AutoCloner

Multiple sequence alignment - TraesCS1D01G354600

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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	TraesCS1D01G354600	chr1D	100.000	2639	0	0	1	2639	439670205	439672843	0.000000e+00	4874.0
1	TraesCS1D01G354600	chr1D	83.359	655	79	17	998	1647	439733191	439733820	1.760000e-161	579.0
2	TraesCS1D01G354600	chr1D	80.975	636	78	28	1104	1737	439726698	439727292	5.140000e-127	464.0
3	TraesCS1D01G354600	chr1D	89.286	112	6	5	881	988	439726458	439726567	4.580000e-28	135.0
4	TraesCS1D01G354600	chr1B	91.638	1160	52	23	676	1817	596928844	596929976	0.000000e+00	1563.0
5	TraesCS1D01G354600	chr1B	93.090	521	24	5	152	672	596928286	596928794	0.000000e+00	752.0
6	TraesCS1D01G354600	chr1B	81.021	764	106	29	884	1639	597068532	597069264	2.950000e-159	571.0
7	TraesCS1D01G354600	chr1B	82.176	432	61	9	1331	1761	596999793	597000209	8.980000e-95	357.0
8	TraesCS1D01G354600	chr1B	75.912	685	87	38	4	665	597067846	597068475	2.000000e-71	279.0
9	TraesCS1D01G354600	chr1B	79.276	304	51	5	1471	1763	597083810	597084112	4.450000e-48	202.0
10	TraesCS1D01G354600	chr1B	91.964	112	8	1	1104	1215	596999603	596999713	3.520000e-34	156.0
11	TraesCS1D01G354600	chr1B	76.793	237	26	20	868	1084	596999382	596999609	3.590000e-19	106.0
12	TraesCS1D01G354600	chr3D	99.271	823	5	1	1818	2639	441403434	441404256	0.000000e+00	1485.0
13	TraesCS1D01G354600	chr3D	99.149	823	6	1	1818	2639	596853870	596854692	0.000000e+00	1480.0
14	TraesCS1D01G354600	chr7D	99.150	824	6	1	1817	2639	543372566	543371743	0.000000e+00	1482.0
15	TraesCS1D01G354600	chr7D	99.150	824	5	2	1817	2639	583407007	583406185	0.000000e+00	1482.0
16	TraesCS1D01G354600	chr7D	99.149	823	6	1	1818	2639	546428682	546429504	0.000000e+00	1480.0
17	TraesCS1D01G354600	chr2D	99.150	824	5	2	1817	2639	596557905	596558727	0.000000e+00	1482.0
18	TraesCS1D01G354600	chr6D	99.149	823	6	1	1818	2639	380745102	380745924	0.000000e+00	1480.0
19	TraesCS1D01G354600	chr5D	99.149	823	6	1	1818	2639	420911580	420910758	0.000000e+00	1480.0
20	TraesCS1D01G354600	chr5D	99.149	823	6	1	1818	2639	439426705	439427527	0.000000e+00	1480.0
21	TraesCS1D01G354600	chr1A	83.156	659	79	18	1003	1653	538783714	538783080	8.190000e-160	573.0
22	TraesCS1D01G354600	chr1A	94.595	37	2	0	503	539	538784073	538784037	1.020000e-04	58.4

