AutoCloner

Multiple sequence alignment - TraesCS3A01G056000

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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	TraesCS3A01G056000	chr3A	100.000	4004	0	0	1	4004	32254474	32250471	0.000000e+00	7395.0
1	TraesCS3A01G056000	chr3A	93.836	3212	119	28	1	3183	731228611	731225450	0.000000e+00	4761.0
2	TraesCS3A01G056000	chr3A	84.793	1039	61	39	2767	3748	32385063	32384065	0.000000e+00	953.0
3	TraesCS3A01G056000	chr3A	83.648	636	49	21	2173	2774	32385728	32385114	7.570000e-152	547.0
4	TraesCS3A01G056000	chr3A	82.927	451	49	10	1429	1852	32153004	32152555	8.120000e-102	381.0
5	TraesCS3A01G056000	chr3A	82.759	435	37	24	2659	3064	610783694	610783269	1.770000e-93	353.0
6	TraesCS3A01G056000	chr3A	79.756	410	36	19	3224	3602	731225445	731225052	1.850000e-63	254.0
7	TraesCS3A01G056000	chr3A	86.792	212	12	5	3801	4004	32383951	32383748	5.210000e-54	222.0
8	TraesCS3A01G056000	chr3A	81.154	260	19	10	1192	1428	32286259	32286007	8.840000e-42	182.0
9	TraesCS3A01G056000	chr3A	96.364	55	2	0	934	988	57205764	57205710	1.530000e-14	91.6
10	TraesCS3A01G056000	chr3A	100.000	32	0	0	1	32	681695750	681695781	4.320000e-05	60.2
11	TraesCS3A01G056000	chr3B	83.005	1930	141	87	2182	4004	40908938	40907089	0.000000e+00	1574.0
12	TraesCS3A01G056000	chr3B	91.436	1156	57	16	2152	3291	40866059	40864930	0.000000e+00	1548.0
13	TraesCS3A01G056000	chr3B	93.316	763	46	3	1331	2088	40866951	40866189	0.000000e+00	1122.0
14	TraesCS3A01G056000	chr3B	85.436	769	49	24	3290	4004	40864780	40864021	0.000000e+00	741.0
15	TraesCS3A01G056000	chr3B	82.000	250	26	9	1858	2088	40909418	40909169	1.140000e-45	195.0
16	TraesCS3A01G056000	chr3B	94.545	55	3	0	934	988	765028567	765028621	7.130000e-13	86.1
17	TraesCS3A01G056000	chr3B	93.878	49	3	0	2086	2134	40866154	40866106	1.540000e-09	75.0
18	TraesCS3A01G056000	chr3D	89.338	1088	63	18	1043	2088	23175008	23173932	0.000000e+00	1317.0
19	TraesCS3A01G056000	chr3D	88.873	710	32	7	2152	2855	23173801	23173133	0.000000e+00	830.0
20	TraesCS3A01G056000	chr3D	90.947	475	21	8	3534	4004	23172492	23172036	1.580000e-173	619.0
21	TraesCS3A01G056000	chr3D	81.093	878	51	47	3200	4004	23194831	23193996	2.660000e-166	595.0
22	TraesCS3A01G056000	chr3D	84.142	618	48	21	2187	2774	23195840	23195243	1.630000e-153	553.0
23	TraesCS3A01G056000	chr3D	91.489	376	23	6	2791	3165	23195197	23194830	3.570000e-140	508.0
24	TraesCS3A01G056000	chr3D	94.576	295	16	0	2997	3291	23173064	23172770	1.310000e-124	457.0
25	TraesCS3A01G056000	chr3D	81.718	454	52	13	1429	1852	23064745	23064293	2.290000e-92	350.0
