AutoCloner

Multiple sequence alignment - TraesCS2B01G429700

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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	TraesCS2B01G429700	chr2B	100.000	2605	0	0	1	2605	617123243	617120639	0.000000e+00	4811
1	TraesCS2B01G429700	chr2B	92.837	1410	71	8	1023	2404	621977607	621976200	0.000000e+00	2017
2	TraesCS2B01G429700	chr2B	94.203	966	52	4	45	1007	765979036	765980000	0.000000e+00	1471
3	TraesCS2B01G429700	chr2B	93.782	965	57	3	45	1007	651137609	651136646	0.000000e+00	1447
4	TraesCS2B01G429700	chr2B	92.338	757	50	5	1159	1908	316181693	316180938	0.000000e+00	1070
5	TraesCS2B01G429700	chr2B	93.559	621	38	2	45	663	47557619	47556999	0.000000e+00	924
6	TraesCS2B01G429700	chr2B	93.607	438	12	3	1983	2404	791115744	791116181	7.860000e-180	640
7	TraesCS2B01G429700	chr2B	92.661	327	22	2	107	433	567073957	567073633	1.090000e-128	470
8	TraesCS2B01G429700	chr2B	95.397	239	11	0	2367	2605	316179561	316179323	5.260000e-102	381
9	TraesCS2B01G429700	chr2B	95.588	204	9	0	2402	2605	219709116	219709319	6.950000e-86	327
10	TraesCS2B01G429700	chr2B	95.556	180	8	0	444	623	567073522	567073343	3.280000e-74	289
11	TraesCS2B01G429700	chr2B	97.468	158	4	0	1937	2094	177030826	177030983	1.190000e-68	270
12	TraesCS2B01G429700	chr2B	96.800	125	4	0	539	663	132706140	132706264	2.630000e-50	209
13	TraesCS2B01G429700	chr3B	93.883	1406	60	8	1023	2404	340616802	340615399	0.000000e+00	2097
14	TraesCS2B01G429700	chr3B	92.100	1405	87	6	1023	2404	790137018	790135615	0.000000e+00	1958
15	TraesCS2B01G429700	chr3B	93.899	967	42	2	1454	2404	310585999	310586964	0.000000e+00	1443
16	TraesCS2B01G429700	chr3B	92.734	757	47	4	1159	1908	744740095	744739340	0.000000e+00	1086
17	TraesCS2B01G429700	chr3B	92.531	482	18	3	1983	2448	9494331	9494810	0.000000e+00	675
18	TraesCS2B01G429700	chr3B	94.118	204	10	1	2402	2605	639825752	639825551	2.520000e-80	309
19	TraesCS2B01G429700	chr3B	94.118	204	11	1	2402	2605	790134982	790134780	2.520000e-80	309
20	TraesCS2B01G429700	chr3B	95.210	167	4	2	2402	2567	785213990	785213827	7.150000e-66	261
21	TraesCS2B01G429700	chr5B	93.681	633	21	3	1989	2605	123000949	123000320	0.000000e+00	929
22	TraesCS2B01G429700	chr5B	92.228	579	37	4	1159	1730	709303819	709304396	0.000000e+00	813
23	TraesCS2B01G429700	chr5B	91.019	579	44	4	1159	1730	4883610	4884187	0.000000e+00	774
24	TraesCS2B01G429700	chr5B	96.748	123	4	0	539	661	534873917	534873795	3.400000e-49	206
