AutoCloner

Multiple sequence alignment - TraesCS5A01G411100

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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	TraesCS5A01G411100	chr5A	100.000	3233	0	0	1	3233	599805079	599801847	0.000000e+00	5971.0
1	TraesCS5A01G411100	chr5A	95.139	576	28	0	1	576	331380457	331379882	0.000000e+00	909.0
2	TraesCS5A01G411100	chr5A	91.925	322	23	3	2011	2329	549975052	549975373	6.360000e-122	448.0
3	TraesCS5A01G411100	chr5D	95.784	2182	76	8	1061	3233	480706844	480704670	0.000000e+00	3506.0
4	TraesCS5A01G411100	chr5D	80.787	432	42	18	574	985	480707687	480707277	1.890000e-77	300.0
5	TraesCS5A01G411100	chr5D	93.333	75	5	0	2152	2226	338409816	338409742	9.480000e-21	111.0
6	TraesCS5A01G411100	chr5B	92.998	2385	121	22	878	3233	589121750	589119383	0.000000e+00	3437.0
7	TraesCS5A01G411100	chr3A	90.059	1700	103	16	1555	3219	19634807	19636475	0.000000e+00	2143.0
8	TraesCS5A01G411100	chr2A	89.712	1701	118	19	1555	3219	659737480	659739159	0.000000e+00	2119.0
9	TraesCS5A01G411100	chr2A	96.007	576	23	0	1	576	52403802	52404377	0.000000e+00	937.0
10	TraesCS5A01G411100	chr2A	95.296	574	27	0	1	574	740356582	740356009	0.000000e+00	911.0
11	TraesCS5A01G411100	chr2A	85.924	341	43	4	1105	1444	764330655	764330991	3.070000e-95	359.0
12	TraesCS5A01G411100	chr2A	89.568	278	26	2	1161	1438	683565170	683565444	1.850000e-92	350.0
13	TraesCS5A01G411100	chr2A	86.972	284	29	3	1161	1439	513850434	513850714	2.420000e-81	313.0
14	TraesCS5A01G411100	chr2A	91.099	191	16	1	1163	1352	513848424	513848614	1.150000e-64	257.0
15	TraesCS5A01G411100	chr2A	88.485	165	16	1	1275	1439	513849262	513849423	2.540000e-46	196.0
16	TraesCS5A01G411100	chr2A	90.588	85	8	0	1112	1196	16935398	16935482	2.640000e-21	113.0
17	TraesCS5A01G411100	chr2A	95.122	41	2	0	1465	1505	16935355	16935395	7.490000e-07	65.8
18	TraesCS5A01G411100	chr6D	94.051	1059	48	4	1555	2605	277050269	277051320	0.000000e+00	1592.0
19	TraesCS5A01G411100	chr6D	91.328	369	30	2	2647	3015	277051328	277051694	1.340000e-138	503.0
20	TraesCS5A01G411100	chr6D	93.162	117	8	0	1161	1277	424723541	424723425	4.290000e-39	172.0
21	TraesCS5A01G411100	chr6D	94.565	92	5	0	3012	3103	277053030	277053121	3.360000e-30	143.0
22	TraesCS5A01G411100	chr1D	90.244	1230	66	16	2026	3219	32535990	32537201	0.000000e+00	1557.0
23	TraesCS5A01G411100	chr4A	95.652	575	24	1	1	574	684052362	684052936	0.000000e+00	922.0
