAAACACGCCATAAATGAATGATG	59.767	40.000	0.00	0.00	0.00	3.07
649	666	2.182825	GTAAGCGTGACATACCGTCTG	58.817	52.381	0.00	0.00	45.60	3.51
660	677	5.833667	TGACATACCGTCTGGAGAGAAATAT	59.166	40.000	0.00	0.00	45.60	1.28
661	678	6.323996	TGACATACCGTCTGGAGAGAAATATT	59.676	38.462	0.00	0.00	45.60	1.28
662	679	7.504574	TGACATACCGTCTGGAGAGAAATATTA	59.495	37.037	0.00	0.00	45.60	0.98
663	680	7.659186	ACATACCGTCTGGAGAGAAATATTAC	58.341	38.462	0.00	0.00	39.21	1.89
664	681	7.506261	ACATACCGTCTGGAGAGAAATATTACT	59.494	37.037	0.00	0.00	39.21	2.24
665	682	6.793505	ACCGTCTGGAGAGAAATATTACTT	57.206	37.500	0.00	0.00	39.21	2.24
666	683	7.184067	ACCGTCTGGAGAGAAATATTACTTT	57.816	36.000	0.00	0.00	39.21	2.66
669	686	7.764443	CCGTCTGGAGAGAAATATTACTTTGAA	59.236	37.037	0.00	0.00	37.49	2.69
686	703	7.220599	ACTTTGAACACAAATGAAAATCGTG	57.779	32.000	0.00	0.00	33.86	4.35
694	711	6.587990	ACACAAATGAAAATCGTGAACAAACA	59.412	30.769	0.00	0.00	0.00	2.83
728	745	1.334160	CCAACCCAACCAACTAACCC	58.666	55.000	0.00	0.00	0.00	4.11
738	755	0.898326	CAACTAACCCAACCCAGCCC	60.898	60.000	0.00	0.00	0.00	5.19
780	804	0.250467	ATGAAGCACCTGCAGAACGT	60.250	50.000	17.39	0.92	45.16	3.99
824	849	0.462047	CCCCATTTTCCTCCGACTCG	60.462	60.000	0.00	0.00	0.00	4.18
845	878	3.756117	GGAACAACCAAAGGAGTCATCT	58.244	45.455	0.00	0.00	38.79	2.90
856	889	0.825840	GAGTCATCTCCTCCCCTCCG	60.826	65.000	0.00	0.00	34.87	4.63
935	968	0.110104	CAGGCAGATCCATCCTTCCC	59.890	60.000	0.00	0.00	37.29	3.97
1634	1673	2.338984	GACAGCCTCAACGACGGT	59.661	61.111	0.00	0.00	0.00	4.83
1921	1960	1.306141	AGGACATCCTCTTCCCGCA	60.306	57.895	0.00	0.00	44.77	5.69
1922	1961	0.909610	AGGACATCCTCTTCCCGCAA	60.910	55.000	0.00	0.00	44.77	4.85
2000	2039	3.878519	CTCGTCTCGTCCTCGCCC	61.879	72.222	0.00	0.00	36.96	6.13
2087	2126	4.803426	CGTGCTCCTGGCCTCGTC	62.803	72.222	3.32	0.00	40.92	4.20
2197	2236	1.224315	CCCCTGAATGCACCGATGA	59.776	57.895	0.00	0.00	0.00	2.92
2204	2243	1.002033	GAATGCACCGATGAAGGCATC	60.002	52.381	0.00	0.00	45.52	3.91
2417	2456	2.732094	CTTGCGCTTTGTGGCTGC	60.732	61.111	9.73	0.00	34.35	5.25
2507	2546	2.125106	GGATGCCCGGTCACAGAC	60.125	66.667	0.00	0.00	0.00	3.51
2579	2618	1.374758	GAAGAGGTGCCGTGGAGTG	60.375	63.158	0.00	0.00	0.00	3.51
2834	2873	3.119101	TGTCGGCACTTAGAAGGAGATTC	60.119	47.826	0.00	0.00	38.28	2.52
