AutoCloner

Multiple sequence alignment - TraesCS4B01G259000

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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	TraesCS4B01G259000	chr4B	100.000	3921	0	0	1	3921	525392541	525388621	0.000000e+00	7241.0
1	TraesCS4B01G259000	chr4B	98.013	3825	32	10	100	3921	525302249	525306032	0.000000e+00	6602.0
2	TraesCS4B01G259000	chr4B	96.267	3509	37	20	100	3602	525270664	525267244	0.000000e+00	5668.0
3	TraesCS4B01G259000	chr4B	90.252	318	13	1	3604	3921	525266980	525266681	2.190000e-107	399.0
4	TraesCS4B01G259000	chr4B	93.750	112	7	0	3535	3646	525266980	525266869	6.740000e-38	169.0
5	TraesCS4B01G259000	chr4B	93.043	115	7	1	2313	2426	525268176	525268290	2.420000e-37	167.0
6	TraesCS4B01G259000	chr4B	93.043	115	7	1	2313	2426	525389930	525390044	2.420000e-37	167.0
7	TraesCS4B01G259000	chr4B	92.174	115	8	1	2313	2426	525304753	525304639	1.130000e-35	161.0
8	TraesCS4B01G259000	chr4B	92.105	114	9	0	3533	3646	525388940	525388827	1.130000e-35	161.0
9	TraesCS4B01G259000	chr4B	92.105	114	9	0	3602	3715	525389009	525388896	1.130000e-35	161.0
10	TraesCS4B01G259000	chr4B	91.139	79	7	0	3568	3646	525305749	525305827	1.490000e-19	108.0
11	TraesCS4B01G259000	chr4B	94.118	51	3	0	3293	3343	525267592	525267542	1.170000e-10	78.7
12	TraesCS4B01G259000	chr4B	94.118	51	3	0	3293	3343	525305386	525305436	1.170000e-10	78.7
13	TraesCS4B01G259000	chr2A	87.044	2138	205	36	135	2224	695299642	695301755	0.000000e+00	2348.0
14	TraesCS4B01G259000	chr2A	94.737	171	9	0	3751	3921	676711031	676711201	2.320000e-67	267.0
15	TraesCS4B01G259000	chr2D	85.994	2042	206	39	228	2225	555908439	555910444	0.000000e+00	2113.0
16	TraesCS4B01G259000	chr2D	87.291	299	34	2	2953	3248	555911213	555911510	4.850000e-89	339.0
17	TraesCS4B01G259000	chr2D	90.050	201	18	2	2426	2625	325325588	325325389	3.890000e-65	259.0
18	TraesCS4B01G259000	chr2D	89.806	206	11	1	3726	3921	26447301	26447506	5.030000e-64	255.0
19	TraesCS4B01G259000	chr2D	87.805	205	14	6	3727	3921	114668393	114668190	3.050000e-56	230.0
20	TraesCS4B01G259000	chr2D	93.043	115	7	1	2312	2425	26528254	26528368	2.420000e-37	167.0
21	TraesCS4B01G259000	chr2B	87.565	1729	167	27	135	1826	662680516	662682233	0.000000e+00	1958.0
22	TraesCS4B01G259000	chr2B	89.521	334	35	0	1891	2224	662682239	662682572	1.300000e-114	424.0
23	TraesCS4B01G259000	chr2B	82.192	292	19	14	2610	2872	662682696	662682983	1.830000e-53	220.0
