AutoCloner

Multiple sequence alignment - TraesCS7A01G454200

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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	TraesCS7A01G454200	chr7A	100.000	2699	0	0	1	2699	648524664	648527362	0.000000e+00	4985.0
1	TraesCS7A01G454200	chr7A	86.957	414	37	8	41	449	648575554	648575955	1.470000e-122	449.0
2	TraesCS7A01G454200	chr7A	83.898	354	50	5	448	796	648575899	648576250	5.570000e-87	331.0
3	TraesCS7A01G454200	chr7A	98.246	57	1	0	448	504	648525056	648525112	1.710000e-17	100.0
4	TraesCS7A01G454200	chr7A	98.246	57	1	0	393	449	648525111	648525167	1.710000e-17	100.0
5	TraesCS7A01G454200	chr7A	96.429	56	2	0	108	163	647916545	647916600	2.860000e-15	93.5
6	TraesCS7A01G454200	chrUn	94.182	1908	105	3	797	2699	86790471	86792377	0.000000e+00	2904.0
7	TraesCS7A01G454200	chr3B	89.811	1904	182	5	797	2699	664932429	664930537	0.000000e+00	2431.0
8	TraesCS7A01G454200	chr3B	78.800	250	48	3	2220	2464	4802354	4802603	2.150000e-36	163.0
9	TraesCS7A01G454200	chr3B	78.000	250	49	4	2220	2464	3914355	3914603	4.650000e-33	152.0
10	TraesCS7A01G454200	chr4A	91.317	1693	140	4	1013	2699	545854026	545852335	0.000000e+00	2305.0
11	TraesCS7A01G454200	chr4A	89.686	223	20	2	797	1019	545863032	545862813	5.690000e-72	281.0
12	TraesCS7A01G454200	chr7D	92.950	1532	94	3	797	2326	568183568	568182049	0.000000e+00	2218.0
13	TraesCS7A01G454200	chr7D	94.690	452	18	3	3	449	562926724	562927174	0.000000e+00	697.0
14	TraesCS7A01G454200	chr7D	92.717	357	18	1	448	796	562927118	562927474	2.400000e-140	508.0
15	TraesCS7A01G454200	chr7D	94.839	310	16	0	2390	2699	568181821	568181512	4.040000e-133	484.0
16	TraesCS7A01G454200	chr2B	91.154	1560	135	3	797	2354	30555253	30556811	0.000000e+00	2113.0
17	TraesCS7A01G454200	chr2B	90.331	393	27	4	2314	2697	746713224	746712834	3.100000e-139	505.0
18	TraesCS7A01G454200	chr2B	93.127	291	20	0	2409	2699	30557076	30557366	6.910000e-116	427.0
19	TraesCS7A01G454200	chr5A	89.778	1350	121	8	797	2146	631275732	631274400	0.000000e+00	1712.0
20	TraesCS7A01G454200	chr5A	91.637	562	41	3	2142	2697	631272649	631272088	0.000000e+00	773.0
21	TraesCS7A01G454200	chr5B	90.516	1202	111	3	1153	2353	43202343	43203542	0.000000e+00	1585.0
22	TraesCS7A01G454200	chr5B	92.357	929	68	3	797	1723	43197176	43196249	0.000000e+00	1319.0
23	TraesCS7A01G454200	chr5B	91.104	326	28	1	2374	2699	43203752	43204076	8.870000e-120	440.0
