AutoCloner

Multiple sequence alignment - TraesCS6A01G106300

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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	TraesCS6A01G106300	chr6A	100.000	2534	0	0	1	2534	74161305	74163838	0.000000e+00	4680.0
1	TraesCS6A01G106300	chr6A	86.957	115	13	2	1611	1723	558887671	558887557	7.360000e-26	128.0
2	TraesCS6A01G106300	chr7D	96.405	1530	52	3	1007	2533	400278476	400276947	0.000000e+00	2518.0
3	TraesCS6A01G106300	chr7D	94.918	610	17	2	1	610	400279736	400279141	0.000000e+00	942.0
4	TraesCS6A01G106300	chr7D	92.941	425	29	1	2109	2533	363666565	363666988	3.580000e-173	617.0
5	TraesCS6A01G106300	chr7D	92.706	425	30	1	2109	2533	295850665	295850242	1.670000e-171	612.0
6	TraesCS6A01G106300	chr7D	92.706	425	30	1	2109	2533	363635344	363635767	1.670000e-171	612.0
7	TraesCS6A01G106300	chr7D	97.665	257	6	0	553	809	400279140	400278884	2.310000e-120	442.0
8	TraesCS6A01G106300	chr7D	98.148	108	2	0	808	915	555213441	555213334	3.330000e-44	189.0
9	TraesCS6A01G106300	chr7D	95.455	110	4	1	913	1021	400278885	400278776	9.320000e-40	174.0
10	TraesCS6A01G106300	chr7D	84.127	126	18	2	1601	1724	89829426	89829551	1.230000e-23	121.0
11	TraesCS6A01G106300	chrUn	90.062	966	85	8	1151	2108	86340790	86339828	0.000000e+00	1242.0
12	TraesCS6A01G106300	chrUn	90.575	817	66	7	1	809	86346538	86345725	0.000000e+00	1072.0
13	TraesCS6A01G106300	chrUn	83.333	198	6	3	965	1162	86341224	86341054	9.380000e-35	158.0
14	TraesCS6A01G106300	chr7A	91.985	811	58	4	1	809	458326186	458325381	0.000000e+00	1131.0
15	TraesCS6A01G106300	chr7A	93.562	699	40	3	913	1610	458325382	458324688	0.000000e+00	1037.0
16	TraesCS6A01G106300	chr7A	85.604	389	52	3	1722	2108	458324683	458324297	3.040000e-109	405.0
17	TraesCS6A01G106300	chr7A	89.706	136	11	3	789	921	2097874	2097739	1.210000e-38	171.0
18	TraesCS6A01G106300	chr7A	81.720	93	12	4	213	304	493659447	493659359	3.500000e-09	73.1
19	TraesCS6A01G106300	chr1D	94.161	411	23	1	2120	2530	279648965	279649374	2.140000e-175	625.0
20	TraesCS6A01G106300	chr1D	100.000	33	0	0	325	357	92964088	92964056	7.570000e-06	62.1
21	TraesCS6A01G106300	chr2A	92.723	426	30	1	2108	2533	395731823	395732247	4.630000e-172	614.0
22	TraesCS6A01G106300	chr2A	92.723	426	30	1	2108	2533	405450985	405450561	4.630000e-172	614.0
23	TraesCS6A01G106300	chr2A	95.652	115	5	0	808	922	205919779	205919893	4.300000e-43	185.0