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	TraesCS1D01G354600	chr1D	439670205	439672843	2638	False	4874.000000	4874	100.000000	1	2639	1	chr1D.!!$F1	2638
1	TraesCS1D01G354600	chr1D	439733191	439733820	629	False	579.000000	579	83.359000	998	1647	1	chr1D.!!$F2	649
2	TraesCS1D01G354600	chr1D	439726458	439727292	834	False	299.500000	464	85.130500	881	1737	2	chr1D.!!$F3	856
3	TraesCS1D01G354600	chr1B	596928286	596929976	1690	False	1157.500000	1563	92.364000	152	1817	2	chr1B.!!$F2	1665
4	TraesCS1D01G354600	chr1B	597067846	597069264	1418	False	425.000000	571	78.466500	4	1639	2	chr1B.!!$F4	1635
5	TraesCS1D01G354600	chr1B	596999382	597000209	827	False	206.333333	357	83.644333	868	1761	3	chr1B.!!$F3	893
6	TraesCS1D01G354600	chr3D	441403434	441404256	822	False	1485.000000	1485	99.271000	1818	2639	1	chr3D.!!$F1	821
7	TraesCS1D01G354600	chr3D	596853870	596854692	822	False	1480.000000	1480	99.149000	1818	2639	1	chr3D.!!$F2	821
8	TraesCS1D01G354600	chr7D	543371743	543372566	823	True	1482.000000	1482	99.150000	1817	2639	1	chr7D.!!$R1	822
9	TraesCS1D01G354600	chr7D	583406185	583407007	822	True	1482.000000	1482	99.150000	1817	2639	1	chr7D.!!$R2	822
10	TraesCS1D01G354600	chr7D	546428682	546429504	822	False	1480.000000	1480	99.149000	1818	2639	1	chr7D.!!$F1	821
11	TraesCS1D01G354600	chr2D	596557905	596558727	822	False	1482.000000	1482	99.150000	1817	2639	1	chr2D.!!$F1	822
12	TraesCS1D01G354600	chr6D	380745102	380745924	822	False	1480.000000	1480	99.149000	1818	2639	1	chr6D.!!$F1	821
13	TraesCS1D01G354600	chr5D	420910758	420911580	822	True	1480.000000	1480	99.149000	1818	2639	1	chr5D.!!$R1	821
14	TraesCS1D01G354600	chr5D	439426705	439427527	822	False	1480.000000	1480	99.149000	1818	2639	1	chr5D.!!$F1	821
15	TraesCS1D01G354600	chr1A	538783080	538784073	993	True	315.700000	573	88.875500	503	1653	2	chr1A.!!$R1	1150

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
673	717	0.041663	GCGTAAACAGCAAGCACGAA	60.042	50.0	6.13	0.0	34.66	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1769	1976	0.655733	AAACACTGCAACGACCGAAG	59.344	50.0	0.0	0.0	0.0	3.79	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
29	30	9.558396	AAAAGATTTGCCTGTTTCATTGATTAA	57.442	25.926	0.00	0.00	0.00	1.40
33	34	8.767478	ATTTGCCTGTTTCATTGATTAAGAAG	57.233	30.769	0.00	0.00	0.00	2.85
36	37	7.950512	TGCCTGTTTCATTGATTAAGAAGAAA	58.049	30.769	0.00	0.00	0.00	2.52
48	49	7.153985	TGATTAAGAAGAAAATTGTTGCCCAG	58.846	34.615	0.00	0.00	0.00	4.45
