AutoCloner

Multiple sequence alignment - TraesCS2B01G559700

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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	TraesCS2B01G559700	chr2B	100.000	2555	0	0	1	2555	753765251	753767805	0.000000e+00	4719.0
1	TraesCS2B01G559700	chr2B	95.928	2456	73	9	106	2555	753828978	753826544	0.000000e+00	3956.0
2	TraesCS2B01G559700	chr2B	87.952	1494	130	21	316	1796	753749178	753750634	0.000000e+00	1716.0
3	TraesCS2B01G559700	chr2B	89.868	908	85	2	848	1749	753843317	753842411	0.000000e+00	1160.0
4	TraesCS2B01G559700	chr2D	89.036	1514	133	16	316	1818	617511102	617512593	0.000000e+00	1845.0
5	TraesCS2B01G559700	chr2D	85.292	1455	176	23	376	1812	617463421	617464855	0.000000e+00	1467.0
6	TraesCS2B01G559700	chr2A	93.951	1091	61	4	730	1818	748165831	748166918	0.000000e+00	1644.0
7	TraesCS2B01G559700	chr2A	93.676	1091	65	3	730	1818	748124838	748125926	0.000000e+00	1629.0
8	TraesCS2B01G559700	chr2A	93.401	1091	68	3	730	1818	748190191	748191279	0.000000e+00	1613.0
9	TraesCS2B01G559700	chr2A	86.235	1453	162	24	376	1812	748079741	748081171	0.000000e+00	1541.0
10	TraesCS2B01G559700	chr2A	92.208	539	38	4	103	639	748165296	748165832	0.000000e+00	760.0
11	TraesCS2B01G559700	chr2A	91.589	535	42	3	106	639	748189660	748190192	0.000000e+00	736.0
12	TraesCS2B01G559700	chr2A	85.657	495	54	11	1814	2299	695804057	695803571	2.930000e-139	505.0
13	TraesCS2B01G559700	chr2A	85.356	478	52	10	1832	2296	741738352	741738824	1.780000e-131	479.0
14	TraesCS2B01G559700	chr2A	91.884	345	25	3	296	639	748124497	748124839	1.780000e-131	479.0
15	TraesCS2B01G559700	chr2A	89.583	192	12	3	106	297	748089614	748089797	1.180000e-58	237.0
16	TraesCS2B01G559700	chr2A	94.828	58	3	0	2441	2498	240133995	240133938	9.730000e-15	91.6
17	TraesCS2B01G559700	chr4A	84.974	579	51	20	1845	2393	567392908	567392336	2.870000e-154	555.0
18	TraesCS2B01G559700	chr4A	80.102	196	24	9	2304	2499	365038332	365038152	5.740000e-27	132.0
19	TraesCS2B01G559700	chr4A	92.424	66	5	0	2435	2500	580666166	580666231	7.530000e-16	95.3
20	TraesCS2B01G559700	chr3B	88.025	476	43	8	1832	2299	330774829	330775298	3.720000e-153	551.0
21	TraesCS2B01G559700	chr3B	84.848	99	14	1	230	328	378459777	378459680	5.820000e-17	99.0
22	TraesCS2B01G559700	chrUn	86.469	473	48	9	1834	2299	1931737	1931274	2.930000e-139	505.0
23	TraesCS2B01G559700	chrUn	92.308	91	7	0	2303	2393	269552213	269552123	2.060000e-26	130.0
24	TraesCS2B01G559700	chrUn	92.308	91	7	0	2303	2393	276440659	276440749	2.060000e-26	130.0
25	TraesCS2B01G559700	chrUn	90.000	70	7	0	2428	2497	1930878	1930809	9.730000e-15	91.6