2869	2910	0.451783	GCGTGATGTGGGATGGAAAC	59.548	55.000	0.00	0.00	0.00	2.78
2870	2911	1.094785	CGTGATGTGGGATGGAAACC	58.905	55.000	0.00	0.00	0.00	3.27
2986	3027	8.846211	CCATTATGGATAATTCCGTGTTTTACT	58.154	33.333	5.05	0.00	45.89	2.24
3017	3058	6.947733	AGCTAATAGCATCATCAGTAGTCTCT	59.052	38.462	15.28	0.00	45.56	3.10
3053	3095	8.382405	TGATTTTACCTTGCTATATGGCATAGA	58.618	33.333	15.06	7.53	42.09	1.98
3130	3172	2.260247	GCATCAAGCTGCAACTCCA	58.740	52.632	1.02	0.00	41.87	3.86
3194	3236	6.357240	CACTGTCGAACACATACATATAGTCG	59.643	42.308	0.00	0.00	33.23	4.18
3227	3269	1.864711	CAAACACTGTCGATTGTCGGT	59.135	47.619	0.00	0.00	40.88	4.69
3255	3297	0.531657	TTGGCACATGCTATGCAACC	59.468	50.000	8.81	0.00	45.27	3.77
3310	3369	8.627403	TGCAGAATTGAGATTTGATATCTTTCC	58.373	33.333	3.98	0.00	0.00	3.13
3361	3420	4.458989	TGTCCAACTTGTCATCCATAAAGC	59.541	41.667	0.00	0.00	0.00	3.51
3449	3508	9.498176	TTTCCTGTTGTTACTTATAAAGGTCTC	57.502	33.333	0.00	0.00	0.00	3.36
3459	3518	5.533903	ACTTATAAAGGTCTCGGATAGCGAA	59.466	40.000	0.00	0.00	0.00	4.70
3579	3638	4.614555	TTACGCTGGCATGTTAATTGAG	57.385	40.909	0.00	0.00	0.00	3.02
3604	3663	7.011763	AGTCGTCATCTTAACCAATTCATGATG	59.988	37.037	0.00	0.00	33.35	3.07
3608	3667	7.284034	GTCATCTTAACCAATTCATGATGACCT	59.716	37.037	17.31	0.00	46.27	3.85
3696	3757	2.111669	CTGTGCCTGTGCCTGTCA	59.888	61.111	0.00	0.00	36.33	3.58
3765	3826	8.614469	TTGTTGTCATATCACTCATAACAACA	57.386	30.769	12.58	12.58	42.15	3.33
3792	3858	6.204688	TGTTGGTGCTGAGAATTAACTTGTAG	59.795	38.462	0.00	0.00	0.00	2.74
3802	3868	8.075574	TGAGAATTAACTTGTAGCAAATGTGTG	58.924	33.333	0.00	0.00	0.00	3.82
3803	3869	7.940850	AGAATTAACTTGTAGCAAATGTGTGT	58.059	30.769	0.00	0.00	0.00	3.72
3808	3874	2.827652	TGTAGCAAATGTGTGTCACGA	58.172	42.857	0.00	0.00	37.14	4.35
3809	3875	3.198872	TGTAGCAAATGTGTGTCACGAA	58.801	40.909	0.00	0.00	37.14	3.85
3816	3882	5.457148	GCAAATGTGTGTCACGAAACATTTA	59.543	36.000	22.56	0.00	46.28	1.40
3817	3883	6.344936	GCAAATGTGTGTCACGAAACATTTAG	60.345	38.462	22.56	18.76	46.28	1.85
3833	3899	4.389077	ACATTTAGAAGTGCGCTTGTAGAC	59.611	41.667	19.04	2.04	32.98	2.59

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
3	4	8.514330	TGCTAGAATTGTATTAACCGGAAATT	57.486	30.769	9.46	0.00	0.00	1.82