24	TraesCS6A01G106300	chr4D	92.361	432	30	3	2102	2533	324261861	324262289	1.670000e-171	612.0
25	TraesCS6A01G106300	chr3D	92.706	425	30	1	2109	2533	324339377	324338954	1.670000e-171	612.0
26	TraesCS6A01G106300	chr3B	78.919	370	55	13	1	359	648883420	648883777	1.960000e-56	230.0
27	TraesCS6A01G106300	chr5B	93.130	131	7	2	792	921	110432742	110432613	9.250000e-45	191.0
28	TraesCS6A01G106300	chr5B	89.423	104	9	2	1620	1721	518484713	518484610	2.050000e-26	130.0
29	TraesCS6A01G106300	chr5B	88.679	106	9	3	1611	1715	493085834	493085731	2.650000e-25	126.0
30	TraesCS6A01G106300	chr3A	95.690	116	5	0	801	916	46070206	46070321	1.200000e-43	187.0
31	TraesCS6A01G106300	chr3A	95.690	116	5	0	801	916	46131615	46131730	1.200000e-43	187.0
32	TraesCS6A01G106300	chr1A	95.690	116	5	0	808	923	168552713	168552598	1.200000e-43	187.0
33	TraesCS6A01G106300	chr1A	95.726	117	4	1	799	914	498624210	498624326	1.200000e-43	187.0
34	TraesCS6A01G106300	chr1A	92.248	129	10	0	799	927	6706971	6706843	1.550000e-42	183.0
35	TraesCS6A01G106300	chr1A	78.475	223	39	8	13	230	471932919	471933137	1.220000e-28	137.0
36	TraesCS6A01G106300	chr1A	75.536	233	44	12	4	228	241183645	241183872	4.460000e-18	102.0
37	TraesCS6A01G106300	chr5D	81.757	148	23	3	39	183	361581293	361581439	1.230000e-23	121.0
38	TraesCS6A01G106300	chr5D	84.211	114	18	0	1602	1715	280788345	280788458	7.410000e-21	111.0
39	TraesCS6A01G106300	chr2B	85.965	114	15	1	1611	1723	89499059	89498946	1.230000e-23	121.0
40	TraesCS6A01G106300	chr4A	85.714	112	15	1	1611	1721	153242605	153242494	1.590000e-22	117.0
41	TraesCS6A01G106300	chr4A	77.005	187	28	10	196	380	460329277	460329104	2.680000e-15	93.5
42	TraesCS6A01G106300	chr5A	76.536	179	33	7	202	378	644114485	644114656	3.470000e-14	89.8
43	TraesCS6A01G106300	chr6D	82.609	92	11	5	214	304	305278464	305278377	2.700000e-10	76.8

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	TraesCS6A01G106300	chr6A	74161305	74163838	2533	False	4680.000000	4680	100.000000	1	2534	1	chr6A.!!$F1	2533
1	TraesCS6A01G106300	chr7D	400276947	400279736	2789	True	1019.000000	2518	96.110750	1	2533	4	chr7D.!!$R3	2532
2	TraesCS6A01G106300	chrUn	86345725	86346538	813	True	1072.000000	1072	90.575000	1	809	1	chrUn.!!$R1	808
3	TraesCS6A01G106300	chrUn	86339828	86341224	1396	True	700.000000	1242	86.697500	965	2108	2	chrUn.!!$R2	1143
