AutoCloner

Multiple sequence alignment - TraesCS5D01G107500

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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	TraesCS5D01G107500	chr5D	100.000	2744	0	0	1	2744	121073946	121071203	0.000000e+00	5068
1	TraesCS5D01G107500	chr5D	88.737	1172	78	27	860	1998	121296117	121297267	0.000000e+00	1384
2	TraesCS5D01G107500	chr5D	90.964	332	24	6	537	863	242649468	242649798	2.510000e-120	442
3	TraesCS5D01G107500	chr5D	75.497	302	70	3	1154	1453	51637522	51637821	7.920000e-31	145
4	TraesCS5D01G107500	chr5D	75.161	310	71	5	1154	1460	51675302	51675608	1.020000e-29	141
5	TraesCS5D01G107500	chr5A	94.263	1255	48	11	860	2092	132092617	132091365	0.000000e+00	1897
6	TraesCS5D01G107500	chr5A	87.302	1071	83	21	1278	2302	132975455	132976518	0.000000e+00	1175
7	TraesCS5D01G107500	chr5A	89.720	428	33	4	860	1280	132971353	132971776	1.120000e-148	536
8	TraesCS5D01G107500	chr5A	91.977	349	27	1	1	349	563165337	563164990	3.180000e-134	488
9	TraesCS5D01G107500	chr5A	88.722	399	33	4	1	399	563101458	563101072	6.870000e-131	477
10	TraesCS5D01G107500	chr5A	78.361	476	72	24	394	859	563101108	563100654	2.080000e-71	279
11	TraesCS5D01G107500	chr5A	75.472	318	75	3	1154	1470	40813296	40813611	4.730000e-33	152
12	TraesCS5D01G107500	chr5B	88.395	1327	90	33	860	2138	134543153	134544463	0.000000e+00	1539
13	TraesCS5D01G107500	chr5B	94.968	934	35	7	860	1788	134121134	134120208	0.000000e+00	1454
14	TraesCS5D01G107500	chr5B	86.415	979	82	27	1774	2722	134119929	134118972	0.000000e+00	1024
15	TraesCS5D01G107500	chr5B	81.818	319	55	3	1153	1468	133893507	133893189	5.830000e-67	265
16	TraesCS5D01G107500	chr5B	90.099	101	10	0	2171	2271	134559978	134560078	6.170000e-27	132
17	TraesCS5D01G107500	chr3D	94.444	864	30	9	1	860	462045820	462046669	0.000000e+00	1314
18	TraesCS5D01G107500	chr3D	93.511	863	38	12	1	859	351017223	351018071	0.000000e+00	1267
19	TraesCS5D01G107500	chr3D	92.675	314	18	4	551	860	558707016	558707328	5.390000e-122	448
20	TraesCS5D01G107500	chr1D	93.619	862	38	8	1	859	76965837	76964990	0.000000e+00	1271
21	TraesCS5D01G107500	chr1D	94.983	299	11	4	565	859	430066150	430065852	1.490000e-127	466
22	TraesCS5D01G107500	chr2B	92.923	763	38	11	100	859	5720933	5721682	0.000000e+00	1096
23	TraesCS5D01G107500	chr2B	95.146	103	5	0	1	103	5719004	5719106	2.190000e-36	163
