AutoCloner

Multiple sequence alignment - TraesCS6B01G229500

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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	TraesCS6B01G229500	chr6B	100.000	2561	0	0	1	2561	367352149	367349589	0.000000e+00	4730.0
1	TraesCS6B01G229500	chr6B	96.117	721	22	1	877	1591	638232545	638231825	0.000000e+00	1171.0
2	TraesCS6B01G229500	chr6B	93.304	224	10	4	2146	2368	366165019	366165238	2.460000e-85	326.0
3	TraesCS6B01G229500	chr6B	90.863	197	17	1	2365	2561	366167195	366167390	1.950000e-66	263.0
4	TraesCS6B01G229500	chr6B	92.771	83	4	2	1600	1682	39190117	39190037	4.480000e-23	119.0
5	TraesCS6B01G229500	chr6B	85.981	107	13	2	270	375	250788570	250788675	2.080000e-21	113.0
6	TraesCS6B01G229500	chr6D	97.500	880	15	3	1685	2561	217758732	217759607	0.000000e+00	1496.0
7	TraesCS6B01G229500	chr6D	93.333	45	2	1	622	666	468538999	468538956	5.910000e-07	65.8
8	TraesCS6B01G229500	chr7A	95.361	927	36	2	668	1588	75026470	75025545	0.000000e+00	1467.0
9	TraesCS6B01G229500	chr7A	85.915	71	10	0	596	666	711595115	711595185	2.730000e-10	76.8
10	TraesCS6B01G229500	chr7A	93.333	45	2	1	621	665	84661177	84661134	5.910000e-07	65.8
11	TraesCS6B01G229500	chr7A	80.000	100	10	7	511	603	665314096	665314000	5.910000e-07	65.8
12	TraesCS6B01G229500	chr7A	97.059	34	1	0	370	403	461935306	461935339	9.900000e-05	58.4
13	TraesCS6B01G229500	chr6A	96.807	877	17	2	1685	2561	313297524	313298389	0.000000e+00	1454.0
14	TraesCS6B01G229500	chr7D	94.924	926	39	3	668	1587	497006312	497007235	0.000000e+00	1443.0
15	TraesCS6B01G229500	chr7D	85.792	915	120	5	668	1576	472803373	472802463	0.000000e+00	961.0
16	TraesCS6B01G229500	chr7D	80.633	537	69	24	67	580	463035933	463035409	1.440000e-102	383.0
17	TraesCS6B01G229500	chr7D	93.827	81	4	1	1602	1682	402332328	402332407	1.240000e-23	121.0
18	TraesCS6B01G229500	chr3B	94.276	926	40	3	668	1587	410611313	410612231	0.000000e+00	1404.0
19	TraesCS6B01G229500	chr3B	97.561	41	0	1	621	661	229743428	229743389	4.570000e-08	69.4
20	TraesCS6B01G229500	chr3A	94.118	918	43	5	674	1585	100035542	100034630	0.000000e+00	1386.0
21	TraesCS6B01G229500	chr3A	97.059	34	1	0	370	403	589829094	589829061	9.900000e-05	58.4
22	TraesCS6B01G229500	chr1B	95.731	773	26	2	821	1587	186795426	186796197	0.000000e+00	1238.0
23	TraesCS6B01G229500	chr3D	84.984	919	123	8	668	1577	339844949	339844037	0.000000e+00	918.0
24	TraesCS6B01G229500	chr3D	88.404	664	65	4	3	666	102592514	102593165	0.000000e+00	789.0
25	TraesCS6B01G229500	chr3D	84.783	92	4	3	1600	1683	80293056	80292967	1.630000e-12	84.2
26	TraesCS6B01G229500	chr1D	83.708	933	136	9	668	1587	286396325	286397254	0.000000e+00	867.0