4	TraesCS6A01G106300	chr7A	458324297	458326186	1889	True	857.666667	1131	90.383667	1	2108	3	chr7A.!!$R3	2107

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
901	968	0.527113	TCCGCGACAAGTAATTCCGA	59.473	50.0	8.23	0.0	0.0	4.55	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2158	2825	1.000955	GGAGAAAGAGTCCTTCGTGCA	59.999	52.381	0.0	0.0	0.0	4.57	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
124	126	0.753111	GGTGGTCGTCCGGTATAGGT	60.753	60.000	0.00	0.00	36.30	3.08
492	500	6.051717	GCATATATTTGGGCTAGATCATCGT	58.948	40.000	0.00	0.00	0.00	3.73
497	505	3.223674	TGGGCTAGATCATCGTGACTA	57.776	47.619	0.00	0.00	0.00	2.59
534	542	5.116069	TCCCGTTGTTAATGCTTTCTTTC	57.884	39.130	0.00	0.00	0.00	2.62
603	669	5.523552	TGTACACCGATTAATGCTCTGATTG	59.476	40.000	0.00	0.00	0.00	2.67
691	758	8.372459	ACACCATCAACTATGAGTACAAAAGTA	58.628	33.333	0.00	0.00	39.39	2.24
777	844	9.495572	TTGTAACAAATTTGATTCCCCAAATAC	57.504	29.630	24.64	5.39	43.61	1.89
818	885	9.322769	ACTAAAATATTGATATACTCCCTCCGT	57.677	33.333	0.00	0.00	0.00	4.69
821	888	4.785511	ATTGATATACTCCCTCCGTTCG	57.214	45.455	0.00	0.00	0.00	3.95
822	889	2.511659	TGATATACTCCCTCCGTTCGG	58.488	52.381	4.74	4.74	0.00	4.30
823	890	2.107031	TGATATACTCCCTCCGTTCGGA	59.893	50.000	13.34	13.34	0.00	4.55
824	891	2.734755	TATACTCCCTCCGTTCGGAA	57.265	50.000	14.79	0.00	33.41	4.30
825	892	2.083628	ATACTCCCTCCGTTCGGAAT	57.916	50.000	14.79	2.14	33.41	3.01
826	893	1.856629	TACTCCCTCCGTTCGGAATT	58.143	50.000	14.79	0.00	33.41	2.17
827	894	1.856629	ACTCCCTCCGTTCGGAATTA	58.143	50.000	14.79	2.82	33.41	1.40
828	895	1.479730	ACTCCCTCCGTTCGGAATTAC	59.520	52.381	14.79	0.00	33.41	1.89
829	896	1.755380	CTCCCTCCGTTCGGAATTACT	59.245	52.381	14.79	0.00	33.41	2.24
830	897	2.167900	CTCCCTCCGTTCGGAATTACTT	59.832	50.000	14.79	0.00	33.41	2.24
831	898	2.093869	TCCCTCCGTTCGGAATTACTTG	60.094	50.000	14.79	1.97	33.41	3.16
832	899	2.354403	CCCTCCGTTCGGAATTACTTGT	60.354	50.000	14.79	0.00	33.41	3.16
833	900	2.928116	CCTCCGTTCGGAATTACTTGTC	59.072	50.000	14.79	0.00	33.41	3.18
834	901	3.368116	CCTCCGTTCGGAATTACTTGTCT	60.368	47.826	14.79	0.00	33.41	3.41
835	902	3.841643	TCCGTTCGGAATTACTTGTCTC	58.158	45.455	11.66	0.00	0.00	3.36
836	903	2.597305	CCGTTCGGAATTACTTGTCTCG	59.403	50.000	5.19	0.00	0.00	4.04
837	904	3.495193	CGTTCGGAATTACTTGTCTCGA	58.505	45.455	0.00	0.00	0.00	4.04
838	905	3.916172	CGTTCGGAATTACTTGTCTCGAA	59.084	43.478	0.00	0.00	33.66	3.71