24	TraesCS5D01G107500	chr6D	94.444	396	14	4	1	396	283811190	283810803	1.090000e-168	603
25	TraesCS5D01G107500	chr6D	96.620	355	9	3	508	859	283810281	283809927	1.090000e-163	586
26	TraesCS5D01G107500	chr6D	89.209	139	6	5	340	477	283810883	283810753	6.080000e-37	165
27	TraesCS5D01G107500	chr6B	87.421	477	45	8	389	859	92058805	92059272	4.020000e-148	534
28	TraesCS5D01G107500	chr6B	91.968	249	20	0	86	334	92058545	92058793	1.560000e-92	350
29	TraesCS5D01G107500	chr1B	86.373	477	43	14	390	859	9644646	9644185	4.080000e-138	501
30	TraesCS5D01G107500	chr3A	92.308	338	26	0	1	338	23321638	23321301	5.310000e-132	481

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	TraesCS5D01G107500	chr5D	121071203	121073946	2743	True	5068.000000	5068	100.000000	1	2744	1	chr5D.!!$R1	2743
1	TraesCS5D01G107500	chr5D	121296117	121297267	1150	False	1384.000000	1384	88.737000	860	1998	1	chr5D.!!$F3	1138
2	TraesCS5D01G107500	chr5A	132091365	132092617	1252	True	1897.000000	1897	94.263000	860	2092	1	chr5A.!!$R1	1232
3	TraesCS5D01G107500	chr5A	132971353	132976518	5165	False	855.500000	1175	88.511000	860	2302	2	chr5A.!!$F2	1442
4	TraesCS5D01G107500	chr5A	563100654	563101458	804	True	378.000000	477	83.541500	1	859	2	chr5A.!!$R3	858
5	TraesCS5D01G107500	chr5B	134543153	134544463	1310	False	1539.000000	1539	88.395000	860	2138	1	chr5B.!!$F1	1278
6	TraesCS5D01G107500	chr5B	134118972	134121134	2162	True	1239.000000	1454	90.691500	860	2722	2	chr5B.!!$R2	1862
7	TraesCS5D01G107500	chr3D	462045820	462046669	849	False	1314.000000	1314	94.444000	1	860	1	chr3D.!!$F2	859
8	TraesCS5D01G107500	chr3D	351017223	351018071	848	False	1267.000000	1267	93.511000	1	859	1	chr3D.!!$F1	858
9	TraesCS5D01G107500	chr1D	76964990	76965837	847	True	1271.000000	1271	93.619000	1	859	1	chr1D.!!$R1	858
10	TraesCS5D01G107500	chr2B	5719004	5721682	2678	False	629.500000	1096	94.034500	1	859	2	chr2B.!!$F1	858
11	TraesCS5D01G107500	chr6D	283809927	283811190	1263	True	451.333333	603	93.424333	1	859	3	chr6D.!!$R1	858
12	TraesCS5D01G107500	chr6B	92058545	92059272	727	False	442.000000	534	89.694500	86	859	2	chr6B.!!$F1	773

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
926	3228	0.688087	AGGACACCCTAGCTAGTGCC	60.688	60.0	19.31	15.94	42.15	5.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2408	8809	0.245539	CCCCGAAGAGCACGTCTAAA	59.754	55.0	0.0	0.0	32.65	1.85	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
