AutoCloner

Multiple sequence alignment - TraesCS6D01G361900

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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	TraesCS6D01G361900	chr6D	100.000	2759	0	0	1	2759	452723406	452720648	0.000000e+00	5096.0
1	TraesCS6D01G361900	chr6D	85.891	404	53	4	1247	1648	296348042	296347641	7.060000e-116	427.0
2	TraesCS6D01G361900	chr6D	92.553	94	6	1	2524	2617	56114204	56114296	1.720000e-27	134.0
3	TraesCS6D01G361900	chr6A	94.011	2638	89	35	149	2759	598620805	598618210	0.000000e+00	3932.0
4	TraesCS6D01G361900	chr6A	86.139	404	52	4	1247	1648	422328663	422328262	1.520000e-117	433.0
5	TraesCS6D01G361900	chr6A	95.492	244	7	2	2518	2759	598616144	598615903	1.200000e-103	387.0
6	TraesCS6D01G361900	chr6B	94.816	2199	63	22	593	2759	687526062	687523883	0.000000e+00	3382.0
7	TraesCS6D01G361900	chr6B	92.903	465	12	9	149	603	687526858	687526405	0.000000e+00	656.0
8	TraesCS6D01G361900	chr6B	86.284	401	51	4	1247	1645	460928705	460929103	1.520000e-117	433.0
9	TraesCS6D01G361900	chr6B	92.683	82	5	1	61	142	687526912	687526832	1.740000e-22	117.0
10	TraesCS6D01G361900	chr4B	91.500	400	29	4	2081	2480	343861678	343862072	1.870000e-151	545.0
11	TraesCS6D01G361900	chr2D	86.131	411	55	2	1236	1645	483256320	483255911	2.520000e-120	442.0
12	TraesCS6D01G361900	chr2D	95.588	136	6	0	2194	2329	494965757	494965622	4.630000e-53	219.0
13	TraesCS6D01G361900	chr2D	95.181	83	3	1	2456	2537	494965618	494965536	2.230000e-26	130.0
14	TraesCS6D01G361900	chr2B	85.888	411	56	2	1236	1645	568275143	568275552	1.170000e-118	436.0
15	TraesCS6D01G361900	chr1D	84.988	433	59	6	1243	1672	393750476	393750047	4.220000e-118	435.0
16	TraesCS6D01G361900	chr2A	85.645	411	57	2	1236	1645	626589676	626589267	5.460000e-117	431.0
17	TraesCS6D01G361900	chr7D	98.214	168	2	1	2313	2480	609322023	609322189	2.690000e-75	292.0
18	TraesCS6D01G361900	chr7D	96.947	131	3	1	2196	2326	110150650	110150779	4.630000e-53	219.0
19	TraesCS6D01G361900	chr7D	90.385	104	10	0	2507	2610	57624017	57624120	1.330000e-28	137.0
20	TraesCS6D01G361900	chr7D	93.827	81	5	0	2456	2536	110150786	110150866	3.730000e-24	122.0
21	TraesCS6D01G361900	chr4D	92.593	162	11	1	2456	2617	87148486	87148326	5.940000e-57	231.0
22	TraesCS6D01G361900	chr4D	96.992	133	4	0	2197	2329	87148622	87148490	9.940000e-55	224.0