24	TraesCS7A01G454200	chr1D	82.876	1384	219	14	1321	2699	22564287	22565657	0.000000e+00	1227.0
25	TraesCS7A01G454200	chr1D	84.053	533	79	5	797	1324	22562019	22562550	2.400000e-140	508.0
26	TraesCS7A01G454200	chr7B	93.682	459	16	3	3	449	612609777	612610234	0.000000e+00	675.0
27	TraesCS7A01G454200	chr7B	93.654	457	16	3	3	447	612671348	612671803	0.000000e+00	671.0
28	TraesCS7A01G454200	chr7B	93.134	335	21	2	2366	2699	87166011	87165678	8.680000e-135	490.0
29	TraesCS7A01G454200	chr7B	86.327	373	26	9	448	795	612610178	612610550	1.520000e-102	383.0
30	TraesCS7A01G454200	chr7B	92.982	228	12	3	448	671	612671749	612671976	2.000000e-86	329.0
31	TraesCS7A01G454200	chr7B	94.030	134	8	0	663	796	612672005	612672138	1.270000e-48	204.0
32	TraesCS7A01G454200	chr7B	89.241	158	11	3	35	186	612635082	612635239	2.740000e-45	193.0

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	TraesCS7A01G454200	chr7A	648524664	648527362	2698	False	1728.333333	4985	98.830667	1	2699	3	chr7A.!!$F2	2698
1	TraesCS7A01G454200	chr7A	648575554	648576250	696	False	390.000000	449	85.427500	41	796	2	chr7A.!!$F3	755
2	TraesCS7A01G454200	chrUn	86790471	86792377	1906	False	2904.000000	2904	94.182000	797	2699	1	chrUn.!!$F1	1902
3	TraesCS7A01G454200	chr3B	664930537	664932429	1892	True	2431.000000	2431	89.811000	797	2699	1	chr3B.!!$R1	1902
4	TraesCS7A01G454200	chr4A	545852335	545854026	1691	True	2305.000000	2305	91.317000	1013	2699	1	chr4A.!!$R1	1686
5	TraesCS7A01G454200	chr7D	568181512	568183568	2056	True	1351.000000	2218	93.894500	797	2699	2	chr7D.!!$R1	1902
6	TraesCS7A01G454200	chr7D	562926724	562927474	750	False	602.500000	697	93.703500	3	796	2	chr7D.!!$F1	793
7	TraesCS7A01G454200	chr2B	30555253	30557366	2113	False	1270.000000	2113	92.140500	797	2699	2	chr2B.!!$F1	1902
8	TraesCS7A01G454200	chr5A	631272088	631275732	3644	True	1242.500000	1712	90.707500	797	2697	2	chr5A.!!$R1	1900
9	TraesCS7A01G454200	chr5B	43196249	43197176	927	True	1319.000000	1319	92.357000	797	1723	1	chr5B.!!$R1	926
10	TraesCS7A01G454200	chr5B	43202343	43204076	1733	False	1012.500000	1585	90.810000	1153	2699	2	chr5B.!!$F1	1546
11	TraesCS7A01G454200	chr1D	22562019	22565657	3638	False	867.500000	1227	83.464500	797	2699	2	chr1D.!!$F1	1902
12	TraesCS7A01G454200	chr7B	612609777	612610550	773	False	529.000000	675	90.004500	3	795	2	chr7B.!!$F2	792
13	TraesCS7A01G454200	chr7B	612671348	612672138	790	False	401.333333	671	93.555333	3	796	3	chr7B.!!$F3	793