5	6	7.771361	TCATGCTAGAATTGTATTAACCGGAAA	59.229	33.333	9.46	1.61	0.00	3.13
6	7	7.276658	TCATGCTAGAATTGTATTAACCGGAA	58.723	34.615	9.46	0.00	0.00	4.30
7	8	6.822442	TCATGCTAGAATTGTATTAACCGGA	58.178	36.000	9.46	0.00	0.00	5.14
8	9	7.490962	TTCATGCTAGAATTGTATTAACCGG	57.509	36.000	0.00	0.00	0.00	5.28
67	68	9.574516	CCCTAGAGGCAATAATAAAGTTGTTAT	57.425	33.333	0.00	0.00	0.00	1.89
68	69	8.974060	CCCTAGAGGCAATAATAAAGTTGTTA	57.026	34.615	0.00	0.00	0.00	2.41
69	70	7.881775	CCCTAGAGGCAATAATAAAGTTGTT	57.118	36.000	0.00	0.00	0.00	2.83
85	86	3.931578	CGAAGGAAATATGCCCTAGAGG	58.068	50.000	0.00	0.00	39.47	3.69
102	103	3.125316	CCTTTGTTAGCTTAGTGCCGAAG	59.875	47.826	0.00	0.00	44.23	3.79
103	104	3.071479	CCTTTGTTAGCTTAGTGCCGAA	58.929	45.455	0.00	0.00	44.23	4.30
104	105	2.614481	CCCTTTGTTAGCTTAGTGCCGA	60.614	50.000	0.00	0.00	44.23	5.54
105	106	1.737793	CCCTTTGTTAGCTTAGTGCCG	59.262	52.381	0.00	0.00	44.23	5.69
106	107	2.092323	CCCCTTTGTTAGCTTAGTGCC	58.908	52.381	0.00	0.00	44.23	5.01
107	108	2.092323	CCCCCTTTGTTAGCTTAGTGC	58.908	52.381	0.00	0.00	43.29	4.40
178	181	0.811616	GTCGGCCTAATCTGTGCCAG	60.812	60.000	0.00	0.00	45.63	4.85
253	264	4.727475	CGATTTCAGATCTGCGCTATAGA	58.273	43.478	18.36	3.10	0.00	1.98
290	301	4.226168	CCCTTTCTTCCCTACTGTCTCATT	59.774	45.833	0.00	0.00	0.00	2.57
291	302	3.777522	CCCTTTCTTCCCTACTGTCTCAT	59.222	47.826	0.00	0.00	0.00	2.90
296	307	1.670059	CCCCCTTTCTTCCCTACTGT	58.330	55.000	0.00	0.00	0.00	3.55
452	469	2.317609	GCAGTTTCTCGCGAGCCAA	61.318	57.895	30.97	21.81	0.00	4.52
492	509	0.475906	AAAGCAGTTCAGAGCCTGGT	59.524	50.000	0.00	0.00	40.89	4.00
503	520	1.510480	GCACGCTCCTCAAAGCAGTT	61.510	55.000	0.00	0.00	42.62	3.16
504	521	1.963338	GCACGCTCCTCAAAGCAGT	60.963	57.895	0.00	0.00	42.62	4.40
531	548	4.952957	TGATTGTCTGGTTTTTCTGTTGGA	59.047	37.500	0.00	0.00	0.00	3.53
552	569	4.261801	CGAGAAGAAAAGGGCCTATTTGA	58.738	43.478	6.41	0.00	0.00	2.69
557	574	0.108329	CGCGAGAAGAAAAGGGCCTA	60.108	55.000	6.41	0.00	0.00	3.93
563	580	2.778679	CCCGCGCGAGAAGAAAAG	59.221	61.111	34.63	10.97	0.00	2.27
616	633	7.552458	TGTCACGCTTACATCATTCATTTAT	57.448	32.000	0.00	0.00	0.00	1.40
620	637	5.466728	GGTATGTCACGCTTACATCATTCAT	59.533	40.000	1.59	0.00	38.49	2.57