215	2046	1.074423	TCCACGAAGGAGGACGAGT	59.926	57.895	0.00	0.00	43.07	4.18
313	2144	3.473647	CATGGAGAGAGGGCGGCA	61.474	66.667	12.47	0.00	0.00	5.69
848	3147	2.393764	CGCAAATGTGGTGGTTTCTTC	58.606	47.619	0.00	0.00	0.00	2.87
926	3228	0.688087	AGGACACCCTAGCTAGTGCC	60.688	60.000	19.31	15.94	42.15	5.01
1091	3401	6.097412	AGTCCTCTTCAAACTTCAAAGCAAAT	59.903	34.615	0.00	0.00	0.00	2.32
1127	3437	1.125384	GTGCACGTACACACATAACCG	59.875	52.381	14.08	0.00	40.40	4.44
1255	3566	3.064987	GCGGCTCTTCTGCGACCTA	62.065	63.158	0.00	0.00	37.32	3.08
1264	3575	0.601558	TCTGCGACCTAGGTGTCAAC	59.398	55.000	22.10	2.89	34.88	3.18
1420	7412	1.890979	GTCCATGCATCTCAGCGGG	60.891	63.158	0.00	0.00	37.31	6.13
1477	7469	1.349026	TGGCTATAGAGGAATGCAGGC	59.651	52.381	3.21	0.00	0.00	4.85
1520	7524	9.520204	AAATTTTGTCAAAGAGTGTGAAGTATG	57.480	29.630	0.00	0.00	0.00	2.39
1521	7525	7.624360	TTTTGTCAAAGAGTGTGAAGTATGT	57.376	32.000	0.00	0.00	0.00	2.29
1624	7628	2.564947	AGCAAGGCTTATAGCTCGCTAT	59.435	45.455	15.05	15.05	41.99	2.97
1823	8158	7.660617	TCATAGTAGTTTACTATCGTCTCCTGG	59.339	40.741	5.92	0.00	46.22	4.45
1875	8224	3.866582	CGGCACCTCCCCTGATCC	61.867	72.222	0.00	0.00	0.00	3.36
1967	8351	0.035820	ACGCGAATGGGTATGTGGTT	60.036	50.000	15.93	0.00	39.84	3.67
1979	8363	2.799126	ATGTGGTTGAGCGGGAATAA	57.201	45.000	0.00	0.00	0.00	1.40
2035	8419	1.415659	CCTCTCCTACAATGGCTCTGG	59.584	57.143	0.00	0.00	0.00	3.86
2060	8444	1.066656	GTGCATGCGTACGACGTGTA	61.067	55.000	21.65	17.33	44.73	2.90
2081	8465	0.395312	AACCTCCCGTGATGACGTTT	59.605	50.000	3.53	0.00	44.54	3.60
2083	8467	1.019278	CCTCCCGTGATGACGTTTGG	61.019	60.000	3.53	0.00	44.54	3.28
2084	8468	0.320421	CTCCCGTGATGACGTTTGGT	60.320	55.000	3.53	0.00	44.54	3.67
2144	8532	2.480759	GGCTTTGATGATGTGGTGATGC	60.481	50.000	0.00	0.00	0.00	3.91
2233	8627	1.314534	TGCCCTTCCATGCAACATCG	61.315	55.000	0.00	0.00	33.87	3.84
2254	8648	2.399856	TTGTTCGGCAAGTGGTGAC	58.600	52.632	0.00	0.00	32.52	3.67
2255	8649	0.393132	TTGTTCGGCAAGTGGTGACA	60.393	50.000	0.00	0.00	33.13	3.58
2279	8673	3.940209	ATACACGGTGACTTCGGTTTA	57.060	42.857	16.29	0.00	0.00	2.01
2283	8677	0.665369	CGGTGACTTCGGTTTAGCGT	60.665	55.000	1.03	0.00	34.30	5.07
2308	8702	0.176910	TGTGAGTGCCGTGACTTGAA	59.823	50.000	0.00	0.00	0.00	2.69