839	906	4.383649	CGTTCGGAATTACTTGTCTCGAAA	59.616	41.667	0.00	0.00	37.00	3.46
840	907	5.107760	CGTTCGGAATTACTTGTCTCGAAAA	60.108	40.000	0.00	0.00	37.00	2.29
841	908	6.400727	CGTTCGGAATTACTTGTCTCGAAAAT	60.401	38.462	0.00	0.00	37.00	1.82
842	909	6.403333	TCGGAATTACTTGTCTCGAAAATG	57.597	37.500	0.00	0.00	0.00	2.32
843	910	6.160684	TCGGAATTACTTGTCTCGAAAATGA	58.839	36.000	0.00	0.00	0.00	2.57
844	911	6.647481	TCGGAATTACTTGTCTCGAAAATGAA	59.353	34.615	0.00	0.00	0.00	2.57
845	912	7.333423	TCGGAATTACTTGTCTCGAAAATGAAT	59.667	33.333	0.00	0.00	0.00	2.57
846	913	7.426456	CGGAATTACTTGTCTCGAAAATGAATG	59.574	37.037	0.00	0.00	0.00	2.67
847	914	8.237267	GGAATTACTTGTCTCGAAAATGAATGT	58.763	33.333	0.00	0.00	0.00	2.71
851	918	9.653287	TTACTTGTCTCGAAAATGAATGTATCT	57.347	29.630	0.00	0.00	0.00	1.98
853	920	9.307121	ACTTGTCTCGAAAATGAATGTATCTAG	57.693	33.333	0.00	0.00	0.00	2.43
854	921	9.521503	CTTGTCTCGAAAATGAATGTATCTAGA	57.478	33.333	0.00	0.00	0.00	2.43
855	922	9.869757	TTGTCTCGAAAATGAATGTATCTAGAA	57.130	29.630	0.00	0.00	0.00	2.10
856	923	9.302345	TGTCTCGAAAATGAATGTATCTAGAAC	57.698	33.333	0.00	0.00	0.00	3.01
857	924	9.522804	GTCTCGAAAATGAATGTATCTAGAACT	57.477	33.333	0.00	0.00	0.00	3.01
884	951	9.490379	AAAATACGTCTAGATACATCCATTTCC	57.510	33.333	0.00	0.00	0.00	3.13
885	952	5.122512	ACGTCTAGATACATCCATTTCCG	57.877	43.478	0.00	0.00	0.00	4.30
886	953	3.921021	CGTCTAGATACATCCATTTCCGC	59.079	47.826	0.00	0.00	0.00	5.54
887	954	3.921021	GTCTAGATACATCCATTTCCGCG	59.079	47.826	0.00	0.00	0.00	6.46
888	955	3.824443	TCTAGATACATCCATTTCCGCGA	59.176	43.478	8.23	0.00	0.00	5.87
889	956	2.755650	AGATACATCCATTTCCGCGAC	58.244	47.619	8.23	0.00	0.00	5.19
890	957	2.102420	AGATACATCCATTTCCGCGACA	59.898	45.455	8.23	0.00	0.00	4.35
891	958	2.388310	TACATCCATTTCCGCGACAA	57.612	45.000	8.23	0.00	0.00	3.18
892	959	1.086696	ACATCCATTTCCGCGACAAG	58.913	50.000	8.23	0.00	0.00	3.16
893	960	1.086696	CATCCATTTCCGCGACAAGT	58.913	50.000	8.23	0.00	0.00	3.16
894	961	2.276201	CATCCATTTCCGCGACAAGTA	58.724	47.619	8.23	0.00	0.00	2.24
895	962	2.459060	TCCATTTCCGCGACAAGTAA	57.541	45.000	8.23	0.00	0.00	2.24
896	963	2.980568	TCCATTTCCGCGACAAGTAAT	58.019	42.857	8.23	0.00	0.00	1.89
897	964	3.340034	TCCATTTCCGCGACAAGTAATT	58.660	40.909	8.23	0.00	0.00	1.40
898	965	3.372822	TCCATTTCCGCGACAAGTAATTC	59.627	43.478	8.23	0.00	0.00	2.17
899	966	3.486875	CCATTTCCGCGACAAGTAATTCC	60.487	47.826	8.23	0.00	0.00	3.01