55	56	7.442062	AGAAGAAAATTGTTGCCCAGTTAATTG	59.558	33.333	0.00	0.00	0.00	2.32
56	57	5.997129	AGAAAATTGTTGCCCAGTTAATTGG	59.003	36.000	9.99	9.99	38.00	3.16
75	87	2.554893	TGGGAAAAACCGATACAGCAAC	59.445	45.455	0.00	0.00	40.11	4.17
76	88	2.817844	GGGAAAAACCGATACAGCAACT	59.182	45.455	0.00	0.00	40.11	3.16
77	89	3.119955	GGGAAAAACCGATACAGCAACTC	60.120	47.826	0.00	0.00	40.11	3.01
78	90	3.500680	GGAAAAACCGATACAGCAACTCA	59.499	43.478	0.00	0.00	0.00	3.41
79	91	4.378459	GGAAAAACCGATACAGCAACTCAG	60.378	45.833	0.00	0.00	0.00	3.35
80	92	1.726853	AACCGATACAGCAACTCAGC	58.273	50.000	0.00	0.00	0.00	4.26
82	94	1.001974	ACCGATACAGCAACTCAGCAA	59.998	47.619	0.00	0.00	36.85	3.91
83	95	1.662629	CCGATACAGCAACTCAGCAAG	59.337	52.381	0.00	0.00	36.85	4.01
84	96	1.662629	CGATACAGCAACTCAGCAAGG	59.337	52.381	0.00	0.00	36.85	3.61
85	97	2.012673	GATACAGCAACTCAGCAAGGG	58.987	52.381	0.00	0.00	36.85	3.95
86	98	0.606401	TACAGCAACTCAGCAAGGGC	60.606	55.000	0.00	0.00	41.61	5.19
87	99	2.282745	AGCAACTCAGCAAGGGCC	60.283	61.111	0.00	0.00	42.56	5.80
88	100	2.598394	GCAACTCAGCAAGGGCCA	60.598	61.111	6.18	0.00	42.56	5.36
89	101	2.202395	GCAACTCAGCAAGGGCCAA	61.202	57.895	6.18	0.00	42.56	4.52
102	114	4.344865	GCCAAGCCCACTCCCGAA	62.345	66.667	0.00	0.00	0.00	4.30
110	122	0.466555	CCCACTCCCGAACCACAAAA	60.467	55.000	0.00	0.00	0.00	2.44
121	133	0.802494	ACCACAAAACCGATCGATGC	59.198	50.000	18.66	0.00	0.00	3.91
130	142	1.751351	ACCGATCGATGCAGAAGAAGA	59.249	47.619	18.66	0.00	0.00	2.87
135	147	4.026968	CGATCGATGCAGAAGAAGAAACTC	60.027	45.833	10.26	0.00	0.00	3.01
141	153	4.769688	TGCAGAAGAAGAAACTCTGAACA	58.230	39.130	2.57	0.00	0.00	3.18
145	157	6.425114	GCAGAAGAAGAAACTCTGAACACATA	59.575	38.462	2.57	0.00	0.00	2.29
186	203	1.367840	GAGAATCCCGATGGACCGG	59.632	63.158	0.00	0.00	45.58	5.28
291	308	4.775236	ACAATATGCCTTCTCTCTTCCAC	58.225	43.478	0.00	0.00	0.00	4.02
360	377	4.373116	CGTGCTAGGGTGTGCGGT	62.373	66.667	0.00	0.00	0.00	5.68
460	495	7.701809	ATTAATTACTCTAGACGCTTGCTTC	57.298	36.000	0.00	0.00	0.00	3.86
470	505	0.798776	CGCTTGCTTCAGTTACCTGG	59.201	55.000	0.00	0.00	39.31	4.45
672	716	1.154814	TGCGTAAACAGCAAGCACGA	61.155	50.000	6.13	0.00	42.18	4.35
673	717	0.041663	GCGTAAACAGCAAGCACGAA	60.042	50.000	6.13	0.00	34.66	3.85
674	718	1.399727	GCGTAAACAGCAAGCACGAAT	60.400	47.619	6.13	0.00	34.66	3.34
689	779	7.116948	GCAAGCACGAATACTAGTATCATGATT	59.883	37.037	14.65	14.77	0.00	2.57