2312	8706	2.059541	GAGTGCCGTGACTTGAACTAC	58.940	52.381	0.00	0.00	0.00	2.73
2314	8708	2.889045	AGTGCCGTGACTTGAACTACTA	59.111	45.455	0.00	0.00	0.00	1.82
2317	8711	3.762288	TGCCGTGACTTGAACTACTAGAT	59.238	43.478	0.00	0.00	0.00	1.98
2328	8723	8.979534	ACTTGAACTACTAGATAAAACCCTAGG	58.020	37.037	0.06	0.06	37.32	3.02
2330	8725	8.530804	TGAACTACTAGATAAAACCCTAGGTC	57.469	38.462	8.29	0.00	37.32	3.85
2331	8726	7.562821	TGAACTACTAGATAAAACCCTAGGTCC	59.437	40.741	8.29	0.00	37.32	4.46
2349	8744	4.325972	GGTCCGACCTTTATTGGTTGTAA	58.674	43.478	10.59	0.00	41.00	2.41
2350	8745	4.761227	GGTCCGACCTTTATTGGTTGTAAA	59.239	41.667	10.59	0.00	41.00	2.01
2351	8746	5.241285	GGTCCGACCTTTATTGGTTGTAAAA	59.759	40.000	10.59	0.00	41.00	1.52
2352	8747	6.238981	GGTCCGACCTTTATTGGTTGTAAAAA	60.239	38.462	10.59	0.00	41.00	1.94
2353	8748	7.372714	GTCCGACCTTTATTGGTTGTAAAAAT	58.627	34.615	0.00	0.00	41.00	1.82
2354	8749	7.327518	GTCCGACCTTTATTGGTTGTAAAAATG	59.672	37.037	0.00	0.00	41.00	2.32
2356	8751	8.032451	CCGACCTTTATTGGTTGTAAAAATGAT	58.968	33.333	0.00	0.00	41.00	2.45
2357	8752	8.859156	CGACCTTTATTGGTTGTAAAAATGATG	58.141	33.333	0.00	0.00	41.00	3.07
2358	8753	9.921637	GACCTTTATTGGTTGTAAAAATGATGA	57.078	29.630	0.00	0.00	41.00	2.92
2374	8775	6.925610	AATGATGATGTTTACACTATGCGT	57.074	33.333	0.00	0.00	0.00	5.24
2387	8788	2.093973	ACTATGCGTCCTTGTTGAGAGG	60.094	50.000	0.00	0.00	35.53	3.69
2388	8789	0.036010	ATGCGTCCTTGTTGAGAGGG	60.036	55.000	0.00	0.00	34.93	4.30
2389	8790	2.035442	GCGTCCTTGTTGAGAGGGC	61.035	63.158	0.00	0.00	35.53	5.19
2390	8791	1.371183	CGTCCTTGTTGAGAGGGCA	59.629	57.895	0.00	0.00	38.86	5.36
2391	8792	0.036010	CGTCCTTGTTGAGAGGGCAT	60.036	55.000	0.00	0.00	38.86	4.40
2400	8801	6.603201	CCTTGTTGAGAGGGCATATTTCTTTA	59.397	38.462	0.00	0.00	0.00	1.85
2408	8809	7.810260	AGAGGGCATATTTCTTTAGACATTCT	58.190	34.615	0.00	0.00	0.00	2.40
2422	8823	5.140747	AGACATTCTTTAGACGTGCTCTT	57.859	39.130	0.00	0.00	0.00	2.85
2427	8828	0.245539	TTTAGACGTGCTCTTCGGGG	59.754	55.000	0.00	0.00	0.00	5.73
2429	8830	0.035152	TAGACGTGCTCTTCGGGGTA	60.035	55.000	0.00	0.00	0.00	3.69
2431	8832	0.037975	GACGTGCTCTTCGGGGTAAA	60.038	55.000	0.00	0.00	0.00	2.01
2435	8836	2.501261	GTGCTCTTCGGGGTAAAAACT	58.499	47.619	0.00	0.00	0.00	2.66
2437	8838	2.105134	TGCTCTTCGGGGTAAAAACTCA	59.895	45.455	0.00	0.00	0.00	3.41
2451	8852	6.744082	GGTAAAAACTCATAACCCGATTTTCG	59.256	38.462	0.00	0.00	40.07	3.46