26	TraesCS2B01G559700	chr1D	86.008	486	48	12	1831	2303	485875823	485875345	1.060000e-138	503.0
27	TraesCS2B01G559700	chr1D	80.500	200	21	9	2300	2499	411043876	411044057	1.230000e-28	137.0
28	TraesCS2B01G559700	chr1D	77.551	196	24	9	2303	2498	404763076	404762901	1.620000e-17	100.0
29	TraesCS2B01G559700	chr7D	86.042	480	50	13	1832	2303	48848334	48848804	1.360000e-137	499.0
30	TraesCS2B01G559700	chr7D	85.625	480	52	13	1832	2303	48892668	48893138	2.950000e-134	488.0
31	TraesCS2B01G559700	chr5A	85.455	495	54	12	1814	2299	450410681	450411166	1.360000e-137	499.0
32	TraesCS2B01G559700	chr5A	85.106	94	14	0	226	319	346175172	346175079	2.090000e-16	97.1
33	TraesCS2B01G559700	chr4D	89.831	236	23	1	2129	2363	227674447	227674212	4.130000e-78	302.0
34	TraesCS2B01G559700	chr4D	89.744	78	8	0	2389	2466	40795414	40795491	1.620000e-17	100.0
35	TraesCS2B01G559700	chr5B	81.429	210	26	7	2303	2499	491443837	491443628	2.630000e-35	159.0
36	TraesCS2B01G559700	chr5D	92.473	93	5	2	2306	2396	227398548	227398456	5.740000e-27	132.0
37	TraesCS2B01G559700	chr3D	90.110	91	9	0	2303	2393	290312463	290312553	4.470000e-23	119.0
38	TraesCS2B01G559700	chr1A	79.293	198	20	7	2303	2499	131687434	131687611	4.470000e-23	119.0
39	TraesCS2B01G559700	chr1B	79.167	192	22	10	2309	2499	194788691	194788865	1.610000e-22	117.0
40	TraesCS2B01G559700	chr4B	89.011	91	10	0	2303	2393	81010383	81010473	2.080000e-21	113.0
41	TraesCS2B01G559700	chr6A	86.170	94	11	1	226	319	50253294	50253385	1.620000e-17	100.0
42	TraesCS2B01G559700	chr6A	84.694	98	12	3	223	319	101842633	101842728	7.530000e-16	95.3
43	TraesCS2B01G559700	chr6B	84.375	96	15	0	223	318	687261465	687261560	7.530000e-16	95.3
44	TraesCS2B01G559700	chr3A	84.375	96	15	0	226	321	621328243	621328148	7.530000e-16	95.3
45	TraesCS2B01G559700	chr7A	95.349	43	2	0	38	80	22256630	22256588	4.560000e-08	69.4
46	TraesCS2B01G559700	chr7A	89.796	49	5	0	32	80	22321761	22321809	2.120000e-06	63.9

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	TraesCS2B01G559700	chr2B	753765251	753767805	2554	False	4719.0	4719	100.0000	1	2555	1	chr2B.!!$F2	2554
1	TraesCS2B01G559700	chr2B	753826544	753828978	2434	True	3956.0	3956	95.9280	106	2555	1	chr2B.!!$R1	2449
2	TraesCS2B01G559700	chr2B	753749178	753750634	1456	False	1716.0	1716	87.9520	316	1796	1	chr2B.!!$F1	1480
3	TraesCS2B01G559700	chr2B	753842411	753843317	906	True	1160.0	1160	89.8680	848	1749	1	chr2B.!!$R2	901
4	TraesCS2B01G559700	chr2D	617511102	617512593	1491	False	1845.0	1845	89.0360	316	1818	1	chr2D.!!$F2	1502
5	TraesCS2B01G559700	chr2D	617463421	617464855	1434	False	1467.0	1467	85.2920	376	1812	1	chr2D.!!$F1	1436