900	967	1.352114	TTCCGCGACAAGTAATTCCG	58.648	50.000	8.23	0.00	0.00	4.30
901	968	0.527113	TCCGCGACAAGTAATTCCGA	59.473	50.000	8.23	0.00	0.00	4.55
902	969	1.067706	TCCGCGACAAGTAATTCCGAA	60.068	47.619	8.23	0.00	0.00	4.30
903	970	1.060122	CCGCGACAAGTAATTCCGAAC	59.940	52.381	8.23	0.00	0.00	3.95
904	971	1.266211	CGCGACAAGTAATTCCGAACG	60.266	52.381	0.00	0.00	0.00	3.95
905	972	1.060122	GCGACAAGTAATTCCGAACGG	59.940	52.381	6.94	6.94	0.00	4.44
906	973	2.598589	CGACAAGTAATTCCGAACGGA	58.401	47.619	12.04	12.04	43.52	4.69
1015	1397	6.072112	ACACTACCACAAGCAAAAAGTATG	57.928	37.500	0.00	0.00	0.00	2.39
1071	1453	3.121025	GCTGTTGCGGCAAAATAAAACTC	60.121	43.478	18.23	2.07	35.55	3.01
1520	2181	9.200817	AGGCACCACTAAAATGATAAAATATGT	57.799	29.630	0.00	0.00	0.00	2.29
1521	2182	9.816354	GGCACCACTAAAATGATAAAATATGTT	57.184	29.630	0.00	0.00	0.00	2.71
1580	2241	4.815533	ATATGTATGTGCTAGCTCTGGG	57.184	45.455	17.23	0.00	0.00	4.45
1597	2258	5.013183	GCTCTGGGGCTTTCTAATCCTATAA	59.987	44.000	0.00	0.00	0.00	0.98
1602	2263	8.520119	TGGGGCTTTCTAATCCTATAACTAAT	57.480	34.615	0.00	0.00	0.00	1.73
1715	2376	2.930682	GACAAGTAATTCTGGACGGAGC	59.069	50.000	0.00	0.00	0.00	4.70
1767	2429	5.487433	TCGGTATTGCGATTGATATGGATT	58.513	37.500	0.00	0.00	0.00	3.01
1768	2430	6.635755	TCGGTATTGCGATTGATATGGATTA	58.364	36.000	0.00	0.00	0.00	1.75
1862	2526	6.097129	ACCTTATACTTTTCTCTCTTCCTCCG	59.903	42.308	0.00	0.00	0.00	4.63
2145	2812	0.687354	GCAGACCCTTGAGAGGTTCA	59.313	55.000	0.00	0.00	41.85	3.18
2158	2825	1.143073	GAGGTTCAAACTCTGGGGTGT	59.857	52.381	0.00	0.00	32.28	4.16
2159	2826	1.133792	AGGTTCAAACTCTGGGGTGTG	60.134	52.381	0.00	0.00	0.00	3.82
2201	2868	0.679960	GCCTGCCTACCCAACGATTT	60.680	55.000	0.00	0.00	0.00	2.17
2204	2871	2.643551	CTGCCTACCCAACGATTTCAT	58.356	47.619	0.00	0.00	0.00	2.57
2238	2905	2.557317	GAACCCAAAGAACACGAGACA	58.443	47.619	0.00	0.00	0.00	3.41
2241	2908	1.597663	CCCAAAGAACACGAGACACAC	59.402	52.381	0.00	0.00	0.00	3.82
2248	2915	3.131577	AGAACACGAGACACACAGGTTTA	59.868	43.478	0.00	0.00	0.00	2.01
2348	3015	2.639839	AGTACAGTGGATGAACAGCCTT	59.360	45.455	10.39	0.00	37.85	4.35
2395	3062	1.539869	AGCTGGTGGGTGTGAGGAT	60.540	57.895	0.00	0.00	0.00	3.24
2504	3171	1.988015	GGAAGGGATCCCACAACGA	59.012	57.895	32.69	0.00	43.00	3.85
2513	3180	2.131776	TCCCACAACGACCAAGTTTT	57.868	45.000	0.00	0.00	30.96	2.43
2533	3200	7.705700	AGTTTTAAGGGGGACAAATAGTACAT	58.294	34.615	0.00	0.00	30.17	2.29