24	TraesCS4B01G259000	chr1A	96.491	171	6	0	3751	3921	104232458	104232288	2.310000e-72	283.0
25	TraesCS4B01G259000	chr7A	90.863	197	17	1	2417	2612	293302436	293302632	3.000000e-66	263.0
26	TraesCS4B01G259000	chr7A	92.174	115	8	1	2313	2426	251840838	251840724	1.130000e-35	161.0
27	TraesCS4B01G259000	chr1D	90.338	207	10	1	3725	3921	377957580	377957786	3.000000e-66	263.0
28	TraesCS4B01G259000	chr1D	89.855	207	11	1	3725	3921	447756394	447756188	1.400000e-64	257.0
29	TraesCS4B01G259000	chr1D	89.231	195	18	2	2423	2616	486144675	486144867	1.410000e-59	241.0
30	TraesCS4B01G259000	chr7D	90.291	206	10	3	3726	3921	604446403	604446608	1.080000e-65	261.0
31	TraesCS4B01G259000	chr7D	88.889	198	20	2	2417	2612	613823979	613824176	3.910000e-60	243.0
32	TraesCS4B01G259000	chr3D	94.152	171	10	0	3751	3921	68839754	68839924	1.080000e-65	261.0
33	TraesCS4B01G259000	chr3D	94.152	171	10	0	3751	3921	252334003	252333833	1.080000e-65	261.0
34	TraesCS4B01G259000	chr3D	89.855	207	11	1	3725	3921	579163245	579163451	1.400000e-64	257.0
35	TraesCS4B01G259000	chr5A	89.302	215	11	3	3718	3921	673402125	673401912	3.890000e-65	259.0
36	TraesCS4B01G259000	chr5D	89.855	207	11	1	3725	3921	530733134	530733340	1.400000e-64	257.0
37	TraesCS4B01G259000	chr5D	93.567	171	11	0	3751	3921	134489785	134489615	5.030000e-64	255.0
38	TraesCS4B01G259000	chr4A	91.005	189	16	1	2426	2613	89430988	89430800	1.810000e-63	254.0
39	TraesCS4B01G259000	chr4A	98.000	100	1	1	1	100	741137512	741137414	5.210000e-39	172.0
40	TraesCS4B01G259000	chr6D	90.374	187	17	1	2432	2617	464536720	464536534	1.090000e-60	244.0
41	TraesCS4B01G259000	chr4D	87.864	206	21	4	2417	2620	375175232	375175029	5.060000e-59	239.0
42	TraesCS4B01G259000	chrUn	97.143	105	2	1	1	104	16706932	16707036	4.030000e-40	176.0
43	TraesCS4B01G259000	chrUn	97.143	105	2	1	1	104	16724889	16724993	4.030000e-40	176.0
44	TraesCS4B01G259000	chrUn	97.143	105	2	1	1	104	305386164	305386060	4.030000e-40	176.0
45	TraesCS4B01G259000	chr1B	97.143	105	2	1	1	104	583458945	583458841	4.030000e-40	176.0
46	TraesCS4B01G259000	chr1B	98.000	100	2	0	1	100	531194950	531195049	1.450000e-39	174.0
47	TraesCS4B01G259000	chr1B	97.959	98	2	0	1	98	480623251	480623348	1.870000e-38	171.0
48	TraesCS4B01G259000	chr6B	98.000	100	2	0	1	100	239295923	239295824	1.450000e-39	174.0
49	TraesCS4B01G259000	chr6B	97.000	100	3	0	1	100	139925	140024	6.740000e-38	169.0
50	TraesCS4B01G259000	chr6A	93.966	116	5	2	2313	2426	596548467	596548582	1.450000e-39	174.0