27	TraesCS6B01G229500	chr1D	90.667	525	35	3	1	525	49255876	49255366	0.000000e+00	686.0
28	TraesCS6B01G229500	chr1D	96.386	83	3	0	1600	1682	138495359	138495441	1.240000e-28	137.0
29	TraesCS6B01G229500	chrUn	89.970	668	64	3	1	667	147943128	147943793	0.000000e+00	859.0
30	TraesCS6B01G229500	chr2B	88.872	665	71	3	1	663	261079796	261080459	0.000000e+00	815.0
31	TraesCS6B01G229500	chr7B	82.055	613	78	9	1	588	291569286	291569891	6.370000e-136	494.0
32	TraesCS6B01G229500	chr4A	85.149	101	13	2	566	666	224105117	224105019	4.510000e-18	102.0
33	TraesCS6B01G229500	chr5A	92.308	52	4	0	620	671	530419142	530419091	9.830000e-10	75.0
34	TraesCS6B01G229500	chr5A	97.222	36	1	0	370	405	640915275	640915240	7.650000e-06	62.1
35	TraesCS6B01G229500	chr2D	80.374	107	9	9	511	610	94459556	94459657	1.270000e-08	71.3
36	TraesCS6B01G229500	chr2A	97.059	34	1	0	370	403	142695263	142695230	9.900000e-05	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	TraesCS6B01G229500	chr6B	367349589	367352149	2560	True	4730.0	4730	100.0000	1	2561	1	chr6B.!!$R2	2560
1	TraesCS6B01G229500	chr6B	638231825	638232545	720	True	1171.0	1171	96.1170	877	1591	1	chr6B.!!$R3	714
2	TraesCS6B01G229500	chr6B	366165019	366167390	2371	False	294.5	326	92.0835	2146	2561	2	chr6B.!!$F2	415
3	TraesCS6B01G229500	chr6D	217758732	217759607	875	False	1496.0	1496	97.5000	1685	2561	1	chr6D.!!$F1	876
4	TraesCS6B01G229500	chr7A	75025545	75026470	925	True	1467.0	1467	95.3610	668	1588	1	chr7A.!!$R1	920
5	TraesCS6B01G229500	chr6A	313297524	313298389	865	False	1454.0	1454	96.8070	1685	2561	1	chr6A.!!$F1	876
6	TraesCS6B01G229500	chr7D	497006312	497007235	923	False	1443.0	1443	94.9240	668	1587	1	chr7D.!!$F2	919
7	TraesCS6B01G229500	chr7D	472802463	472803373	910	True	961.0	961	85.7920	668	1576	1	chr7D.!!$R2	908
8	TraesCS6B01G229500	chr7D	463035409	463035933	524	True	383.0	383	80.6330	67	580	1	chr7D.!!$R1	513
9	TraesCS6B01G229500	chr3B	410611313	410612231	918	False	1404.0	1404	94.2760	668	1587	1	chr3B.!!$F1	919
10	TraesCS6B01G229500	chr3A	100034630	100035542	912	True	1386.0	1386	94.1180	674	1585	1	chr3A.!!$R1	911
11	TraesCS6B01G229500	chr1B	186795426	186796197	771	False	1238.0	1238	95.7310	821	1587	1	chr1B.!!$F1	766
12	TraesCS6B01G229500	chr3D	339844037	339844949	912	True	918.0	918	84.9840	668	1577	1	chr3D.!!$R2	909
13	TraesCS6B01G229500	chr3D	102592514	102593165	651	False	789.0	789	88.4040	3	666	1	chr3D.!!$F1	663
14	TraesCS6B01G229500	chr1D	286396325	286397254	929	False	867.0	867	83.7080	668	1587	1	chr1D.!!$F2	919
15	TraesCS6B01G229500	chr1D	49255366	49255876	510	True	686.0	686	90.6670	1	525	1	chr1D.!!$R1	524
16	TraesCS6B01G229500	chrUn	147943128	147943793	665	False	859.0	859	89.9700	1	667	1	chrUn.!!$F1	666