24	TraesCS5A01G411100	chr4A	95.478	575	25	1	1	574	684025905	684026479	0.000000e+00	917.0
25	TraesCS5A01G411100	chr6A	95.312	576	27	0	1	576	441444428	441443853	0.000000e+00	915.0
26	TraesCS5A01G411100	chr6A	90.066	151	12	3	1289	1439	552206784	552206637	3.290000e-45	193.0
27	TraesCS5A01G411100	chr7A	95.000	580	28	1	1	580	148511051	148511629	0.000000e+00	909.0
28	TraesCS5A01G411100	chr7A	92.632	95	7	0	1474	1568	8702133	8702227	1.560000e-28	137.0
29	TraesCS5A01G411100	chr1A	95.139	576	28	0	1	576	515579821	515579246	0.000000e+00	909.0
30	TraesCS5A01G411100	chr1A	95.139	576	28	0	1	576	569883541	569884116	0.000000e+00	909.0
31	TraesCS5A01G411100	chr7D	93.417	319	21	0	2011	2329	521905139	521905457	1.050000e-129	473.0
32	TraesCS5A01G411100	chr7D	92.115	279	19	2	1161	1439	120302480	120302755	1.090000e-104	390.0
33	TraesCS5A01G411100	chr7D	83.895	267	28	6	2380	2638	521905463	521905722	1.160000e-59	241.0
34	TraesCS5A01G411100	chr7D	88.384	198	16	4	1474	1671	8274442	8274632	6.980000e-57	231.0
35	TraesCS5A01G411100	chr6B	92.058	277	21	1	1105	1380	645652294	645652570	3.910000e-104	388.0
36	TraesCS5A01G411100	chr4D	89.888	89	9	0	1108	1196	384271439	384271527	7.330000e-22	115.0
37	TraesCS5A01G411100	chr4D	97.727	44	1	0	1464	1507	384271399	384271442	3.460000e-10	76.8
38	TraesCS5A01G411100	chr3B	89.247	93	9	1	1105	1196	805271767	805271859	7.330000e-22	115.0
39	TraesCS5A01G411100	chr7B	100.000	44	0	0	1464	1507	708484663	708484620	7.430000e-12	82.4

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	TraesCS5A01G411100	chr5A	599801847	599805079	3232	True	5971.000000	5971	100.000000	1	3233	1	chr5A.!!$R2	3232
1	TraesCS5A01G411100	chr5A	331379882	331380457	575	True	909.000000	909	95.139000	1	576	1	chr5A.!!$R1	575
2	TraesCS5A01G411100	chr5D	480704670	480707687	3017	True	1903.000000	3506	88.285500	574	3233	2	chr5D.!!$R2	2659
3	TraesCS5A01G411100	chr5B	589119383	589121750	2367	True	3437.000000	3437	92.998000	878	3233	1	chr5B.!!$R1	2355
4	TraesCS5A01G411100	chr3A	19634807	19636475	1668	False	2143.000000	2143	90.059000	1555	3219	1	chr3A.!!$F1	1664
5	TraesCS5A01G411100	chr2A	659737480	659739159	1679	False	2119.000000	2119	89.712000	1555	3219	1	chr2A.!!$F2	1664
6	TraesCS5A01G411100	chr2A	52403802	52404377	575	False	937.000000	937	96.007000	1	576	1	chr2A.!!$F1	575
7	TraesCS5A01G411100	chr2A	740356009	740356582	573	True	911.000000	911	95.296000	1	574	1	chr2A.!!$R1	573