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
281	287	0.587985	GCAACGACAAACGACACACC	60.588	55.0	0.0	0.0	45.77	4.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1896	3720	0.680921	CATGCACGTCCCTCCCAAAT	60.681	55.0	0.0	0.0	0.0	2.32	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
152	158	5.975988	TTATAGACCAAATTCAGGGCTCT	57.024	39.130	8.45	2.71	42.12	4.09
219	225	8.095937	AGCTTGAAGGTAATACAAACTAACAC	57.904	34.615	0.00	0.00	0.00	3.32
254	260	5.975344	TCACAGTACTGTAGAAACAAAGACG	59.025	40.000	27.48	10.98	42.83	4.18
281	287	0.587985	GCAACGACAAACGACACACC	60.588	55.000	0.00	0.00	45.77	4.16
423	437	9.023962	AGTTTCATATGACCTTTATTTCTTGCA	57.976	29.630	4.48	0.00	0.00	4.08
424	438	9.076596	GTTTCATATGACCTTTATTTCTTGCAC	57.923	33.333	4.48	0.00	0.00	4.57
425	439	8.579850	TTCATATGACCTTTATTTCTTGCACT	57.420	30.769	4.48	0.00	0.00	4.40
426	440	8.213518	TCATATGACCTTTATTTCTTGCACTC	57.786	34.615	0.00	0.00	0.00	3.51
427	441	5.904362	ATGACCTTTATTTCTTGCACTCC	57.096	39.130	0.00	0.00	0.00	3.85
428	442	4.985538	TGACCTTTATTTCTTGCACTCCT	58.014	39.130	0.00	0.00	0.00	3.69
429	443	5.385198	TGACCTTTATTTCTTGCACTCCTT	58.615	37.500	0.00	0.00	0.00	3.36
430	444	5.473504	TGACCTTTATTTCTTGCACTCCTTC	59.526	40.000	0.00	0.00	0.00	3.46
431	445	5.385198	ACCTTTATTTCTTGCACTCCTTCA	58.615	37.500	0.00	0.00	0.00	3.02
432	446	5.833131	ACCTTTATTTCTTGCACTCCTTCAA	59.167	36.000	0.00	0.00	0.00	2.69
433	447	6.323739	ACCTTTATTTCTTGCACTCCTTCAAA	59.676	34.615	0.00	0.00	0.00	2.69
434	448	7.015584	ACCTTTATTTCTTGCACTCCTTCAAAT	59.984	33.333	0.00	0.00	0.00	2.32
435	449	7.543520	CCTTTATTTCTTGCACTCCTTCAAATC	59.456	37.037	0.00	0.00	0.00	2.17
436	450	7.523293	TTATTTCTTGCACTCCTTCAAATCA	57.477	32.000	0.00	0.00	0.00	2.57
437	451	5.443185	TTTCTTGCACTCCTTCAAATCAG	57.557	39.130	0.00	0.00	0.00	2.90
438	452	4.356405	TCTTGCACTCCTTCAAATCAGA	57.644	40.909	0.00	0.00	0.00	3.27
439	453	4.321718	TCTTGCACTCCTTCAAATCAGAG	58.678	43.478	0.00	0.00	0.00	3.35
440	454	3.777106	TGCACTCCTTCAAATCAGAGT	57.223	42.857	0.00	0.00	40.15	3.24
445	459	5.559148	ACTCCTTCAAATCAGAGTGAGTT	57.441	39.130	0.00	0.00	38.15	3.01
453	467	6.659361	CAAATCAGAGTGAGTTGGTATCAG	57.341	41.667	8.81	0.00	45.45	2.90
454	468	6.169094	CAAATCAGAGTGAGTTGGTATCAGT	58.831	40.000	8.81	0.00	45.45	3.41
455	469	6.365970	AATCAGAGTGAGTTGGTATCAGTT	57.634	37.500	0.00	0.00	30.46	3.16