26	TraesCS3A01G056000	chr3D	92.523	107	8	0	3331	3437	23172623	23172517	1.930000e-33	154.0
27	TraesCS3A01G056000	chr3D	80.328	183	21	8	2239	2409	474216214	474216035	1.510000e-24	124.0
28	TraesCS3A01G056000	chr3D	94.203	69	2	2	2913	2981	23173125	23173059	1.970000e-18	104.0
29	TraesCS3A01G056000	chr3D	82.677	127	8	3	1962	2088	23196179	23196067	2.550000e-17	100.0
30	TraesCS3A01G056000	chr3D	80.328	122	22	2	2220	2340	481702740	481702860	1.530000e-14	91.6
31	TraesCS3A01G056000	chr3D	96.296	54	2	0	934	987	615347034	615346981	5.510000e-14	89.8
32	TraesCS3A01G056000	chr3D	95.918	49	2	0	2086	2134	23173896	23173848	3.320000e-11	80.5
33	TraesCS3A01G056000	chr3D	83.784	74	6	1	2086	2153	23196031	23195958	9.290000e-07	65.8
34	TraesCS3A01G056000	chr4D	89.078	879	90	4	63	937	57683896	57684772	0.000000e+00	1086.0
35	TraesCS3A01G056000	chr4D	86.985	922	112	5	28	944	196237946	196237028	0.000000e+00	1031.0
36	TraesCS3A01G056000	chr1D	87.621	929	108	5	25	947	248252732	248253659	0.000000e+00	1072.0
37	TraesCS3A01G056000	chr1D	81.278	454	54	13	1429	1852	225396656	225397108	4.960000e-89	339.0
38	TraesCS3A01G056000	chr1D	80.214	187	30	6	2214	2393	375646705	375646519	2.510000e-27	134.0
39	TraesCS3A01G056000	chr7B	87.691	918	108	3	27	941	553216592	553217507	0.000000e+00	1064.0
40	TraesCS3A01G056000	chr5B	88.636	880	93	5	68	942	690990739	690989862	0.000000e+00	1064.0
41	TraesCS3A01G056000	chr7D	87.514	921	108	5	25	940	159650238	159649320	0.000000e+00	1057.0
42	TraesCS3A01G056000	chr7D	87.269	919	112	3	27	941	369381951	369381034	0.000000e+00	1044.0
43	TraesCS3A01G056000	chr7D	90.118	425	42	0	1408	1832	157758712	157758288	1.630000e-153	553.0
44	TraesCS3A01G056000	chr7D	81.633	98	17	1	2255	2351	16912078	16911981	3.320000e-11	80.5
45	TraesCS3A01G056000	chr7D	97.143	35	1	0	1	35	612147694	612147660	4.320000e-05	60.2
46	TraesCS3A01G056000	chr7A	86.971	921	114	3	27	942	229837721	229838640	0.000000e+00	1031.0
47	TraesCS3A01G056000	chr7A	78.030	132	29	0	2220	2351	16164216	16164085	2.560000e-12	84.2
48	TraesCS3A01G056000	chr7A	92.982	57	2	2	934	989	85028829	85028774	9.220000e-12	82.4
49	TraesCS3A01G056000	chr6A	87.970	133	16	0	1050	1182	92062098	92062230	1.490000e-34	158.0
50	TraesCS3A01G056000	chr6A	92.982	57	3	1	932	988	502943293	502943348	9.220000e-12	82.4
51	TraesCS3A01G056000	chr1B	81.356	177	25	7	2221	2390	499896494	499896669	1.940000e-28	137.0
52	TraesCS3A01G056000	chr1A	82.317	164	23	5	2236	2393	474450712	474450549	1.940000e-28	137.0
53	TraesCS3A01G056000	chr6B	85.827	127	16	1	1056	1182	518384467	518384591	2.510000e-27	134.0
