AutoCloner

Multiple sequence alignment - TraesCS6B01G081800

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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	TraesCS6B01G081800	chr6B	100.000	2646	0	0	1	2646	58308975	58311620	0.000000e+00	4887.0
1	TraesCS6B01G081800	chr6B	88.889	1044	71	23	845	1863	58777632	58778655	0.000000e+00	1243.0
2	TraesCS6B01G081800	chr6B	93.159	804	33	12	696	1497	59026071	59026854	0.000000e+00	1160.0
3	TraesCS6B01G081800	chr6B	84.303	1134	123	36	763	1863	61796326	61795215	0.000000e+00	1057.0
4	TraesCS6B01G081800	chr6B	85.997	657	64	17	1	651	59025450	59026084	0.000000e+00	678.0
5	TraesCS6B01G081800	chr6B	85.333	300	34	6	2318	2614	77845627	77845919	4.280000e-78	302.0
6	TraesCS6B01G081800	chr6B	85.333	300	34	6	2318	2614	77852894	77853186	4.280000e-78	302.0
7	TraesCS6B01G081800	chr6B	91.011	178	16	0	2402	2579	58779165	58779342	9.460000e-60	241.0
8	TraesCS6B01G081800	chr6B	97.810	137	3	0	2510	2646	59027059	59027195	1.220000e-58	237.0
9	TraesCS6B01G081800	chr6B	92.969	128	8	1	1558	1685	59026858	59026984	4.500000e-43	185.0
10	TraesCS6B01G081800	chr6A	88.965	1459	116	26	1	1442	33000535	33001965	0.000000e+00	1760.0
11	TraesCS6B01G081800	chr6A	89.542	698	53	8	763	1442	33964471	33963776	0.000000e+00	867.0
12	TraesCS6B01G081800	chr6A	88.518	479	42	9	3	474	32938730	32939202	3.820000e-158	568.0
13	TraesCS6B01G081800	chr6A	86.417	427	40	9	1790	2215	33002223	33002632	4.020000e-123	451.0
14	TraesCS6B01G081800	chr6A	87.546	273	23	6	2346	2615	33003272	33003536	3.310000e-79	305.0
15	TraesCS6B01G081800	chr6A	82.353	374	36	18	1852	2221	33963494	33963147	5.540000e-77	298.0
16	TraesCS6B01G081800	chr6A	90.798	163	13	2	1576	1737	33002054	33002215	1.590000e-52	217.0
17	TraesCS6B01G081800	chr6A	91.667	156	9	4	1585	1738	33963684	33963531	2.060000e-51	213.0
18	TraesCS6B01G081800	chr6D	87.081	1463	138	33	1	1446	29392948	29391520	0.000000e+00	1607.0
19	TraesCS6B01G081800	chr6D	94.976	418	21	0	1025	1442	28688071	28688488	0.000000e+00	656.0
20	TraesCS6B01G081800	chr6D	83.562	730	56	29	1515	2221	29391491	29390803	2.240000e-175	625.0
21	TraesCS6B01G081800	chr6D	85.855	304	33	6	2346	2646	29389822	29389526	5.500000e-82	315.0
22	TraesCS6B01G081800	chr6D	83.206	262	28	9	1955	2215	29390446	29390200	2.650000e-55	226.0
23	TraesCS6B01G081800	chr6D	91.083	157	14	0	2404	2560	28689378	28689534	2.060000e-51	213.0
24	TraesCS6B01G081800	chr6D	93.548	62	4	0	2262	2323	29389926	29389865	2.800000e-15	93.5
25	TraesCS6B01G081800	chr5D	94.915	413	21	0	1026	1438	298123775	298124187	0.000000e+00	647.0