721	813	1.623811	AGAAGTAATGTGAGTGCGGGT	59.376	47.619	0.00	0.00	0.00	5.28
727	819	0.677731	ATGTGAGTGCGGGTTGGATG	60.678	55.000	0.00	0.00	0.00	3.51
733	825	1.002624	TGCGGGTTGGATGGAAGAC	60.003	57.895	0.00	0.00	0.00	3.01
736	830	0.676782	CGGGTTGGATGGAAGACACC	60.677	60.000	0.00	0.00	0.00	4.16
740	834	2.154462	GTTGGATGGAAGACACCTGTG	58.846	52.381	0.00	0.00	0.00	3.66
742	836	0.984230	GGATGGAAGACACCTGTGGA	59.016	55.000	1.91	0.00	34.19	4.02
744	838	0.326264	ATGGAAGACACCTGTGGAGC	59.674	55.000	1.91	0.00	34.19	4.70
748	842	0.536006	AAGACACCTGTGGAGCTTGC	60.536	55.000	1.91	0.00	34.19	4.01
757	851	2.935201	CTGTGGAGCTTGCTGATACTTC	59.065	50.000	0.00	0.00	0.00	3.01
762	856	4.116238	GGAGCTTGCTGATACTTCTGTAC	58.884	47.826	0.00	0.00	0.00	2.90
763	857	4.142049	GGAGCTTGCTGATACTTCTGTACT	60.142	45.833	0.00	0.00	0.00	2.73
765	859	6.405953	GGAGCTTGCTGATACTTCTGTACTAA	60.406	42.308	0.00	0.00	0.00	2.24
767	861	7.386851	AGCTTGCTGATACTTCTGTACTAAAA	58.613	34.615	0.00	0.00	0.00	1.52
768	862	7.547370	AGCTTGCTGATACTTCTGTACTAAAAG	59.453	37.037	0.00	0.00	0.00	2.27
769	863	7.545965	GCTTGCTGATACTTCTGTACTAAAAGA	59.454	37.037	8.73	0.00	0.00	2.52
770	864	9.593134	CTTGCTGATACTTCTGTACTAAAAGAT	57.407	33.333	8.73	0.97	0.00	2.40
811	905	8.946085	CCTTGCAAATAGAGTACTTTGATGTAA	58.054	33.333	8.83	5.10	34.93	2.41
858	958	8.138074	TCATACAATTGCTCAGCTAGTACTAAG	58.862	37.037	5.05	0.00	0.00	2.18
862	962	2.614520	TGCTCAGCTAGTACTAAGCTCG	59.385	50.000	19.87	15.24	36.69	5.03
876	976	0.877649	AGCTCGCACTGTCACACAAG	60.878	55.000	0.00	0.00	0.00	3.16
877	977	1.154205	GCTCGCACTGTCACACAAGT	61.154	55.000	0.00	0.00	0.00	3.16
878	978	1.868109	GCTCGCACTGTCACACAAGTA	60.868	52.381	0.00	0.00	0.00	2.24
879	979	2.677199	CTCGCACTGTCACACAAGTAT	58.323	47.619	0.00	0.00	0.00	2.12
883	984	3.121279	CGCACTGTCACACAAGTATGTAC	59.879	47.826	0.00	0.00	37.82	2.90
943	1076	5.753921	GCAACGTATCATTCCTAGCTAGTTT	59.246	40.000	19.31	0.97	0.00	2.66
944	1077	6.292381	GCAACGTATCATTCCTAGCTAGTTTG	60.292	42.308	19.31	12.90	0.00	2.93
956	1089	4.195225	AGCTAGTTTGTCTTGTCCTAGC	57.805	45.455	8.53	8.53	46.92	3.42
986	1119	2.028567	GCTTCTGTTCTGTCTGCCTAGT	60.029	50.000	0.00	0.00	0.00	2.57
987	1120	3.193691	GCTTCTGTTCTGTCTGCCTAGTA	59.806	47.826	0.00	0.00	0.00	1.82
1059	1246	1.820056	CGCCGTGCTCCTCTCTCTA	60.820	63.158	0.00	0.00	0.00	2.43
1069	1256	1.077169	TCCTCTCTCTACTTGGCACCA	59.923	52.381	0.00	0.00	0.00	4.17