54	TraesCS3A01G056000	chr6B	92.857	56	4	0	934	989	671227682	671227737	9.220000e-12	82.4
55	TraesCS3A01G056000	chr6B	97.143	35	1	0	1	35	31553427	31553461	4.320000e-05	60.2
56	TraesCS3A01G056000	chr6B	97.143	35	1	0	1	35	31566920	31566954	4.320000e-05	60.2
57	TraesCS3A01G056000	chr6B	97.143	35	1	0	1	35	364717306	364717272	4.320000e-05	60.2
58	TraesCS3A01G056000	chr4B	94.643	56	3	0	934	989	482128804	482128859	1.980000e-13	87.9
59	TraesCS3A01G056000	chr4B	100.000	32	0	0	1	32	630731090	630731059	4.320000e-05	60.2
60	TraesCS3A01G056000	chr4A	82.653	98	16	1	2255	2351	717724281	717724184	7.130000e-13	86.1
61	TraesCS3A01G056000	chr4A	90.909	44	2	2	1	42	598405636	598405679	1.550000e-04	58.4
62	TraesCS3A01G056000	chrUn	92.982	57	3	1	932	988	71414251	71414196	9.220000e-12	82.4
63	TraesCS3A01G056000	chr5D	97.143	35	1	0	1	35	20214275	20214241	4.320000e-05	60.2

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	TraesCS3A01G056000	chr3A	32250471	32254474	4003	True	7395.000000	7395	100.000000	1	4004	1	chr3A.!!$R2	4003
1	TraesCS3A01G056000	chr3A	731225052	731228611	3559	True	2507.500000	4761	86.796000	1	3602	2	chr3A.!!$R7	3601
2	TraesCS3A01G056000	chr3A	32383748	32385728	1980	True	574.000000	953	85.077667	2173	4004	3	chr3A.!!$R6	1831
3	TraesCS3A01G056000	chr3B	40907089	40909418	2329	True	884.500000	1574	82.502500	1858	4004	2	chr3B.!!$R2	2146
4	TraesCS3A01G056000	chr3B	40864021	40866951	2930	True	871.500000	1548	91.016500	1331	4004	4	chr3B.!!$R1	2673
5	TraesCS3A01G056000	chr3D	23172036	23175008	2972	True	508.785714	1317	92.339714	1043	4004	7	chr3D.!!$R4	2961
6	TraesCS3A01G056000	chr3D	23193996	23196179	2183	True	364.360000	595	84.637000	1962	4004	5	chr3D.!!$R5	2042
7	TraesCS3A01G056000	chr4D	57683896	57684772	876	False	1086.000000	1086	89.078000	63	937	1	chr4D.!!$F1	874
8	TraesCS3A01G056000	chr4D	196237028	196237946	918	True	1031.000000	1031	86.985000	28	944	1	chr4D.!!$R1	916
9	TraesCS3A01G056000	chr1D	248252732	248253659	927	False	1072.000000	1072	87.621000	25	947	1	chr1D.!!$F2	922
10	TraesCS3A01G056000	chr7B	553216592	553217507	915	False	1064.000000	1064	87.691000	27	941	1	chr7B.!!$F1	914
11	TraesCS3A01G056000	chr5B	690989862	690990739	877	True	1064.000000	1064	88.636000	68	942	1	chr5B.!!$R1	874
12	TraesCS3A01G056000	chr7D	159649320	159650238	918	True	1057.000000	1057	87.514000	25	940	1	chr7D.!!$R3	915
13	TraesCS3A01G056000	chr7D	369381034	369381951	917	True	1044.000000	1044	87.269000	27	941	1	chr7D.!!$R4	914
14	TraesCS3A01G056000	chr7A	229837721	229838640	919	False	1031.000000	1031	86.971000	27	942	1	chr7A.!!$F1	915