26	TraesCS6B01G081800	chr5D	84.615	195	9	8	1660	1834	535517709	535517902	9.740000e-40	174.0
27	TraesCS6B01G081800	chr1D	90.369	488	37	7	1025	1511	321704952	321704474	1.340000e-177	632.0
28	TraesCS6B01G081800	chr1D	78.740	508	50	30	1599	2068	466081926	466081439	1.200000e-73	287.0
29	TraesCS6B01G081800	chr1D	84.103	195	10	8	1660	1834	112742977	112742784	4.530000e-38	169.0
30	TraesCS6B01G081800	chr1D	93.023	43	3	0	299	341	334477682	334477724	2.200000e-06	63.9
31	TraesCS6B01G081800	chr2D	85.748	428	35	10	1660	2067	45399825	45399404	1.880000e-116	429.0
32	TraesCS6B01G081800	chr2D	85.047	428	41	9	1660	2067	468474122	468473698	5.270000e-112	414.0
33	TraesCS6B01G081800	chr2D	84.615	195	9	8	1660	1834	462435923	462435730	9.740000e-40	174.0
34	TraesCS6B01G081800	chr2D	83.590	195	11	8	1660	1834	93834567	93834760	2.110000e-36	163.0
35	TraesCS6B01G081800	chr2D	80.556	216	20	9	2139	2332	518814015	518813800	2.120000e-31	147.0
36	TraesCS6B01G081800	chr2D	75.000	192	37	8	297	479	335139242	335139431	7.850000e-11	78.7
37	TraesCS6B01G081800	chr2D	73.394	218	46	10	285	491	114140881	114140665	1.310000e-08	71.3
38	TraesCS6B01G081800	chrUn	82.941	340	40	7	2318	2646	112592905	112592573	9.270000e-75	291.0
39	TraesCS6B01G081800	chr2B	78.261	506	53	29	1590	2058	2243949	2243464	3.360000e-69	272.0
40	TraesCS6B01G081800	chr2B	87.730	163	13	2	2318	2479	611069667	611069511	1.620000e-42	183.0
41	TraesCS6B01G081800	chr2B	76.826	397	47	21	1949	2323	611070071	611069698	5.820000e-42	182.0
42	TraesCS6B01G081800	chr3D	78.107	507	56	29	1599	2068	19667309	19666821	1.210000e-68	270.0
43	TraesCS6B01G081800	chr3D	77.169	219	37	11	272	480	562378031	562378246	5.990000e-22	115.0
44	TraesCS6B01G081800	chr2A	86.503	163	13	3	2318	2479	662972993	662972839	1.260000e-38	171.0
45	TraesCS6B01G081800	chr2A	86.503	163	13	3	2318	2479	663304765	663304611	1.260000e-38	171.0
46	TraesCS6B01G081800	chr7D	84.103	195	10	8	1660	1834	513477695	513477502	4.530000e-38	169.0
47	TraesCS6B01G081800	chr7D	92.063	63	5	0	2323	2385	19658495	19658433	3.630000e-14	89.8
48	TraesCS6B01G081800	chr4D	83.077	195	12	8	1660	1834	494712071	494711878	9.800000e-35	158.0
49	TraesCS6B01G081800	chr1A	84.722	72	7	4	285	353	551424817	551424747	4.730000e-08	69.4
50	TraesCS6B01G081800	chr1A	77.679	112	17	6	224	333	99148310	99148205	7.910000e-06	62.1

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	TraesCS6B01G081800	chr6B	58308975	58311620	2645	False	4887.000000	4887	100.00000	1	2646	1	chr6B.!!$F1	2645