1185	1372	1.017177	GCTACAACGCCGACATGGAA	61.017	55.000	0.00	0.00	42.00	3.53
1244	1441	1.757574	CGTTCTTCAACCACGTACGA	58.242	50.000	24.41	0.00	0.00	3.43
1245	1442	2.322161	CGTTCTTCAACCACGTACGAT	58.678	47.619	24.41	3.10	0.00	3.73
1246	1443	3.491356	CGTTCTTCAACCACGTACGATA	58.509	45.455	24.41	0.00	0.00	2.92
1315	1516	1.128513	TCGATCGATACATTGCGTGC	58.871	50.000	15.15	0.00	0.00	5.34
1318	1519	2.048498	GATCGATACATTGCGTGCGTA	58.952	47.619	0.00	0.00	0.00	4.42
1388	1592	4.785453	GCGGCTGAAGAGGGTGGG	62.785	72.222	0.00	0.00	0.00	4.61
1398	1602	3.864983	GAGGGTGGGAGGGGTGACA	62.865	68.421	0.00	0.00	0.00	3.58
1489	1693	3.125573	TGGAGAGCTCGTCGTCGG	61.126	66.667	8.37	0.00	37.69	4.79
1654	1858	0.683412	CTGATCCATCCAGCCATCGA	59.317	55.000	0.00	0.00	0.00	3.59
1659	1863	0.533755	CCATCCAGCCATCGAGAACC	60.534	60.000	0.00	0.00	0.00	3.62
1667	1871	1.202687	GCCATCGAGAACCATGGATGA	60.203	52.381	21.47	8.60	42.11	2.92
1742	1947	5.622233	CGTCGATTGATTAGCTGGGATATGA	60.622	44.000	0.00	0.00	0.00	2.15
1744	1949	6.312426	GTCGATTGATTAGCTGGGATATGAAG	59.688	42.308	0.00	0.00	0.00	3.02
1753	1960	1.565759	TGGGATATGAAGGCAGTGCTT	59.434	47.619	16.11	3.91	0.00	3.91
1769	1976	5.147162	CAGTGCTTTAAGGTTGATCGTTTC	58.853	41.667	0.00	0.00	0.00	2.78
1770	1977	5.049405	CAGTGCTTTAAGGTTGATCGTTTCT	60.049	40.000	0.00	0.00	0.00	2.52
1771	1978	5.531287	AGTGCTTTAAGGTTGATCGTTTCTT	59.469	36.000	0.00	0.00	0.00	2.52
1772	1979	5.851703	GTGCTTTAAGGTTGATCGTTTCTTC	59.148	40.000	0.00	0.00	0.00	2.87
1773	1980	5.080068	GCTTTAAGGTTGATCGTTTCTTCG	58.920	41.667	0.00	0.00	0.00	3.79
1774	1981	5.600908	TTTAAGGTTGATCGTTTCTTCGG	57.399	39.130	0.00	0.00	0.00	4.30
1775	1982	2.833631	AGGTTGATCGTTTCTTCGGT	57.166	45.000	0.00	0.00	0.00	4.69
1776	1983	2.685100	AGGTTGATCGTTTCTTCGGTC	58.315	47.619	0.00	0.00	40.77	4.79

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1	2	7.249186	TCAATGAAACAGGCAAATCTTTTTG	57.751	32.000	0.00	0.00	44.18	2.44
2	3	8.454570	AATCAATGAAACAGGCAAATCTTTTT	57.545	26.923	0.00	0.00	0.00	1.94
8	9	8.587608	TCTTCTTAATCAATGAAACAGGCAAAT	58.412	29.630	0.00	0.00	0.00	2.32
21	22	8.156165	TGGGCAACAATTTTCTTCTTAATCAAT	58.844	29.630	0.00	0.00	39.74	2.57
24	25	7.154656	ACTGGGCAACAATTTTCTTCTTAATC	58.845	34.615	0.00	0.00	39.74	1.75
29	30	6.478512	TTAACTGGGCAACAATTTTCTTCT	57.521	33.333	0.00	0.00	39.74	2.85
33	34	6.239908	CCAATTAACTGGGCAACAATTTTC	57.760	37.500	0.00	0.00	39.74	2.29
48	49	5.803461	GCTGTATCGGTTTTTCCCAATTAAC	59.197	40.000	0.00	0.00	0.00	2.01
