AutoCloner

Multiple sequence alignment - TraesCS2D01G254900

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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	TraesCS2D01G254900	chr2D	100.000	3701	0	0	1	3701	307027937	307024237	0.000000e+00	6835.0
1	TraesCS2D01G254900	chr2A	96.478	2442	64	12	868	3300	387644867	387642439	0.000000e+00	4013.0
2	TraesCS2D01G254900	chr2A	92.421	884	33	12	1	852	387646408	387645527	0.000000e+00	1230.0
3	TraesCS2D01G254900	chr2A	94.652	374	10	5	3275	3642	387642363	387641994	4.150000e-159	571.0
4	TraesCS2D01G254900	chr2A	97.101	69	2	0	3269	3337	387642432	387642364	2.340000e-22	117.0
5	TraesCS2D01G254900	chr2B	95.758	1933	60	11	1046	2961	360978278	360980205	0.000000e+00	3096.0
6	TraesCS2D01G254900	chr2B	95.439	855	27	4	1	853	360972810	360973654	0.000000e+00	1352.0
7	TraesCS2D01G254900	chr2B	80.827	871	118	35	5	853	23109864	23109021	4.030000e-179	638.0
8	TraesCS2D01G254900	chr2B	88.290	427	34	11	868	1280	23108360	23107936	7.140000e-137	497.0
9	TraesCS2D01G254900	chr2B	88.402	388	27	8	3230	3613	360980442	360980815	5.640000e-123	451.0
10	TraesCS2D01G254900	chr2B	88.983	354	34	4	1388	1741	23107937	23107589	2.040000e-117	433.0
11	TraesCS2D01G254900	chr2B	92.593	243	13	2	2942	3179	360980216	360980458	9.840000e-91	344.0
12	TraesCS2D01G254900	chr2B	96.273	161	5	1	868	1028	360974316	360974475	2.830000e-66	263.0
13	TraesCS2D01G254900	chr2B	91.791	134	11	0	1940	2073	23107219	23107086	1.750000e-43	187.0
14	TraesCS2D01G254900	chr1A	83.006	865	101	29	2	853	550445523	550444692	0.000000e+00	741.0
15	TraesCS2D01G254900	chr1A	90.000	420	33	3	869	1280	550444030	550443612	5.440000e-148	534.0
16	TraesCS2D01G254900	chr1A	75.648	1158	161	70	1773	2875	550442951	550441860	7.240000e-127	464.0
17	TraesCS2D01G254900	chr1A	84.750	400	46	9	1869	2258	560845104	560845498	1.610000e-103	387.0
18	TraesCS2D01G254900	chr1A	84.943	352	35	9	1392	1740	560844518	560844854	1.270000e-89	340.0
19	TraesCS2D01G254900	chr1B	81.264	870	99	26	2	853	628053938	628053115	0.000000e+00	645.0
20	TraesCS2D01G254900	chr1B	89.737	419	31	7	869	1280	628052453	628052040	3.270000e-145	525.0
21	TraesCS2D01G254900	chr1B	88.827	358	36	3	1388	1744	628052041	628051687	1.580000e-118	436.0
22	TraesCS2D01G254900	chr1B	85.714	287	30	8	1793	2072	628051457	628051175	3.620000e-75	292.0
23	TraesCS2D01G254900	chr1D	80.505	872	96	29	2	853	457975801	457974984	5.290000e-168	601.0
24	TraesCS2D01G254900	chr1D	89.202	426	31	8	868	1280	457974323	457973900	5.480000e-143	518.0