25	TraesCS2B01G429700	chr6B	93.700	619	38	1	46	663	648565324	648564706	0.000000e+00	926
26	TraesCS2B01G429700	chr6B	92.228	579	37	4	1159	1730	78506505	78505928	0.000000e+00	813
27	TraesCS2B01G429700	chr6B	91.710	579	40	4	1159	1730	90746610	90746033	0.000000e+00	797
28	TraesCS2B01G429700	chr6B	94.581	203	11	0	2402	2604	557845976	557846178	5.410000e-82	315
29	TraesCS2B01G429700	chr3D	96.346	520	17	2	449	966	577440381	577440900	0.000000e+00	854
30	TraesCS2B01G429700	chr3D	93.516	401	23	1	45	445	577439887	577440284	6.210000e-166	593
31	TraesCS2B01G429700	chr3D	92.208	308	8	1	2113	2404	92578278	92577971	3.100000e-114	422
32	TraesCS2B01G429700	chr2D	96.000	525	18	3	444	966	558945039	558944516	0.000000e+00	850
33	TraesCS2B01G429700	chr2D	91.771	401	30	2	45	445	558945531	558945134	2.930000e-154	555
34	TraesCS2B01G429700	chr2D	92.049	327	25	1	107	433	482806427	482806102	2.360000e-125	459
35	TraesCS2B01G429700	chr1D	96.008	526	16	4	444	966	421492679	421493202	0.000000e+00	850
36	TraesCS2B01G429700	chr1D	94.015	401	23	1	45	445	421492185	421492584	7.970000e-170	606
37	TraesCS2B01G429700	chr1D	95.710	303	13	0	706	1008	427744506	427744204	3.010000e-134	488
38	TraesCS2B01G429700	chr5A	93.379	438	13	1	1983	2404	631801278	631801715	3.660000e-178	634
39	TraesCS2B01G429700	chr4A	92.938	439	14	2	1983	2404	742760215	742760653	7.920000e-175	623
40	TraesCS2B01G429700	chr4A	92.466	438	17	1	1983	2404	126141099	126141536	1.710000e-171	612
41	TraesCS2B01G429700	chr4A	97.468	158	4	0	1937	2094	651118756	651118599	1.190000e-68	270
42	TraesCS2B01G429700	chr1A	92.938	439	14	8	1983	2404	509380263	509380701	7.920000e-175	623
43	TraesCS2B01G429700	chr1A	97.468	158	4	0	1937	2094	421800703	421800860	1.190000e-68	270
44	TraesCS2B01G429700	chr1A	89.302	215	7	1	2206	2404	424338072	424337858	3.330000e-64	255
45	TraesCS2B01G429700	chr6A	94.615	390	17	3	618	1006	583049528	583049142	3.710000e-168	601
46	TraesCS2B01G429700	chr1B	93.233	399	23	3	618	1015	672839426	672839031	3.740000e-163	584
47	TraesCS2B01G429700	chr1B	93.333	240	16	0	2366	2605	76549501	76549262	3.190000e-94	355
48	TraesCS2B01G429700	chr5D	96.000	325	13	0	1584	1908	526734831	526735155	1.780000e-146	529
49	TraesCS2B01G429700	chr5D	94.979	239	12	0	2367	2605	526736534	526736772	2.450000e-100	375
50	TraesCS2B01G429700	chr3A	96.190	315	10	2	618	931	675033522	675033835	4.970000e-142	514