17	TraesCS6B01G229500	chr2B	261079796	261080459	663	False	815.0	815	88.8720	1	663	1	chr2B.!!$F1	662
18	TraesCS6B01G229500	chr7B	291569286	291569891	605	False	494.0	494	82.0550	1	588	1	chr7B.!!$F1	587

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
319	354	0.039764	TCCGTCACCTCCATGTCTCT	59.96	55.0	0.0	0.0	0.0	3.1	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2198	2254	0.179012	GAGGGGAACACGGGAAACAA	60.179	55.0	0.0	0.0	0.0	2.83	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	2.125350	GCCGTCAGAGGAGGCTTG	60.125	66.667	4.63	0.00	46.83	4.01
53	63	4.650377	GCCCGATCCCCAGCATCC	62.650	72.222	0.00	0.00	0.00	3.51
194	204	0.561184	TCTACCTCCGTCCCCATGAT	59.439	55.000	0.00	0.00	0.00	2.45
276	311	0.534877	TTGTCGTCTGCTGCACCAAT	60.535	50.000	0.00	0.00	0.00	3.16
303	338	3.511934	TCCTTTCTTCCTTCTTCTCTCCG	59.488	47.826	0.00	0.00	0.00	4.63
319	354	0.039764	TCCGTCACCTCCATGTCTCT	59.960	55.000	0.00	0.00	0.00	3.10
323	358	3.403038	CGTCACCTCCATGTCTCTTTTT	58.597	45.455	0.00	0.00	0.00	1.94
349	385	1.221840	GAGTCGTGGATGCCATGGT	59.778	57.895	14.67	0.00	40.65	3.55
392	428	1.504900	CCTTCATCGTCGTCACCGA	59.495	57.895	0.00	0.00	41.73	4.69
477	513	1.300963	CTGCAAGCTCCAGCCCTTA	59.699	57.895	1.88	0.00	43.38	2.69
584	621	4.023726	AGACTGCGGGTTTAATTACCAA	57.976	40.909	0.00	0.00	40.09	3.67
640	678	0.321653	GTGAACCCGGCAGACTCAAT	60.322	55.000	0.00	0.00	0.00	2.57
658	696	8.421784	AGACTCAATCCGTGCTTTATTATTAGA	58.578	33.333	0.00	0.00	0.00	2.10
786	825	3.642141	AGCAAAGGAGGTTTGGAAAAGA	58.358	40.909	0.04	0.00	45.10	2.52
787	826	4.226384	AGCAAAGGAGGTTTGGAAAAGAT	58.774	39.130	0.04	0.00	45.10	2.40
871	910	4.225942	TGGAGTACTTACTACTTCTCCCGA	59.774	45.833	0.00	0.00	40.21	5.14
904	943	5.215845	TGAGGATGATAGGTCACCACAATA	58.784	41.667	0.00	0.00	37.14	1.90
991	1030	2.365293	GAGACAACCCAAAATGCCTTGT	59.635	45.455	0.00	0.00	0.00	3.16
1153	1193	1.342672	GCTTAGGGGAACGATGGGGA	61.343	60.000	0.00	0.00	0.00	4.81
1161	1201	1.000739	AACGATGGGGACGGTCCTA	59.999	57.895	25.39	15.68	36.57	2.94
1176	1216	2.561858	GGTCCTAAGAGACGACAAAGGT	59.438	50.000	0.00	0.00	37.66	3.50
1406	1451	8.858003	TGTTTTCATTACGCTTGTGATTTTAA	57.142	26.923	0.00	0.00	0.00	1.52
1534	1587	7.567458	TGAGATTGTAATGATCCTCATGAACA	58.433	34.615	0.00	0.00	37.15	3.18
1627	1680	7.798596	GATCACTTGATCTACATGTTTCCAT	57.201	36.000	2.30	0.00	45.60	3.41
1628	1681	8.218338	GATCACTTGATCTACATGTTTCCATT	57.782	34.615	2.30	0.00	45.60	3.16
1629	1682	7.381766	TCACTTGATCTACATGTTTCCATTG	57.618	36.000	2.30	0.00	35.22	2.82
1630	1683	6.032094	CACTTGATCTACATGTTTCCATTGC	58.968	40.000	2.30	0.00	35.22	3.56
1631	1684	5.948162	ACTTGATCTACATGTTTCCATTGCT	59.052	36.000	2.30	0.00	33.99	3.91
1632	1685	6.435277	ACTTGATCTACATGTTTCCATTGCTT	59.565	34.615	2.30	0.00	33.99	3.91