6	TraesCS2B01G559700	chr2A	748079741	748081171	1430	False	1541.0	1541	86.2350	376	1812	1	chr2A.!!$F2	1436
7	TraesCS2B01G559700	chr2A	748165296	748166918	1622	False	1202.0	1644	93.0795	103	1818	2	chr2A.!!$F5	1715
8	TraesCS2B01G559700	chr2A	748189660	748191279	1619	False	1174.5	1613	92.4950	106	1818	2	chr2A.!!$F6	1712
9	TraesCS2B01G559700	chr2A	748124497	748125926	1429	False	1054.0	1629	92.7800	296	1818	2	chr2A.!!$F4	1522
10	TraesCS2B01G559700	chr4A	567392336	567392908	572	True	555.0	555	84.9740	1845	2393	1	chr4A.!!$R2	548
11	TraesCS2B01G559700	chrUn	1930809	1931737	928	True	298.3	505	88.2345	1834	2497	2	chrUn.!!$R2	663

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
695	707	1.13379	GACTGCACTTCATCCAATGCC	59.866	52.381	0.0	0.0	37.26	4.4	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2344	2643	1.209275	CGCTTTCATAGAGACCGCGG	61.209	60.0	26.86	26.86	39.86	6.46	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
25	26	8.908786	AGATTCAGTTTGACTCATCTAAACAA	57.091	30.769	0.00	0.00	36.91	2.83
26	27	9.342308	AGATTCAGTTTGACTCATCTAAACAAA	57.658	29.630	0.00	0.00	36.91	2.83
27	28	9.604626	GATTCAGTTTGACTCATCTAAACAAAG	57.395	33.333	0.00	0.00	36.91	2.77
28	29	7.496529	TCAGTTTGACTCATCTAAACAAAGG	57.503	36.000	0.00	0.00	36.91	3.11
29	30	7.054124	TCAGTTTGACTCATCTAAACAAAGGT	58.946	34.615	0.00	0.00	36.91	3.50
30	31	8.208224	TCAGTTTGACTCATCTAAACAAAGGTA	58.792	33.333	0.00	0.00	36.91	3.08
31	32	8.836413	CAGTTTGACTCATCTAAACAAAGGTAA	58.164	33.333	0.00	0.00	36.91	2.85
32	33	8.837389	AGTTTGACTCATCTAAACAAAGGTAAC	58.163	33.333	0.00	0.00	36.91	2.50
33	34	8.837389	GTTTGACTCATCTAAACAAAGGTAACT	58.163	33.333	0.00	0.00	40.38	2.24
62	63	9.615660	AGAAGTTATTATATCCTACCACCATGA	57.384	33.333	0.00	0.00	0.00	3.07
69	70	8.918202	TTATATCCTACCACCATGATTTGAAC	57.082	34.615	0.00	0.00	0.00	3.18
70	71	4.649267	TCCTACCACCATGATTTGAACA	57.351	40.909	0.00	0.00	0.00	3.18
71	72	4.331968	TCCTACCACCATGATTTGAACAC	58.668	43.478	0.00	0.00	0.00	3.32
72	73	4.078537	CCTACCACCATGATTTGAACACA	58.921	43.478	0.00	0.00	0.00	3.72
73	74	4.706476	CCTACCACCATGATTTGAACACAT	59.294	41.667	0.00	0.00	0.00	3.21
74	75	5.185635	CCTACCACCATGATTTGAACACATT	59.814	40.000	0.00	0.00	0.00	2.71
75	76	6.376864	CCTACCACCATGATTTGAACACATTA	59.623	38.462	0.00	0.00	0.00	1.90
76	77	6.662865	ACCACCATGATTTGAACACATTAA	57.337	33.333	0.00	0.00	0.00	1.40
77	78	7.243604	ACCACCATGATTTGAACACATTAAT	57.756	32.000	0.00	0.00	0.00	1.40
78	79	8.359875	ACCACCATGATTTGAACACATTAATA	57.640	30.769	0.00	0.00	0.00	0.98
79	80	8.811017	ACCACCATGATTTGAACACATTAATAA	58.189	29.630	0.00	0.00	0.00	1.40
80	81	9.820725	CCACCATGATTTGAACACATTAATAAT	57.179	29.630	0.00	0.00	0.00	1.28