624	641	3.181479	ACGGTATGTCACGCTTACATCAT	60.181	43.478	1.59	0.00	38.49	2.45
625	642	2.164827	ACGGTATGTCACGCTTACATCA	59.835	45.455	1.59	0.00	38.49	3.07
626	643	2.805845	ACGGTATGTCACGCTTACATC	58.194	47.619	1.59	0.00	38.49	3.06
627	644	2.953466	ACGGTATGTCACGCTTACAT	57.047	45.000	3.73	3.73	40.57	2.29
660	677	8.802856	CACGATTTTCATTTGTGTTCAAAGTAA	58.197	29.630	0.00	0.00	45.01	2.24
661	678	8.184848	TCACGATTTTCATTTGTGTTCAAAGTA	58.815	29.630	0.00	0.00	45.01	2.24
662	679	7.032580	TCACGATTTTCATTTGTGTTCAAAGT	58.967	30.769	0.00	0.00	45.01	2.66
663	680	7.448588	TCACGATTTTCATTTGTGTTCAAAG	57.551	32.000	0.00	0.00	45.01	2.77
664	681	7.329471	TGTTCACGATTTTCATTTGTGTTCAAA	59.671	29.630	0.00	0.00	45.71	2.69
665	682	6.808704	TGTTCACGATTTTCATTTGTGTTCAA	59.191	30.769	0.00	0.00	32.55	2.69
666	683	6.325596	TGTTCACGATTTTCATTTGTGTTCA	58.674	32.000	0.00	0.00	32.55	3.18
669	686	6.587990	TGTTTGTTCACGATTTTCATTTGTGT	59.412	30.769	0.00	0.00	32.55	3.72
681	698	2.557317	ACTCGGTTGTTTGTTCACGAT	58.443	42.857	0.00	0.00	0.00	3.73
686	703	2.032924	CCTGGAACTCGGTTGTTTGTTC	59.967	50.000	0.00	0.00	38.33	3.18
694	711	2.457323	TTGGCCCTGGAACTCGGTT	61.457	57.895	0.00	0.00	0.00	4.44
723	740	3.653078	CGGGGCTGGGTTGGGTTA	61.653	66.667	0.00	0.00	0.00	2.85
780	804	5.579753	AGAGTATACATACGGAGGAGGAA	57.420	43.478	5.50	0.00	38.28	3.36
824	849	3.753797	GAGATGACTCCTTTGGTTGTTCC	59.246	47.826	0.00	0.00	37.19	3.62
935	968	1.768077	GGTGGATGGGAGGGAGGAG	60.768	68.421	0.00	0.00	0.00	3.69
1913	1952	2.753966	CGACATGGCTTGCGGGAAG	61.754	63.158	4.73	4.73	34.41	3.46
2000	2039	0.179127	TCTTGAGCGAGCGGAGATTG	60.179	55.000	0.00	0.00	0.00	2.67
2087	2126	3.186119	GAGCTTCTCAAGGTGAATCTCG	58.814	50.000	0.00	0.00	39.77	4.04
2204	2243	0.870393	AGTTCTGCGCAACACTGATG	59.130	50.000	18.01	1.65	0.00	3.07
2417	2456	1.202734	TCGGTATCCCCTACAGTCTCG	60.203	57.143	0.00	0.00	31.44	4.04
2441	2480	4.183686	CGCTCCGCCAGGCAAATG	62.184	66.667	13.30	0.00	37.47	2.32
2459	2498	0.516439	GCTTCTTGAGAGCAGCACAC	59.484	55.000	0.00	0.00	41.14	3.82
2543	2582	4.199310	TCTTCAACTTCACCTTGACCAAG	58.801	43.478	2.89	2.89	38.14	3.61
2579	2618	4.568359	AGATGCTCAACACATTCATACGAC	59.432	41.667	0.00	0.00	0.00	4.34
2620	2659	1.472376	CCAGGCTGATCGAGAAGGAAC	60.472	57.143	17.94	0.00	0.00	3.62
2663	2702	2.154462	CCATTTTCACTTGGAGCGACT	58.846	47.619	0.00	0.00	34.81	4.18