23	TraesCS6D01G361900	chr4D	94.000	50	3	0	1995	2044	87148817	87148768	2.950000e-10	76.8
24	TraesCS6D01G361900	chr1B	92.593	162	11	1	2456	2617	271233537	271233697	5.940000e-57	231.0
25	TraesCS6D01G361900	chr1B	95.690	116	4	1	2212	2326	271233415	271233530	4.690000e-43	185.0
26	TraesCS6D01G361900	chr1B	90.000	50	5	0	1995	2044	271221870	271221919	6.380000e-07	65.8
27	TraesCS6D01G361900	chr4A	92.025	163	11	2	2456	2617	286715007	286714846	7.690000e-56	228.0
28	TraesCS6D01G361900	chr4A	96.324	136	5	0	2194	2329	286715146	286715011	9.940000e-55	224.0
29	TraesCS6D01G361900	chr4A	96.241	133	5	0	2194	2326	510344649	510344781	4.630000e-53	219.0
30	TraesCS6D01G361900	chr4A	90.123	162	15	1	2456	2617	510344788	510344948	2.780000e-50	209.0
31	TraesCS6D01G361900	chr4A	97.826	46	1	0	1995	2040	286715328	286715283	2.280000e-11	80.5
32	TraesCS6D01G361900	chr4A	94.000	50	3	0	1995	2044	510344457	510344506	2.950000e-10	76.8
33	TraesCS6D01G361900	chr7B	85.714	147	16	4	2081	2227	635639827	635639686	1.710000e-32	150.0

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	TraesCS6D01G361900	chr6D	452720648	452723406	2758	True	5096.0	5096	100.000000	1	2759	1	chr6D.!!$R2	2758
1	TraesCS6D01G361900	chr6A	598615903	598620805	4902	True	2159.5	3932	94.751500	149	2759	2	chr6A.!!$R2	2610
2	TraesCS6D01G361900	chr6B	687523883	687526912	3029	True	1385.0	3382	93.467333	61	2759	3	chr6B.!!$R1	2698

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
468	480	0.10741	TTCTCACACCACACCACACC	60.107	55.0	0.0	0.0	0.0	4.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2292	2703	1.679139	TCACTCCACTGTGCCTTTTG	58.321	50.0	1.29	0.0	37.81	2.44	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	6.040878	AGCACGCTAATAGTGTACTTTAAGG	58.959	40.000	6.13	0.00	36.71	2.69
26	27	5.233689	GCACGCTAATAGTGTACTTTAAGGG	59.766	44.000	6.13	0.00	36.71	3.95
27	28	6.335777	CACGCTAATAGTGTACTTTAAGGGT	58.664	40.000	6.13	0.00	36.71	4.34
28	29	6.255020	CACGCTAATAGTGTACTTTAAGGGTG	59.745	42.308	6.13	15.72	36.71	4.61
29	30	5.751990	CGCTAATAGTGTACTTTAAGGGTGG	59.248	44.000	0.00	0.00	0.00	4.61
30	31	5.526479	GCTAATAGTGTACTTTAAGGGTGGC	59.474	44.000	0.00	0.00	0.00	5.01
31	32	2.467566	AGTGTACTTTAAGGGTGGCG	57.532	50.000	0.00	0.00	0.00	5.69