25	TraesCS2D01G254900	chr1D	75.755	1159	170	69	1774	2876	457973344	457972241	7.190000e-132	481.0
26	TraesCS2D01G254900	chr1D	89.916	357	35	1	1388	1744	457973901	457973546	3.370000e-125	459.0
27	TraesCS2D01G254900	chr7D	93.103	116	4	1	1275	1390	236821646	236821535	2.290000e-37	167.0
28	TraesCS2D01G254900	chr7D	91.736	121	5	3	1272	1392	310990308	310990193	2.960000e-36	163.0
29	TraesCS2D01G254900	chr3D	92.920	113	4	2	1278	1390	379826348	379826240	1.060000e-35	161.0
30	TraesCS2D01G254900	chr3B	92.920	113	4	2	1278	1390	495475484	495475592	1.060000e-35	161.0
31	TraesCS2D01G254900	chr3A	92.920	113	4	2	1278	1390	503822286	503822394	1.060000e-35	161.0
32	TraesCS2D01G254900	chr6D	90.909	121	5	3	1279	1398	391925879	391925994	1.380000e-34	158.0
33	TraesCS2D01G254900	chr7A	91.379	116	6	1	1275	1390	252178508	252178397	4.950000e-34	156.0
34	TraesCS2D01G254900	chr4B	96.610	59	2	0	3643	3701	600664216	600664158	8.460000e-17	99.0
35	TraesCS2D01G254900	chr4B	97.500	40	1	0	3643	3682	622126161	622126122	6.630000e-08	69.4
36	TraesCS2D01G254900	chr4B	87.037	54	5	2	3642	3694	97790039	97789987	3.990000e-05	60.2
37	TraesCS2D01G254900	chr6B	93.023	43	2	1	3180	3222	522510167	522510126	1.110000e-05	62.1

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	TraesCS2D01G254900	chr2D	307024237	307027937	3700	True	6835.000000	6835	100.000000	1	3701	1	chr2D.!!$R1	3700
1	TraesCS2D01G254900	chr2A	387641994	387646408	4414	True	1482.750000	4013	95.163000	1	3642	4	chr2A.!!$R1	3641
2	TraesCS2D01G254900	chr2B	360972810	360980815	8005	False	1101.200000	3096	93.693000	1	3613	5	chr2B.!!$F1	3612
3	TraesCS2D01G254900	chr2B	23107086	23109864	2778	True	438.750000	638	87.472750	5	2073	4	chr2B.!!$R1	2068
4	TraesCS2D01G254900	chr1A	550441860	550445523	3663	True	579.666667	741	82.884667	2	2875	3	chr1A.!!$R1	2873
5	TraesCS2D01G254900	chr1A	560844518	560845498	980	False	363.500000	387	84.846500	1392	2258	2	chr1A.!!$F1	866
6	TraesCS2D01G254900	chr1B	628051175	628053938	2763	True	474.500000	645	86.385500	2	2072	4	chr1B.!!$R1	2070
7	TraesCS2D01G254900	chr1D	457972241	457975801	3560	True	514.750000	601	83.844500	2	2876	4	chr1D.!!$R1	2874

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
511	563	1.131638	AACCTGAGTCACCTGCAGAA	58.868	50.0	17.39	0.0	0.0	3.02	F
1945	6790	0.318120	TCACGCACTGCAATCTCTCA	59.682	50.0	1.11	0.0	0.0	3.27	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2420	7324	2.365617	ACCATCTATACGGAAGGTGCTG	59.634	50.0	0.0	0.0	36.18	4.41	R