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
102	104	0.255604	TATACCGGACGACCACCTCA	59.744	55.000	9.46	0.00	35.59	3.86
249	254	5.385918	CGTTGTTCGCATACATTTCAACAAC	60.386	40.000	13.12	13.12	45.17	3.32
250	255	4.672862	CGTTGTTCGCATACATTTCAACAA	59.327	37.500	0.00	0.00	35.10	2.83
251	256	4.215201	CGTTGTTCGCATACATTTCAACA	58.785	39.130	0.00	0.00	35.10	3.33
304	309	1.003233	GGACAGGAGAACCACTGCC	60.003	63.158	0.00	0.00	38.25	4.85
492	500	5.929992	CGGGAAATCAGTACAAACTTAGTCA	59.070	40.000	0.00	0.00	31.97	3.41
497	505	4.885325	ACAACGGGAAATCAGTACAAACTT	59.115	37.500	0.00	0.00	31.97	2.66
809	876	1.755380	AGTAATTCCGAACGGAGGGAG	59.245	52.381	15.34	0.00	46.06	4.30
810	877	1.856629	AGTAATTCCGAACGGAGGGA	58.143	50.000	15.34	2.49	46.06	4.20
811	878	2.277084	CAAGTAATTCCGAACGGAGGG	58.723	52.381	15.34	0.00	46.06	4.30
812	879	2.928116	GACAAGTAATTCCGAACGGAGG	59.072	50.000	15.34	4.52	46.06	4.30
813	880	3.846360	AGACAAGTAATTCCGAACGGAG	58.154	45.455	15.34	5.60	46.06	4.63
814	881	3.671433	CGAGACAAGTAATTCCGAACGGA	60.671	47.826	12.04	12.04	43.52	4.69
815	882	2.597305	CGAGACAAGTAATTCCGAACGG	59.403	50.000	6.94	6.94	0.00	4.44
816	883	3.495193	TCGAGACAAGTAATTCCGAACG	58.505	45.455	0.00	0.00	0.00	3.95
817	884	5.834239	TTTCGAGACAAGTAATTCCGAAC	57.166	39.130	0.00	0.00	34.86	3.95
818	885	6.647481	TCATTTTCGAGACAAGTAATTCCGAA	59.353	34.615	0.00	0.00	33.57	4.30
819	886	6.160684	TCATTTTCGAGACAAGTAATTCCGA	58.839	36.000	0.00	0.00	0.00	4.55
820	887	6.403333	TCATTTTCGAGACAAGTAATTCCG	57.597	37.500	0.00	0.00	0.00	4.30
821	888	8.237267	ACATTCATTTTCGAGACAAGTAATTCC	58.763	33.333	0.00	0.00	0.00	3.01
825	892	9.653287	AGATACATTCATTTTCGAGACAAGTAA	57.347	29.630	0.00	0.00	0.00	2.24
827	894	9.307121	CTAGATACATTCATTTTCGAGACAAGT	57.693	33.333	0.00	0.00	0.00	3.16
828	895	9.521503	TCTAGATACATTCATTTTCGAGACAAG	57.478	33.333	0.00	0.00	0.00	3.16
829	896	9.869757	TTCTAGATACATTCATTTTCGAGACAA	57.130	29.630	0.00	0.00	0.00	3.18
830	897	9.302345	GTTCTAGATACATTCATTTTCGAGACA	57.698	33.333	0.00	0.00	0.00	3.41
831	898	9.522804	AGTTCTAGATACATTCATTTTCGAGAC	57.477	33.333	0.00	0.00	0.00	3.36
858	925	9.490379	GGAAATGGATGTATCTAGACGTATTTT	57.510	33.333	0.00	0.00	0.00	1.82
859	926	7.813148	CGGAAATGGATGTATCTAGACGTATTT	59.187	37.037	0.00	0.00	0.00	1.40
860	927	7.313646	CGGAAATGGATGTATCTAGACGTATT	58.686	38.462	0.00	0.00	0.00	1.89