2869	2910	2.503895	AGCAAAGGAGTTCATGGAGG	57.496	50.000	0.00	0.00	0.00	4.30
2870	2911	5.188434	TCAATAGCAAAGGAGTTCATGGAG	58.812	41.667	0.00	0.00	0.00	3.86
2986	3027	5.163269	ACTGATGATGCTATTAGCTCCACAA	60.163	40.000	16.29	5.95	42.97	3.33
3017	3058	4.522789	GCAAGGTAAAATCAGAACAAGGGA	59.477	41.667	0.00	0.00	0.00	4.20
3053	3095	1.542915	GCATGTTGATCACCAGCAGTT	59.457	47.619	0.00	0.00	39.36	3.16
3130	3172	8.798859	AAGTACTGATCTAGAAATGCAAACAT	57.201	30.769	0.00	0.00	38.49	2.71
3194	3236	5.164051	CGACAGTGTTTGGCATCGATATATC	60.164	44.000	0.00	2.34	32.77	1.63
3227	3269	2.237643	AGCATGTGCCAACATTGTACA	58.762	42.857	0.57	0.00	44.94	2.90
3255	3297	8.693504	CAAAACTAACTCAAACTATTGTGCATG	58.306	33.333	0.00	0.00	37.79	4.06
3310	3369	5.578336	TGAATAAGAATCGTCTCTGCACAAG	59.422	40.000	0.00	0.00	30.70	3.16
3361	3420	2.092995	CGTGCACCATTTCATTTGCATG	59.907	45.455	12.15	0.00	46.14	4.06
3459	3518	3.891366	ACTTCCAAGCAACAACTAGCATT	59.109	39.130	0.00	0.00	0.00	3.56
3579	3638	6.662414	TCATGAATTGGTTAAGATGACGAC	57.338	37.500	0.00	0.00	0.00	4.34
3604	3663	8.741841	ACTTTACTCTGTTTCTAGATGTAGGTC	58.258	37.037	0.00	0.00	0.00	3.85
3608	3667	9.298250	ACTGACTTTACTCTGTTTCTAGATGTA	57.702	33.333	0.00	0.00	0.00	2.29
3651	3710	9.181805	CACGGACTAGATATTATACACAAACAG	57.818	37.037	0.00	0.00	0.00	3.16
3657	3716	6.072064	ACAGGCACGGACTAGATATTATACAC	60.072	42.308	0.00	0.00	0.00	2.90
3658	3717	6.008331	ACAGGCACGGACTAGATATTATACA	58.992	40.000	0.00	0.00	0.00	2.29
3723	3784	2.490991	ACAACTAACCAAAGTCTCGCC	58.509	47.619	0.00	0.00	0.00	5.54
3765	3826	6.040842	ACAAGTTAATTCTCAGCACCAACAAT	59.959	34.615	0.00	0.00	0.00	2.71
3792	3858	2.791567	TGTTTCGTGACACACATTTGC	58.208	42.857	6.37	0.00	33.40	3.68
3802	3868	4.141680	CGCACTTCTAAATGTTTCGTGAC	58.858	43.478	0.00	0.00	0.00	3.67
3803	3869	3.363575	GCGCACTTCTAAATGTTTCGTGA	60.364	43.478	0.30	0.00	0.00	4.35
3808	3874	4.568152	ACAAGCGCACTTCTAAATGTTT	57.432	36.364	11.47	0.00	32.29	2.83
3809	3875	4.994852	TCTACAAGCGCACTTCTAAATGTT	59.005	37.500	11.47	0.00	32.29	2.71
3816	3882	2.224066	ACAAGTCTACAAGCGCACTTCT	60.224	45.455	11.47	0.00	32.29	2.85
3817	3883	2.135933	ACAAGTCTACAAGCGCACTTC	58.864	47.619	11.47	0.00	32.29	3.01

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.