3551	8625	0.678048	GGACCAGTGTGCCATCCTTC	60.678	60.0	0.0	0.0	0.00	3.46	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
33	34	1.492176	GGTGTGGATGAGGATGGTGAT	59.508	52.381	0.00	0.00	0.00	3.06
64	65	3.243267	GCCTGACCTCGAGTCTCTTAATC	60.243	52.174	12.31	0.00	46.46	1.75
65	66	3.002862	CCTGACCTCGAGTCTCTTAATCG	59.997	52.174	12.31	0.00	46.46	3.34
96	97	6.403049	TCTTGACAGTGTCTCAAAACTACAA	58.597	36.000	23.29	5.78	33.15	2.41
190	193	9.195411	CTTTCTCTCTTGCATAGATCTATGTTC	57.805	37.037	33.06	22.35	43.57	3.18
312	318	5.949735	TCGAAAGAAATCTTAAATGGCACC	58.050	37.500	0.00	0.00	37.03	5.01
363	370	7.642669	TCAGTTGATTGTTCTTTTCATGTCTC	58.357	34.615	0.00	0.00	0.00	3.36
384	391	9.667107	TGTCTCATTCCCAAATAGTACTTTAAG	57.333	33.333	0.00	0.00	0.00	1.85
511	563	1.131638	AACCTGAGTCACCTGCAGAA	58.868	50.000	17.39	0.00	0.00	3.02
520	572	2.191641	CCTGCAGAAGCTAGGCCC	59.808	66.667	17.39	0.00	42.74	5.80
629	694	8.948145	TGAAAAATATGCTTCCATTCAATTTGG	58.052	29.630	0.00	0.00	35.45	3.28
721	789	4.425577	AAAATCTTTGACTCACCGCATC	57.574	40.909	0.00	0.00	0.00	3.91
758	827	8.849168	CATTAATATACAGGTCCATTTTCTGCA	58.151	33.333	0.00	0.00	32.19	4.41
853	922	4.440802	CCAGAGTACCAGCTCATTGTAGAC	60.441	50.000	0.00	0.00	37.94	2.59
854	923	4.158579	CAGAGTACCAGCTCATTGTAGACA	59.841	45.833	0.00	0.00	37.94	3.41
855	924	4.772624	AGAGTACCAGCTCATTGTAGACAA	59.227	41.667	0.00	0.00	37.94	3.18
856	925	5.246203	AGAGTACCAGCTCATTGTAGACAAA	59.754	40.000	0.00	0.00	37.94	2.83
857	926	6.054860	AGTACCAGCTCATTGTAGACAAAT	57.945	37.500	0.00	0.00	39.55	2.32
858	927	6.109359	AGTACCAGCTCATTGTAGACAAATC	58.891	40.000	0.00	0.00	39.55	2.17
861	930	4.940046	CCAGCTCATTGTAGACAAATCTGT	59.060	41.667	0.00	0.00	39.55	3.41
862	931	5.163784	CCAGCTCATTGTAGACAAATCTGTG	60.164	44.000	0.00	0.00	39.55	3.66
863	932	4.394300	AGCTCATTGTAGACAAATCTGTGC	59.606	41.667	11.05	11.05	39.55	4.57
864	933	4.437930	GCTCATTGTAGACAAATCTGTGCC	60.438	45.833	0.00	0.00	39.55	5.01
865	934	4.910195	TCATTGTAGACAAATCTGTGCCT	58.090	39.130	0.00	0.00	39.55	4.75
911	1628	2.285827	AAGAAGATCGAGAAGTGGCG	57.714	50.000	0.00	0.00	0.00	5.69
1117	5628	4.152938	TCTGTGCTGAAACTTGATTCATCG	59.847	41.667	0.00	0.00	38.55	3.84
1161	5672	1.961793	TGACTTCGGGAACTTGGTTG	58.038	50.000	0.00	0.00	0.00	3.77
1312	5825	7.254455	CCGATCCATATTACTTGTCACTCAAAC	60.254	40.741	0.00	0.00	35.48	2.93
1468	5983	2.225167	TGATGGTTTGGGGGAAGGTTAC	60.225	50.000	0.00	0.00	0.00	2.50
1581	6100	9.454859	CTTCTTTATTCTTCCCACAGTATCTTT	57.545	33.333	0.00	0.00	0.00	2.52