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
707	715	0.447801	CTTTGGATCGGGACAAAGCG	59.552	55.0	8.6	0.0	0.0	4.68	F
1151	1185	0.398522	TAGGATCACACCCCATCGCT	60.399	55.0	0.0	0.0	0.0	4.93	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1621	1681	1.033746	TATCACGTCGTCCCCCAGAC	61.034	60.000	0.0	0.0	42.54	3.51	R
3066	3436	1.136141	CGCAAGCACTAAGACAAGCTG	60.136	52.381	0.0	0.0	37.41	4.24	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
96	99	1.338973	GGTCAACACGAGACTGGTACA	59.661	52.381	0.00	0.00	36.29	2.90
222	226	4.597004	CAATTGGAGGATCATATGGAGGG	58.403	47.826	2.13	0.00	36.25	4.30
596	603	2.684881	GTGTAATGGTGGATGGAAGCTG	59.315	50.000	0.00	0.00	0.00	4.24
676	684	2.810852	CTGGACTCTTTGGAAACAGAGC	59.189	50.000	0.00	0.00	42.11	4.09
707	715	0.447801	CTTTGGATCGGGACAAAGCG	59.552	55.000	8.60	0.00	0.00	4.68
784	792	0.951040	CAGGAGCGTTTGGAGGACAC	60.951	60.000	0.00	0.00	0.00	3.67
829	837	2.642171	TGAGGGAGTGTAATGGAGGT	57.358	50.000	0.00	0.00	0.00	3.85
858	868	1.337821	GTCGACTTGTGACGCCTAAG	58.662	55.000	8.70	0.00	0.00	2.18
923	937	3.343941	AAAGCTAAGGTACGCCATTGA	57.656	42.857	0.00	0.00	37.19	2.57
986	1003	2.289565	CGAGAGCCAAAGGGTATTTCC	58.710	52.381	0.00	0.00	36.17	3.13
1021	1038	6.003950	AGCCTTAGTGAAAGCAATGAAGTTA	58.996	36.000	0.00	0.00	33.49	2.24
1022	1039	6.150140	AGCCTTAGTGAAAGCAATGAAGTTAG	59.850	38.462	0.00	0.00	33.49	2.34
1023	1040	6.149474	GCCTTAGTGAAAGCAATGAAGTTAGA	59.851	38.462	0.00	0.00	33.49	2.10
1024	1041	7.148171	GCCTTAGTGAAAGCAATGAAGTTAGAT	60.148	37.037	0.00	0.00	33.49	1.98
1025	1042	8.180267	CCTTAGTGAAAGCAATGAAGTTAGATG	58.820	37.037	0.00	0.00	33.49	2.90
1103	1129	9.469097	GAGAGGATTAGGTAAGCTGAGATATTA	57.531	37.037	0.00	0.00	0.00	0.98
1151	1185	0.398522	TAGGATCACACCCCATCGCT	60.399	55.000	0.00	0.00	0.00	4.93
1273	1311	5.588958	AAGCTAAGAAATCAAAGCCATCC	57.411	39.130	0.00	0.00	35.54	3.51
1498	1555	3.077556	TCCTCCTCCCGCTTCTGC	61.078	66.667	0.00	0.00	0.00	4.26
1589	1649	2.204034	TCCTCACAGCCTCCACCA	59.796	61.111	0.00	0.00	0.00	4.17
1640	1700	1.033746	GTCTGGGGGACGACGTGATA	61.034	60.000	4.58	0.00	35.07	2.15
1642	1702	0.032130	CTGGGGGACGACGTGATATG	59.968	60.000	4.58	0.00	0.00	1.78
1761	1828	4.742201	CGTGCGTGAGGGAGTGGG	62.742	72.222	0.00	0.00	0.00	4.61
1795	1862	4.742201	GGAACAGCTGCTCCGCGA	62.742	66.667	19.97	0.00	34.40	5.87
2020	2105	2.547211	GCTCCATCTATGTCATGCACAC	59.453	50.000	0.00	0.00	38.04	3.82
2115	2241	5.692115	TCAACCATGGAAGAACTGCTATA	57.308	39.130	21.47	0.00	0.00	1.31
2116	2242	5.428253	TCAACCATGGAAGAACTGCTATAC	58.572	41.667	21.47	0.00	0.00	1.47
2155	2288	6.950842	TGTTCACTAGGAATTGATGAGATGT	58.049	36.000	0.00	0.00	37.93	3.06