8	TraesCS5A01G411100	chr2A	513848424	513850714	2290	False	255.333333	313	88.852000	1161	1439	3	chr2A.!!$F6	278
9	TraesCS5A01G411100	chr6D	277050269	277053121	2852	False	746.000000	1592	93.314667	1555	3103	3	chr6D.!!$F1	1548
10	TraesCS5A01G411100	chr1D	32535990	32537201	1211	False	1557.000000	1557	90.244000	2026	3219	1	chr1D.!!$F1	1193
11	TraesCS5A01G411100	chr4A	684052362	684052936	574	False	922.000000	922	95.652000	1	574	1	chr4A.!!$F2	573
12	TraesCS5A01G411100	chr4A	684025905	684026479	574	False	917.000000	917	95.478000	1	574	1	chr4A.!!$F1	573
13	TraesCS5A01G411100	chr6A	441443853	441444428	575	True	915.000000	915	95.312000	1	576	1	chr6A.!!$R1	575
14	TraesCS5A01G411100	chr7A	148511051	148511629	578	False	909.000000	909	95.000000	1	580	1	chr7A.!!$F2	579
15	TraesCS5A01G411100	chr1A	515579246	515579821	575	True	909.000000	909	95.139000	1	576	1	chr1A.!!$R1	575
16	TraesCS5A01G411100	chr1A	569883541	569884116	575	False	909.000000	909	95.139000	1	576	1	chr1A.!!$F1	575
17	TraesCS5A01G411100	chr7D	521905139	521905722	583	False	357.000000	473	88.656000	2011	2638	2	chr7D.!!$F3	627

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
861	881	0.253894	GGCCCTAAACTTAGCCCGAA	59.746	55.0	0.0	0.0	39.6	4.3	F
2049	4259	0.603569	GCTCAGTTCAGTTCGAGGGA	59.396	55.0	0.0	0.0	0.0	4.2	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2085	4295	0.034670	GAATGAGCCCAACTCTGCCT	60.035	55.000	0.0	0.0	46.41	4.75	R
3203	6838	8.032952	TGATAACATGAACATTCAAGACTGAC	57.967	34.615	0.0	0.0	41.13	3.51	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
223	225	6.738114	TGTGAATCTTCAAAATGACTTGGTC	58.262	36.000	0.00	0.00	39.21	4.02
496	498	4.954118	AGGACAGGCCCGGACACA	62.954	66.667	0.73	0.00	37.37	3.72
538	540	3.835395	AGGGACAAAAACAGGACAAAACA	59.165	39.130	0.00	0.00	0.00	2.83
561	563	2.740826	CCGTTTGGGATCGCACGT	60.741	61.111	12.67	0.00	38.47	4.49
606	608	1.580845	AAGTTCCGTGATGCAGCAGC	61.581	55.000	4.06	2.87	42.57	5.25
620	622	2.046892	CAGCAAGAGGGGTCCGTG	60.047	66.667	0.00	0.00	0.00	4.94
621	623	2.203788	AGCAAGAGGGGTCCGTGA	60.204	61.111	0.00	0.00	0.00	4.35
622	624	1.613630	AGCAAGAGGGGTCCGTGAT	60.614	57.895	0.00	0.00	0.00	3.06
623	625	1.450312	GCAAGAGGGGTCCGTGATG	60.450	63.158	0.00	0.00	0.00	3.07
640	642	2.044650	GGATGCAGCAGGGAAGCA	60.045	61.111	3.51	0.00	43.14	3.91
664	678	3.499737	CGTCCTGCACGCCATTCC	61.500	66.667	0.00	0.00	42.87	3.01