51	TraesCS2B01G429700	chr2A	95.000	180	9	0	444	623	625293843	625293664	1.530000e-72	283
52	TraesCS2B01G429700	chr7A	98.734	158	2	0	1937	2094	578330963	578330806	5.490000e-72	281
53	TraesCS2B01G429700	chr7A	96.835	158	5	0	1937	2094	151360363	151360520	5.530000e-67	265

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	TraesCS2B01G429700	chr2B	617120639	617123243	2604	True	4811.0	4811	100.0000	1	2605	1	chr2B.!!$R2	2604
1	TraesCS2B01G429700	chr2B	621976200	621977607	1407	True	2017.0	2017	92.8370	1023	2404	1	chr2B.!!$R3	1381
2	TraesCS2B01G429700	chr2B	765979036	765980000	964	False	1471.0	1471	94.2030	45	1007	1	chr2B.!!$F4	962
3	TraesCS2B01G429700	chr2B	651136646	651137609	963	True	1447.0	1447	93.7820	45	1007	1	chr2B.!!$R4	962
4	TraesCS2B01G429700	chr2B	47556999	47557619	620	True	924.0	924	93.5590	45	663	1	chr2B.!!$R1	618
5	TraesCS2B01G429700	chr2B	316179323	316181693	2370	True	725.5	1070	93.8675	1159	2605	2	chr2B.!!$R5	1446
6	TraesCS2B01G429700	chr2B	567073343	567073957	614	True	379.5	470	94.1085	107	623	2	chr2B.!!$R6	516
7	TraesCS2B01G429700	chr3B	340615399	340616802	1403	True	2097.0	2097	93.8830	1023	2404	1	chr3B.!!$R1	1381
8	TraesCS2B01G429700	chr3B	310585999	310586964	965	False	1443.0	1443	93.8990	1454	2404	1	chr3B.!!$F2	950
9	TraesCS2B01G429700	chr3B	790134780	790137018	2238	True	1133.5	1958	93.1090	1023	2605	2	chr3B.!!$R5	1582
10	TraesCS2B01G429700	chr3B	744739340	744740095	755	True	1086.0	1086	92.7340	1159	1908	1	chr3B.!!$R3	749
11	TraesCS2B01G429700	chr5B	123000320	123000949	629	True	929.0	929	93.6810	1989	2605	1	chr5B.!!$R1	616
12	TraesCS2B01G429700	chr5B	709303819	709304396	577	False	813.0	813	92.2280	1159	1730	1	chr5B.!!$F2	571
13	TraesCS2B01G429700	chr5B	4883610	4884187	577	False	774.0	774	91.0190	1159	1730	1	chr5B.!!$F1	571
14	TraesCS2B01G429700	chr6B	648564706	648565324	618	True	926.0	926	93.7000	46	663	1	chr6B.!!$R3	617
15	TraesCS2B01G429700	chr6B	78505928	78506505	577	True	813.0	813	92.2280	1159	1730	1	chr6B.!!$R1	571
16	TraesCS2B01G429700	chr6B	90746033	90746610	577	True	797.0	797	91.7100	1159	1730	1	chr6B.!!$R2	571
17	TraesCS2B01G429700	chr3D	577439887	577440900	1013	False	723.5	854	94.9310	45	966	2	chr3D.!!$F1	921
18	TraesCS2B01G429700	chr2D	558944516	558945531	1015	True	702.5	850	93.8855	45	966	2	chr2D.!!$R2	921
19	TraesCS2B01G429700	chr1D	421492185	421493202	1017	False	728.0	850	95.0115	45	966	2	chr1D.!!$F1	921