1744	6263	7.967854	TGACTGTTTCTAAATTCAACACAAGTG	59.032	33.333	0.00	0.00	0.00	3.16
1945	6790	0.318120	TCACGCACTGCAATCTCTCA	59.682	50.000	1.11	0.00	0.00	3.27
2032	6895	5.481824	ACATCTGGACTGACATCTAGTTTGA	59.518	40.000	3.04	0.00	0.00	2.69
2401	7305	3.750371	TGTATGGCTGCTGTTAGTTTGT	58.250	40.909	0.00	0.00	0.00	2.83
2407	7311	4.258543	GGCTGCTGTTAGTTTGTACCATA	58.741	43.478	0.00	0.00	0.00	2.74
2430	7334	4.694037	ACTTTTATACGTTCAGCACCTTCC	59.306	41.667	0.00	0.00	0.00	3.46
2696	7621	0.468214	CGGATCAGTAGGCCTGGAGA	60.468	60.000	17.99	10.55	41.83	3.71
2758	7683	3.679389	AGCGATGATTGTTTCTTGGTCT	58.321	40.909	0.00	0.00	0.00	3.85
2778	7703	2.212652	TGAGCGATTTCATCCCATTCG	58.787	47.619	0.00	0.00	0.00	3.34
2826	7752	2.051076	ATGCACTTGCGCACAACG	60.051	55.556	11.12	0.92	46.56	4.10
2984	7946	2.309528	ATGCTTCGAGCGTGGATAAA	57.690	45.000	1.50	0.00	46.26	1.40
3130	8097	9.384764	AGGAAATAATTTTTCTCCGAAGTAGAG	57.615	33.333	10.73	0.00	0.00	2.43
3134	8101	9.945904	AATAATTTTTCTCCGAAGTAGAGAACT	57.054	29.630	2.81	0.00	41.49	3.01
3180	8147	2.672961	TGTAGACTGCATGGTGCTAC	57.327	50.000	3.41	0.00	45.31	3.58
3194	8161	2.549754	GGTGCTACCACATGACATATGC	59.450	50.000	1.58	0.00	43.88	3.14
3200	8167	3.879998	ACCACATGACATATGCGGTAAA	58.120	40.909	1.58	0.00	33.15	2.01
3216	8183	5.463724	TGCGGTAAACAATCCAAACAATTTC	59.536	36.000	0.00	0.00	0.00	2.17
3538	8612	5.768317	CCAATCGTTGGTTCACACTTATTT	58.232	37.500	8.17	0.00	45.93	1.40
3594	8668	1.762708	CCCAATTACGACAAGCCCAT	58.237	50.000	0.00	0.00	0.00	4.00
3613	8687	3.290710	CATTGGTCCACCTATCCCTTTG	58.709	50.000	0.00	0.00	36.82	2.77
3615	8689	2.858644	TGGTCCACCTATCCCTTTGAT	58.141	47.619	0.00	0.00	37.49	2.57
3642	8716	8.559536	TCAACAAACTAGTTGCTCTTAAGAATG	58.440	33.333	9.34	1.51	46.44	2.67
3643	8717	7.440523	ACAAACTAGTTGCTCTTAAGAATGG	57.559	36.000	9.34	0.00	41.31	3.16
3644	8718	7.224297	ACAAACTAGTTGCTCTTAAGAATGGA	58.776	34.615	9.34	0.00	41.31	3.41
3645	8719	7.719633	ACAAACTAGTTGCTCTTAAGAATGGAA	59.280	33.333	9.34	0.65	41.31	3.53
3646	8720	8.734386	CAAACTAGTTGCTCTTAAGAATGGAAT	58.266	33.333	9.34	0.00	0.00	3.01
3647	8721	8.870075	AACTAGTTGCTCTTAAGAATGGAATT	57.130	30.769	7.48	3.34	40.93	2.17
3648	8722	8.870075	ACTAGTTGCTCTTAAGAATGGAATTT	57.130	30.769	6.63	0.29	36.07	1.82
3649	8723	8.951243	ACTAGTTGCTCTTAAGAATGGAATTTC	58.049	33.333	6.63	0.00	36.07	2.17
3650	8724	7.163001	AGTTGCTCTTAAGAATGGAATTTCC	57.837	36.000	8.59	8.59	36.07	3.13
3651	8725	6.950619	AGTTGCTCTTAAGAATGGAATTTCCT	59.049	34.615	16.25	0.00	36.07	3.36