2453	8854	5.541098	AAACTCATAACCCGATTTTCGAC	57.459	39.130	0.00	0.00	43.74	4.20
2454	8855	3.528532	ACTCATAACCCGATTTTCGACC	58.471	45.455	0.00	0.00	43.74	4.79
2470	8871	0.602638	GACCGTTGGATGCAGTGACA	60.603	55.000	0.00	0.00	0.00	3.58
2474	8875	1.877680	CGTTGGATGCAGTGACAGGAA	60.878	52.381	0.00	0.00	0.00	3.36
2484	8885	0.951040	GTGACAGGAACTCTTGGGCG	60.951	60.000	0.00	0.00	34.60	6.13
2485	8886	1.376037	GACAGGAACTCTTGGGCGG	60.376	63.158	0.00	0.00	34.60	6.13
2486	8887	1.827399	GACAGGAACTCTTGGGCGGA	61.827	60.000	0.00	0.00	34.60	5.54
2487	8888	1.201429	ACAGGAACTCTTGGGCGGAT	61.201	55.000	0.00	0.00	34.60	4.18
2488	8889	0.745845	CAGGAACTCTTGGGCGGATG	60.746	60.000	0.00	0.00	34.60	3.51
2489	8890	1.201429	AGGAACTCTTGGGCGGATGT	61.201	55.000	0.00	0.00	0.00	3.06
2500	8904	1.334869	GGGCGGATGTGCTATTTTCTG	59.665	52.381	0.00	0.00	34.52	3.02
2513	8917	4.260948	GCTATTTTCTGGGAATCTTGCTCG	60.261	45.833	0.00	0.00	0.00	5.03
2518	8922	2.427453	TCTGGGAATCTTGCTCGTAGTC	59.573	50.000	0.00	0.00	0.00	2.59
2534	8938	3.554129	CGTAGTCCATGTGTTGTTCAGGA	60.554	47.826	0.00	0.00	0.00	3.86
2550	8954	2.746904	TCAGGATAATGTTGGTGTTGCG	59.253	45.455	0.00	0.00	0.00	4.85
2563	8967	3.119101	TGGTGTTGCGGTTGTTTTATTGT	60.119	39.130	0.00	0.00	0.00	2.71
2568	8972	4.111375	TGCGGTTGTTTTATTGTGTGTT	57.889	36.364	0.00	0.00	0.00	3.32
2575	8979	7.201478	CGGTTGTTTTATTGTGTGTTGTTGATT	60.201	33.333	0.00	0.00	0.00	2.57
2581	8985	1.740025	TGTGTGTTGTTGATTGCGTCA	59.260	42.857	0.00	0.00	34.25	4.35
2582	8986	2.162408	TGTGTGTTGTTGATTGCGTCAA	59.838	40.909	0.65	0.65	44.36	3.18
2615	9021	7.818997	TTTTACTTCTTCTCCTTCTTTTCCC	57.181	36.000	0.00	0.00	0.00	3.97
2620	9026	7.583625	ACTTCTTCTCCTTCTTTTCCCTTTTA	58.416	34.615	0.00	0.00	0.00	1.52
2637	9043	4.764823	CCTTTTAGTTGTATGCACCCTCAA	59.235	41.667	0.00	0.00	0.00	3.02
2669	9075	8.495949	CGACTAGTTCTTGATATTGTGTTGTTT	58.504	33.333	0.00	0.00	0.00	2.83
2670	9076	9.599322	GACTAGTTCTTGATATTGTGTTGTTTG	57.401	33.333	0.00	0.00	0.00	2.93
2671	9077	9.120538	ACTAGTTCTTGATATTGTGTTGTTTGT	57.879	29.630	0.00	0.00	0.00	2.83
2674	9080	9.337396	AGTTCTTGATATTGTGTTGTTTGTAGA	57.663	29.630	0.00	0.00	0.00	2.59
2676	9082	8.902540	TCTTGATATTGTGTTGTTTGTAGAGT	57.097	30.769	0.00	0.00	0.00	3.24
2677	9083	8.988934	TCTTGATATTGTGTTGTTTGTAGAGTC	58.011	33.333	0.00	0.00	0.00	3.36
2678	9084	7.667043	TGATATTGTGTTGTTTGTAGAGTCC	57.333	36.000	0.00	0.00	0.00	3.85