456	470	5.808366	TCAGAGTGAGTTGGTATCAGTTT	57.192	39.130	0.00	0.00	30.46	2.66
457	471	5.784177	TCAGAGTGAGTTGGTATCAGTTTC	58.216	41.667	0.00	0.00	30.46	2.78
458	472	5.304357	TCAGAGTGAGTTGGTATCAGTTTCA	59.696	40.000	0.00	0.00	30.46	2.69
459	473	6.014242	TCAGAGTGAGTTGGTATCAGTTTCAT	60.014	38.462	0.00	0.00	30.46	2.57
460	474	7.178451	TCAGAGTGAGTTGGTATCAGTTTCATA	59.822	37.037	0.00	0.00	30.46	2.15
461	475	7.984050	CAGAGTGAGTTGGTATCAGTTTCATAT	59.016	37.037	0.00	0.00	30.46	1.78
462	476	7.984050	AGAGTGAGTTGGTATCAGTTTCATATG	59.016	37.037	0.00	0.00	30.46	1.78
463	477	7.851228	AGTGAGTTGGTATCAGTTTCATATGA	58.149	34.615	0.00	0.00	0.00	2.15
464	478	7.766278	AGTGAGTTGGTATCAGTTTCATATGAC	59.234	37.037	4.48	0.00	0.00	3.06
465	479	7.011482	GTGAGTTGGTATCAGTTTCATATGACC	59.989	40.741	4.48	1.92	0.00	4.02
466	480	7.092891	TGAGTTGGTATCAGTTTCATATGACCT	60.093	37.037	4.48	1.44	0.00	3.85
467	481	7.633789	AGTTGGTATCAGTTTCATATGACCTT	58.366	34.615	4.48	0.00	0.00	3.50
468	482	8.109634	AGTTGGTATCAGTTTCATATGACCTTT	58.890	33.333	4.48	0.00	0.00	3.11
469	483	9.391006	GTTGGTATCAGTTTCATATGACCTTTA	57.609	33.333	4.48	0.00	0.00	1.85
470	484	8.958119	TGGTATCAGTTTCATATGACCTTTAC	57.042	34.615	4.48	8.35	0.00	2.01
471	485	8.768397	TGGTATCAGTTTCATATGACCTTTACT	58.232	33.333	4.48	1.85	0.00	2.24
472	486	9.614792	GGTATCAGTTTCATATGACCTTTACTT	57.385	33.333	4.48	0.00	0.00	2.24
475	489	9.965902	ATCAGTTTCATATGACCTTTACTTCTT	57.034	29.630	4.48	0.00	0.00	2.52
476	490	9.219603	TCAGTTTCATATGACCTTTACTTCTTG	57.780	33.333	4.48	0.00	0.00	3.02
477	491	7.965107	CAGTTTCATATGACCTTTACTTCTTGC	59.035	37.037	4.48	0.00	0.00	4.01
478	492	7.665559	AGTTTCATATGACCTTTACTTCTTGCA	59.334	33.333	4.48	0.00	0.00	4.08
481	495	6.818644	TCATATGACCTTTACTTCTTGCACTC	59.181	38.462	0.00	0.00	0.00	3.51
631	653	1.820906	GAATGGGAGCGAGCATGCA	60.821	57.895	21.98	0.00	37.31	3.96
743	810	2.815158	AGGGGTGCGGATAACAAAAAT	58.185	42.857	0.00	0.00	0.00	1.82
756	823	7.962918	CGGATAACAAAAATCAAGTTCGAATCT	59.037	33.333	0.00	0.00	0.00	2.40
950	1019	2.504244	CGACCGAACTCGCTGTCC	60.504	66.667	0.00	0.00	38.18	4.02
1106	1178	1.884235	CGGGATAATCTTGTCTGGGC	58.116	55.000	0.00	0.00	0.00	5.36
1211	1283	4.060900	GCCTTGATCGCAGATATGAAAGA	58.939	43.478	0.00	0.00	45.12	2.52
1547	3359	1.699083	TGGTGAGTTCATCAGAGCCAA	59.301	47.619	0.00	0.00	39.07	4.52
1697	3509	1.357137	TGGCATGAGGAGTGTGGTTA	58.643	50.000	0.00	0.00	0.00	2.85
1752	3564	6.071320	GGGTTCTTTTATTATGGCATCTCCT	58.929	40.000	1.65	0.00	35.26	3.69