676	690	2.296190	ACGCCATTCCTTGTCCTTTTTC	59.704	45.455	0.00	0.00	0.00	2.29
678	692	3.612479	CGCCATTCCTTGTCCTTTTTCAG	60.612	47.826	0.00	0.00	0.00	3.02
681	695	5.776744	CCATTCCTTGTCCTTTTTCAGAAG	58.223	41.667	0.00	0.00	0.00	2.85
684	698	5.630415	TCCTTGTCCTTTTTCAGAAGAGA	57.370	39.130	0.00	0.00	0.00	3.10
722	736	2.031919	TGGTGATCCGCCACACAC	59.968	61.111	2.35	0.00	39.28	3.82
725	739	1.596752	GTGATCCGCCACACACACA	60.597	57.895	0.00	0.00	37.04	3.72
727	741	2.664851	ATCCGCCACACACACACG	60.665	61.111	0.00	0.00	0.00	4.49
746	762	3.363426	CACGCGAAAAGAAAGAGAGAGAG	59.637	47.826	15.93	0.00	0.00	3.20
748	764	3.851403	CGCGAAAAGAAAGAGAGAGAGAG	59.149	47.826	0.00	0.00	0.00	3.20
750	766	5.095490	GCGAAAAGAAAGAGAGAGAGAGAG	58.905	45.833	0.00	0.00	0.00	3.20
751	767	5.106317	GCGAAAAGAAAGAGAGAGAGAGAGA	60.106	44.000	0.00	0.00	0.00	3.10
752	768	6.546395	CGAAAAGAAAGAGAGAGAGAGAGAG	58.454	44.000	0.00	0.00	0.00	3.20
775	791	6.338937	AGAAAAGTCGTCACTCTAACAAACT	58.661	36.000	0.00	0.00	29.93	2.66
781	797	3.728845	GTCACTCTAACAAACTGGCTCA	58.271	45.455	0.00	0.00	0.00	4.26
834	850	1.751927	CGTACCTGACCTAGCCCGT	60.752	63.158	0.00	0.00	0.00	5.28
856	876	1.065636	ACGGAAGGCCCTAAACTTAGC	60.066	52.381	0.00	0.00	0.00	3.09
857	877	1.746171	CGGAAGGCCCTAAACTTAGCC	60.746	57.143	0.00	0.00	46.13	3.93
859	879	4.553668	GGCCCTAAACTTAGCCCG	57.446	61.111	0.00	0.00	39.60	6.13
860	880	1.909975	GGCCCTAAACTTAGCCCGA	59.090	57.895	0.00	0.00	39.60	5.14
861	881	0.253894	GGCCCTAAACTTAGCCCGAA	59.746	55.000	0.00	0.00	39.60	4.30
862	882	1.664873	GCCCTAAACTTAGCCCGAAG	58.335	55.000	0.00	0.00	0.00	3.79
863	883	1.208776	GCCCTAAACTTAGCCCGAAGA	59.791	52.381	0.00	0.00	0.00	2.87
864	884	2.902523	CCCTAAACTTAGCCCGAAGAC	58.097	52.381	0.00	0.00	0.00	3.01
865	885	2.537401	CCTAAACTTAGCCCGAAGACG	58.463	52.381	0.00	0.00	39.43	4.18
876	896	3.787001	GAAGACGGGGGAGGCCTG	61.787	72.222	12.00	0.00	0.00	4.85
914	945	1.966451	CTCACTCCAACCAACGCCC	60.966	63.158	0.00	0.00	0.00	6.13
919	950	4.278513	CCAACCAACGCCCCTCCA	62.279	66.667	0.00	0.00	0.00	3.86
1104	1496	4.335584	CTCCTCGAGATCGCGGCC	62.336	72.222	18.89	0.00	43.36	6.13
1431	2549	1.218047	CTTCGGGCAGTCCATCGAA	59.782	57.895	0.00	0.00	38.96	3.71
1950	4160	3.080300	TCAATGTGGACCATGTTACCC	57.920	47.619	0.00	0.00	32.82	3.69
2001	4211	3.112205	ATGGATCCGGCAGGTGCTC	62.112	63.158	7.39	0.00	41.70	4.26
2049	4259	0.603569	GCTCAGTTCAGTTCGAGGGA	59.396	55.000	0.00	0.00	0.00	4.20