1	TraesCS6B01G081800	chr6B	61795215	61796326	1111	True	1057.000000	1057	84.30300	763	1863	1	chr6B.!!$R1	1100
2	TraesCS6B01G081800	chr6B	58777632	58779342	1710	False	742.000000	1243	89.95000	845	2579	2	chr6B.!!$F4	1734
3	TraesCS6B01G081800	chr6B	59025450	59027195	1745	False	565.000000	1160	92.48375	1	2646	4	chr6B.!!$F5	2645
4	TraesCS6B01G081800	chr6A	33000535	33003536	3001	False	683.250000	1760	88.43150	1	2615	4	chr6A.!!$F2	2614
5	TraesCS6B01G081800	chr6A	33963147	33964471	1324	True	459.333333	867	87.85400	763	2221	3	chr6A.!!$R1	1458
6	TraesCS6B01G081800	chr6D	29389526	29392948	3422	True	573.300000	1607	86.65040	1	2646	5	chr6D.!!$R1	2645
7	TraesCS6B01G081800	chr6D	28688071	28689534	1463	False	434.500000	656	93.02950	1025	2560	2	chr6D.!!$F1	1535

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
607	616	0.031616	TTTTGGGCCCAAACTGTCCT	60.032	50.0	43.11	0.0	44.39	3.85	F
1465	1595	0.397941	CTGCTTCCTTCCCAGTGTCA	59.602	55.0	0.00	0.0	0.00	3.58	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1521	1652	0.108585	AGACCAGTTCACCACGCAAT	59.891	50.0	0.0	0.0	0.0	3.56	R
2442	3879	2.727123	TCACTGAAGCTGAAACCCAA	57.273	45.0	0.0	0.0	0.0	4.12	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
32	33	0.813184	CTCATTGGTTGGCTTCGCAT	59.187	50.000	0.00	0.00	0.00	4.73
53	54	6.310197	GCATTTGTTGTGTTTTGCTTTTGTA	58.690	32.000	0.00	0.00	0.00	2.41
81	82	5.163923	GCAAATAGAGGTGCTTGAAATTTGC	60.164	40.000	12.39	12.39	45.71	3.68
90	91	2.222445	GCTTGAAATTTGCAGCACTTGG	59.778	45.455	11.67	0.00	0.00	3.61
111	112	5.303971	TGGTGCTAAATTTTGGGATTGTTG	58.696	37.500	0.00	0.00	0.00	3.33
238	241	6.323739	GGCTCAGGGGATAAACAATAAAATCA	59.676	38.462	0.00	0.00	0.00	2.57
345	348	2.435693	GGACATCCGAGGAGGTGGG	61.436	68.421	14.53	0.00	39.36	4.61
403	412	5.523013	AAACATTGTTCACAACCGTTTTG	57.477	34.783	12.88	2.95	39.62	2.44
433	442	2.622942	TGCCACAAGCTTCTCGAATTTT	59.377	40.909	0.00	0.00	44.23	1.82
480	489	4.132336	ACATCACGCATATGAGCATCTTT	58.868	39.130	6.97	0.00	34.92	2.52
559	568	4.247267	ACTGTTCACCATTTTGAGCATG	57.753	40.909	0.00	0.00	36.30	4.06
599	608	1.203112	TGAGCAGTATTTTGGGCCCAA	60.203	47.619	34.07	34.07	0.00	4.12
607	616	0.031616	TTTTGGGCCCAAACTGTCCT	60.032	50.000	43.11	0.00	44.39	3.85
609	618	0.404040	TTGGGCCCAAACTGTCCTAG	59.596	55.000	35.47	0.00	32.44	3.02
616	625	2.036733	CCCAAACTGTCCTAGACGACAA	59.963	50.000	3.81	0.00	42.06	3.18
651	712	6.370718	ACATCCGTTTTACTAGAATTGGTGAC	59.629	38.462	0.00	0.00	0.00	3.67
654	715	6.938030	TCCGTTTTACTAGAATTGGTGACATT	59.062	34.615	0.00	0.00	42.32	2.71
666	727	8.237267	AGAATTGGTGACATTCGTTAATTTCTC	58.763	33.333	0.00	0.00	42.32	2.87