2156	2289	7.044181	TGTTCACTAGGAATTGATGAGATGTC	58.956	38.462	0.00	0.00	37.93	3.06
2402	2643	1.199615	TCACCACAGTTCACCTGACA	58.800	50.000	0.00	0.00	44.49	3.58
2537	2780	3.050275	GAGCGCGCCCTTCAGTTT	61.050	61.111	30.33	5.17	0.00	2.66
2547	2790	0.882927	CCTTCAGTTTGCCGAACCGA	60.883	55.000	0.00	0.00	39.13	4.69
3019	3366	2.028420	TGCAGCATCTCACACATACC	57.972	50.000	0.00	0.00	0.00	2.73
3057	3427	7.228590	TGATCTATCATTCATCCATTCAAGCA	58.771	34.615	0.00	0.00	0.00	3.91
3059	3429	9.392259	GATCTATCATTCATCCATTCAAGCATA	57.608	33.333	0.00	0.00	0.00	3.14
3060	3430	9.922477	ATCTATCATTCATCCATTCAAGCATAT	57.078	29.630	0.00	0.00	0.00	1.78
3069	3439	9.551734	TCATCCATTCAAGCATATATATACAGC	57.448	33.333	9.82	9.82	0.00	4.40
3070	3440	9.557061	CATCCATTCAAGCATATATATACAGCT	57.443	33.333	13.20	13.20	37.08	4.24
3092	3462	1.738099	CTTAGTGCTTGCGCCGTCT	60.738	57.895	4.18	0.00	34.43	4.18
3118	3488	5.250235	TGTTTGCGAGTGTAATTTTTCCA	57.750	34.783	0.00	0.00	0.00	3.53
3187	3557	4.320788	CCTTGCTCATCTGGTCAACTTTTC	60.321	45.833	0.00	0.00	0.00	2.29
3327	3853	9.872721	ACTAATACTGATGATGATGATGATGAC	57.127	33.333	0.00	0.00	0.00	3.06
3340	3866	1.592669	GATGACGCTGGATCCACCG	60.593	63.158	24.64	24.64	42.61	4.94
3414	3963	6.176183	TGCTTTCCATCAACTTTTCCAAAAA	58.824	32.000	0.00	0.00	0.00	1.94
3420	3969	6.533367	TCCATCAACTTTTCCAAAAACTTTCG	59.467	34.615	0.00	0.00	0.00	3.46
3425	3974	5.102313	ACTTTTCCAAAAACTTTCGCTCTG	58.898	37.500	0.00	0.00	0.00	3.35
3437	3986	0.108585	TCGCTCTGTCCTTTTTGGCT	59.891	50.000	0.00	0.00	35.26	4.75
3440	3989	1.809547	GCTCTGTCCTTTTTGGCTCTC	59.190	52.381	0.00	0.00	35.26	3.20
3453	4007	5.762179	TTTGGCTCTCTTCTTCCTCATTA	57.238	39.130	0.00	0.00	0.00	1.90
3460	4014	7.555914	GGCTCTCTTCTTCCTCATTAAGAAAAT	59.444	37.037	0.00	0.00	41.21	1.82
3642	4240	0.531657	CCACTCACTCAGCTCTCTGG	59.468	60.000	0.00	0.00	40.69	3.86
3689	4303	5.057149	GGACTGTTGTGTGTCATTAGAAGT	58.943	41.667	0.00	0.00	35.11	3.01
3734	4352	1.008079	GTTGTGGTTGCTGCTGCTC	60.008	57.895	17.00	9.53	40.48	4.26
3755	4374	1.271379	CAAGCAGCATTTCTTCAGGCA	59.729	47.619	0.00	0.00	0.00	4.75
3773	4395	0.099968	CATGCTGCCTTTCCATGTCG	59.900	55.000	0.00	0.00	33.46	4.35
3952	4661	3.058293	TCATTTTACAACAGCTTCAGCCG	60.058	43.478	0.00	0.00	43.38	5.52
3976	4688	2.126031	GACGCAGGAAGACCGGTC	60.126	66.667	27.67	27.67	41.83	4.79
3977	4689	3.966026	GACGCAGGAAGACCGGTCG	62.966	68.421	28.26	17.79	41.83	4.79

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
84	87	1.066303	GAGCCTCATGTACCAGTCTCG	59.934	57.143	0.00	0.00	0.00	4.04
96	99	1.065647	ATGCATGCCTAGAGCCTCAT	58.934	50.000	16.68	0.00	42.71	2.90