20	TraesCS2B01G429700	chr5D	526734831	526736772	1941	False	452.0	529	95.4895	1584	2605	2	chr5D.!!$F1	1021

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
971	1175	0.107508	GTGGCTGATAGGCTCAAGCA	60.108	55.0	15.28	0.0	44.36	3.91	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2467	4462	3.73396	GGGCGTTCGGGCTTGTTC	61.734	66.667	0.0	0.0	41.87	3.18	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
33	34	9.112725	TGTATGTTTATCATGTTCTGATTCTGG	57.887	33.333	0.00	0.00	42.07	3.86
34	35	9.113838	GTATGTTTATCATGTTCTGATTCTGGT	57.886	33.333	0.00	0.00	42.07	4.00
35	36	7.615582	TGTTTATCATGTTCTGATTCTGGTC	57.384	36.000	0.00	0.00	42.07	4.02
36	37	6.313658	TGTTTATCATGTTCTGATTCTGGTCG	59.686	38.462	0.00	0.00	42.07	4.79
37	38	4.743057	ATCATGTTCTGATTCTGGTCGA	57.257	40.909	0.00	0.00	42.07	4.20
38	39	4.743057	TCATGTTCTGATTCTGGTCGAT	57.257	40.909	0.00	0.00	0.00	3.59
39	40	4.686972	TCATGTTCTGATTCTGGTCGATC	58.313	43.478	0.00	0.00	0.00	3.69
40	41	3.526931	TGTTCTGATTCTGGTCGATCC	57.473	47.619	0.00	0.00	0.00	3.36
41	42	2.159240	TGTTCTGATTCTGGTCGATCCG	60.159	50.000	0.00	0.00	39.52	4.18
42	43	1.032794	TCTGATTCTGGTCGATCCGG	58.967	55.000	0.00	0.00	43.70	5.14
43	44	0.598680	CTGATTCTGGTCGATCCGGC	60.599	60.000	0.00	0.00	42.13	6.13
65	66	0.678048	GGCGCATTTGAAGGAGAGGT	60.678	55.000	10.83	0.00	0.00	3.85
97	98	1.961277	CGAGGTCAAGGCGCAGTTT	60.961	57.895	10.83	0.00	0.00	2.66
131	132	4.200283	CGGTCTCTGGCTCCTCGC	62.200	72.222	0.00	0.00	38.13	5.03
182	183	1.075226	TAGGAGCCCATCTTCCGCT	60.075	57.895	0.00	0.00	34.97	5.52
249	250	1.910772	AGCAGCTCTTGGTCGGTCT	60.911	57.895	0.00	0.00	29.81	3.85
298	300	4.778415	CACTCTGGCCGACGACCG	62.778	72.222	0.00	0.00	38.18	4.79
345	347	2.456840	CCTCCCCTCCTCCCAGTT	59.543	66.667	0.00	0.00	0.00	3.16
643	844	4.263462	ACTGGATCAATACTTGCTCACCAA	60.263	41.667	0.00	0.00	0.00	3.67
675	876	4.926238	CACTACACACTCATTCTGGAAGTC	59.074	45.833	0.00	0.00	33.76	3.01
691	892	4.145052	GGAAGTCCCTTTCAAGTGACAAT	58.855	43.478	5.17	0.00	36.11	2.71
934	1138	2.431683	GGGCTGCTGGAGAACACA	59.568	61.111	0.00	0.00	0.00	3.72
943	1147	2.235898	GCTGGAGAACACAGAGAAGGAT	59.764	50.000	0.00	0.00	38.20	3.24
950	1154	3.767309	ACACAGAGAAGGATAGGGTCT	57.233	47.619	0.00	0.00	0.00	3.85
953	1157	2.316372	ACAGAGAAGGATAGGGTCTGGT	59.684	50.000	0.00	0.00	39.20	4.00
971	1175	0.107508	GTGGCTGATAGGCTCAAGCA	60.108	55.000	15.28	0.00	44.36	3.91
974	1178	1.072015	GGCTGATAGGCTCAAGCATCT	59.928	52.381	15.28	0.00	44.36	2.90