671	732	7.860373	TGGTGACATTCGTTAATTTCTCAAAAG	59.140	33.333	0.00	0.00	33.40	2.27
741	809	1.377987	GCCGGCTACCAACCAATCA	60.378	57.895	22.15	0.00	0.00	2.57
742	810	0.963355	GCCGGCTACCAACCAATCAA	60.963	55.000	22.15	0.00	0.00	2.57
743	811	0.808755	CCGGCTACCAACCAATCAAC	59.191	55.000	0.00	0.00	0.00	3.18
744	812	1.613255	CCGGCTACCAACCAATCAACT	60.613	52.381	0.00	0.00	0.00	3.16
745	813	2.159382	CGGCTACCAACCAATCAACTT	58.841	47.619	0.00	0.00	0.00	2.66
746	814	2.161609	CGGCTACCAACCAATCAACTTC	59.838	50.000	0.00	0.00	0.00	3.01
747	815	3.153919	GGCTACCAACCAATCAACTTCA	58.846	45.455	0.00	0.00	0.00	3.02
748	816	3.763897	GGCTACCAACCAATCAACTTCAT	59.236	43.478	0.00	0.00	0.00	2.57
751	819	6.322491	GCTACCAACCAATCAACTTCATTAC	58.678	40.000	0.00	0.00	0.00	1.89
752	820	6.151144	GCTACCAACCAATCAACTTCATTACT	59.849	38.462	0.00	0.00	0.00	2.24
753	821	6.575162	ACCAACCAATCAACTTCATTACTC	57.425	37.500	0.00	0.00	0.00	2.59
754	822	6.068010	ACCAACCAATCAACTTCATTACTCA	58.932	36.000	0.00	0.00	0.00	3.41
791	859	1.522668	CAATCAGAACGCAGGAACCA	58.477	50.000	0.00	0.00	0.00	3.67
810	878	2.956964	GAAGCCACGGATCGCTCG	60.957	66.667	0.00	0.00	33.09	5.03
949	1038	4.041691	CCCACTCCTCTTCTCCTTAAAACA	59.958	45.833	0.00	0.00	0.00	2.83
980	1070	0.548031	GGCTCCATTCTCCATCCACA	59.452	55.000	0.00	0.00	0.00	4.17
981	1071	1.144503	GGCTCCATTCTCCATCCACAT	59.855	52.381	0.00	0.00	0.00	3.21
982	1072	2.502295	GCTCCATTCTCCATCCACATC	58.498	52.381	0.00	0.00	0.00	3.06
983	1073	2.158711	GCTCCATTCTCCATCCACATCA	60.159	50.000	0.00	0.00	0.00	3.07
984	1074	3.686405	GCTCCATTCTCCATCCACATCAA	60.686	47.826	0.00	0.00	0.00	2.57
985	1075	4.726583	CTCCATTCTCCATCCACATCAAT	58.273	43.478	0.00	0.00	0.00	2.57
986	1076	4.722220	TCCATTCTCCATCCACATCAATC	58.278	43.478	0.00	0.00	0.00	2.67
987	1077	3.825014	CCATTCTCCATCCACATCAATCC	59.175	47.826	0.00	0.00	0.00	3.01
988	1078	3.582998	TTCTCCATCCACATCAATCCC	57.417	47.619	0.00	0.00	0.00	3.85
989	1079	1.776667	TCTCCATCCACATCAATCCCC	59.223	52.381	0.00	0.00	0.00	4.81
990	1080	1.496001	CTCCATCCACATCAATCCCCA	59.504	52.381	0.00	0.00	0.00	4.96
991	1081	1.928785	TCCATCCACATCAATCCCCAA	59.071	47.619	0.00	0.00	0.00	4.12
992	1082	2.519262	TCCATCCACATCAATCCCCAAT	59.481	45.455	0.00	0.00	0.00	3.16
993	1083	2.895404	CCATCCACATCAATCCCCAATC	59.105	50.000	0.00	0.00	0.00	2.67
994	1084	2.754012	TCCACATCAATCCCCAATCC	57.246	50.000	0.00	0.00	0.00	3.01
995	1085	2.216881	TCCACATCAATCCCCAATCCT	58.783	47.619	0.00	0.00	0.00	3.24
1007	1111	1.008206	CCCAATCCTCAATCCCCCAAA	59.992	52.381	0.00	0.00	0.00	3.28