3652	8726	8.109634	AGTTGCTCTTAAGAATGGAATTTCCTA	58.890	33.333	16.25	3.83	36.07	2.94
3653	8727	8.907885	GTTGCTCTTAAGAATGGAATTTCCTAT	58.092	33.333	16.25	5.25	36.07	2.57
3654	8728	9.479549	TTGCTCTTAAGAATGGAATTTCCTATT	57.520	29.630	16.25	13.13	36.07	1.73
3655	8729	9.125026	TGCTCTTAAGAATGGAATTTCCTATTC	57.875	33.333	21.06	21.06	36.07	1.75
3656	8730	8.286097	GCTCTTAAGAATGGAATTTCCTATTCG	58.714	37.037	21.69	14.20	36.07	3.34
3657	8731	8.154649	TCTTAAGAATGGAATTTCCTATTCGC	57.845	34.615	21.69	10.30	36.07	4.70
3658	8732	5.774498	AAGAATGGAATTTCCTATTCGCC	57.226	39.130	21.69	9.86	36.07	5.54
3659	8733	3.815401	AGAATGGAATTTCCTATTCGCCG	59.185	43.478	21.69	0.00	36.07	6.46
3660	8734	1.305201	TGGAATTTCCTATTCGCCGC	58.695	50.000	16.25	0.00	37.46	6.53
3661	8735	1.134220	TGGAATTTCCTATTCGCCGCT	60.134	47.619	16.25	0.00	37.46	5.52
3662	8736	1.531578	GGAATTTCCTATTCGCCGCTC	59.468	52.381	8.25	0.00	32.53	5.03
3663	8737	2.484889	GAATTTCCTATTCGCCGCTCT	58.515	47.619	0.00	0.00	0.00	4.09
3664	8738	2.622064	ATTTCCTATTCGCCGCTCTT	57.378	45.000	0.00	0.00	0.00	2.85
3665	8739	2.396590	TTTCCTATTCGCCGCTCTTT	57.603	45.000	0.00	0.00	0.00	2.52
3666	8740	1.651987	TTCCTATTCGCCGCTCTTTG	58.348	50.000	0.00	0.00	0.00	2.77
3667	8741	0.810031	TCCTATTCGCCGCTCTTTGC	60.810	55.000	0.00	0.00	38.57	3.68
3676	8750	4.233408	GCTCTTTGCGGCAAACTG	57.767	55.556	23.23	18.25	0.00	3.16
3686	8760	4.944249	GCAAACTGCCGAGGTTTC	57.056	55.556	0.00	0.00	37.42	2.78
3687	8761	1.082104	GCAAACTGCCGAGGTTTCG	60.082	57.895	0.00	0.00	46.29	3.46
3688	8762	1.082104	CAAACTGCCGAGGTTTCGC	60.082	57.895	0.00	0.00	45.38	4.70
3689	8763	1.525077	AAACTGCCGAGGTTTCGCA	60.525	52.632	0.00	0.00	45.38	5.10
3690	8764	1.782028	AAACTGCCGAGGTTTCGCAC	61.782	55.000	0.00	0.00	45.38	5.34
3691	8765	2.664851	CTGCCGAGGTTTCGCACA	60.665	61.111	0.00	0.00	45.38	4.57
3692	8766	2.664851	TGCCGAGGTTTCGCACAG	60.665	61.111	0.00	0.00	45.38	3.66
3693	8767	3.423154	GCCGAGGTTTCGCACAGG	61.423	66.667	0.00	0.00	45.38	4.00
3694	8768	2.742372	CCGAGGTTTCGCACAGGG	60.742	66.667	0.00	0.00	45.38	4.45
3695	8769	2.342279	CGAGGTTTCGCACAGGGA	59.658	61.111	0.00	0.00	40.36	4.20
3696	8770	1.079127	CGAGGTTTCGCACAGGGAT	60.079	57.895	0.00	0.00	40.36	3.85
3697	8771	0.174845	CGAGGTTTCGCACAGGGATA	59.825	55.000	0.00	0.00	40.36	2.59
3698	8772	1.202533	CGAGGTTTCGCACAGGGATAT	60.203	52.381	0.00	0.00	40.36	1.63
3699	8773	2.484889	GAGGTTTCGCACAGGGATATC	58.515	52.381	0.00	0.00	0.00	1.63
3700	8774	1.202533	AGGTTTCGCACAGGGATATCG	60.203	52.381	0.00	0.00	0.00	2.92