2696	9102	7.531857	AGAGTCCGAGTGTAATTGATATCAT	57.468	36.000	6.17	0.00	0.00	2.45

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
215	2046	2.203938	AGGGGCCTCTGGTTCGAA	60.204	61.111	2.82	0.00	0.00	3.71
589	2881	2.495409	CCTATCCACTACGCGCCCA	61.495	63.158	5.73	0.00	0.00	5.36
772	3069	2.277834	CGTTGCAGAAAACACCGAAAAC	59.722	45.455	0.00	0.00	0.00	2.43
848	3147	4.500499	AGATCAGGAAGGAGTCAATTGG	57.500	45.455	5.42	0.00	0.00	3.16
926	3228	7.803279	ACAAAAGGGTAGTGTTTCTTTCTAG	57.197	36.000	0.00	0.00	0.00	2.43
1091	3401	2.167281	GTGCACAGATCTCTAAGCCTGA	59.833	50.000	13.17	0.00	0.00	3.86
1255	3566	1.523711	CACCAGTGCGTTGACACCT	60.524	57.895	0.00	0.00	41.67	4.00
1433	7425	1.930908	GCACCTGCATTCCTCAGCAC	61.931	60.000	0.00	0.00	41.59	4.40
1477	7469	6.017523	ACAAAATTTTATTTTCCCAAGTGGCG	60.018	34.615	2.44	0.00	0.00	5.69
1544	7548	5.003692	ACGCTAACTAGGCCTTTAGTTAC	57.996	43.478	19.91	15.94	42.34	2.50
1552	7556	0.953003	GATCGACGCTAACTAGGCCT	59.047	55.000	11.78	11.78	0.00	5.19
1624	7628	1.401409	CCCGTACGTAAAACTCGCTCA	60.401	52.381	15.21	0.00	0.00	4.26
1686	7690	7.538678	GCTCTTTGAAAAACGATGATTGTACAT	59.461	33.333	0.00	0.00	0.00	2.29
1851	8197	1.071471	GGGGAGGTGCCGATGTATG	59.929	63.158	0.00	0.00	37.63	2.39
1956	8340	1.451387	CCCGCTCAACCACATACCC	60.451	63.158	0.00	0.00	0.00	3.69
1967	8351	1.045407	AGCCGTATTATTCCCGCTCA	58.955	50.000	0.00	0.00	0.00	4.26
1979	8363	3.603365	GGCAAGCCAAAGCCGTAT	58.397	55.556	6.14	0.00	41.70	3.06
1998	8382	4.971125	GCCGATGGCGCCTAGACC	62.971	72.222	29.70	9.64	39.62	3.85
2020	8404	1.152881	GCCCCAGAGCCATTGTAGG	60.153	63.158	0.00	0.00	0.00	3.18
2060	8444	1.890894	CGTCATCACGGGAGGTTCT	59.109	57.895	0.00	0.00	42.73	3.01
2081	8465	2.741092	GCACCTCACGGAGAACCA	59.259	61.111	2.84	0.00	35.59	3.67
2144	8532	2.290705	ACATACAGGACCGGGAAAAAGG	60.291	50.000	6.32	0.00	0.00	3.11
2254	8648	4.178540	ACCGAAGTCACCGTGTATTATTG	58.821	43.478	0.00	0.00	0.00	1.90
2255	8649	4.460948	ACCGAAGTCACCGTGTATTATT	57.539	40.909	0.00	0.00	0.00	1.40
2283	8677	4.908687	ACGGCACTCACAGCGCAA	62.909	61.111	11.47	0.00	0.00	4.85
2290	8684	0.582005	GTTCAAGTCACGGCACTCAC	59.418	55.000	0.00	0.00	0.00	3.51
2291	8685	0.464036	AGTTCAAGTCACGGCACTCA	59.536	50.000	0.00	0.00	0.00	3.41
2296	8690	3.844577	TCTAGTAGTTCAAGTCACGGC	57.155	47.619	0.00	0.00	0.00	5.68