1633	1686	6.839124	TGATCTACATGTTTCCATTGCTTT	57.161	33.333	2.30	0.00	0.00	3.51
1634	1687	6.855836	TGATCTACATGTTTCCATTGCTTTC	58.144	36.000	2.30	0.00	0.00	2.62
1635	1688	6.660521	TGATCTACATGTTTCCATTGCTTTCT	59.339	34.615	2.30	0.00	0.00	2.52
1636	1689	6.258230	TCTACATGTTTCCATTGCTTTCTG	57.742	37.500	2.30	0.00	0.00	3.02
1637	1690	3.656559	ACATGTTTCCATTGCTTTCTGC	58.343	40.909	0.00	0.00	43.25	4.26
1638	1691	3.322828	ACATGTTTCCATTGCTTTCTGCT	59.677	39.130	0.00	0.00	43.37	4.24
1639	1692	4.523943	ACATGTTTCCATTGCTTTCTGCTA	59.476	37.500	0.00	0.00	43.37	3.49
1640	1693	5.010922	ACATGTTTCCATTGCTTTCTGCTAA	59.989	36.000	0.00	0.00	43.37	3.09
1641	1694	5.528043	TGTTTCCATTGCTTTCTGCTAAA	57.472	34.783	0.00	0.00	43.37	1.85
1642	1695	6.100404	TGTTTCCATTGCTTTCTGCTAAAT	57.900	33.333	0.00	0.00	43.37	1.40
1643	1696	6.158598	TGTTTCCATTGCTTTCTGCTAAATC	58.841	36.000	0.00	0.00	43.37	2.17
1644	1697	5.981088	TTCCATTGCTTTCTGCTAAATCA	57.019	34.783	0.00	0.00	43.37	2.57
1645	1698	5.981088	TCCATTGCTTTCTGCTAAATCAA	57.019	34.783	4.60	4.60	43.37	2.57
1646	1699	6.534475	TCCATTGCTTTCTGCTAAATCAAT	57.466	33.333	7.78	7.78	43.37	2.57
1647	1700	6.334989	TCCATTGCTTTCTGCTAAATCAATG	58.665	36.000	21.74	21.74	43.37	2.82
1648	1701	6.153170	TCCATTGCTTTCTGCTAAATCAATGA	59.847	34.615	26.00	16.84	40.75	2.57
1649	1702	6.814644	CCATTGCTTTCTGCTAAATCAATGAA	59.185	34.615	26.00	3.51	40.75	2.57
1650	1703	7.010183	CCATTGCTTTCTGCTAAATCAATGAAG	59.990	37.037	26.00	15.62	40.75	3.02
1651	1704	5.404946	TGCTTTCTGCTAAATCAATGAAGC	58.595	37.500	0.00	0.00	43.37	3.86
1652	1705	4.802563	GCTTTCTGCTAAATCAATGAAGCC	59.197	41.667	3.30	0.00	38.95	4.35
1653	1706	4.989279	TTCTGCTAAATCAATGAAGCCC	57.011	40.909	3.30	0.00	33.99	5.19
1654	1707	2.945008	TCTGCTAAATCAATGAAGCCCG	59.055	45.455	3.30	0.00	33.99	6.13
1655	1708	2.684881	CTGCTAAATCAATGAAGCCCGT	59.315	45.455	3.30	0.00	33.99	5.28
1656	1709	2.423185	TGCTAAATCAATGAAGCCCGTG	59.577	45.455	3.30	0.00	33.99	4.94
1657	1710	2.423538	GCTAAATCAATGAAGCCCGTGT	59.576	45.455	0.00	0.00	0.00	4.49
1658	1711	3.119495	GCTAAATCAATGAAGCCCGTGTT	60.119	43.478	0.00	0.00	0.00	3.32
1659	1712	3.575965	AAATCAATGAAGCCCGTGTTC	57.424	42.857	0.00	0.00	0.00	3.18
1660	1713	2.198827	ATCAATGAAGCCCGTGTTCA	57.801	45.000	0.00	0.00	38.28	3.18
1661	1714	1.974265	TCAATGAAGCCCGTGTTCAA	58.026	45.000	0.00	0.00	37.46	2.69
1662	1715	1.879380	TCAATGAAGCCCGTGTTCAAG	59.121	47.619	0.00	0.00	37.46	3.02
1663	1716	0.598065	AATGAAGCCCGTGTTCAAGC	59.402	50.000	0.00	0.00	37.46	4.01
1664	1717	1.244019	ATGAAGCCCGTGTTCAAGCC	61.244	55.000	0.00	0.00	37.46	4.35
1665	1718	2.966309	GAAGCCCGTGTTCAAGCCG	61.966	63.158	0.00	0.00	0.00	5.52
1669	1722	3.047877	CCGTGTTCAAGCCGGGTC	61.048	66.667	6.62	0.00	38.09	4.46