1063	1192	2.600769	ACGGCGAGGAAGTCCACT	60.601	61.111	16.62	0.00	38.89	4.00
1465	1595	0.397941	CTGCTTCCTTCCCAGTGTCA	59.602	55.000	0.00	0.00	0.00	3.58
1521	1652	4.815533	AGCTTCTTCTTCTCAGCATGTA	57.184	40.909	0.00	0.00	37.40	2.29
1537	1668	1.518325	TGTATTGCGTGGTGAACTGG	58.482	50.000	0.00	0.00	0.00	4.00
1673	1820	4.460731	TGTCCATTTTGTGTTCTTGTGACA	59.539	37.500	0.00	0.00	0.00	3.58
1747	1935	4.004982	TCTACGGTGATTTAAGCCCAAAC	58.995	43.478	0.00	0.00	0.00	2.93
1826	2015	5.234972	TGTCATGCTAATGTCACATTCGATC	59.765	40.000	6.21	0.00	35.15	3.69
1864	2053	9.743057	TTTAGTGGACTGATATTTTTGTTTGTG	57.257	29.630	0.00	0.00	0.00	3.33
1866	2092	7.202526	AGTGGACTGATATTTTTGTTTGTGTG	58.797	34.615	0.00	0.00	0.00	3.82
1929	2157	4.623932	ACTTCACTGGCTTCTCAACATA	57.376	40.909	0.00	0.00	0.00	2.29
1930	2158	4.573900	ACTTCACTGGCTTCTCAACATAG	58.426	43.478	0.00	0.00	0.00	2.23
2049	2287	1.681264	CCGTTCTGGGCAGTTTCTTTT	59.319	47.619	0.00	0.00	0.00	2.27
2055	2293	5.467035	TCTGGGCAGTTTCTTTTTATTGG	57.533	39.130	0.00	0.00	0.00	3.16
2065	2303	9.965824	CAGTTTCTTTTTATTGGTATCACTTGT	57.034	29.630	0.00	0.00	0.00	3.16
2068	2306	8.810652	TTCTTTTTATTGGTATCACTTGTTGC	57.189	30.769	0.00	0.00	0.00	4.17
2069	2307	7.946207	TCTTTTTATTGGTATCACTTGTTGCA	58.054	30.769	0.00	0.00	0.00	4.08
2071	2309	9.206870	CTTTTTATTGGTATCACTTGTTGCATT	57.793	29.630	0.00	0.00	0.00	3.56
2072	2310	9.553064	TTTTTATTGGTATCACTTGTTGCATTT	57.447	25.926	0.00	0.00	0.00	2.32
2073	2311	8.755696	TTTATTGGTATCACTTGTTGCATTTC	57.244	30.769	0.00	0.00	0.00	2.17
2074	2312	6.594788	ATTGGTATCACTTGTTGCATTTCT	57.405	33.333	0.00	0.00	0.00	2.52
2075	2313	7.701539	ATTGGTATCACTTGTTGCATTTCTA	57.298	32.000	0.00	0.00	0.00	2.10
2076	2314	6.741992	TGGTATCACTTGTTGCATTTCTAG	57.258	37.500	0.00	0.00	0.00	2.43
2077	2315	6.237901	TGGTATCACTTGTTGCATTTCTAGT	58.762	36.000	0.00	0.00	0.00	2.57
2078	2316	6.714810	TGGTATCACTTGTTGCATTTCTAGTT	59.285	34.615	0.00	0.00	0.00	2.24
2103	2342	6.233905	TCCACCGAGATTGATTATCTTTCA	57.766	37.500	0.00	0.00	43.75	2.69
2114	2353	4.637534	TGATTATCTTTCAGCTTGCAGACC	59.362	41.667	0.00	0.00	0.00	3.85
2127	2368	3.398318	TGCAGACCTTATACCAGGAGA	57.602	47.619	0.00	0.00	37.39	3.71
2128	2369	3.031736	TGCAGACCTTATACCAGGAGAC	58.968	50.000	0.00	0.00	37.39	3.36
2129	2370	3.031736	GCAGACCTTATACCAGGAGACA	58.968	50.000	0.00	0.00	37.39	3.41
2130	2371	3.068873	GCAGACCTTATACCAGGAGACAG	59.931	52.174	0.00	0.00	37.39	3.51
2131	2372	4.282496	CAGACCTTATACCAGGAGACAGT	58.718	47.826	0.00	0.00	37.39	3.55
2132	2373	5.446860	CAGACCTTATACCAGGAGACAGTA	58.553	45.833	0.00	0.00	37.39	2.74