55	56	2.817844	AGTTGCTGTATCGGTTTTTCCC	59.182	45.455	0.00	0.00	0.00	3.97
56	57	3.500680	TGAGTTGCTGTATCGGTTTTTCC	59.499	43.478	0.00	0.00	0.00	3.13
75	87	3.066814	GGCTTGGCCCTTGCTGAG	61.067	66.667	0.00	0.00	44.06	3.35
85	97	4.344865	TTCGGGAGTGGGCTTGGC	62.345	66.667	0.00	0.00	0.00	4.52
86	98	2.359975	GTTCGGGAGTGGGCTTGG	60.360	66.667	0.00	0.00	0.00	3.61
87	99	2.359975	GGTTCGGGAGTGGGCTTG	60.360	66.667	0.00	0.00	0.00	4.01
88	100	2.852075	TGGTTCGGGAGTGGGCTT	60.852	61.111	0.00	0.00	0.00	4.35
89	101	3.637273	GTGGTTCGGGAGTGGGCT	61.637	66.667	0.00	0.00	0.00	5.19
102	114	0.802494	GCATCGATCGGTTTTGTGGT	59.198	50.000	16.41	0.00	0.00	4.16
110	122	1.751351	TCTTCTTCTGCATCGATCGGT	59.249	47.619	16.41	4.70	0.00	4.69
121	133	6.857777	ATGTGTTCAGAGTTTCTTCTTCTG	57.142	37.500	0.00	0.00	0.00	3.02
135	147	7.080353	TGCTTTCATCTGATTATGTGTTCAG	57.920	36.000	0.00	0.00	40.58	3.02
141	153	8.790718	GGAATGTATGCTTTCATCTGATTATGT	58.209	33.333	10.76	0.00	34.22	2.29
145	157	6.057533	TCGGAATGTATGCTTTCATCTGATT	58.942	36.000	10.76	0.00	34.22	2.57
270	287	4.133078	GGTGGAAGAGAGAAGGCATATTG	58.867	47.826	0.00	0.00	0.00	1.90
336	353	1.199789	CACACCCTAGCACGTACGTTA	59.800	52.381	20.23	8.96	0.00	3.18
337	354	0.038892	CACACCCTAGCACGTACGTT	60.039	55.000	20.23	8.14	0.00	3.99
338	355	1.582968	CACACCCTAGCACGTACGT	59.417	57.895	16.72	16.72	0.00	3.57
339	356	1.804326	GCACACCCTAGCACGTACG	60.804	63.158	15.01	15.01	0.00	3.67
340	357	1.804326	CGCACACCCTAGCACGTAC	60.804	63.158	0.00	0.00	0.00	3.67
360	377	1.813862	GCAGTTTGCAGTGGTGGAGTA	60.814	52.381	0.00	0.00	44.26	2.59
440	469	4.158764	ACTGAAGCAAGCGTCTAGAGTAAT	59.841	41.667	9.26	0.00	0.00	1.89
441	470	3.506455	ACTGAAGCAAGCGTCTAGAGTAA	59.494	43.478	9.26	0.00	0.00	2.24
470	505	0.308993	AAAGCGCTGTCACTTGCTTC	59.691	50.000	12.58	0.00	46.23	3.86
551	592	0.537653	TCGTCGGGGAAACATGCATA	59.462	50.000	0.00	0.00	0.00	3.14
582	623	2.032981	GGCCAAGTTATGCCGGATG	58.967	57.895	5.05	0.00	38.00	3.51
604	648	7.273815	TCGTTTGACCAAGTTGTTGTTTATTTC	59.726	33.333	1.45	0.00	30.95	2.17
691	781	7.332182	GCACTCACATTACTTCTAGCTAGTTTT	59.668	37.037	20.10	8.09	0.00	2.43
708	800	0.677731	CATCCAACCCGCACTCACAT	60.678	55.000	0.00	0.00	0.00	3.21
709	801	1.302431	CATCCAACCCGCACTCACA	60.302	57.895	0.00	0.00	0.00	3.58
721	813	1.073763	CCACAGGTGTCTTCCATCCAA	59.926	52.381	0.00	0.00	0.00	3.53
727	819	0.398318	AAGCTCCACAGGTGTCTTCC	59.602	55.000	0.00	0.00	0.00	3.46