51	TraesCS4B01G259000	chr7B	91.379	116	9	1	2312	2426	61851955	61851840	1.460000e-34	158.0
52	TraesCS4B01G259000	chr3A	93.333	45	2	1	279	323	693109809	693109852	9.090000e-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	TraesCS4B01G259000	chr4B	525388621	525392541	3920	True	2521.000000	7241	94.736667	1	3921	3	chr4B.!!$R3	3920
1	TraesCS4B01G259000	chr4B	525302249	525306032	3783	False	2262.900000	6602	94.423333	100	3921	3	chr4B.!!$F3	3821
2	TraesCS4B01G259000	chr4B	525266681	525270664	3983	True	1578.675000	5668	93.596750	100	3921	4	chr4B.!!$R2	3821
3	TraesCS4B01G259000	chr2A	695299642	695301755	2113	False	2348.000000	2348	87.044000	135	2224	1	chr2A.!!$F2	2089
4	TraesCS4B01G259000	chr2D	555908439	555911510	3071	False	1226.000000	2113	86.642500	228	3248	2	chr2D.!!$F3	3020
5	TraesCS4B01G259000	chr2B	662680516	662682983	2467	False	867.333333	1958	86.426000	135	2872	3	chr2B.!!$F1	2737

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
67	68	0.690744	AAATAAGGGGGTGCCATGGC	60.691	55.0	30.54	30.54	42.35	4.40	F
92	93	0.895530	TTGGTCTCCACTAAGCTCCG	59.104	55.0	0.00	0.00	30.78	4.63	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1759	1800	2.351060	GCACATTCGCCATACCATGATG	60.351	50.0	0.00	0.00	0.00	3.07	R
3185	3460	0.037447	TGTTCATTGGCCATCCGTCA	59.963	50.0	6.09	0.79	34.14	4.35	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
25	26	8.668510	AAACACTAATTAGGCTCATGATGTAG	57.331	34.615	16.73	0.00	0.00	2.74
26	27	6.226787	ACACTAATTAGGCTCATGATGTAGC	58.773	40.000	16.73	7.91	38.03	3.58
27	28	6.042552	ACACTAATTAGGCTCATGATGTAGCT	59.957	38.462	16.73	0.00	38.80	3.32
28	29	6.933521	CACTAATTAGGCTCATGATGTAGCTT	59.066	38.462	16.73	10.24	38.80	3.74
29	30	6.933521	ACTAATTAGGCTCATGATGTAGCTTG	59.066	38.462	16.73	0.00	38.80	4.01
30	31	4.760530	TTAGGCTCATGATGTAGCTTGT	57.239	40.909	13.68	5.24	38.80	3.16
31	32	3.641434	AGGCTCATGATGTAGCTTGTT	57.359	42.857	13.68	0.41	38.80	2.83
32	33	3.539604	AGGCTCATGATGTAGCTTGTTC	58.460	45.455	13.68	0.00	38.80	3.18
33	34	3.199508	AGGCTCATGATGTAGCTTGTTCT	59.800	43.478	13.68	3.28	38.80	3.01
34	35	3.944015	GGCTCATGATGTAGCTTGTTCTT	59.056	43.478	13.68	0.00	38.80	2.52
35	36	4.034975	GGCTCATGATGTAGCTTGTTCTTC	59.965	45.833	13.68	0.00	38.80	2.87
36	37	4.633126	GCTCATGATGTAGCTTGTTCTTCA	59.367	41.667	0.00	0.00	35.80	3.02
37	38	5.122869	GCTCATGATGTAGCTTGTTCTTCAA	59.877	40.000	0.00	0.00	35.80	2.69
38	39	6.348786	GCTCATGATGTAGCTTGTTCTTCAAA	60.349	38.462	0.00	0.00	35.48	2.69