32	33	0.800631	GTGTACTTTAAGGGTGGCGC	59.199	55.000	0.00	0.00	0.00	6.53
33	34	0.688487	TGTACTTTAAGGGTGGCGCT	59.312	50.000	7.64	0.00	0.00	5.92
34	35	1.901159	TGTACTTTAAGGGTGGCGCTA	59.099	47.619	7.64	0.00	0.00	4.26
35	36	2.502538	TGTACTTTAAGGGTGGCGCTAT	59.497	45.455	7.64	0.00	0.00	2.97
36	37	2.801077	ACTTTAAGGGTGGCGCTATT	57.199	45.000	7.64	0.00	0.00	1.73
37	38	3.081710	ACTTTAAGGGTGGCGCTATTT	57.918	42.857	7.64	0.03	0.00	1.40
38	39	3.427573	ACTTTAAGGGTGGCGCTATTTT	58.572	40.909	7.64	0.00	0.00	1.82
39	40	3.830178	ACTTTAAGGGTGGCGCTATTTTT	59.170	39.130	7.64	0.00	0.00	1.94
57	58	4.314740	TTTTTCCATTGCACTACACACC	57.685	40.909	0.00	0.00	0.00	4.16
58	59	1.904287	TTCCATTGCACTACACACCC	58.096	50.000	0.00	0.00	0.00	4.61
59	60	0.767998	TCCATTGCACTACACACCCA	59.232	50.000	0.00	0.00	0.00	4.51
71	72	3.244033	ACACACCCAACACAACAATTG	57.756	42.857	3.24	3.24	0.00	2.32
74	75	4.081198	ACACACCCAACACAACAATTGATT	60.081	37.500	13.59	0.00	0.00	2.57
75	76	4.874966	CACACCCAACACAACAATTGATTT	59.125	37.500	13.59	0.00	0.00	2.17
99	100	6.702972	TTTTGTGAATTTAATCATGCCACG	57.297	33.333	0.00	0.00	0.00	4.94
131	132	7.424227	ACGCAATCAATTTGATTCAACATTT	57.576	28.000	19.34	0.00	43.03	2.32
239	243	5.538813	AGGAAAATTAGACCCTGTTTGGAAC	59.461	40.000	0.00	0.00	38.35	3.62
278	282	6.922407	CAGACAAGACCAGATACATACATCAG	59.078	42.308	0.00	0.00	0.00	2.90
452	464	4.620723	TCACCATCACTATACCACCTTCT	58.379	43.478	0.00	0.00	0.00	2.85
454	466	4.405680	CACCATCACTATACCACCTTCTCA	59.594	45.833	0.00	0.00	0.00	3.27
456	468	4.405680	CCATCACTATACCACCTTCTCACA	59.594	45.833	0.00	0.00	0.00	3.58
458	470	3.767673	TCACTATACCACCTTCTCACACC	59.232	47.826	0.00	0.00	0.00	4.16
459	471	3.513912	CACTATACCACCTTCTCACACCA	59.486	47.826	0.00	0.00	0.00	4.17
461	473	1.796017	TACCACCTTCTCACACCACA	58.204	50.000	0.00	0.00	0.00	4.17
462	474	0.180406	ACCACCTTCTCACACCACAC	59.820	55.000	0.00	0.00	0.00	3.82
463	475	0.535102	CCACCTTCTCACACCACACC	60.535	60.000	0.00	0.00	0.00	4.16
464	476	0.180171	CACCTTCTCACACCACACCA	59.820	55.000	0.00	0.00	0.00	4.17
465	477	0.180406	ACCTTCTCACACCACACCAC	59.820	55.000	0.00	0.00	0.00	4.16
466	478	0.180171	CCTTCTCACACCACACCACA	59.820	55.000	0.00	0.00	0.00	4.17
467	479	1.299541	CTTCTCACACCACACCACAC	58.700	55.000	0.00	0.00	0.00	3.82
468	480	0.107410	TTCTCACACCACACCACACC	60.107	55.000	0.00	0.00	0.00	4.16