1015	1219	4.879104	CAGTTGATGGATCTGCTTCTTC	57.121	45.455	0.00	0.00	0.00	2.87
1016	1220	3.626670	CAGTTGATGGATCTGCTTCTTCC	59.373	47.826	0.00	0.00	0.00	3.46
1017	1221	3.265221	AGTTGATGGATCTGCTTCTTCCA	59.735	43.478	0.00	0.00	43.37	3.53
1018	1222	4.012374	GTTGATGGATCTGCTTCTTCCAA	58.988	43.478	0.00	0.00	42.53	3.53
1019	1223	3.614092	TGATGGATCTGCTTCTTCCAAC	58.386	45.455	0.00	0.00	42.53	3.77
1020	1224	2.496899	TGGATCTGCTTCTTCCAACC	57.503	50.000	0.00	0.00	36.62	3.77
1021	1225	1.704628	TGGATCTGCTTCTTCCAACCA	59.295	47.619	0.00	0.00	36.62	3.67
1064	1268	4.480480	CTCCACAGGAGGCCCTTA	57.520	61.111	0.00	0.00	45.43	2.69
1086	1290	4.121490	GCTGCTGTTCGAAAAGCG	57.879	55.556	30.06	24.93	42.54	4.68
1102	1306	4.483711	CGTGAGCTCTCGCATCAA	57.516	55.556	23.43	0.00	39.92	2.57
1237	1445	1.073923	GTCTGGACATCAAGGTTGGGT	59.926	52.381	0.00	0.00	0.00	4.51
1280	1488	3.860641	TCATTCGATTGTTGCTCTGCTA	58.139	40.909	7.16	0.00	0.00	3.49
1304	1515	3.225940	CTCCTTTGACCTTCTTGCCTTT	58.774	45.455	0.00	0.00	0.00	3.11
1510	1721	1.666553	CGTTCACACTTGGCCGCTA	60.667	57.895	0.00	0.00	0.00	4.26
1556	1769	5.230942	ACTCACTGTACATTTCTACTGCAC	58.769	41.667	0.00	0.00	0.00	4.57
1557	1770	5.208463	TCACTGTACATTTCTACTGCACA	57.792	39.130	0.00	0.00	0.00	4.57
1561	1774	6.645003	CACTGTACATTTCTACTGCACAACTA	59.355	38.462	0.00	0.00	0.00	2.24
1618	1831	0.036732	TGGTGAGGTTCTGTGGCATC	59.963	55.000	0.00	0.00	0.00	3.91
1659	1872	3.000523	CAGTTGTTGCTGCAAATGTTGAC	59.999	43.478	17.80	3.93	38.94	3.18
1770	1987	9.103861	GAGTAAATTAGTCCTCTTTGAATCTGG	57.896	37.037	0.00	0.00	0.00	3.86
2187	3329	5.574891	AAACTGTTAACTGAACATGTGCA	57.425	34.783	18.21	6.30	46.95	4.57
2197	3339	4.142534	ACTGAACATGTGCACAGAATATGC	60.143	41.667	25.84	10.67	43.68	3.14
2209	3351	7.756722	GTGCACAGAATATGCTAACTGAATTTT	59.243	33.333	13.17	0.00	43.77	1.82
2338	3551	6.100404	TGGGTGATTTCCTTCTTTCAAATG	57.900	37.500	0.00	0.00	0.00	2.32
2379	3739	4.770010	AGCTATCTCTCTGCCTGGTAATAC	59.230	45.833	0.00	0.00	0.00	1.89
2467	4462	0.519077	GCAAGGCCAAGAAAGACTCG	59.481	55.000	5.01	0.00	0.00	4.18
2477	4472	0.790814	GAAAGACTCGAACAAGCCCG	59.209	55.000	0.00	0.00	0.00	6.13
2479	4474	0.391597	AAGACTCGAACAAGCCCGAA	59.608	50.000	0.00	0.00	34.17	4.30
2516	4511	2.763448	GTCTTAGTCCTCATGTGAGCCT	59.237	50.000	4.48	5.35	40.75	4.58

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
14	15	7.952445	GGATCGACCAGAATCAGAACATGATAA	60.952	40.741	0.00	0.00	42.30	1.75
15	16	6.517362	GGATCGACCAGAATCAGAACATGATA	60.517	42.308	0.00	0.00	42.30	2.15