1670	1723	2.030562	CGTGTTCAAGCCGGGTCT	59.969	61.111	6.62	0.00	0.00	3.85
1671	1724	1.597027	CGTGTTCAAGCCGGGTCTT	60.597	57.895	6.62	0.00	0.00	3.01
1672	1725	1.164041	CGTGTTCAAGCCGGGTCTTT	61.164	55.000	6.62	0.00	0.00	2.52
1673	1726	0.591659	GTGTTCAAGCCGGGTCTTTC	59.408	55.000	6.62	0.00	0.00	2.62
1674	1727	0.181587	TGTTCAAGCCGGGTCTTTCA	59.818	50.000	6.62	1.78	0.00	2.69
1675	1728	0.875059	GTTCAAGCCGGGTCTTTCAG	59.125	55.000	6.62	0.00	0.00	3.02
1676	1729	0.762418	TTCAAGCCGGGTCTTTCAGA	59.238	50.000	6.62	0.00	0.00	3.27
1677	1730	0.762418	TCAAGCCGGGTCTTTCAGAA	59.238	50.000	6.62	0.00	0.00	3.02
1678	1731	1.142060	TCAAGCCGGGTCTTTCAGAAA	59.858	47.619	6.62	0.00	0.00	2.52
1679	1732	1.953686	CAAGCCGGGTCTTTCAGAAAA	59.046	47.619	6.62	0.00	0.00	2.29
1680	1733	2.358322	AGCCGGGTCTTTCAGAAAAA	57.642	45.000	0.00	0.00	0.00	1.94
1726	1779	0.466555	ACCACGCCCAGTAAAGCAAA	60.467	50.000	0.00	0.00	0.00	3.68
1937	1993	3.266964	CGAACAGGTCGTCGGGTA	58.733	61.111	0.00	0.00	45.09	3.69
1974	2030	1.067142	TGACTGACATACAAGACCGCC	60.067	52.381	0.00	0.00	0.00	6.13
2094	2150	2.681778	CCTCCTCGCACTCCCACT	60.682	66.667	0.00	0.00	0.00	4.00
2404	4420	4.853142	ACGCGGATAGGCAGGGGA	62.853	66.667	12.47	0.00	0.00	4.81

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
172	182	0.106116	ATGGGGACGGAGGTAGAGTC	60.106	60.000	0.00	0.00	0.00	3.36
173	183	0.397254	CATGGGGACGGAGGTAGAGT	60.397	60.000	0.00	0.00	0.00	3.24
276	311	2.743131	AGAAGGAAGAAAGGAGGGGA	57.257	50.000	0.00	0.00	0.00	4.81
323	358	0.392863	CATCCACGACTCATGGGCAA	60.393	55.000	0.00	0.00	37.85	4.52
555	592	5.831702	TTAAACCCGCAGTCTTGTTTTAA	57.168	34.783	0.00	0.00	33.36	1.52
563	600	3.706600	TGGTAATTAAACCCGCAGTCT	57.293	42.857	0.00	0.00	38.90	3.24
618	656	2.358737	GTCTGCCGGGTTCACCAG	60.359	66.667	2.18	0.00	40.22	4.00
619	657	2.847234	AGTCTGCCGGGTTCACCA	60.847	61.111	2.18	0.00	40.22	4.17
630	668	1.160137	AAAGCACGGATTGAGTCTGC	58.840	50.000	0.00	0.00	36.64	4.26
871	910	6.069440	TGACCTATCATCCTCAATTCTTGGTT	60.069	38.462	0.00	0.00	0.00	3.67
904	943	1.938577	GACAGCAATCATCTCACGCAT	59.061	47.619	0.00	0.00	0.00	4.73
963	1002	4.220602	GCATTTTGGGTTGTCTCCTTATGT	59.779	41.667	0.00	0.00	0.00	2.29
991	1030	6.719370	AGTGCTAAAACACCCATTGAAATCTA	59.281	34.615	0.00	0.00	41.67	1.98
1153	1193	1.901591	TTGTCGTCTCTTAGGACCGT	58.098	50.000	0.00	0.00	41.37	4.83
1161	1201	4.684484	AAACCTACCTTTGTCGTCTCTT	57.316	40.909	0.00	0.00	0.00	2.85
1176	1216	5.200483	CCATTTCCTCCAGCAATAAACCTA	58.800	41.667	0.00	0.00	0.00	3.08
1233	1273	2.371658	ACTTGGGAGCAAAAGCTTCT	57.628	45.000	0.00	0.00	0.00	2.85
1600	1653	7.665145	TGGAAACATGTAGATCAAGTGATCAAA	59.335	33.333	20.52	7.87	44.08	2.69
1601	1654	7.167535	TGGAAACATGTAGATCAAGTGATCAA	58.832	34.615	20.52	8.43	44.08	2.57