733	825	0.322277	ATCAGCAAGCTCCACAGGTG	60.322	55.000	0.00	0.00	0.00	4.00
736	830	2.687700	AGTATCAGCAAGCTCCACAG	57.312	50.000	0.00	0.00	0.00	3.66
740	834	3.258971	ACAGAAGTATCAGCAAGCTCC	57.741	47.619	0.00	0.00	0.00	4.70
742	836	6.531503	TTAGTACAGAAGTATCAGCAAGCT	57.468	37.500	0.00	0.00	31.84	3.74
744	838	8.988064	TCTTTTAGTACAGAAGTATCAGCAAG	57.012	34.615	0.00	0.00	31.84	4.01
783	877	6.801539	TCAAAGTACTCTATTTGCAAGGTG	57.198	37.500	0.00	0.00	36.55	4.00
785	879	7.383102	ACATCAAAGTACTCTATTTGCAAGG	57.617	36.000	0.00	0.00	36.55	3.61
822	916	9.208022	GCTGAGCAATTGTATGATACTGTATAA	57.792	33.333	7.40	0.00	0.00	0.98
823	917	8.588472	AGCTGAGCAATTGTATGATACTGTATA	58.412	33.333	7.39	0.00	0.00	1.47
826	920	5.678583	AGCTGAGCAATTGTATGATACTGT	58.321	37.500	7.39	0.00	0.00	3.55
836	930	5.105146	AGCTTAGTACTAGCTGAGCAATTGT	60.105	40.000	20.90	2.04	46.50	2.71
858	958	1.154205	ACTTGTGTGACAGTGCGAGC	61.154	55.000	0.00	0.00	0.00	5.03
862	962	4.307432	AGTACATACTTGTGTGACAGTGC	58.693	43.478	4.58	0.00	36.53	4.40
883	984	8.894768	AGCTAGAGGTTGCAAATTTATAGTAG	57.105	34.615	0.00	0.00	0.00	2.57
943	1076	3.543680	GCTATTGGCTAGGACAAGACA	57.456	47.619	0.00	0.00	32.43	3.41
956	1089	3.341823	ACAGAACAGAAGCAGCTATTGG	58.658	45.455	0.00	0.00	0.00	3.16
1244	1441	2.844223	CGAATATGCGATGCGTACGTAT	59.156	45.455	19.06	19.06	39.15	3.06
1245	1442	2.235855	CGAATATGCGATGCGTACGTA	58.764	47.619	17.90	13.65	32.61	3.57
1246	1443	1.050009	CGAATATGCGATGCGTACGT	58.950	50.000	17.90	0.00	32.61	3.57
1248	1445	0.781787	TGCGAATATGCGATGCGTAC	59.218	50.000	7.46	0.00	37.81	3.67
1388	1592	3.721706	CCTGGCCTGTCACCCCTC	61.722	72.222	3.32	0.00	0.00	4.30
1654	1858	4.536090	TCCTACAAGTTCATCCATGGTTCT	59.464	41.667	12.58	1.66	0.00	3.01
1659	1863	5.491070	TCAACTCCTACAAGTTCATCCATG	58.509	41.667	0.00	0.00	37.38	3.66
1742	1947	2.944129	TCAACCTTAAAGCACTGCCTT	58.056	42.857	0.00	0.00	0.00	4.35
1744	1949	2.159517	CGATCAACCTTAAAGCACTGCC	60.160	50.000	0.00	0.00	0.00	4.85
1753	1960	4.634199	ACCGAAGAAACGATCAACCTTAA	58.366	39.130	0.00	0.00	35.09	1.85
1769	1976	0.655733	AAACACTGCAACGACCGAAG	59.344	50.000	0.00	0.00	0.00	3.79
1770	1977	1.088306	AAAACACTGCAACGACCGAA	58.912	45.000	0.00	0.00	0.00	4.30
1771	1978	1.088306	AAAAACACTGCAACGACCGA	58.912	45.000	0.00	0.00	0.00	4.69
1772	1979	3.615099	AAAAACACTGCAACGACCG	57.385	47.368	0.00	0.00	0.00	4.79

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.