2133	2374	5.533154	CAGACCTTATACCAGGAGACAGTAG	59.467	48.000	0.00	0.00	37.39	2.57
2134	2375	4.805744	ACCTTATACCAGGAGACAGTAGG	58.194	47.826	0.00	0.00	37.39	3.18
2143	2998	6.130569	ACCAGGAGACAGTAGGAGTATTTAG	58.869	44.000	0.00	0.00	0.00	1.85
2187	3042	1.615392	CAACTTTGCTAGCAAGGCCTT	59.385	47.619	32.50	20.65	36.63	4.35
2207	3062	5.464168	CCTTTGCTAATATGTATGCTTGCC	58.536	41.667	0.00	0.00	0.00	4.52
2215	3070	7.094634	GCTAATATGTATGCTTGCCAGTTATGT	60.095	37.037	0.00	0.00	0.00	2.29
2217	3072	3.949132	TGTATGCTTGCCAGTTATGTCA	58.051	40.909	0.00	0.00	0.00	3.58
2220	3075	2.368439	TGCTTGCCAGTTATGTCATCC	58.632	47.619	0.00	0.00	0.00	3.51
2250	3111	6.627087	TCCTCTCCTGAATGAACAAGTAAT	57.373	37.500	0.00	0.00	0.00	1.89
2390	3826	3.451902	TGACAGTATGGTGCATCAGATCA	59.548	43.478	5.59	0.00	43.62	2.92
2431	3868	6.532365	AGAGATTTCTCACTGAAAACGTTC	57.468	37.500	0.00	0.00	46.32	3.95
2442	3879	4.119136	CTGAAAACGTTCCCAAAATTGCT	58.881	39.130	0.00	0.00	32.28	3.91
2495	3932	5.451908	CGTGTCAATTTTCAGCACTATGTT	58.548	37.500	0.00	0.00	0.00	2.71

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
61	62	4.381292	GCTGCAAATTTCAAGCACCTCTAT	60.381	41.667	14.10	0.00	34.13	1.98
90	91	7.439655	TGTTACAACAATCCCAAAATTTAGCAC	59.560	33.333	0.00	0.00	35.67	4.40
159	160	9.065798	CAACAAATTCCCTATTCCAATTTTTGT	57.934	29.630	0.00	0.00	36.61	2.83
160	163	9.282569	TCAACAAATTCCCTATTCCAATTTTTG	57.717	29.630	0.00	0.00	29.17	2.44
167	170	5.261216	GTCCTCAACAAATTCCCTATTCCA	58.739	41.667	0.00	0.00	0.00	3.53
403	412	1.166531	AGCTTGTGGCAGAAACGACC	61.167	55.000	0.00	0.00	44.79	4.79
433	442	5.109903	CGTGTAAAATTTTGGGGTGTTTGA	58.890	37.500	13.76	0.00	0.00	2.69
559	568	5.673818	GCTCAACAAACCGATAATTCAGACC	60.674	44.000	0.00	0.00	0.00	3.85
562	571	5.106555	ACTGCTCAACAAACCGATAATTCAG	60.107	40.000	0.00	0.00	0.00	3.02
599	608	5.238650	CCAAAAATTGTCGTCTAGGACAGTT	59.761	40.000	7.48	7.48	46.68	3.16
607	616	3.215151	TGTGCCCAAAAATTGTCGTCTA	58.785	40.909	0.00	0.00	0.00	2.59
609	618	2.500509	TGTGCCCAAAAATTGTCGTC	57.499	45.000	0.00	0.00	0.00	4.20
616	625	3.483808	AAAACGGATGTGCCCAAAAAT	57.516	38.095	0.00	0.00	0.00	1.82
691	752	7.092716	GCAAGATCATCACCAATTGTAGTTTT	58.907	34.615	4.43	0.00	0.00	2.43
770	838	0.169009	GTTCCTGCGTTCTGATTGGC	59.831	55.000	0.00	0.00	0.00	4.52
791	859	3.701604	GAGCGATCCGTGGCTTCGT	62.702	63.158	11.10	1.55	39.70	3.85
980	1070	3.181414	GGGATTGAGGATTGGGGATTGAT	60.181	47.826	0.00	0.00	0.00	2.57
981	1071	2.177669	GGGATTGAGGATTGGGGATTGA	59.822	50.000	0.00	0.00	0.00	2.57
982	1072	2.601905	GGGATTGAGGATTGGGGATTG	58.398	52.381	0.00	0.00	0.00	2.67