1602	1655	6.710278	TGGAAACATGTAGATCAAGTGATCA	58.290	36.000	20.52	0.00	44.08	2.92
1629	1682	4.802563	GGCTTCATTGATTTAGCAGAAAGC	59.197	41.667	10.21	0.00	46.19	3.51
1630	1683	5.346522	GGGCTTCATTGATTTAGCAGAAAG	58.653	41.667	10.21	0.00	35.36	2.62
1631	1684	4.142403	CGGGCTTCATTGATTTAGCAGAAA	60.142	41.667	10.21	0.00	35.36	2.52
1632	1685	3.378112	CGGGCTTCATTGATTTAGCAGAA	59.622	43.478	10.21	0.00	35.36	3.02
1633	1686	2.945008	CGGGCTTCATTGATTTAGCAGA	59.055	45.455	10.21	0.00	35.36	4.26
1634	1687	2.684881	ACGGGCTTCATTGATTTAGCAG	59.315	45.455	10.21	6.59	35.36	4.24
1635	1688	2.423185	CACGGGCTTCATTGATTTAGCA	59.577	45.455	10.21	0.00	35.36	3.49
1636	1689	2.423538	ACACGGGCTTCATTGATTTAGC	59.576	45.455	0.98	0.98	0.00	3.09
1637	1690	4.155826	TGAACACGGGCTTCATTGATTTAG	59.844	41.667	0.00	0.00	0.00	1.85
1638	1691	4.075682	TGAACACGGGCTTCATTGATTTA	58.924	39.130	0.00	0.00	0.00	1.40
1639	1692	2.890311	TGAACACGGGCTTCATTGATTT	59.110	40.909	0.00	0.00	0.00	2.17
1640	1693	2.513753	TGAACACGGGCTTCATTGATT	58.486	42.857	0.00	0.00	0.00	2.57
1641	1694	2.198827	TGAACACGGGCTTCATTGAT	57.801	45.000	0.00	0.00	0.00	2.57
1642	1695	1.879380	CTTGAACACGGGCTTCATTGA	59.121	47.619	3.99	0.00	0.00	2.57
1643	1696	1.666888	GCTTGAACACGGGCTTCATTG	60.667	52.381	3.99	2.81	0.00	2.82
1644	1697	0.598065	GCTTGAACACGGGCTTCATT	59.402	50.000	3.99	0.00	0.00	2.57
1645	1698	1.244019	GGCTTGAACACGGGCTTCAT	61.244	55.000	3.99	0.00	0.00	2.57
1646	1699	1.896660	GGCTTGAACACGGGCTTCA	60.897	57.895	0.00	0.00	0.00	3.02
1647	1700	2.954611	GGCTTGAACACGGGCTTC	59.045	61.111	0.00	0.00	0.00	3.86
1648	1701	2.978010	CGGCTTGAACACGGGCTT	60.978	61.111	0.00	0.00	0.00	4.35
1652	1705	3.047877	GACCCGGCTTGAACACGG	61.048	66.667	0.00	0.00	46.79	4.94
1653	1706	1.164041	AAAGACCCGGCTTGAACACG	61.164	55.000	0.00	0.00	0.00	4.49
1654	1707	0.591659	GAAAGACCCGGCTTGAACAC	59.408	55.000	0.00	0.00	0.00	3.32
1655	1708	0.181587	TGAAAGACCCGGCTTGAACA	59.818	50.000	0.00	0.00	0.00	3.18
1656	1709	0.875059	CTGAAAGACCCGGCTTGAAC	59.125	55.000	0.00	0.00	34.07	3.18
1657	1710	0.762418	TCTGAAAGACCCGGCTTGAA	59.238	50.000	0.00	0.00	38.67	2.69
1658	1711	2.447630	TCTGAAAGACCCGGCTTGA	58.552	52.632	0.00	0.00	38.67	3.02
1683	1736	8.695456	GGTTGAAATCAGGGTATTGATTATGTT	58.305	33.333	2.05	0.00	44.74	2.71
1726	1779	3.006430	CCAAGGCGGACAAAAATAGGTTT	59.994	43.478	0.00	0.00	36.56	3.27
1902	1958	1.136891	TCGATCGAATGTGCATCTGGT	59.863	47.619	16.99	0.00	0.00	4.00
2094	2150	1.904771	CGGGAGGTGGATAGCAACA	59.095	57.895	0.00	0.00	0.00	3.33
2198	2254	0.179012	GAGGGGAACACGGGAAACAA	60.179	55.000	0.00	0.00	0.00	2.83
2377	4393	0.523966	CTATCCGCGTCATCCTCCTC	59.476	60.000	4.92	0.00	0.00	3.71

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.