596	603	3.467374	TTGCTTGTGGATTTGTTTCCC	57.533	42.857	0.00	0.00	34.67	3.97
676	684	2.622436	GATCCAAAGACCCTCGAGTTG	58.378	52.381	12.31	8.61	0.00	3.16
707	715	2.224066	CCACCGTATCACCCTCATTCTC	60.224	54.545	0.00	0.00	0.00	2.87
731	739	1.272781	CTCAAGTCGCCGAAGATCAC	58.727	55.000	0.00	0.00	0.00	3.06
784	792	5.409214	GCTACTCGACTACTTGGATACTAGG	59.591	48.000	0.00	0.00	44.30	3.02
829	837	1.071071	CACAAGTCGACCCTAACCCAA	59.929	52.381	13.01	0.00	0.00	4.12
944	958	9.793259	TCTCGCATGTATATACATCCTATATGA	57.207	33.333	22.81	12.80	44.57	2.15
946	960	8.735315	GCTCTCGCATGTATATACATCCTATAT	58.265	37.037	22.81	1.54	44.57	0.86
947	961	7.175119	GGCTCTCGCATGTATATACATCCTATA	59.825	40.741	22.81	9.94	44.57	1.31
948	962	6.015856	GGCTCTCGCATGTATATACATCCTAT	60.016	42.308	22.81	2.95	44.57	2.57
949	963	5.299531	GGCTCTCGCATGTATATACATCCTA	59.700	44.000	22.81	7.94	44.57	2.94
950	964	4.098654	GGCTCTCGCATGTATATACATCCT	59.901	45.833	22.81	3.67	44.57	3.24
951	965	4.142160	TGGCTCTCGCATGTATATACATCC	60.142	45.833	22.81	18.71	44.57	3.51
952	966	4.998788	TGGCTCTCGCATGTATATACATC	58.001	43.478	22.81	16.51	44.57	3.06
986	1003	0.613777	ACTAAGGCTTCCGTCCTTGG	59.386	55.000	1.30	4.31	44.67	3.61
1021	1038	4.828939	TCAACTTCATTGCTTTCACCATCT	59.171	37.500	0.00	0.00	38.29	2.90
1022	1039	5.048504	TCTCAACTTCATTGCTTTCACCATC	60.049	40.000	0.00	0.00	38.29	3.51
1023	1040	4.828939	TCTCAACTTCATTGCTTTCACCAT	59.171	37.500	0.00	0.00	38.29	3.55
1024	1041	4.206375	TCTCAACTTCATTGCTTTCACCA	58.794	39.130	0.00	0.00	38.29	4.17
1025	1042	4.516698	TCTCTCAACTTCATTGCTTTCACC	59.483	41.667	0.00	0.00	38.29	4.02
1103	1129	3.265479	AGCCAGCACCTCTCTTCTTAAAT	59.735	43.478	0.00	0.00	0.00	1.40
1131	1157	0.687354	GCGATGGGGTGTGATCCTAT	59.313	55.000	0.00	0.00	0.00	2.57
1151	1185	1.008194	CCGGTCACACGAGAAACGA	60.008	57.895	0.00	0.00	45.77	3.85
1346	1402	7.010339	TCTGATCTTGACGAGGATAGAGATA	57.990	40.000	0.00	0.00	0.00	1.98
1348	1404	5.297569	TCTGATCTTGACGAGGATAGAGA	57.702	43.478	0.00	0.00	0.00	3.10
1478	1535	4.214327	GAAGCGGGAGGAGGAGCG	62.214	72.222	0.00	0.00	34.34	5.03
1621	1681	1.033746	TATCACGTCGTCCCCCAGAC	61.034	60.000	0.00	0.00	42.54	3.51
1631	1691	1.540607	GCACCTCGCATATCACGTCG	61.541	60.000	0.00	0.00	41.79	5.12
1795	1862	1.081376	CCGAAAGAGAGCACGACGT	60.081	57.895	0.00	0.00	0.00	4.34
1924	1994	4.456253	CGTCGTCGGTCCACGGAG	62.456	72.222	12.09	5.18	44.45	4.63
1925	1995	4.986645	TCGTCGTCGGTCCACGGA	62.987	66.667	12.09	2.77	44.45	4.69
2047	2133	6.921857	CCTATTGATTGATGGTGAATTCAAGC	59.078	38.462	10.35	0.00	38.42	4.01
2115	2241	8.504005	CCTAGTGAACAATTTATTCAGTTTCGT	58.496	33.333	12.59	0.00	39.76	3.85