86	87	9.484326	TGATTTGAACACATTAATAATTCGACG	57.516	29.630	0.00	0.00	0.00	5.12
87	88	9.485591	GATTTGAACACATTAATAATTCGACGT	57.514	29.630	0.00	0.00	0.00	4.34
90	91	9.909043	TTGAACACATTAATAATTCGACGTATG	57.091	29.630	0.00	0.00	0.00	2.39
91	92	9.303537	TGAACACATTAATAATTCGACGTATGA	57.696	29.630	0.00	0.00	0.00	2.15
95	96	9.040543	CACATTAATAATTCGACGTATGATTGC	57.959	33.333	7.18	0.00	0.00	3.56
96	97	8.769891	ACATTAATAATTCGACGTATGATTGCA	58.230	29.630	7.18	0.00	0.00	4.08
97	98	9.759259	CATTAATAATTCGACGTATGATTGCAT	57.241	29.630	7.18	0.00	38.54	3.96
98	99	9.973246	ATTAATAATTCGACGTATGATTGCATC	57.027	29.630	7.18	0.00	35.94	3.91
99	100	4.374990	AATTCGACGTATGATTGCATCG	57.625	40.909	0.00	0.00	35.94	3.84
100	101	2.766970	TCGACGTATGATTGCATCGA	57.233	45.000	0.92	0.92	35.94	3.59
101	102	2.650608	TCGACGTATGATTGCATCGAG	58.349	47.619	0.92	0.00	35.94	4.04
102	103	2.289547	TCGACGTATGATTGCATCGAGA	59.710	45.455	0.92	0.00	35.94	4.04
103	104	3.058224	TCGACGTATGATTGCATCGAGAT	60.058	43.478	0.92	0.00	35.94	2.75
104	105	3.670523	CGACGTATGATTGCATCGAGATT	59.329	43.478	0.00	0.00	35.94	2.40
239	241	9.720874	AGATGATAGGAGCCATATTACTTATCA	57.279	33.333	0.00	0.00	36.39	2.15
242	244	8.972127	TGATAGGAGCCATATTACTTATCACTC	58.028	37.037	0.00	0.00	30.48	3.51
247	249	9.944376	GGAGCCATATTACTTATCACTCAAATA	57.056	33.333	0.00	0.00	0.00	1.40
695	707	1.133790	GACTGCACTTCATCCAATGCC	59.866	52.381	0.00	0.00	37.26	4.40
952	980	9.831737	GTGACATTATATTTGCATGTTAGGATC	57.168	33.333	0.00	0.00	31.10	3.36
990	1018	2.890945	TGACACAAGCTCTAGCACAGTA	59.109	45.455	4.54	0.00	45.16	2.74
1032	1060	7.064866	AGCTTCTCCAAAATCCATCATCAATA	58.935	34.615	0.00	0.00	0.00	1.90
1043	1071	9.669887	AAATCCATCATCAATATCTAGAGCTTC	57.330	33.333	0.00	0.00	0.00	3.86
1501	1529	9.713684	ATGGGATTGATATGGAAGAAAAGTTTA	57.286	29.630	0.00	0.00	0.00	2.01
1761	1804	4.460263	ACACAGTTGCTGATCCTACAAAA	58.540	39.130	2.91	0.00	35.18	2.44
1789	1834	1.150081	GCATGCCATCCTAGCCACT	59.850	57.895	6.36	0.00	0.00	4.00
1875	1921	5.201713	TGCAACGGGAAAATTGATGTTTA	57.798	34.783	0.00	0.00	0.00	2.01
1900	1946	3.052745	CACGCATAATGTCTCGTAGCAT	58.947	45.455	0.00	0.00	33.51	3.79
2173	2254	6.493802	ACCTTTTTACCTCAAATCCTTCCTTC	59.506	38.462	0.00	0.00	0.00	3.46
2269	2350	9.816787	TTACCCACAATCCTTTCTTTAATTAGT	57.183	29.630	0.00	0.00	0.00	2.24
2272	2353	8.971073	CCCACAATCCTTTCTTTAATTAGTCAT	58.029	33.333	0.00	0.00	0.00	3.06
2309	2608	6.463995	TCCTATTTAAGCCGCATTCAATTT	57.536	33.333	0.00	0.00	0.00	1.82
2409	2734	0.037975	ACCAGCGAACCGTACGAAAT	60.038	50.000	18.76	1.48	0.00	2.17

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	9.604626	CTTTGTTTAGATGAGTCAAACTGAATC	57.395	33.333	0.00	0.00	41.40	2.52