2308	8702	6.067350	CGGACCTAGGGTTTTATCTAGTAGT	58.933	44.000	14.81	0.00	35.25	2.73
2312	8706	4.280425	GGTCGGACCTAGGGTTTTATCTAG	59.720	50.000	19.92	0.00	35.25	2.43
2314	8708	3.036819	GGTCGGACCTAGGGTTTTATCT	58.963	50.000	19.92	0.00	35.25	1.98
2328	8723	5.945466	TTTACAACCAATAAAGGTCGGAC	57.055	39.130	0.00	0.00	42.25	4.79
2330	8725	7.371936	TCATTTTTACAACCAATAAAGGTCGG	58.628	34.615	0.00	0.00	42.25	4.79
2331	8726	8.859156	CATCATTTTTACAACCAATAAAGGTCG	58.141	33.333	0.00	0.00	42.25	4.79
2349	8744	7.761409	ACGCATAGTGTAAACATCATCATTTT	58.239	30.769	0.00	0.00	0.00	1.82
2350	8745	7.320443	ACGCATAGTGTAAACATCATCATTT	57.680	32.000	0.00	0.00	0.00	2.32
2351	8746	6.017934	GGACGCATAGTGTAAACATCATCATT	60.018	38.462	0.00	0.00	0.00	2.57
2352	8747	5.466728	GGACGCATAGTGTAAACATCATCAT	59.533	40.000	0.00	0.00	0.00	2.45
2353	8748	4.808895	GGACGCATAGTGTAAACATCATCA	59.191	41.667	0.00	0.00	0.00	3.07
2354	8749	5.050490	AGGACGCATAGTGTAAACATCATC	58.950	41.667	0.00	0.00	0.00	2.92
2356	8751	4.465632	AGGACGCATAGTGTAAACATCA	57.534	40.909	0.00	0.00	0.00	3.07
2357	8752	4.630069	ACAAGGACGCATAGTGTAAACATC	59.370	41.667	0.00	0.00	0.00	3.06
2358	8753	4.575885	ACAAGGACGCATAGTGTAAACAT	58.424	39.130	0.00	0.00	0.00	2.71
2359	8754	3.997762	ACAAGGACGCATAGTGTAAACA	58.002	40.909	0.00	0.00	0.00	2.83
2366	8767	2.093973	CCTCTCAACAAGGACGCATAGT	60.094	50.000	0.00	0.00	35.83	2.12
2370	8771	1.371183	CCCTCTCAACAAGGACGCA	59.629	57.895	0.00	0.00	35.83	5.24
2371	8772	2.035442	GCCCTCTCAACAAGGACGC	61.035	63.158	0.00	0.00	35.83	5.19
2374	8775	4.228210	AGAAATATGCCCTCTCAACAAGGA	59.772	41.667	0.00	0.00	35.83	3.36
2400	8801	4.792521	AGAGCACGTCTAAAGAATGTCT	57.207	40.909	0.00	0.00	31.71	3.41
2408	8809	0.245539	CCCCGAAGAGCACGTCTAAA	59.754	55.000	0.00	0.00	32.65	1.85
2415	8816	2.483106	GAGTTTTTACCCCGAAGAGCAC	59.517	50.000	0.00	0.00	0.00	4.40
2422	8823	3.954200	GGGTTATGAGTTTTTACCCCGA	58.046	45.455	0.00	0.00	42.13	5.14
2427	8828	7.479603	GTCGAAAATCGGGTTATGAGTTTTTAC	59.520	37.037	0.00	0.00	40.88	2.01
2429	8830	6.376177	GTCGAAAATCGGGTTATGAGTTTTT	58.624	36.000	0.00	0.00	40.88	1.94
2431	8832	4.393990	GGTCGAAAATCGGGTTATGAGTTT	59.606	41.667	0.00	0.00	40.88	2.66
2435	8836	2.094078	ACGGTCGAAAATCGGGTTATGA	60.094	45.455	0.00	0.00	40.88	2.15
2437	8838	2.674357	CAACGGTCGAAAATCGGGTTAT	59.326	45.455	0.00	0.00	40.88	1.89
2447	8848	0.250124	ACTGCATCCAACGGTCGAAA	60.250	50.000	0.00	0.00	0.00	3.46