983	1073	1.505098	GGGGATTGAGGATTGGGGATT	59.495	52.381	0.00	0.00	0.00	3.01
984	1074	1.161603	GGGGATTGAGGATTGGGGAT	58.838	55.000	0.00	0.00	0.00	3.85
985	1075	0.998945	GGGGGATTGAGGATTGGGGA	60.999	60.000	0.00	0.00	0.00	4.81
986	1076	1.295915	TGGGGGATTGAGGATTGGGG	61.296	60.000	0.00	0.00	0.00	4.96
987	1077	0.636101	TTGGGGGATTGAGGATTGGG	59.364	55.000	0.00	0.00	0.00	4.12
988	1078	2.110578	GTTTGGGGGATTGAGGATTGG	58.889	52.381	0.00	0.00	0.00	3.16
989	1079	2.818921	TGTTTGGGGGATTGAGGATTG	58.181	47.619	0.00	0.00	0.00	2.67
990	1080	3.558608	TTGTTTGGGGGATTGAGGATT	57.441	42.857	0.00	0.00	0.00	3.01
991	1081	3.630828	GGATTGTTTGGGGGATTGAGGAT	60.631	47.826	0.00	0.00	0.00	3.24
992	1082	2.292192	GGATTGTTTGGGGGATTGAGGA	60.292	50.000	0.00	0.00	0.00	3.71
993	1083	2.110578	GGATTGTTTGGGGGATTGAGG	58.889	52.381	0.00	0.00	0.00	3.86
994	1084	2.497273	GTGGATTGTTTGGGGGATTGAG	59.503	50.000	0.00	0.00	0.00	3.02
995	1085	2.534990	GTGGATTGTTTGGGGGATTGA	58.465	47.619	0.00	0.00	0.00	2.57
1007	1111	1.047801	GGGTTTGCTTGGTGGATTGT	58.952	50.000	0.00	0.00	0.00	2.71
1465	1595	2.813907	ACACCTGCAGATCAGAGTACT	58.186	47.619	17.39	0.00	45.72	2.73
1521	1652	0.108585	AGACCAGTTCACCACGCAAT	59.891	50.000	0.00	0.00	0.00	3.56
1537	1668	0.963962	TTCCTACCACGACACCAGAC	59.036	55.000	0.00	0.00	0.00	3.51
1649	1795	5.126869	TGTCACAAGAACACAAAATGGACAT	59.873	36.000	0.00	0.00	0.00	3.06
1673	1820	5.240623	TCAGGATTACGAACAACAAAATGCT	59.759	36.000	0.00	0.00	0.00	3.79
1782	1970	1.844497	AGGGGAGTAACCAAGGTATGC	59.156	52.381	0.00	0.00	41.20	3.14
1826	2015	7.962964	TCAGTCCACTAAACTTCAAAGTATG	57.037	36.000	0.00	0.00	38.57	2.39
1864	2053	4.848757	ACGAATTTCAGAAAGTTCAGCAC	58.151	39.130	1.28	0.00	32.28	4.40
1866	2092	4.147133	GCAACGAATTTCAGAAAGTTCAGC	59.853	41.667	1.28	6.57	32.28	4.26
1929	2157	2.757868	GACATGCTGTAGGACTGACTCT	59.242	50.000	0.00	0.00	0.00	3.24
1930	2158	2.757868	AGACATGCTGTAGGACTGACTC	59.242	50.000	0.00	0.00	0.00	3.36
1997	2231	5.756347	CCAAGCCACCAATGAATAATGAATG	59.244	40.000	0.00	0.00	0.00	2.67
2030	2264	3.436700	AAAAAGAAACTGCCCAGAACG	57.563	42.857	1.69	0.00	0.00	3.95
2049	2287	8.121305	AGAAATGCAACAAGTGATACCAATAA	57.879	30.769	0.00	0.00	0.00	1.40
2055	2293	9.118236	GAAAACTAGAAATGCAACAAGTGATAC	57.882	33.333	0.00	0.00	0.00	2.24
2065	2303	4.138290	TCGGTGGAAAACTAGAAATGCAA	58.862	39.130	0.00	0.00	0.00	4.08
2067	2305	4.000988	TCTCGGTGGAAAACTAGAAATGC	58.999	43.478	0.00	0.00	0.00	3.56
2068	2306	6.371548	TCAATCTCGGTGGAAAACTAGAAATG	59.628	38.462	0.00	0.00	0.00	2.32
2069	2307	6.472887	TCAATCTCGGTGGAAAACTAGAAAT	58.527	36.000	0.00	0.00	0.00	2.17