469	481	1.223211	CTCACACCACACCACACCA	59.777	57.895	0.00	0.00	0.00	4.17
470	482	1.078072	TCACACCACACCACACCAC	60.078	57.895	0.00	0.00	0.00	4.16
471	483	1.377856	CACACCACACCACACCACA	60.378	57.895	0.00	0.00	0.00	4.17
574	593	1.305633	CCTCTCACCTCCTCCAGCA	60.306	63.158	0.00	0.00	0.00	4.41
580	599	2.362369	ACCTCCTCCAGCACCATCG	61.362	63.158	0.00	0.00	0.00	3.84
680	1054	1.041447	ATGGCAATCTTGGGCTGCTC	61.041	55.000	0.00	0.00	36.32	4.26
858	1241	1.605712	CGCGTCTCCTTCACTTCCTTT	60.606	52.381	0.00	0.00	0.00	3.11
909	1292	1.036707	AATCTCCTGACCTAGCGAGC	58.963	55.000	0.00	0.00	0.00	5.03
910	1293	0.184933	ATCTCCTGACCTAGCGAGCT	59.815	55.000	2.25	2.25	0.00	4.09
955	1338	2.041485	TGATGCATCCTTCTTGGTTGGA	59.959	45.455	23.67	0.00	39.60	3.53
999	1385	0.823460	AGTGAAGGAGAGCTAGCAGC	59.177	55.000	18.83	8.57	42.84	5.25
1164	1551	4.838486	GCTGGCTCGTCCTCGTCG	62.838	72.222	0.00	0.00	38.33	5.12
1578	1965	2.960170	GTCCGTCTGTACCTGCGT	59.040	61.111	0.00	0.00	0.00	5.24
1849	2247	2.677524	TTGGGATGCCAGTGCTGC	60.678	61.111	5.91	0.00	38.71	5.25
1850	2248	3.214190	TTGGGATGCCAGTGCTGCT	62.214	57.895	5.91	0.00	38.71	4.24
1851	2249	3.138798	GGGATGCCAGTGCTGCTG	61.139	66.667	0.00	2.51	44.63	4.41
1885	2283	1.535204	CCAAGGCCGCCATTGTTCTT	61.535	55.000	13.15	0.00	0.00	2.52
1886	2284	0.318120	CAAGGCCGCCATTGTTCTTT	59.682	50.000	13.15	0.00	0.00	2.52
1887	2285	1.543802	CAAGGCCGCCATTGTTCTTTA	59.456	47.619	13.15	0.00	0.00	1.85
2050	2454	8.397148	CAATTGGTAGCTGTTTGATTTTGTTTT	58.603	29.630	0.00	0.00	0.00	2.43
2070	2474	5.982465	TTTTGCCTGTTTCAATTTGCTAC	57.018	34.783	0.00	0.00	0.00	3.58
2114	2518	5.006552	GCTAGTAGTAGTGAACTAGTGACCG	59.993	48.000	6.47	0.00	44.61	4.79
2115	2519	3.688673	AGTAGTAGTGAACTAGTGACCGC	59.311	47.826	0.00	0.00	41.84	5.68
2169	2573	6.707599	AGAACAAAACTAGCATCGAACTAC	57.292	37.500	0.00	0.00	0.00	2.73
2292	2703	1.210478	TGCCCATTGTTAGGAGAGCTC	59.790	52.381	5.27	5.27	0.00	4.09
2521	2941	2.225467	ACTGCTTGCTCTTTCCTCAAC	58.775	47.619	0.00	0.00	0.00	3.18
2557	2980	5.518847	TGTAGTGCTAGTTTGAACGATATGC	59.481	40.000	0.00	0.00	0.00	3.14
2566	2989	4.465632	TTGAACGATATGCAGTACCAGT	57.534	40.909	0.00	0.00	0.00	4.00
2639	3062	3.495806	GGGGCAACAGATAGATGAGGAAG	60.496	52.174	0.00	0.00	39.74	3.46

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	7.198390	CCTTAAAGTACACTATTAGCGTGCTA	58.802	38.462	3.36	0.00	35.84	3.49