2116	2242	8.717821	TCCTAGTGAACAATTTATTCAGTTTCG	58.282	33.333	12.59	5.12	39.76	3.46
2155	2288	5.766670	GGATCATGAATTCTTACTGCATGGA	59.233	40.000	7.05	0.00	37.51	3.41
2156	2289	5.533528	TGGATCATGAATTCTTACTGCATGG	59.466	40.000	7.05	0.00	37.51	3.66
2402	2643	2.363147	GAGGGAGGCTGGTCGTCT	60.363	66.667	0.00	0.00	0.00	4.18
3059	3429	7.386299	GCAAGCACTAAGACAAGCTGTATATAT	59.614	37.037	0.00	0.00	37.41	0.86
3060	3430	6.701841	GCAAGCACTAAGACAAGCTGTATATA	59.298	38.462	0.00	0.00	37.41	0.86
3061	3431	5.525378	GCAAGCACTAAGACAAGCTGTATAT	59.475	40.000	0.00	0.00	37.41	0.86
3062	3432	4.870426	GCAAGCACTAAGACAAGCTGTATA	59.130	41.667	0.00	0.00	37.41	1.47
3063	3433	3.686726	GCAAGCACTAAGACAAGCTGTAT	59.313	43.478	0.00	0.00	37.41	2.29
3064	3434	3.067106	GCAAGCACTAAGACAAGCTGTA	58.933	45.455	0.00	0.00	37.41	2.74
3065	3435	1.876156	GCAAGCACTAAGACAAGCTGT	59.124	47.619	0.00	0.00	37.41	4.40
3066	3436	1.136141	CGCAAGCACTAAGACAAGCTG	60.136	52.381	0.00	0.00	37.41	4.24
3067	3437	1.151668	CGCAAGCACTAAGACAAGCT	58.848	50.000	0.00	0.00	39.37	3.74
3068	3438	3.664930	CGCAAGCACTAAGACAAGC	57.335	52.632	0.00	0.00	0.00	4.01
3092	3462	6.858993	GGAAAAATTACACTCGCAAACATACA	59.141	34.615	0.00	0.00	0.00	2.29
3187	3557	8.787852	GGAAATAATTAGAGCTGTAATCAAGGG	58.212	37.037	15.83	0.00	0.00	3.95
3215	3585	1.337167	GCAAAGGTCAATCCACAAGGC	60.337	52.381	0.00	0.00	39.02	4.35
3305	3676	5.811100	GCGTCATCATCATCATCATCAGTAT	59.189	40.000	0.00	0.00	0.00	2.12
3340	3866	6.690530	TGACTCATTTCCAATTCCATTGTTC	58.309	36.000	0.00	0.00	38.59	3.18
3414	3963	2.618709	CCAAAAAGGACAGAGCGAAAGT	59.381	45.455	0.00	0.00	41.22	2.66
3420	3969	1.809547	GAGAGCCAAAAAGGACAGAGC	59.190	52.381	0.00	0.00	41.22	4.09
3425	3974	3.504134	GGAAGAAGAGAGCCAAAAAGGAC	59.496	47.826	0.00	0.00	41.22	3.85
3437	3986	7.884877	TGCATTTTCTTAATGAGGAAGAAGAGA	59.115	33.333	1.89	0.00	42.35	3.10
3440	3989	7.256286	CCTGCATTTTCTTAATGAGGAAGAAG	58.744	38.462	1.89	0.00	42.35	2.85
3453	4007	3.094572	CCTCATGTCCCTGCATTTTCTT	58.905	45.455	0.00	0.00	0.00	2.52
3460	4014	0.040058	ATTTGCCTCATGTCCCTGCA	59.960	50.000	0.00	0.00	0.00	4.41
3642	4240	5.161943	TCCTCCATCATGATCATCATCAC	57.838	43.478	4.86	0.00	42.05	3.06
3689	4303	1.991813	TCCATCCATCACACCCAGAAA	59.008	47.619	0.00	0.00	0.00	2.52
3734	4352	1.403780	GCCTGAAGAAATGCTGCTTGG	60.404	52.381	0.00	0.00	0.00	3.61
3755	4374	1.660560	GCGACATGGAAAGGCAGCAT	61.661	55.000	0.00	0.00	0.00	3.79
3773	4395	5.241728	AGAAAGAAAAGAATGGTGTACAGGC	59.758	40.000	0.00	0.00	0.00	4.85
3952	4661	2.811317	CTTCCTGCGTCTCCGTGC	60.811	66.667	0.00	0.00	36.15	5.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.