2	3	8.571336	CCTTTGTTTAGATGAGTCAAACTGAAT	58.429	33.333	0.00	0.00	34.12	2.57
3	4	7.556275	ACCTTTGTTTAGATGAGTCAAACTGAA	59.444	33.333	0.00	0.55	34.12	3.02
4	5	7.054124	ACCTTTGTTTAGATGAGTCAAACTGA	58.946	34.615	0.00	0.00	34.12	3.41
5	6	7.264373	ACCTTTGTTTAGATGAGTCAAACTG	57.736	36.000	0.00	0.00	34.12	3.16
6	7	8.837389	GTTACCTTTGTTTAGATGAGTCAAACT	58.163	33.333	0.00	2.62	34.12	2.66
7	8	8.837389	AGTTACCTTTGTTTAGATGAGTCAAAC	58.163	33.333	0.00	0.00	33.70	2.93
8	9	8.974060	AGTTACCTTTGTTTAGATGAGTCAAA	57.026	30.769	0.00	0.00	0.00	2.69
36	37	9.615660	TCATGGTGGTAGGATATAATAACTTCT	57.384	33.333	0.00	0.00	0.00	2.85
43	44	9.520515	GTTCAAATCATGGTGGTAGGATATAAT	57.479	33.333	0.00	0.00	0.00	1.28
44	45	8.498575	TGTTCAAATCATGGTGGTAGGATATAA	58.501	33.333	0.00	0.00	0.00	0.98
45	46	7.936847	GTGTTCAAATCATGGTGGTAGGATATA	59.063	37.037	0.00	0.00	0.00	0.86
46	47	6.772716	GTGTTCAAATCATGGTGGTAGGATAT	59.227	38.462	0.00	0.00	0.00	1.63
47	48	6.119536	GTGTTCAAATCATGGTGGTAGGATA	58.880	40.000	0.00	0.00	0.00	2.59
48	49	4.949856	GTGTTCAAATCATGGTGGTAGGAT	59.050	41.667	0.00	0.00	0.00	3.24
49	50	4.202514	TGTGTTCAAATCATGGTGGTAGGA	60.203	41.667	0.00	0.00	0.00	2.94
50	51	4.078537	TGTGTTCAAATCATGGTGGTAGG	58.921	43.478	0.00	0.00	0.00	3.18
51	52	5.902613	ATGTGTTCAAATCATGGTGGTAG	57.097	39.130	0.00	0.00	0.00	3.18
52	53	7.767250	TTAATGTGTTCAAATCATGGTGGTA	57.233	32.000	0.00	0.00	0.00	3.25
53	54	6.662865	TTAATGTGTTCAAATCATGGTGGT	57.337	33.333	0.00	0.00	0.00	4.16
54	55	9.820725	ATTATTAATGTGTTCAAATCATGGTGG	57.179	29.630	0.00	0.00	0.00	4.61
60	61	9.484326	CGTCGAATTATTAATGTGTTCAAATCA	57.516	29.630	0.00	0.00	0.00	2.57
61	62	9.485591	ACGTCGAATTATTAATGTGTTCAAATC	57.514	29.630	0.00	0.00	0.00	2.17
64	65	9.909043	CATACGTCGAATTATTAATGTGTTCAA	57.091	29.630	0.00	0.00	0.00	2.69
65	66	9.303537	TCATACGTCGAATTATTAATGTGTTCA	57.696	29.630	0.00	0.00	0.00	3.18
69	70	9.040543	GCAATCATACGTCGAATTATTAATGTG	57.959	33.333	0.00	0.00	0.00	3.21
70	71	8.769891	TGCAATCATACGTCGAATTATTAATGT	58.230	29.630	0.00	0.00	0.00	2.71
71	72	9.759259	ATGCAATCATACGTCGAATTATTAATG	57.241	29.630	0.00	0.00	0.00	1.90
72	73	9.973246	GATGCAATCATACGTCGAATTATTAAT	57.027	29.630	0.00	0.00	44.70	1.40
73	74	8.159709	CGATGCAATCATACGTCGAATTATTAA	58.840	33.333	0.00	0.00	45.97	1.40
74	75	7.662761	CGATGCAATCATACGTCGAATTATTA	58.337	34.615	0.00	0.00	45.97	0.98
75	76	6.525355	CGATGCAATCATACGTCGAATTATT	58.475	36.000	0.00	0.00	45.97	1.40
76	77	6.082730	CGATGCAATCATACGTCGAATTAT	57.917	37.500	0.00	0.00	45.97	1.28
77	78	5.494863	CGATGCAATCATACGTCGAATTA	57.505	39.130	0.00	0.00	45.97	1.40
78	79	4.374990	CGATGCAATCATACGTCGAATT	57.625	40.909	0.00	0.00	45.97	2.17