1	2	6.040878	CCTTAAAGTACACTATTAGCGTGCT	58.959	40.000	0.00	0.00	35.84	4.40
2	3	5.233689	CCCTTAAAGTACACTATTAGCGTGC	59.766	44.000	0.00	0.00	35.84	5.34
3	4	6.255020	CACCCTTAAAGTACACTATTAGCGTG	59.745	42.308	0.00	0.00	38.32	5.34
4	5	6.335777	CACCCTTAAAGTACACTATTAGCGT	58.664	40.000	0.00	0.00	0.00	5.07
5	6	5.751990	CCACCCTTAAAGTACACTATTAGCG	59.248	44.000	0.00	0.00	0.00	4.26
6	7	5.526479	GCCACCCTTAAAGTACACTATTAGC	59.474	44.000	0.00	0.00	0.00	3.09
7	8	5.751990	CGCCACCCTTAAAGTACACTATTAG	59.248	44.000	0.00	0.00	0.00	1.73
8	9	5.663456	CGCCACCCTTAAAGTACACTATTA	58.337	41.667	0.00	0.00	0.00	0.98
9	10	4.510571	CGCCACCCTTAAAGTACACTATT	58.489	43.478	0.00	0.00	0.00	1.73
10	11	3.680754	GCGCCACCCTTAAAGTACACTAT	60.681	47.826	0.00	0.00	0.00	2.12
11	12	2.354003	GCGCCACCCTTAAAGTACACTA	60.354	50.000	0.00	0.00	0.00	2.74
12	13	1.609841	GCGCCACCCTTAAAGTACACT	60.610	52.381	0.00	0.00	0.00	3.55
13	14	0.800631	GCGCCACCCTTAAAGTACAC	59.199	55.000	0.00	0.00	0.00	2.90
14	15	0.688487	AGCGCCACCCTTAAAGTACA	59.312	50.000	2.29	0.00	0.00	2.90
15	16	2.678471	TAGCGCCACCCTTAAAGTAC	57.322	50.000	2.29	0.00	0.00	2.73
16	17	3.918294	AATAGCGCCACCCTTAAAGTA	57.082	42.857	2.29	0.00	0.00	2.24
17	18	2.801077	AATAGCGCCACCCTTAAAGT	57.199	45.000	2.29	0.00	0.00	2.66
18	19	4.450082	AAAAATAGCGCCACCCTTAAAG	57.550	40.909	2.29	0.00	0.00	1.85
36	37	3.068873	GGGTGTGTAGTGCAATGGAAAAA	59.931	43.478	0.00	0.00	0.00	1.94
37	38	2.625790	GGGTGTGTAGTGCAATGGAAAA	59.374	45.455	0.00	0.00	0.00	2.29
38	39	2.235016	GGGTGTGTAGTGCAATGGAAA	58.765	47.619	0.00	0.00	0.00	3.13
39	40	1.143889	TGGGTGTGTAGTGCAATGGAA	59.856	47.619	0.00	0.00	0.00	3.53
40	41	0.767998	TGGGTGTGTAGTGCAATGGA	59.232	50.000	0.00	0.00	0.00	3.41
41	42	1.269448	GTTGGGTGTGTAGTGCAATGG	59.731	52.381	0.00	0.00	0.00	3.16
42	43	1.952990	TGTTGGGTGTGTAGTGCAATG	59.047	47.619	0.00	0.00	0.00	2.82
43	44	1.953686	GTGTTGGGTGTGTAGTGCAAT	59.046	47.619	0.00	0.00	0.00	3.56
44	45	1.340114	TGTGTTGGGTGTGTAGTGCAA	60.340	47.619	0.00	0.00	0.00	4.08
45	46	0.253327	TGTGTTGGGTGTGTAGTGCA	59.747	50.000	0.00	0.00	0.00	4.57
46	47	1.064952	GTTGTGTTGGGTGTGTAGTGC	59.935	52.381	0.00	0.00	0.00	4.40
47	48	2.360844	TGTTGTGTTGGGTGTGTAGTG	58.639	47.619	0.00	0.00	0.00	2.74
48	49	2.791347	TGTTGTGTTGGGTGTGTAGT	57.209	45.000	0.00	0.00	0.00	2.73