2085	4295	4.643334	AGTGGCACTGTCATCTTATACGTA	59.357	41.667	21.37	0.00	0.00	3.57
2190	4408	0.250901	AGGTTTGCCTGCACGAGATT	60.251	50.000	0.00	0.00	45.05	2.40
2257	4475	6.061022	TGCTTAGTATGGATCAGTTTTGGA	57.939	37.500	0.00	0.00	0.00	3.53
2293	4511	7.224753	CAGTCAAGTTCTTGTTCTACTGCTTTA	59.775	37.037	14.48	0.00	0.00	1.85
2380	4602	5.507637	AGGAATCGAGTCACTCCTAAGTTA	58.492	41.667	15.56	0.00	36.51	2.24
2381	4603	5.950549	AGGAATCGAGTCACTCCTAAGTTAA	59.049	40.000	15.56	0.00	36.51	2.01
2382	4604	6.095720	AGGAATCGAGTCACTCCTAAGTTAAG	59.904	42.308	15.56	0.00	36.51	1.85
2383	4605	6.127675	GGAATCGAGTCACTCCTAAGTTAAGT	60.128	42.308	15.56	0.00	31.71	2.24
2384	4606	6.837471	ATCGAGTCACTCCTAAGTTAAGTT	57.163	37.500	0.00	0.37	31.71	2.66
2404	4628	6.115450	AGTTTGTTAAGTCTTGTCGTTTCC	57.885	37.500	0.00	0.00	0.00	3.13
2405	4629	5.878669	AGTTTGTTAAGTCTTGTCGTTTCCT	59.121	36.000	0.00	0.00	0.00	3.36
2507	4741	5.010012	AGCCAGTTGTCAAAGGTGAAATAAG	59.990	40.000	7.06	0.00	34.87	1.73
2522	4756	7.121315	AGGTGAAATAAGATCTGTTTGCCTTAC	59.879	37.037	10.20	3.71	0.00	2.34
2570	4807	2.014068	GCCTCGGCTGCTAGAATTTGT	61.014	52.381	0.00	0.00	38.26	2.83
2573	4810	0.099436	CGGCTGCTAGAATTTGTGCC	59.901	55.000	0.00	0.00	35.94	5.01
2638	4909	7.431960	TCGAAATTATCAATGCTGAAATTTCCG	59.568	33.333	15.48	10.32	40.49	4.30
2649	4920	3.616219	TGAAATTTCCGGTATGACCCAG	58.384	45.455	15.48	0.00	33.75	4.45
2651	4922	3.560636	AATTTCCGGTATGACCCAGAG	57.439	47.619	0.00	0.00	33.75	3.35
2668	4947	4.732672	CAGAGAGATGTCTGGTTCATCA	57.267	45.455	0.00	0.00	42.63	3.07
2726	5005	7.999679	TGTTCTTTCAATCTGATTGTGTTCTT	58.000	30.769	25.08	0.00	41.02	2.52
2735	5014	5.233225	TCTGATTGTGTTCTTACTGCTGAG	58.767	41.667	0.00	0.00	0.00	3.35
2773	5052	5.221422	ACAAATCGTGTTTTTCATGGTCCAT	60.221	36.000	0.00	0.00	37.01	3.41
2842	5122	1.697432	ACAACTCCCGTTCCATTCAGA	59.303	47.619	0.00	0.00	0.00	3.27
3092	6712	3.129638	TGGTGGTGTGCACTTCTTTTTAC	59.870	43.478	19.41	4.71	0.00	2.01
3203	6838	1.159713	TGTTCAAGTGCACTGGCTCG	61.160	55.000	22.49	7.12	41.91	5.03

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
223	225	2.094659	GTGATCCCACACGTGCTCG	61.095	63.158	17.22	6.63	42.72	5.03
410	412	4.323477	CTGTCCGTCGGGGCCAAA	62.323	66.667	12.29	0.00	36.99	3.28
418	420	4.530857	GCCCCATCCTGTCCGTCG	62.531	72.222	0.00	0.00	0.00	5.12
463	465	2.519622	CCTGGGATGCGATGGCCTA	61.520	63.158	3.32	0.00	38.85	3.93
464	466	3.882326	CCTGGGATGCGATGGCCT	61.882	66.667	3.32	0.00	38.85	5.19