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
33	34	2.560105	CTCGAGGTCAGGCATATCATCA	59.440	50.000	3.91	0.00	0.00	3.07
64	65	1.979469	GACACTGTCAAGATCGTCACG	59.021	52.381	4.17	0.00	32.09	4.35
65	66	3.238441	GAGACACTGTCAAGATCGTCAC	58.762	50.000	11.80	0.00	34.60	3.67
312	318	8.960591	AGTGTTTCTCCAAAATCCATACAATAG	58.039	33.333	0.00	0.00	0.00	1.73
384	391	3.153919	TCCATTTGCACCCTAAGAACAC	58.846	45.455	0.00	0.00	0.00	3.32
446	465	3.496675	GGACTAATCCCTGGTTGGC	57.503	57.895	0.00	0.00	39.39	4.52
511	563	0.475906	CCTGCATTTAGGGCCTAGCT	59.524	55.000	20.15	7.77	34.06	3.32
605	670	7.889600	ACCCAAATTGAATGGAAGCATATTTTT	59.110	29.630	0.00	0.00	40.56	1.94
629	694	1.334869	CAAATCGCAGCCCTATGAACC	59.665	52.381	0.00	0.00	0.00	3.62
758	827	1.002430	TGCTCCTTCGACTTTCTGCAT	59.998	47.619	0.00	0.00	0.00	3.96
862	931	3.250040	TCTTCTAACAAGTTGCGAAAGGC	59.750	43.478	1.81	0.00	43.96	4.35
863	932	5.418310	TTCTTCTAACAAGTTGCGAAAGG	57.582	39.130	1.81	0.00	0.00	3.11
864	933	7.149288	CGAATTTCTTCTAACAAGTTGCGAAAG	60.149	37.037	1.81	2.53	0.00	2.62
865	934	6.631238	CGAATTTCTTCTAACAAGTTGCGAAA	59.369	34.615	1.81	3.67	0.00	3.46
911	1628	1.528129	CTTTGCAGGAGGTGGTTCTC	58.472	55.000	0.00	0.00	0.00	2.87
1117	5628	7.728847	TGACAAGATACCATGTTGTATATGC	57.271	36.000	2.08	0.00	45.41	3.14
1312	5825	7.274468	GCACTGAAATACATCTAGATACATCCG	59.726	40.741	4.54	0.00	0.00	4.18
1581	6100	5.010617	GCAAGGAACAGGAAGGAACAAAATA	59.989	40.000	0.00	0.00	0.00	1.40
1744	6263	3.320826	AGGTTTGTGCAGGGAAACATTAC	59.679	43.478	14.60	2.00	34.36	1.89
1890	6732	9.028284	AGTGGTCATGAATTGAAATAGAAACAT	57.972	29.630	0.00	0.00	35.70	2.71
2281	7173	7.661027	TGTTCATGATGACTTCACTCACATAAA	59.339	33.333	0.00	0.00	37.11	1.40
2401	7305	6.757947	GGTGCTGAACGTATAAAAGTATGGTA	59.242	38.462	0.00	0.00	0.00	3.25
2407	7311	4.694037	GGAAGGTGCTGAACGTATAAAAGT	59.306	41.667	0.00	0.00	0.00	2.66
2417	7321	3.795623	TCTATACGGAAGGTGCTGAAC	57.204	47.619	0.00	0.00	0.00	3.18
2420	7324	2.365617	ACCATCTATACGGAAGGTGCTG	59.634	50.000	0.00	0.00	36.18	4.41
2430	7334	6.761099	AGCCTACTGATTACCATCTATACG	57.239	41.667	0.00	0.00	0.00	3.06
2778	7703	1.000843	GGTTCTTGGGAATTGTGTGCC	59.999	52.381	0.00	0.00	33.71	5.01
2826	7752	9.071221	CGATACATCTGAGAATATTACAAGCTC	57.929	37.037	0.00	0.00	0.00	4.09
2910	7841	4.388485	ACATTCTGATGTTGTAGTGCACA	58.612	39.130	21.04	1.84	43.92	4.57
2912	7843	6.405538	TCATACATTCTGATGTTGTAGTGCA	58.594	36.000	0.00	0.00	43.92	4.57
2927	7858	4.806247	GTGTACTGCCTGACTCATACATTC	59.194	45.833	0.00	0.00	0.00	2.67