39	40	7.137490	TCATGATGTAGCTTGTTCTTCAAAG	57.863	36.000	0.00	0.00	35.48	2.77
40	41	5.947228	TGATGTAGCTTGTTCTTCAAAGG	57.053	39.130	0.00	0.00	35.48	3.11
41	42	5.620206	TGATGTAGCTTGTTCTTCAAAGGA	58.380	37.500	0.00	0.00	35.48	3.36
42	43	6.240894	TGATGTAGCTTGTTCTTCAAAGGAT	58.759	36.000	0.00	0.00	35.48	3.24
43	44	5.947228	TGTAGCTTGTTCTTCAAAGGATG	57.053	39.130	0.00	0.00	35.48	3.51
44	45	3.930634	AGCTTGTTCTTCAAAGGATGC	57.069	42.857	0.00	0.00	35.48	3.91
45	46	3.225104	AGCTTGTTCTTCAAAGGATGCA	58.775	40.909	0.00	0.00	35.48	3.96
46	47	3.638160	AGCTTGTTCTTCAAAGGATGCAA	59.362	39.130	0.00	0.00	35.48	4.08
47	48	4.099881	AGCTTGTTCTTCAAAGGATGCAAA	59.900	37.500	0.00	0.00	35.48	3.68
48	49	4.810491	GCTTGTTCTTCAAAGGATGCAAAA	59.190	37.500	0.00	0.00	35.48	2.44
49	50	5.294060	GCTTGTTCTTCAAAGGATGCAAAAA	59.706	36.000	0.00	0.00	35.48	1.94
66	67	1.878211	AAAATAAGGGGGTGCCATGG	58.122	50.000	7.63	7.63	0.00	3.66
67	68	0.690744	AAATAAGGGGGTGCCATGGC	60.691	55.000	30.54	30.54	42.35	4.40
68	69	2.603933	AATAAGGGGGTGCCATGGCC	62.604	60.000	33.44	23.31	41.09	5.36
74	75	4.702274	GGTGCCATGGCCCCTGTT	62.702	66.667	33.44	0.00	41.09	3.16
75	76	3.384532	GTGCCATGGCCCCTGTTG	61.385	66.667	33.44	0.00	41.09	3.33
76	77	4.700448	TGCCATGGCCCCTGTTGG	62.700	66.667	33.44	0.44	41.09	3.77
77	78	4.702274	GCCATGGCCCCTGTTGGT	62.702	66.667	27.24	0.00	34.56	3.67
78	79	2.362889	CCATGGCCCCTGTTGGTC	60.363	66.667	0.00	0.00	0.00	4.02
79	80	2.765969	CATGGCCCCTGTTGGTCT	59.234	61.111	0.00	0.00	0.00	3.85
80	81	1.379044	CATGGCCCCTGTTGGTCTC	60.379	63.158	0.00	0.00	0.00	3.36
81	82	2.616458	ATGGCCCCTGTTGGTCTCC	61.616	63.158	0.00	0.00	0.00	3.71
82	83	3.256960	GGCCCCTGTTGGTCTCCA	61.257	66.667	0.00	0.00	0.00	3.86
83	84	2.034221	GCCCCTGTTGGTCTCCAC	59.966	66.667	0.00	0.00	30.78	4.02
84	85	2.529744	GCCCCTGTTGGTCTCCACT	61.530	63.158	0.00	0.00	30.78	4.00
85	86	1.198759	GCCCCTGTTGGTCTCCACTA	61.199	60.000	0.00	0.00	30.78	2.74
86	87	1.358152	CCCCTGTTGGTCTCCACTAA	58.642	55.000	0.00	0.00	30.78	2.24
87	88	1.279271	CCCCTGTTGGTCTCCACTAAG	59.721	57.143	0.00	0.00	30.78	2.18
88	89	1.339151	CCCTGTTGGTCTCCACTAAGC	60.339	57.143	0.00	0.00	30.78	3.09
89	90	1.625818	CCTGTTGGTCTCCACTAAGCT	59.374	52.381	0.00	0.00	30.78	3.74
90	91	2.354203	CCTGTTGGTCTCCACTAAGCTC	60.354	54.545	0.00	0.00	30.78	4.09
91	92	1.623811	TGTTGGTCTCCACTAAGCTCC	59.376	52.381	0.00	0.00	30.78	4.70
92	93	0.895530	TTGGTCTCCACTAAGCTCCG	59.104	55.000	0.00	0.00	30.78	4.63