82	83	2.650608	TCTCGATGCAATCATACGTCG	58.349	47.619	0.00	0.00	45.97	5.12
83	84	4.681483	TCAATCTCGATGCAATCATACGTC	59.319	41.667	0.00	0.00	45.97	4.34
84	85	4.620982	TCAATCTCGATGCAATCATACGT	58.379	39.130	0.00	0.00	45.97	3.57
85	86	4.919754	TCTCAATCTCGATGCAATCATACG	59.080	41.667	0.00	0.00	45.97	3.06
86	87	6.964741	ATCTCAATCTCGATGCAATCATAC	57.035	37.500	0.00	0.00	45.97	2.39
87	88	7.156673	TCAATCTCAATCTCGATGCAATCATA	58.843	34.615	0.00	0.00	45.97	2.15
88	89	5.995897	TCAATCTCAATCTCGATGCAATCAT	59.004	36.000	0.00	0.00	45.97	2.45
89	90	5.362263	TCAATCTCAATCTCGATGCAATCA	58.638	37.500	0.00	0.00	45.97	2.57
90	91	5.695363	TCTCAATCTCAATCTCGATGCAATC	59.305	40.000	0.00	0.00	40.89	2.67
91	92	5.608449	TCTCAATCTCAATCTCGATGCAAT	58.392	37.500	0.00	0.00	0.00	3.56
92	93	5.014808	TCTCAATCTCAATCTCGATGCAA	57.985	39.130	0.00	0.00	0.00	4.08
93	94	4.660789	TCTCAATCTCAATCTCGATGCA	57.339	40.909	0.00	0.00	0.00	3.96
94	95	6.542574	AAATCTCAATCTCAATCTCGATGC	57.457	37.500	0.00	0.00	0.00	3.91
125	126	8.627208	ATTAGATATCTCGATGCCAACATTTT	57.373	30.769	8.95	0.00	36.35	1.82
692	704	3.261390	CCCAATTTTCCATTCTTCAGGCA	59.739	43.478	0.00	0.00	0.00	4.75
695	707	6.437162	TCCTAACCCAATTTTCCATTCTTCAG	59.563	38.462	0.00	0.00	0.00	3.02
761	774	6.183360	ACACCTCATTGATTTGCGTTATAAGG	60.183	38.462	0.69	0.69	0.00	2.69
952	980	4.158579	TGTGTCACTACCAGCAGAGAATAG	59.841	45.833	4.27	0.00	0.00	1.73
954	982	2.899900	TGTGTCACTACCAGCAGAGAAT	59.100	45.455	4.27	0.00	0.00	2.40
990	1018	1.284198	AGCTCTGTCATTGCCCATTCT	59.716	47.619	0.00	0.00	0.00	2.40
1032	1060	2.383855	AGCTCGTTGGAAGCTCTAGAT	58.616	47.619	0.00	0.00	32.98	1.98
1043	1071	0.947244	AACTTCTGCAAGCTCGTTGG	59.053	50.000	0.00	0.00	36.56	3.77
1501	1529	2.358267	CGACCTTCGTAAGTGATAGGCT	59.642	50.000	0.00	0.00	34.72	4.58
1609	1639	7.822161	TCCATGGGTGATACATTTGAATTAG	57.178	36.000	13.02	0.00	0.00	1.73
1761	1804	2.109480	AGGATGGCATGCATGAATACCT	59.891	45.455	30.64	25.06	0.00	3.08
1816	1861	6.540083	ATGTGCTAGTACAAACCTAAAAGGT	58.460	36.000	17.90	0.00	40.59	3.50
1817	1862	8.612619	CATATGTGCTAGTACAAACCTAAAAGG	58.387	37.037	17.90	0.00	36.30	3.11
1875	1921	2.279741	ACGAGACATTATGCGTGCATT	58.720	42.857	13.20	0.00	37.82	3.56
1900	1946	5.529581	TGCATGTTCTATAGTGAATCCGA	57.470	39.130	0.00	0.00	0.00	4.55
2209	2290	8.560355	AATAATTAAAAGAACAATTGTGGGCC	57.440	30.769	12.82	0.00	0.00	5.80
2309	2608	7.961351	AGGTCAAAATAAATCAACATTGTGGA	58.039	30.769	0.00	0.00	0.00	4.02
2344	2643	1.209275	CGCTTTCATAGAGACCGCGG	61.209	60.000	26.86	26.86	39.86	6.46
2409	2734	1.271108	TGGGATGAGCGCACACTAAAA	60.271	47.619	10.42	0.00	34.12	1.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.