49	50	4.097135	TCAATTGTTGTGTTGGGTGTGTAG	59.903	41.667	5.13	0.00	0.00	2.74
50	51	4.017126	TCAATTGTTGTGTTGGGTGTGTA	58.983	39.130	5.13	0.00	0.00	2.90
51	52	2.828520	TCAATTGTTGTGTTGGGTGTGT	59.171	40.909	5.13	0.00	0.00	3.72
52	53	3.516981	TCAATTGTTGTGTTGGGTGTG	57.483	42.857	5.13	0.00	0.00	3.82
53	54	4.751767	AATCAATTGTTGTGTTGGGTGT	57.248	36.364	5.13	0.00	0.00	4.16
54	55	6.434018	AAAAATCAATTGTTGTGTTGGGTG	57.566	33.333	5.13	0.00	0.00	4.61
75	76	6.925718	TCGTGGCATGATTAAATTCACAAAAA	59.074	30.769	5.03	0.00	0.00	1.94
98	99	2.830772	ATTGATTGCGTTCACCATCG	57.169	45.000	0.00	0.00	0.00	3.84
99	100	4.484236	TCAAATTGATTGCGTTCACCATC	58.516	39.130	0.00	0.00	38.98	3.51
131	132	8.977267	AATCAAATTCCCATGAAGAAACAAAA	57.023	26.923	0.00	0.00	33.05	2.44
140	141	6.377996	AGAATGTCGAATCAAATTCCCATGAA	59.622	34.615	0.00	0.00	35.89	2.57
141	142	5.887598	AGAATGTCGAATCAAATTCCCATGA	59.112	36.000	0.00	0.00	35.89	3.07
142	143	6.140303	AGAATGTCGAATCAAATTCCCATG	57.860	37.500	0.00	0.00	35.89	3.66
143	144	6.780457	AAGAATGTCGAATCAAATTCCCAT	57.220	33.333	0.00	0.00	35.89	4.00
144	145	6.015519	ACAAAGAATGTCGAATCAAATTCCCA	60.016	34.615	0.00	0.00	37.96	4.37
145	146	6.389906	ACAAAGAATGTCGAATCAAATTCCC	58.610	36.000	0.00	0.00	37.96	3.97
146	147	7.873739	AACAAAGAATGTCGAATCAAATTCC	57.126	32.000	0.00	0.00	42.99	3.01
147	148	9.185192	AGAAACAAAGAATGTCGAATCAAATTC	57.815	29.630	0.00	0.00	42.99	2.17
239	243	5.290386	GTCTTGTCTGGGAATATTCCTACG	58.710	45.833	29.24	18.47	46.72	3.51
452	464	1.078072	GTGGTGTGGTGTGGTGTGA	60.078	57.895	0.00	0.00	0.00	3.58
454	466	1.377987	GTGTGGTGTGGTGTGGTGT	60.378	57.895	0.00	0.00	0.00	4.16
456	468	2.274104	GGTGTGGTGTGGTGTGGT	59.726	61.111	0.00	0.00	0.00	4.16
458	470	1.377856	TGTGGTGTGGTGTGGTGTG	60.378	57.895	0.00	0.00	0.00	3.82
459	471	1.377987	GTGTGGTGTGGTGTGGTGT	60.378	57.895	0.00	0.00	0.00	4.16
461	473	2.274104	GGTGTGGTGTGGTGTGGT	59.726	61.111	0.00	0.00	0.00	4.16
462	474	2.118404	GTGGTGTGGTGTGGTGTGG	61.118	63.158	0.00	0.00	0.00	4.17
463	475	1.377856	TGTGGTGTGGTGTGGTGTG	60.378	57.895	0.00	0.00	0.00	3.82
464	476	1.377987	GTGTGGTGTGGTGTGGTGT	60.378	57.895	0.00	0.00	0.00	4.16
465	477	2.118404	GGTGTGGTGTGGTGTGGTG	61.118	63.158	0.00	0.00	0.00	4.17
466	478	2.274104	GGTGTGGTGTGGTGTGGT	59.726	61.111	0.00	0.00	0.00	4.16
467	479	2.899838	CGGTGTGGTGTGGTGTGG	60.900	66.667	0.00	0.00	0.00	4.17