93	94	1.142097	GGTCTCCACTAAGCTCCGC	59.858	63.158	0.00	0.00	0.00	5.54
94	95	1.142097	GTCTCCACTAAGCTCCGCC	59.858	63.158	0.00	0.00	0.00	6.13
95	96	1.304962	TCTCCACTAAGCTCCGCCA	60.305	57.895	0.00	0.00	0.00	5.69
96	97	1.153549	CTCCACTAAGCTCCGCCAC	60.154	63.158	0.00	0.00	0.00	5.01
97	98	1.608717	CTCCACTAAGCTCCGCCACT	61.609	60.000	0.00	0.00	0.00	4.00
98	99	1.448540	CCACTAAGCTCCGCCACTG	60.449	63.158	0.00	0.00	0.00	3.66
149	150	9.726438	AAGATAAAGGAAATCTTATACCCATCG	57.274	33.333	0.00	0.00	40.93	3.84
215	216	4.748892	ACTGGTCGACTGATTCACTTATG	58.251	43.478	16.46	0.00	0.00	1.90
1282	1323	4.077300	AGAGTGAAGCACATTGTCTTCA	57.923	40.909	19.11	19.11	44.33	3.02
2524	2668	7.961326	ATTCAGTGGTATAATTTTTGCTCCT	57.039	32.000	0.00	0.00	0.00	3.69
3185	3460	3.721370	GATGCGGTCCATTGGGGCT	62.721	63.158	2.09	0.00	39.39	5.19
3429	3704	9.057089	TGTTTTTGTTGGTTTATTTTTGTCTGT	57.943	25.926	0.00	0.00	0.00	3.41
3430	3705	9.885934	GTTTTTGTTGGTTTATTTTTGTCTGTT	57.114	25.926	0.00	0.00	0.00	3.16
3452	3727	0.536460	TTTTTGCCTCGTCTCCCACC	60.536	55.000	0.00	0.00	0.00	4.61
3453	3728	1.701031	TTTTGCCTCGTCTCCCACCA	61.701	55.000	0.00	0.00	0.00	4.17
3454	3729	2.391724	TTTGCCTCGTCTCCCACCAC	62.392	60.000	0.00	0.00	0.00	4.16
3455	3730	4.083862	GCCTCGTCTCCCACCACC	62.084	72.222	0.00	0.00	0.00	4.61
3456	3731	2.603473	CCTCGTCTCCCACCACCA	60.603	66.667	0.00	0.00	0.00	4.17
3457	3732	2.657237	CTCGTCTCCCACCACCAC	59.343	66.667	0.00	0.00	0.00	4.16
3458	3733	2.920912	TCGTCTCCCACCACCACC	60.921	66.667	0.00	0.00	0.00	4.61
3459	3734	2.923035	CGTCTCCCACCACCACCT	60.923	66.667	0.00	0.00	0.00	4.00
3460	3735	2.516888	CGTCTCCCACCACCACCTT	61.517	63.158	0.00	0.00	0.00	3.50
3461	3736	1.844130	GTCTCCCACCACCACCTTT	59.156	57.895	0.00	0.00	0.00	3.11
3462	3737	0.250770	GTCTCCCACCACCACCTTTC	60.251	60.000	0.00	0.00	0.00	2.62
3463	3738	0.696143	TCTCCCACCACCACCTTTCA	60.696	55.000	0.00	0.00	0.00	2.69
3464	3739	0.537371	CTCCCACCACCACCTTTCAC	60.537	60.000	0.00	0.00	0.00	3.18
3465	3740	0.991355	TCCCACCACCACCTTTCACT	60.991	55.000	0.00	0.00	0.00	3.41
3466	3741	0.823356	CCCACCACCACCTTTCACTG	60.823	60.000	0.00	0.00	0.00	3.66
3521	3796	0.478072	TCCTGTTGACCCATGCTTGT	59.522	50.000	0.00	0.00	0.00	3.16
3531	3806	2.434884	ATGCTTGTCGCTCCGTGG	60.435	61.111	0.00	0.00	40.11	4.94
3550	3825	2.515523	GCTGCGATGGGTCATGCT	60.516	61.111	0.00	0.00	0.00	3.79
3619	4156	3.589881	GCTGCGATGGGTCATGCC	61.590	66.667	0.00	0.00	0.00	4.40
3628	4165	0.986019	TGGGTCATGCCGTATCCCTT	60.986	55.000	0.00	0.00	38.95	3.95