861	928	6.625300	GCGGAAATGGATGTATCTAGACGTAT	60.625	42.308	0.00	0.00	0.00	3.06
862	929	5.335426	GCGGAAATGGATGTATCTAGACGTA	60.335	44.000	0.00	0.00	0.00	3.57
863	930	4.558898	GCGGAAATGGATGTATCTAGACGT	60.559	45.833	0.00	0.00	0.00	4.34
864	931	3.921021	GCGGAAATGGATGTATCTAGACG	59.079	47.826	0.00	0.00	0.00	4.18
865	932	3.921021	CGCGGAAATGGATGTATCTAGAC	59.079	47.826	0.00	0.00	0.00	2.59
866	933	3.824443	TCGCGGAAATGGATGTATCTAGA	59.176	43.478	6.13	0.00	0.00	2.43
867	934	3.921021	GTCGCGGAAATGGATGTATCTAG	59.079	47.826	6.13	0.00	0.00	2.43
868	935	3.319689	TGTCGCGGAAATGGATGTATCTA	59.680	43.478	6.13	0.00	0.00	1.98
869	936	2.102420	TGTCGCGGAAATGGATGTATCT	59.898	45.455	6.13	0.00	0.00	1.98
870	937	2.479837	TGTCGCGGAAATGGATGTATC	58.520	47.619	6.13	0.00	0.00	2.24
871	938	2.613026	TGTCGCGGAAATGGATGTAT	57.387	45.000	6.13	0.00	0.00	2.29
872	939	2.276201	CTTGTCGCGGAAATGGATGTA	58.724	47.619	6.13	0.00	0.00	2.29
873	940	1.086696	CTTGTCGCGGAAATGGATGT	58.913	50.000	6.13	0.00	0.00	3.06
874	941	1.086696	ACTTGTCGCGGAAATGGATG	58.913	50.000	6.13	0.00	0.00	3.51
875	942	2.684001	TACTTGTCGCGGAAATGGAT	57.316	45.000	6.13	0.00	0.00	3.41
876	943	2.459060	TTACTTGTCGCGGAAATGGA	57.541	45.000	6.13	0.00	0.00	3.41
877	944	3.486875	GGAATTACTTGTCGCGGAAATGG	60.487	47.826	6.13	0.00	0.00	3.16
878	945	3.680789	GGAATTACTTGTCGCGGAAATG	58.319	45.455	6.13	0.00	0.00	2.32
879	946	2.350498	CGGAATTACTTGTCGCGGAAAT	59.650	45.455	6.13	0.00	0.00	2.17
880	947	1.727880	CGGAATTACTTGTCGCGGAAA	59.272	47.619	6.13	0.00	0.00	3.13
881	948	1.067706	TCGGAATTACTTGTCGCGGAA	60.068	47.619	6.13	0.00	0.00	4.30
882	949	0.527113	TCGGAATTACTTGTCGCGGA	59.473	50.000	6.13	0.00	0.00	5.54
883	950	1.060122	GTTCGGAATTACTTGTCGCGG	59.940	52.381	6.13	0.00	0.00	6.46
884	951	1.266211	CGTTCGGAATTACTTGTCGCG	60.266	52.381	0.00	0.00	0.00	5.87
885	952	1.060122	CCGTTCGGAATTACTTGTCGC	59.940	52.381	5.19	0.00	0.00	5.19
886	953	2.598589	TCCGTTCGGAATTACTTGTCG	58.401	47.619	11.66	0.00	0.00	4.35
887	954	3.370061	CCTTCCGTTCGGAATTACTTGTC	59.630	47.826	23.69	0.00	42.61	3.18
888	955	3.007182	TCCTTCCGTTCGGAATTACTTGT	59.993	43.478	23.69	0.00	42.61	3.16
889	956	3.592059	TCCTTCCGTTCGGAATTACTTG	58.408	45.455	23.69	12.71	42.61	3.16
890	957	3.260128	ACTCCTTCCGTTCGGAATTACTT	59.740	43.478	23.69	7.92	42.61	2.24
891	958	2.830321	ACTCCTTCCGTTCGGAATTACT	59.170	45.455	23.69	7.58	42.61	2.24
892	959	3.242549	ACTCCTTCCGTTCGGAATTAC	57.757	47.619	23.69	0.00	42.61	1.89