468	480	3.582120	GCGGTGTGGTGTGGTGTG	61.582	66.667	0.00	0.00	0.00	3.82
469	481	4.868116	GGCGGTGTGGTGTGGTGT	62.868	66.667	0.00	0.00	0.00	4.16
470	482	3.171828	TAGGCGGTGTGGTGTGGTG	62.172	63.158	0.00	0.00	0.00	4.17
471	483	2.845317	TAGGCGGTGTGGTGTGGT	60.845	61.111	0.00	0.00	0.00	4.16
574	593	2.158900	GGATGGATGAACAGTCGATGGT	60.159	50.000	0.00	0.00	0.00	3.55
580	599	2.441001	AGATGGGGATGGATGAACAGTC	59.559	50.000	0.00	0.00	0.00	3.51
909	1292	0.179127	TGCTCCGATTCAAGCGAGAG	60.179	55.000	0.00	2.76	41.51	3.20
910	1293	0.246360	TTGCTCCGATTCAAGCGAGA	59.754	50.000	0.00	0.00	41.51	4.04
999	1385	1.064537	TGGTGATGGTGGTGATCCATG	60.065	52.381	2.04	0.00	46.20	3.66
1578	1965	4.671590	TGCGTCTCCCGGACCTCA	62.672	66.667	0.73	0.00	41.64	3.86
1611	1998	4.260825	CGCTTCTTCTTCTCGTAGCTGATA	60.261	45.833	0.00	0.00	0.00	2.15
1816	2211	2.039084	TCCCAAGAAGGAGAGAACTTGC	59.961	50.000	0.00	0.00	41.22	4.01
1817	2212	4.260170	CATCCCAAGAAGGAGAGAACTTG	58.740	47.826	0.00	0.00	39.95	3.16
1818	2213	3.308046	GCATCCCAAGAAGGAGAGAACTT	60.308	47.826	0.00	0.00	39.95	2.66
1819	2214	2.238395	GCATCCCAAGAAGGAGAGAACT	59.762	50.000	0.00	0.00	39.95	3.01
1849	2247	2.093306	TGGCGTAGTTGATGAACCAG	57.907	50.000	0.00	0.00	31.81	4.00
1850	2248	2.422597	CTTGGCGTAGTTGATGAACCA	58.577	47.619	0.00	0.00	31.81	3.67
1851	2249	1.737793	CCTTGGCGTAGTTGATGAACC	59.262	52.381	0.00	0.00	31.81	3.62
1885	2283	5.930837	CCAATTGGGAAGGCAAGTAATAA	57.069	39.130	17.36	0.00	40.01	1.40
2050	2454	3.640967	AGGTAGCAAATTGAAACAGGCAA	59.359	39.130	0.00	0.00	0.00	4.52
2070	2474	2.552315	GCTAGAGATTCTCACGAGGAGG	59.448	54.545	15.83	0.00	44.19	4.30
2114	2518	2.231964	TCCAATGCCAAAATGACTCAGC	59.768	45.455	0.00	0.00	0.00	4.26
2115	2519	3.760151	TCTCCAATGCCAAAATGACTCAG	59.240	43.478	0.00	0.00	0.00	3.35
2169	2573	6.392354	TCTTTTGGCAAGAGCAAATTCTATG	58.608	36.000	12.62	0.00	44.61	2.23
2292	2703	1.679139	TCACTCCACTGTGCCTTTTG	58.321	50.000	1.29	0.00	37.81	2.44
2499	2919	3.045601	TGAGGAAAGAGCAAGCAGTAC	57.954	47.619	0.00	0.00	0.00	2.73
2557	2980	2.434336	TGCCCATAGCTAACTGGTACTG	59.566	50.000	11.58	0.00	44.23	2.74
2566	2989	0.548031	AGCTTGCTGCCCATAGCTAA	59.452	50.000	12.05	0.00	41.87	3.09
2639	3062	2.677337	TCTTTTGCTTGGCTTTGTTTGC	59.323	40.909	0.00	0.00	0.00	3.68

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.