2984	7946	6.373759	AGGTCCAACAGGTTTTCTAGAAAAT	58.626	36.000	28.46	14.54	41.64	1.82
3194	8161	7.470289	TTGAAATTGTTTGGATTGTTTACCG	57.530	32.000	0.00	0.00	0.00	4.02
3222	8189	3.565902	GCACCTTGCAGTCTACTCTTTTT	59.434	43.478	0.00	0.00	44.26	1.94
3223	8190	3.142174	GCACCTTGCAGTCTACTCTTTT	58.858	45.455	0.00	0.00	44.26	2.27
3224	8191	2.772287	GCACCTTGCAGTCTACTCTTT	58.228	47.619	0.00	0.00	44.26	2.52
3225	8192	2.464157	GCACCTTGCAGTCTACTCTT	57.536	50.000	0.00	0.00	44.26	2.85
3331	8399	3.621268	CACCGATCCATGTTAATTGACGT	59.379	43.478	0.00	0.00	0.00	4.34
3551	8625	0.678048	GGACCAGTGTGCCATCCTTC	60.678	60.000	0.00	0.00	0.00	3.46
3552	8626	1.380302	GGACCAGTGTGCCATCCTT	59.620	57.895	0.00	0.00	0.00	3.36
3594	8668	2.638325	TCAAAGGGATAGGTGGACCAA	58.362	47.619	0.00	0.00	38.89	3.67
3642	8716	1.531578	GAGCGGCGAATAGGAAATTCC	59.468	52.381	12.98	3.29	36.58	3.01
3643	8717	2.484889	AGAGCGGCGAATAGGAAATTC	58.515	47.619	12.98	0.00	0.00	2.17
3644	8718	2.622064	AGAGCGGCGAATAGGAAATT	57.378	45.000	12.98	0.00	0.00	1.82
3645	8719	2.614057	CAAAGAGCGGCGAATAGGAAAT	59.386	45.455	12.98	0.00	0.00	2.17
3646	8720	2.006888	CAAAGAGCGGCGAATAGGAAA	58.993	47.619	12.98	0.00	0.00	3.13
3647	8721	1.651987	CAAAGAGCGGCGAATAGGAA	58.348	50.000	12.98	0.00	0.00	3.36
3648	8722	0.810031	GCAAAGAGCGGCGAATAGGA	60.810	55.000	12.98	0.00	0.00	2.94
3649	8723	1.643832	GCAAAGAGCGGCGAATAGG	59.356	57.895	12.98	0.00	0.00	2.57
3659	8733	2.018324	GCAGTTTGCCGCAAAGAGC	61.018	57.895	18.80	19.71	37.42	4.09
3660	8734	4.233408	GCAGTTTGCCGCAAAGAG	57.767	55.556	18.80	14.49	37.42	2.85
3669	8743	1.082104	CGAAACCTCGGCAGTTTGC	60.082	57.895	2.45	0.00	44.08	3.68
3670	8744	1.082104	GCGAAACCTCGGCAGTTTG	60.082	57.895	2.45	0.00	45.55	2.93
3671	8745	1.525077	TGCGAAACCTCGGCAGTTT	60.525	52.632	0.00	0.00	45.55	2.66
3672	8746	2.110213	TGCGAAACCTCGGCAGTT	59.890	55.556	0.00	0.00	45.55	3.16
3673	8747	2.665185	GTGCGAAACCTCGGCAGT	60.665	61.111	0.00	0.00	45.55	4.40
3674	8748	2.664851	TGTGCGAAACCTCGGCAG	60.665	61.111	0.00	0.00	45.55	4.85
3675	8749	2.664851	CTGTGCGAAACCTCGGCA	60.665	61.111	0.00	0.00	45.55	5.69
3676	8750	3.423154	CCTGTGCGAAACCTCGGC	61.423	66.667	0.00	0.00	45.55	5.54
3677	8751	2.521958	ATCCCTGTGCGAAACCTCGG	62.522	60.000	0.00	0.00	45.55	4.63
3679	8753	2.484889	GATATCCCTGTGCGAAACCTC	58.515	52.381	0.00	0.00	0.00	3.85
3680	8754	1.202533	CGATATCCCTGTGCGAAACCT	60.203	52.381	0.00	0.00	0.00	3.50
3681	8755	1.217882	CGATATCCCTGTGCGAAACC	58.782	55.000	0.00	0.00	0.00	3.27

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.