3702	4239	1.152525	ATGCGGTATCCCTCGTCCT	60.153	57.895	0.00	0.00	0.00	3.85
3794	4331	3.119029	CCCGTTTGATTTCCTGCATTCAT	60.119	43.478	0.00	0.00	0.00	2.57
3825	4362	1.070821	CATCGCACGAAGCTGAAAGA	58.929	50.000	0.00	0.00	42.61	2.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	7.227512	GCTACATCATGAGCCTAATTAGTGTTT	59.772	37.037	11.50	0.00	32.25	2.83
1	2	6.708054	GCTACATCATGAGCCTAATTAGTGTT	59.292	38.462	11.50	1.44	32.25	3.32
2	3	6.042552	AGCTACATCATGAGCCTAATTAGTGT	59.957	38.462	11.50	8.60	39.65	3.55
3	4	6.462500	AGCTACATCATGAGCCTAATTAGTG	58.538	40.000	11.50	3.08	39.65	2.74
4	5	6.678568	AGCTACATCATGAGCCTAATTAGT	57.321	37.500	11.50	0.00	39.65	2.24
5	6	6.933521	ACAAGCTACATCATGAGCCTAATTAG	59.066	38.462	5.43	5.43	39.65	1.73
6	7	6.830912	ACAAGCTACATCATGAGCCTAATTA	58.169	36.000	0.09	0.00	39.65	1.40
7	8	5.688807	ACAAGCTACATCATGAGCCTAATT	58.311	37.500	0.09	0.00	39.65	1.40
8	9	5.301835	ACAAGCTACATCATGAGCCTAAT	57.698	39.130	0.09	0.00	39.65	1.73
9	10	4.760530	ACAAGCTACATCATGAGCCTAA	57.239	40.909	0.09	0.00	39.65	2.69
10	11	4.406972	AGAACAAGCTACATCATGAGCCTA	59.593	41.667	0.09	0.00	39.65	3.93
11	12	3.199508	AGAACAAGCTACATCATGAGCCT	59.800	43.478	0.09	0.00	39.65	4.58
12	13	3.539604	AGAACAAGCTACATCATGAGCC	58.460	45.455	0.09	0.00	39.65	4.70
13	14	4.633126	TGAAGAACAAGCTACATCATGAGC	59.367	41.667	0.09	0.00	39.08	4.26
14	15	6.732531	TTGAAGAACAAGCTACATCATGAG	57.267	37.500	0.09	0.00	34.20	2.90
15	16	6.149973	CCTTTGAAGAACAAGCTACATCATGA	59.850	38.462	0.00	0.00	39.77	3.07
16	17	6.149973	TCCTTTGAAGAACAAGCTACATCATG	59.850	38.462	0.00	0.00	39.77	3.07
17	18	6.240894	TCCTTTGAAGAACAAGCTACATCAT	58.759	36.000	0.00	0.00	39.77	2.45
18	19	5.620206	TCCTTTGAAGAACAAGCTACATCA	58.380	37.500	0.00	0.00	39.77	3.07
19	20	6.549952	CATCCTTTGAAGAACAAGCTACATC	58.450	40.000	0.00	0.00	39.77	3.06
20	21	5.105997	GCATCCTTTGAAGAACAAGCTACAT	60.106	40.000	0.00	0.00	39.77	2.29
21	22	4.216257	GCATCCTTTGAAGAACAAGCTACA	59.784	41.667	0.00	0.00	39.77	2.74
22	23	4.216257	TGCATCCTTTGAAGAACAAGCTAC	59.784	41.667	0.00	0.00	39.77	3.58
23	24	4.397420	TGCATCCTTTGAAGAACAAGCTA	58.603	39.130	0.00	0.00	39.77	3.32
24	25	3.225104	TGCATCCTTTGAAGAACAAGCT	58.775	40.909	0.00	0.00	39.77	3.74
25	26	3.648339	TGCATCCTTTGAAGAACAAGC	57.352	42.857	0.00	0.00	39.77	4.01
26	27	6.907206	TTTTTGCATCCTTTGAAGAACAAG	57.093	33.333	0.00	0.00	39.77	3.16
46	47	2.195727	CCATGGCACCCCCTTATTTTT	58.804	47.619	0.00	0.00	0.00	1.94