16	17	5.741383	GGATCGACCAGAATCAGAACATGAT	60.741	44.000	0.00	0.00	43.75	2.45
17	18	4.442052	GGATCGACCAGAATCAGAACATGA	60.442	45.833	0.00	0.00	39.54	3.07
18	19	3.806521	GGATCGACCAGAATCAGAACATG	59.193	47.826	0.00	0.00	38.79	3.21
19	20	3.491619	CGGATCGACCAGAATCAGAACAT	60.492	47.826	0.00	0.00	38.90	2.71
20	21	2.159240	CGGATCGACCAGAATCAGAACA	60.159	50.000	0.00	0.00	38.90	3.18
21	22	2.464865	CGGATCGACCAGAATCAGAAC	58.535	52.381	0.00	0.00	38.90	3.01
22	23	1.409064	CCGGATCGACCAGAATCAGAA	59.591	52.381	0.00	0.00	38.90	3.02
23	24	1.032794	CCGGATCGACCAGAATCAGA	58.967	55.000	0.00	0.00	38.90	3.27
24	25	0.598680	GCCGGATCGACCAGAATCAG	60.599	60.000	5.05	0.00	38.90	2.90
25	26	1.441729	GCCGGATCGACCAGAATCA	59.558	57.895	5.05	0.00	38.90	2.57
26	27	1.301009	GGCCGGATCGACCAGAATC	60.301	63.158	5.05	0.00	38.90	2.52
27	28	2.063979	TGGCCGGATCGACCAGAAT	61.064	57.895	5.05	0.00	33.88	2.40
28	29	2.682136	TGGCCGGATCGACCAGAA	60.682	61.111	5.05	0.00	33.88	3.02
37	38	4.820744	AAATGCGCCTGGCCGGAT	62.821	61.111	15.09	12.02	41.08	4.18
40	41	3.688475	CTTCAAATGCGCCTGGCCG	62.688	63.158	14.12	9.59	42.61	6.13
41	42	2.182537	CTTCAAATGCGCCTGGCC	59.817	61.111	14.12	6.66	42.61	5.36
42	43	2.182537	CCTTCAAATGCGCCTGGC	59.817	61.111	9.11	9.11	43.96	4.85
43	44	0.677731	TCTCCTTCAAATGCGCCTGG	60.678	55.000	4.18	0.00	0.00	4.45
52	53	0.850100	TGGCCAACCTCTCCTTCAAA	59.150	50.000	0.61	0.00	36.63	2.69
65	66	1.373435	CCTCGTACACCTTGGCCAA	59.627	57.895	19.25	19.25	0.00	4.52
182	183	0.820226	CGTCAGAGGATGGAGAAGCA	59.180	55.000	0.00	0.00	0.00	3.91
249	250	2.122413	AGAGTGGTGCCCTGGTCA	60.122	61.111	0.00	0.00	0.00	4.02
298	300	1.134670	CGAGGGTCCTTCACCTGATTC	60.135	57.143	1.42	0.00	45.95	2.52
345	347	2.905415	AGAGGAATTCATGGCCAACA	57.095	45.000	10.96	0.00	0.00	3.33
603	804	7.203218	TGATCCAGTATGAAAGATCTAACACG	58.797	38.462	0.00	0.00	39.69	4.49
634	835	8.261522	TGTGTAGTGTATATATTTTGGTGAGCA	58.738	33.333	0.00	0.00	0.00	4.26
675	876	3.304928	GCACTCATTGTCACTTGAAAGGG	60.305	47.826	0.00	0.00	0.00	3.95
723	925	8.798153	CATTACTTTCACAACAGAAACAAGAAC	58.202	33.333	0.00	0.00	34.11	3.01
934	1138	2.359781	CCACCAGACCCTATCCTTCTCT	60.360	54.545	0.00	0.00	0.00	3.10
943	1147	1.413082	CCTATCAGCCACCAGACCCTA	60.413	57.143	0.00	0.00	0.00	3.53
950	1154	0.543277	CTTGAGCCTATCAGCCACCA	59.457	55.000	0.00	0.00	39.68	4.17
953	1157	0.841961	ATGCTTGAGCCTATCAGCCA	59.158	50.000	0.00	0.00	39.68	4.75
971	1175	0.107456	AAATCATGGCTCCGCGAGAT	59.893	50.000	8.23	0.00	0.00	2.75