2451	8852	0.602638	TGTCACTGCATCCAACGGTC	60.603	55.000	0.00	0.00	0.00	4.79
2453	8854	1.300971	CCTGTCACTGCATCCAACGG	61.301	60.000	0.00	0.00	0.00	4.44
2454	8855	0.320683	TCCTGTCACTGCATCCAACG	60.321	55.000	0.00	0.00	0.00	4.10
2470	8871	1.201429	ACATCCGCCCAAGAGTTCCT	61.201	55.000	0.00	0.00	0.00	3.36
2474	8875	1.264749	TAGCACATCCGCCCAAGAGT	61.265	55.000	0.00	0.00	0.00	3.24
2484	8885	5.136105	AGATTCCCAGAAAATAGCACATCC	58.864	41.667	0.00	0.00	0.00	3.51
2485	8886	6.501781	CAAGATTCCCAGAAAATAGCACATC	58.498	40.000	0.00	0.00	0.00	3.06
2486	8887	5.163478	GCAAGATTCCCAGAAAATAGCACAT	60.163	40.000	0.00	0.00	0.00	3.21
2487	8888	4.158394	GCAAGATTCCCAGAAAATAGCACA	59.842	41.667	0.00	0.00	0.00	4.57
2488	8889	4.400567	AGCAAGATTCCCAGAAAATAGCAC	59.599	41.667	0.00	0.00	0.00	4.40
2489	8890	4.603131	AGCAAGATTCCCAGAAAATAGCA	58.397	39.130	0.00	0.00	0.00	3.49
2500	8904	1.480954	TGGACTACGAGCAAGATTCCC	59.519	52.381	0.00	0.00	0.00	3.97
2513	8917	4.002906	TCCTGAACAACACATGGACTAC	57.997	45.455	0.00	0.00	0.00	2.73
2518	8922	5.902613	ACATTATCCTGAACAACACATGG	57.097	39.130	0.00	0.00	0.00	3.66
2534	8938	2.625790	ACAACCGCAACACCAACATTAT	59.374	40.909	0.00	0.00	0.00	1.28
2550	8954	6.952935	TCAACAACACACAATAAAACAACC	57.047	33.333	0.00	0.00	0.00	3.77
2602	9008	6.961360	ACAACTAAAAGGGAAAAGAAGGAG	57.039	37.500	0.00	0.00	0.00	3.69
2603	9009	7.039993	GCATACAACTAAAAGGGAAAAGAAGGA	60.040	37.037	0.00	0.00	0.00	3.36
2607	9013	6.015772	GGTGCATACAACTAAAAGGGAAAAGA	60.016	38.462	0.00	0.00	0.00	2.52
2608	9014	6.156519	GGTGCATACAACTAAAAGGGAAAAG	58.843	40.000	0.00	0.00	0.00	2.27
2615	9021	5.957842	TTGAGGGTGCATACAACTAAAAG	57.042	39.130	0.00	0.00	32.44	2.27
2620	9026	3.009473	AGACATTGAGGGTGCATACAACT	59.991	43.478	0.00	0.00	32.44	3.16
2637	9043	7.918033	CACAATATCAAGAACTAGTCGAGACAT	59.082	37.037	5.99	0.00	0.00	3.06
2669	9075	7.501225	TGATATCAATTACACTCGGACTCTACA	59.499	37.037	1.98	0.00	0.00	2.74
2670	9076	7.872881	TGATATCAATTACACTCGGACTCTAC	58.127	38.462	1.98	0.00	0.00	2.59
2671	9077	8.637196	ATGATATCAATTACACTCGGACTCTA	57.363	34.615	9.99	0.00	0.00	2.43
2672	9078	6.961360	TGATATCAATTACACTCGGACTCT	57.039	37.500	1.98	0.00	0.00	3.24
2673	9079	8.594881	AAATGATATCAATTACACTCGGACTC	57.405	34.615	9.99	0.00	0.00	3.36
2674	9080	8.964476	AAAATGATATCAATTACACTCGGACT	57.036	30.769	9.99	0.00	0.00	3.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.