1849	3673	0.107459	GGAAGATGAGGCCGAAGCTT	60.107	55.000	10.51	10.51	39.73	3.74
1977	3801	0.179119	ACACGAGCTGGCGGTATAAC	60.179	55.000	0.00	0.00	35.12	1.89
2009	3833	0.397941	CAGAGTGAACCAGGGCTTGA	59.602	55.000	0.00	0.00	0.00	3.02
2109	3933	1.143813	CCCATATGGCCTCAGAACCT	58.856	55.000	16.97	0.00	0.00	3.50
2149	5728	2.276740	CAGAGGTGGGGGCCATTC	59.723	66.667	4.39	0.00	35.28	2.67
2202	5782	4.489737	TCAGTTTGAGGGGTCGGATATAT	58.510	43.478	0.00	0.00	0.00	0.86
2449	6239	3.520290	TTTGTGTGAGACGAGACAGTT	57.480	42.857	0.00	0.00	0.00	3.16
2484	6274	4.402474	TGAAGAGGTATCGCTCAAGATTGA	59.598	41.667	0.00	0.00	35.57	2.57
2554	6344	1.654220	CACTGTTTTGGCACGAGGG	59.346	57.895	0.00	0.00	0.00	4.30
2610	6400	6.128145	CCGTTGTATGGATGTTCATGTACAAA	60.128	38.462	9.35	0.00	31.47	2.83
2659	6449	3.127589	TGACTTGTGTGTATGGTGAACG	58.872	45.455	0.00	0.00	0.00	3.95

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	3.732212	GGTTTTACACCGGTCAGTAACT	58.268	45.455	15.12	0.00	35.12	2.24
35	36	5.232838	GCTTTTCTCACATGTTTTCTGGTTG	59.767	40.000	0.00	0.00	0.00	3.77
71	72	2.478134	CTGCGATTACTTGCTATCTGGC	59.522	50.000	0.00	0.00	32.50	4.85
152	158	7.119699	CAGCTTTGGTGTGAACTATGAATAAGA	59.880	37.037	0.00	0.00	0.00	2.10
254	260	2.485795	TTTGTCGTTGCCTGGCCAC	61.486	57.895	17.53	14.88	0.00	5.01
281	287	4.422073	TGGAGTTGGGATATTGCTACTG	57.578	45.455	0.00	0.00	0.00	2.74
423	437	5.303971	CAACTCACTCTGATTTGAAGGAGT	58.696	41.667	0.00	0.00	38.74	3.85
424	438	4.694509	CCAACTCACTCTGATTTGAAGGAG	59.305	45.833	4.39	0.00	38.74	3.69
425	439	4.103153	ACCAACTCACTCTGATTTGAAGGA	59.897	41.667	4.39	0.00	38.74	3.36
426	440	4.392940	ACCAACTCACTCTGATTTGAAGG	58.607	43.478	4.39	0.00	38.74	3.46
427	441	6.875726	TGATACCAACTCACTCTGATTTGAAG	59.124	38.462	4.39	0.00	38.74	3.02
428	442	6.768483	TGATACCAACTCACTCTGATTTGAA	58.232	36.000	4.39	0.00	38.74	2.69
429	443	6.014242	ACTGATACCAACTCACTCTGATTTGA	60.014	38.462	4.39	0.00	38.74	2.69
430	444	6.169094	ACTGATACCAACTCACTCTGATTTG	58.831	40.000	0.00	0.00	36.96	2.32
431	445	6.365970	ACTGATACCAACTCACTCTGATTT	57.634	37.500	0.00	0.00	0.00	2.17
432	446	6.365970	AACTGATACCAACTCACTCTGATT	57.634	37.500	0.00	0.00	0.00	2.57
433	447	6.014242	TGAAACTGATACCAACTCACTCTGAT	60.014	38.462	0.00	0.00	0.00	2.90
434	448	5.304357	TGAAACTGATACCAACTCACTCTGA	59.696	40.000	0.00	0.00	0.00	3.27
435	449	5.541845	TGAAACTGATACCAACTCACTCTG	58.458	41.667	0.00	0.00	0.00	3.35