974	1178	1.095228	GGAAAATCATGGCTCCGCGA	61.095	55.000	8.23	0.00	0.00	5.87
1007	1211	2.071778	AAGCTTGGTTGGAAGAAGCA	57.928	45.000	0.00	0.00	43.78	3.91
1008	1212	2.747436	CAAAGCTTGGTTGGAAGAAGC	58.253	47.619	0.00	0.00	42.04	3.86
1009	1213	2.747436	GCAAAGCTTGGTTGGAAGAAG	58.253	47.619	0.00	0.00	0.00	2.85
1010	1214	1.066908	CGCAAAGCTTGGTTGGAAGAA	59.933	47.619	0.00	0.00	0.00	2.52
1011	1215	0.667993	CGCAAAGCTTGGTTGGAAGA	59.332	50.000	0.00	0.00	0.00	2.87
1012	1216	0.940991	GCGCAAAGCTTGGTTGGAAG	60.941	55.000	0.30	0.00	44.04	3.46
1013	1217	1.067250	GCGCAAAGCTTGGTTGGAA	59.933	52.632	0.30	0.00	44.04	3.53
1014	1218	2.727544	GCGCAAAGCTTGGTTGGA	59.272	55.556	0.30	0.00	44.04	3.53
1064	1268	1.728971	CTTTTCGAACAGCAGCGAGAT	59.271	47.619	0.00	0.00	37.85	2.75
1102	1306	5.579753	AGAAGGATATGAAGTGGATGCAT	57.420	39.130	0.00	0.00	0.00	3.96
1160	1364	0.888285	GCAGGTTGCAGCTTCTCTGT	60.888	55.000	0.00	0.00	44.26	3.41
1185	1389	1.613437	GCAATACACAACAGCCCTTGT	59.387	47.619	0.00	0.00	43.45	3.16
1237	1445	2.667470	GCAGGACATCTGGTAGGTCTA	58.333	52.381	0.00	0.00	43.54	2.59
1280	1488	1.546548	GCAAGAAGGTCAAAGGAGCCT	60.547	52.381	0.00	0.00	42.52	4.58
1304	1515	1.000506	GACAAGAACCTACAGACCGCA	59.999	52.381	0.00	0.00	0.00	5.69
1482	1693	0.034896	AGTGTGAACGAAGCGGGAAT	59.965	50.000	0.00	0.00	0.00	3.01
1556	1769	5.679734	AGCGGCAAATAATCAGATAGTTG	57.320	39.130	1.45	0.00	34.79	3.16
1557	1770	5.409826	GCTAGCGGCAAATAATCAGATAGTT	59.590	40.000	0.00	0.00	41.35	2.24
1561	1774	4.013267	AGCTAGCGGCAAATAATCAGAT	57.987	40.909	9.55	0.00	44.79	2.90
1618	1831	2.083774	TGAAATGCTAGCCCTTTCACG	58.916	47.619	26.40	0.00	34.80	4.35
1659	1872	4.701765	ACACAAGCTAGCCTATGAGAATG	58.298	43.478	12.13	5.49	0.00	2.67
1770	1987	6.957984	ATCTCGCACATATATGAACATGAC	57.042	37.500	19.63	3.36	0.00	3.06
1883	2100	9.787435	TGGTAAATAGGAATACATAATGTGGAC	57.213	33.333	0.00	0.00	0.00	4.02
2187	3329	8.306038	TGCAAAAATTCAGTTAGCATATTCTGT	58.694	29.630	0.00	0.00	0.00	3.41
2197	3339	9.248291	ACATGTTTACTGCAAAAATTCAGTTAG	57.752	29.630	3.16	0.00	42.81	2.34
2209	3351	9.624697	GAATTTCAGATAACATGTTTACTGCAA	57.375	29.630	25.93	23.53	0.00	4.08
2379	3739	7.254185	GCAAATATCAACCAATGCACATACTTG	60.254	37.037	0.00	0.00	34.10	3.16
2467	4462	3.733960	GGGCGTTCGGGCTTGTTC	61.734	66.667	0.00	0.00	41.87	3.18
2516	4511	4.098654	ACCACAACAACAAATCAAATCCGA	59.901	37.500	0.00	0.00	0.00	4.55

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.