893	960	4.272489	TCTACTCCTTCCGTTCGGAATTA	58.728	43.478	23.69	14.90	42.61	1.40
894	961	3.094572	TCTACTCCTTCCGTTCGGAATT	58.905	45.455	23.69	12.73	42.61	2.17
895	962	2.731572	TCTACTCCTTCCGTTCGGAAT	58.268	47.619	23.69	13.41	42.61	3.01
896	963	2.205022	TCTACTCCTTCCGTTCGGAA	57.795	50.000	22.42	22.42	41.48	4.30
897	964	2.089980	CTTCTACTCCTTCCGTTCGGA	58.910	52.381	10.00	10.00	0.00	4.55
898	965	2.089980	TCTTCTACTCCTTCCGTTCGG	58.910	52.381	4.74	4.74	0.00	4.30
899	966	5.692613	ATATCTTCTACTCCTTCCGTTCG	57.307	43.478	0.00	0.00	0.00	3.95
1015	1397	0.749454	ATGATCGGTGCTCTTTGGGC	60.749	55.000	0.00	0.00	0.00	5.36
1597	2258	2.091775	AGGACAGAGCGGGTAGATTAGT	60.092	50.000	0.00	0.00	0.00	2.24
1602	2263	0.039180	TTCAGGACAGAGCGGGTAGA	59.961	55.000	0.00	0.00	0.00	2.59
1677	2338	8.827177	TTACTTGTCGTGGAAATGGATATATC	57.173	34.615	3.96	3.96	0.00	1.63
1681	2342	7.279981	CAGAATTACTTGTCGTGGAAATGGATA	59.720	37.037	0.00	0.00	0.00	2.59
1715	2376	9.793252	AAAGAACATGCTTGCTTTAATATACTG	57.207	29.630	0.00	0.00	0.00	2.74
1767	2429	4.432316	ACCAGGGGTTTTAGAGTAGCTTA	58.568	43.478	0.00	0.00	27.29	3.09
1768	2430	3.257578	ACCAGGGGTTTTAGAGTAGCTT	58.742	45.455	0.00	0.00	27.29	3.74
1845	2509	3.944055	TGTCGGAGGAAGAGAGAAAAG	57.056	47.619	0.00	0.00	0.00	2.27
1862	2526	5.057149	ACCAAACTAAGTCACTGACATGTC	58.943	41.667	19.27	19.27	34.60	3.06
1970	2636	3.845259	GGGCGCGTGGTGGATCTA	61.845	66.667	8.43	0.00	0.00	1.98
2003	2670	1.210155	GTTGTACGCGGTACTCGGT	59.790	57.895	12.47	7.62	42.77	4.69
2145	2812	1.525995	CGTGCACACCCCAGAGTTT	60.526	57.895	18.64	0.00	0.00	2.66
2158	2825	1.000955	GGAGAAAGAGTCCTTCGTGCA	59.999	52.381	0.00	0.00	0.00	4.57
2159	2826	1.673329	GGGAGAAAGAGTCCTTCGTGC	60.673	57.143	0.00	0.00	34.16	5.34
2201	2868	1.035385	TTCGTCGAGCTAGGCCATGA	61.035	55.000	5.01	0.00	0.00	3.07
2204	2871	2.707849	GGTTCGTCGAGCTAGGCCA	61.708	63.158	5.01	0.00	0.00	5.36
2238	2905	3.307199	CCCGAACCAGTATAAACCTGTGT	60.307	47.826	0.00	0.00	0.00	3.72
2241	2908	2.285977	GCCCGAACCAGTATAAACCTG	58.714	52.381	0.00	0.00	0.00	4.00
2248	2915	2.995547	GGTGGCCCGAACCAGTAT	59.004	61.111	0.00	0.00	41.46	2.12
2289	2956	1.228552	AGGCAATCCACCACCACAC	60.229	57.895	0.00	0.00	33.74	3.82
2348	3015	3.702792	CTCAAGAACACCTCTCCTCCTA	58.297	50.000	0.00	0.00	31.02	2.94
2504	3171	3.691698	TTGTCCCCCTTAAAACTTGGT	57.308	42.857	0.00	0.00	0.00	3.67

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.