436	450	5.808366	TGAAACTGATACCAACTCACTCT	57.192	39.130	0.00	0.00	0.00	3.24
437	451	7.981789	TCATATGAAACTGATACCAACTCACTC	59.018	37.037	1.98	0.00	0.00	3.51
438	452	7.766278	GTCATATGAAACTGATACCAACTCACT	59.234	37.037	7.07	0.00	0.00	3.41
439	453	7.011482	GGTCATATGAAACTGATACCAACTCAC	59.989	40.741	7.07	0.00	0.00	3.51
440	454	7.047891	GGTCATATGAAACTGATACCAACTCA	58.952	38.462	7.07	0.00	0.00	3.41
441	455	7.275920	AGGTCATATGAAACTGATACCAACTC	58.724	38.462	7.07	0.00	0.00	3.01
442	456	7.200434	AGGTCATATGAAACTGATACCAACT	57.800	36.000	7.07	0.00	0.00	3.16
443	457	7.865706	AAGGTCATATGAAACTGATACCAAC	57.134	36.000	7.07	0.00	0.00	3.77
444	458	9.391006	GTAAAGGTCATATGAAACTGATACCAA	57.609	33.333	7.07	0.00	0.00	3.67
445	459	8.768397	AGTAAAGGTCATATGAAACTGATACCA	58.232	33.333	7.07	0.00	0.00	3.25
446	460	9.614792	AAGTAAAGGTCATATGAAACTGATACC	57.385	33.333	7.07	2.36	0.00	2.73
449	463	9.965902	AAGAAGTAAAGGTCATATGAAACTGAT	57.034	29.630	7.07	5.05	0.00	2.90
450	464	9.219603	CAAGAAGTAAAGGTCATATGAAACTGA	57.780	33.333	7.07	0.00	0.00	3.41
451	465	7.965107	GCAAGAAGTAAAGGTCATATGAAACTG	59.035	37.037	7.07	0.00	0.00	3.16
452	466	7.665559	TGCAAGAAGTAAAGGTCATATGAAACT	59.334	33.333	7.07	6.18	0.00	2.66
453	467	7.750903	GTGCAAGAAGTAAAGGTCATATGAAAC	59.249	37.037	7.07	3.74	0.00	2.78
454	468	7.665559	AGTGCAAGAAGTAAAGGTCATATGAAA	59.334	33.333	7.07	0.00	0.00	2.69
455	469	7.168219	AGTGCAAGAAGTAAAGGTCATATGAA	58.832	34.615	7.07	0.00	0.00	2.57
456	470	6.711277	AGTGCAAGAAGTAAAGGTCATATGA	58.289	36.000	0.00	0.00	0.00	2.15
457	471	6.037610	GGAGTGCAAGAAGTAAAGGTCATATG	59.962	42.308	0.00	0.00	0.00	1.78
458	472	6.069963	AGGAGTGCAAGAAGTAAAGGTCATAT	60.070	38.462	0.00	0.00	0.00	1.78
459	473	5.248477	AGGAGTGCAAGAAGTAAAGGTCATA	59.752	40.000	0.00	0.00	0.00	2.15
460	474	4.042187	AGGAGTGCAAGAAGTAAAGGTCAT	59.958	41.667	0.00	0.00	0.00	3.06
461	475	3.391296	AGGAGTGCAAGAAGTAAAGGTCA	59.609	43.478	0.00	0.00	0.00	4.02
462	476	4.009370	AGGAGTGCAAGAAGTAAAGGTC	57.991	45.455	0.00	0.00	0.00	3.85
463	477	4.141482	TGAAGGAGTGCAAGAAGTAAAGGT	60.141	41.667	0.00	0.00	0.00	3.50
464	478	4.389374	TGAAGGAGTGCAAGAAGTAAAGG	58.611	43.478	0.00	0.00	0.00	3.11
465	479	6.377327	TTTGAAGGAGTGCAAGAAGTAAAG	57.623	37.500	0.00	0.00	0.00	1.85
466	480	6.545666	TGATTTGAAGGAGTGCAAGAAGTAAA	59.454	34.615	0.00	0.00	0.00	2.01
467	481	6.061441	TGATTTGAAGGAGTGCAAGAAGTAA	58.939	36.000	0.00	0.00	0.00	2.24