470	472	3.785859	GCCTGTCCTGGGATGCGA	61.786	66.667	0.00	0.00	0.00	5.10
496	498	3.271225	CCTTTGGGTAGGGATTTAGGGTT	59.729	47.826	0.00	0.00	0.00	4.11
538	540	1.214589	CGATCCCAAACGGACGTCT	59.785	57.895	16.46	0.00	46.09	4.18
558	560	0.763035	AGTAAGGCCAACTCCAACGT	59.237	50.000	5.01	0.00	0.00	3.99
561	563	3.486383	CAGAAAGTAAGGCCAACTCCAA	58.514	45.455	5.01	0.00	0.00	3.53
606	608	1.221840	CCATCACGGACCCCTCTTG	59.778	63.158	0.00	0.00	36.56	3.02
608	610	2.777853	TCCATCACGGACCCCTCT	59.222	61.111	0.00	0.00	39.64	3.69
620	622	1.453762	GCTTCCCTGCTGCATCCATC	61.454	60.000	1.31	0.00	0.00	3.51
621	623	1.455217	GCTTCCCTGCTGCATCCAT	60.455	57.895	1.31	0.00	0.00	3.41
622	624	2.044650	GCTTCCCTGCTGCATCCA	60.045	61.111	1.31	0.00	0.00	3.41
623	625	1.455217	ATGCTTCCCTGCTGCATCC	60.455	57.895	1.31	0.00	42.92	3.51
640	642	4.129737	CGTGCAGGACGTCCCGAT	62.130	66.667	30.82	10.29	43.50	4.18
692	706	1.539560	ATCACCACAGCGAGCTGACT	61.540	55.000	29.11	7.22	46.30	3.41
698	712	2.887568	GCGGATCACCACAGCGAG	60.888	66.667	0.00	0.00	35.59	5.03
722	736	2.794910	TCTCTCTTTCTTTTCGCGTGTG	59.205	45.455	5.77	0.00	0.00	3.82
725	739	3.253677	TCTCTCTCTCTTTCTTTTCGCGT	59.746	43.478	5.77	0.00	0.00	6.01
727	741	5.054390	TCTCTCTCTCTCTTTCTTTTCGC	57.946	43.478	0.00	0.00	0.00	4.70
729	743	7.687941	TCTCTCTCTCTCTCTCTTTCTTTTC	57.312	40.000	0.00	0.00	0.00	2.29
730	744	8.477419	TTTCTCTCTCTCTCTCTCTTTCTTTT	57.523	34.615	0.00	0.00	0.00	2.27
746	762	4.759516	AGAGTGACGACTTTTCTCTCTC	57.240	45.455	0.00	0.00	38.86	3.20
748	764	5.759963	TGTTAGAGTGACGACTTTTCTCTC	58.240	41.667	0.00	0.00	36.90	3.20
750	766	6.476053	AGTTTGTTAGAGTGACGACTTTTCTC	59.524	38.462	0.00	0.00	30.16	2.87
751	767	6.255887	CAGTTTGTTAGAGTGACGACTTTTCT	59.744	38.462	0.00	0.00	30.16	2.52
752	768	6.411652	CAGTTTGTTAGAGTGACGACTTTTC	58.588	40.000	0.00	0.00	30.16	2.29
804	820	1.228367	AGGTACGTCACGTCACCCT	60.228	57.895	5.85	8.33	41.54	4.34
834	850	1.061546	AAGTTTAGGGCCTTCCGTGA	58.938	50.000	13.45	0.00	41.52	4.35
841	861	0.619543	TCGGGCTAAGTTTAGGGCCT	60.620	55.000	12.58	12.58	43.62	5.19
859	879	3.787001	CAGGCCTCCCCCGTCTTC	61.787	72.222	0.00	0.00	0.00	2.87
897	917	2.112297	GGGCGTTGGTTGGAGTGA	59.888	61.111	0.00	0.00	0.00	3.41
898	918	2.983592	GGGGCGTTGGTTGGAGTG	60.984	66.667	0.00	0.00	0.00	3.51
914	945	3.966543	GGTGTGGGTGGGTGGAGG	61.967	72.222	0.00	0.00	0.00	4.30
923	954	2.020137	TTTTTCTGGGGGTGTGGGT	58.980	52.632	0.00	0.00	0.00	4.51