2071	2309	5.477607	TCAATCTCGGTGGAAAACTAGAA	57.522	39.130	0.00	0.00	0.00	2.10
2072	2310	5.677319	ATCAATCTCGGTGGAAAACTAGA	57.323	39.130	0.00	0.00	0.00	2.43
2073	2311	7.928706	AGATAATCAATCTCGGTGGAAAACTAG	59.071	37.037	0.00	0.00	41.32	2.57
2074	2312	7.792032	AGATAATCAATCTCGGTGGAAAACTA	58.208	34.615	0.00	0.00	41.32	2.24
2075	2313	6.653989	AGATAATCAATCTCGGTGGAAAACT	58.346	36.000	0.00	0.00	41.32	2.66
2076	2314	6.927294	AGATAATCAATCTCGGTGGAAAAC	57.073	37.500	0.00	0.00	41.32	2.43
2077	2315	7.609918	TGAAAGATAATCAATCTCGGTGGAAAA	59.390	33.333	0.00	0.00	44.56	2.29
2078	2316	7.109501	TGAAAGATAATCAATCTCGGTGGAAA	58.890	34.615	0.00	0.00	44.56	3.13
2103	2342	2.171448	CCTGGTATAAGGTCTGCAAGCT	59.829	50.000	0.00	0.00	37.29	3.74
2114	2353	5.697067	ACTCCTACTGTCTCCTGGTATAAG	58.303	45.833	0.00	0.00	0.00	1.73
2127	2368	6.301169	AGCTTTGCTAAATACTCCTACTGT	57.699	37.500	0.00	0.00	36.99	3.55
2128	2369	8.144478	TCATAGCTTTGCTAAATACTCCTACTG	58.856	37.037	3.31	0.00	44.62	2.74
2129	2370	8.251383	TCATAGCTTTGCTAAATACTCCTACT	57.749	34.615	3.31	0.00	44.62	2.57
2130	2371	8.145122	ACTCATAGCTTTGCTAAATACTCCTAC	58.855	37.037	3.31	0.00	44.62	3.18
2131	2372	8.251383	ACTCATAGCTTTGCTAAATACTCCTA	57.749	34.615	3.31	0.00	44.62	2.94
2132	2373	7.130681	ACTCATAGCTTTGCTAAATACTCCT	57.869	36.000	3.31	0.00	44.62	3.69
2133	2374	6.144724	CGACTCATAGCTTTGCTAAATACTCC	59.855	42.308	3.31	0.00	44.62	3.85
2134	2375	6.346199	GCGACTCATAGCTTTGCTAAATACTC	60.346	42.308	3.31	0.00	44.62	2.59
2143	2998	0.654683	CCAGCGACTCATAGCTTTGC	59.345	55.000	0.00	0.00	42.52	3.68
2187	3042	5.132502	ACTGGCAAGCATACATATTAGCAA	58.867	37.500	0.00	0.00	0.00	3.91
2199	3054	2.954318	GGATGACATAACTGGCAAGCAT	59.046	45.455	0.00	0.00	45.65	3.79
2200	3055	2.025981	AGGATGACATAACTGGCAAGCA	60.026	45.455	0.00	0.00	45.65	3.91
2201	3056	2.615912	GAGGATGACATAACTGGCAAGC	59.384	50.000	0.00	0.00	45.65	4.01
2207	3062	7.052873	AGAGGAAAATGAGGATGACATAACTG	58.947	38.462	0.00	0.00	0.00	3.16
2215	3070	4.365368	TCAGGAGAGGAAAATGAGGATGA	58.635	43.478	0.00	0.00	0.00	2.92
2217	3072	5.431073	TCATTCAGGAGAGGAAAATGAGGAT	59.569	40.000	0.00	0.00	32.86	3.24
2220	3075	5.942236	TGTTCATTCAGGAGAGGAAAATGAG	59.058	40.000	0.00	0.00	37.56	2.90
2339	3775	5.034797	CGAGCAATTGTTCAGACGTATCTA	58.965	41.667	20.41	0.00	32.25	1.98
2409	3846	5.334182	GGGAACGTTTTCAGTGAGAAATCTC	60.334	44.000	0.46	3.43	45.15	2.75
2442	3879	2.727123	TCACTGAAGCTGAAACCCAA	57.273	45.000	0.00	0.00	0.00	4.12
2495	3932	2.896044	TCATTGGCACCATTTACAGCAA	59.104	40.909	0.00	0.00	0.00	3.91

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.