468	482	5.620206	TGATTTGAAGGAGTGCAAGAAGTA	58.380	37.500	0.00	0.00	0.00	2.24
469	483	4.464008	TGATTTGAAGGAGTGCAAGAAGT	58.536	39.130	0.00	0.00	0.00	3.01
470	484	4.758674	TCTGATTTGAAGGAGTGCAAGAAG	59.241	41.667	0.00	0.00	0.00	2.85
471	485	4.717877	TCTGATTTGAAGGAGTGCAAGAA	58.282	39.130	0.00	0.00	0.00	2.52
472	486	4.202398	ACTCTGATTTGAAGGAGTGCAAGA	60.202	41.667	0.00	0.00	37.60	3.02
473	487	4.070716	ACTCTGATTTGAAGGAGTGCAAG	58.929	43.478	0.00	0.00	37.60	4.01
474	488	3.817084	CACTCTGATTTGAAGGAGTGCAA	59.183	43.478	8.63	0.00	45.49	4.08
475	489	3.405831	CACTCTGATTTGAAGGAGTGCA	58.594	45.455	8.63	0.00	45.49	4.57
478	492	5.303971	CAACTCACTCTGATTTGAAGGAGT	58.696	41.667	0.00	0.00	38.74	3.85
481	495	4.392940	ACCAACTCACTCTGATTTGAAGG	58.607	43.478	4.39	0.00	38.74	3.46
565	583	4.325741	CACACACTCTTATTTCTCTCTGCG	59.674	45.833	0.00	0.00	0.00	5.18
631	653	2.009042	GCATACAACTCTGCCTCGCTT	61.009	52.381	0.00	0.00	32.15	4.68
743	810	6.115446	AGCATCCAATAAGATTCGAACTTGA	58.885	36.000	17.66	10.07	0.00	3.02
1008	1080	2.418910	CCGTGATCCACTCGCCTCT	61.419	63.158	0.00	0.00	34.71	3.69
1106	1178	2.653702	GATCATCCGCCTCCTCCG	59.346	66.667	0.00	0.00	0.00	4.63
1119	1191	2.231716	TCGGTTTCTCCTCTGGATCA	57.768	50.000	0.00	0.00	0.00	2.92
1211	1283	3.466791	CTCGCGGGATTCCATGCCT	62.467	63.158	0.00	0.00	38.84	4.75
1329	3141	4.507335	GCTATGATCAAAGCCATCCCCTTA	60.507	45.833	0.00	0.00	32.40	2.69
1697	3509	2.061061	CCTTCTTATCATGCTCCCCCT	58.939	52.381	0.00	0.00	0.00	4.79
1752	3564	0.835971	TGCTTCCACCTGCACCTCTA	60.836	55.000	0.00	0.00	33.94	2.43
1849	3673	0.787084	AGTCCTCCTCTCCTTCCACA	59.213	55.000	0.00	0.00	0.00	4.17
1896	3720	0.680921	CATGCACGTCCCTCCCAAAT	60.681	55.000	0.00	0.00	0.00	2.32
1977	3801	1.470494	TCACTCTGTGAGCTAGAAGCG	59.530	52.381	0.00	0.00	37.67	4.68
2109	3933	4.269523	GCCACCTCCACAGCCACA	62.270	66.667	0.00	0.00	0.00	4.17
2202	5782	4.469586	TGTACCAATATCTGAACTGCTGGA	59.530	41.667	0.00	0.00	0.00	3.86
2253	5833	2.649331	ACACCATCGTCCGTCTTAAG	57.351	50.000	0.00	0.00	0.00	1.85
2449	6239	3.988976	ACCTCTTCATCTTGCTAGCAA	57.011	42.857	27.67	27.67	0.00	3.91
2500	6290	7.822334	CACTATTACCACTAGAATCAACACCAA	59.178	37.037	0.00	0.00	0.00	3.67
2554	6344	5.561679	AGAATTTAACCTCCACCTTCAGAC	58.438	41.667	0.00	0.00	0.00	3.51
2610	6400	1.303317	GTTGTTCATCCGGCCCAGT	60.303	57.895	0.00	0.00	0.00	4.00
2659	6449	3.551407	GCCGATCCTCCACCCTCC	61.551	72.222	0.00	0.00	0.00	4.30

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.