946	977	3.434641	CGCAGTGAGTGAATGAATTGACT	59.565	43.478	0.00	0.00	36.94	3.41
1245	1637	1.104630	CCTCGACCTTGTAGGAGACC	58.895	60.000	0.00	0.00	37.67	3.85
2001	4211	1.134280	CCCCAGTCCTGCTTGTCTATG	60.134	57.143	0.00	0.00	0.00	2.23
2049	4259	3.036429	GCCACTCCTGAGCCCGAAT	62.036	63.158	0.00	0.00	0.00	3.34
2085	4295	0.034670	GAATGAGCCCAACTCTGCCT	60.035	55.000	0.00	0.00	46.41	4.75
2190	4408	2.235650	CTGGAGCAGAGAGGACAAATCA	59.764	50.000	0.00	0.00	32.44	2.57
2240	4458	7.830739	AGAACATTTCCAAAACTGATCCATAC	58.169	34.615	0.00	0.00	0.00	2.39
2257	4475	7.396540	ACAAGAACTTGACTGAAGAACATTT	57.603	32.000	19.35	0.00	42.93	2.32
2329	4547	2.171448	ACTAGTATTGGCCAAGGAGCAG	59.829	50.000	24.94	17.66	0.00	4.24
2380	4602	6.373495	AGGAAACGACAAGACTTAACAAACTT	59.627	34.615	0.00	0.00	0.00	2.66
2381	4603	5.878669	AGGAAACGACAAGACTTAACAAACT	59.121	36.000	0.00	0.00	0.00	2.66
2382	4604	5.963586	CAGGAAACGACAAGACTTAACAAAC	59.036	40.000	0.00	0.00	0.00	2.93
2383	4605	5.644636	ACAGGAAACGACAAGACTTAACAAA	59.355	36.000	0.00	0.00	0.00	2.83
2384	4606	5.180271	ACAGGAAACGACAAGACTTAACAA	58.820	37.500	0.00	0.00	0.00	2.83
2404	4628	4.475944	GGCAAACACTAACAGCATAACAG	58.524	43.478	0.00	0.00	0.00	3.16
2405	4629	3.058570	CGGCAAACACTAACAGCATAACA	60.059	43.478	0.00	0.00	0.00	2.41
2507	4741	4.870426	TCGAATCAGTAAGGCAAACAGATC	59.130	41.667	0.00	0.00	0.00	2.75
2522	4756	0.877649	CGGAGTGGGCATCGAATCAG	60.878	60.000	0.00	0.00	0.00	2.90
2570	4807	3.386726	AGTAGCACATATACTTTCCGGCA	59.613	43.478	0.00	0.00	29.01	5.69
2573	4810	6.755461	CTTCAGTAGCACATATACTTTCCG	57.245	41.667	0.00	0.00	31.05	4.30
2638	4909	3.320541	CAGACATCTCTCTGGGTCATACC	59.679	52.174	0.00	0.00	35.00	2.73
2649	4920	6.647334	TCTATGATGAACCAGACATCTCTC	57.353	41.667	0.00	0.00	42.89	3.20
2651	4922	5.695816	GCTTCTATGATGAACCAGACATCTC	59.304	44.000	0.00	0.00	42.89	2.75
2668	4947	5.894393	TCAGTAGCTAACCTCTTGCTTCTAT	59.106	40.000	0.00	0.00	38.15	1.98
2726	5005	1.222661	CCATGGCAGCTCAGCAGTA	59.777	57.895	0.00	0.00	35.83	2.74
2735	5014	1.133790	GATTTGTCAGACCATGGCAGC	59.866	52.381	13.04	1.10	46.20	5.25
2792	5072	8.122952	GTGCAAAACTATAATGATCAGTACACC	58.877	37.037	4.77	0.00	0.00	4.16
2826	5106	0.530744	TCGTCTGAATGGAACGGGAG	59.469	55.000	0.00	0.00	0.00	4.30
2842	5122	9.528018	AAATGACAATTTCAACAATAACTTCGT	57.472	25.926	0.00	0.00	37.92	3.85
3203	6838	8.032952	TGATAACATGAACATTCAAGACTGAC	57.967	34.615	0.00	0.00	41.13	3.51

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.