47	48	1.878211	CCATGGCACCCCCTTATTTT	58.122	50.000	0.00	0.00	0.00	1.82
48	49	0.690744	GCCATGGCACCCCCTTATTT	60.691	55.000	32.08	0.00	41.49	1.40
49	50	1.075301	GCCATGGCACCCCCTTATT	60.075	57.895	32.08	0.00	41.49	1.40
50	51	2.608759	GCCATGGCACCCCCTTAT	59.391	61.111	32.08	0.00	41.49	1.73
51	52	3.749870	GGCCATGGCACCCCCTTA	61.750	66.667	36.56	0.00	44.11	2.69
58	59	3.384532	CAACAGGGGCCATGGCAC	61.385	66.667	36.56	34.40	45.23	5.01
59	60	4.700448	CCAACAGGGGCCATGGCA	62.700	66.667	36.56	0.00	44.11	4.92
60	61	4.702274	ACCAACAGGGGCCATGGC	62.702	66.667	29.47	29.47	42.91	4.40
61	62	2.362889	GACCAACAGGGGCCATGG	60.363	66.667	23.64	17.77	39.68	3.66
67	68	1.279271	CTTAGTGGAGACCAACAGGGG	59.721	57.143	0.00	0.00	42.91	4.79
68	69	1.339151	GCTTAGTGGAGACCAACAGGG	60.339	57.143	0.00	0.00	44.81	4.45
69	70	1.625818	AGCTTAGTGGAGACCAACAGG	59.374	52.381	0.00	0.00	34.18	4.00
70	71	2.354203	GGAGCTTAGTGGAGACCAACAG	60.354	54.545	0.00	0.00	34.18	3.16
71	72	1.623811	GGAGCTTAGTGGAGACCAACA	59.376	52.381	0.00	0.00	34.18	3.33
72	73	1.404315	CGGAGCTTAGTGGAGACCAAC	60.404	57.143	0.00	0.00	34.18	3.77
73	74	0.895530	CGGAGCTTAGTGGAGACCAA	59.104	55.000	0.00	0.00	34.18	3.67
74	75	2.579878	CGGAGCTTAGTGGAGACCA	58.420	57.895	0.00	0.00	0.00	4.02
93	94	1.488705	TAAGGTGAGGGTGGCAGTGG	61.489	60.000	0.00	0.00	0.00	4.00
94	95	0.036010	CTAAGGTGAGGGTGGCAGTG	60.036	60.000	0.00	0.00	0.00	3.66
95	96	0.178903	TCTAAGGTGAGGGTGGCAGT	60.179	55.000	0.00	0.00	0.00	4.40
96	97	0.250513	GTCTAAGGTGAGGGTGGCAG	59.749	60.000	0.00	0.00	0.00	4.85
97	98	0.472925	TGTCTAAGGTGAGGGTGGCA	60.473	55.000	0.00	0.00	0.00	4.92
98	99	0.036294	GTGTCTAAGGTGAGGGTGGC	60.036	60.000	0.00	0.00	0.00	5.01
133	134	3.009143	GGAGGCCGATGGGTATAAGATTT	59.991	47.826	0.00	0.00	34.97	2.17
1282	1323	2.905736	CCCATGACCCTGGTTTGAAATT	59.094	45.455	0.00	0.00	34.23	1.82
1759	1800	2.351060	GCACATTCGCCATACCATGATG	60.351	50.000	0.00	0.00	0.00	3.07
3185	3460	0.037447	TGTTCATTGGCCATCCGTCA	59.963	50.000	6.09	0.79	34.14	4.35
3531	3806	3.104766	CATGACCCATCGCAGCAC	58.895	61.111	0.00	0.00	0.00	4.40
3550	3825	1.191535	CCACAAGGACGAGGGATACA	58.808	55.000	0.00	0.00	36.89	2.29
3619	4156	0.178068	CCACAGGGACAAGGGATACG	59.822	60.000	0.00	0.00	35.59	3.06
3644	4181	0.888619	TGAGTAGTTGAGGCAGACGG	59.111	55.000	0.00	0.00	0.00	4.79
3656	4193	2.029020	TCGCAGCAAGTGATTGAGTAGT	60.029	45.455	0.00	0.00	0.00	2.73
3844	4381	2.126502	CGATTTGTGCGTTGCCCC	60.127	61.111	0.00	0.00	0.00	5.80

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.