AutoCloner

Multiple sequence alignment - TraesCS2B01G362400

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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	TraesCS2B01G362400	chr2B	100.000	2893	0	0	1	2893	516098505	516101397	0.000000e+00	5343.0
1	TraesCS2B01G362400	chr2B	91.376	916	70	7	1379	2288	198522363	198521451	0.000000e+00	1245.0
2	TraesCS2B01G362400	chr2B	87.585	1031	101	18	1489	2504	592572595	592573613	0.000000e+00	1170.0
3	TraesCS2B01G362400	chr2B	91.209	273	22	2	2601	2871	706400931	706401203	1.270000e-98	370.0
4	TraesCS2B01G362400	chr2B	94.273	227	10	2	3	228	198531488	198531264	7.670000e-91	344.0
5	TraesCS2B01G362400	chr1A	95.610	1139	46	3	957	2092	330762601	330761464	0.000000e+00	1823.0
6	TraesCS2B01G362400	chr1A	93.283	923	29	4	1	893	330763536	330762617	0.000000e+00	1330.0
7	TraesCS2B01G362400	chr1A	89.697	825	47	13	2	801	41320770	41319959	0.000000e+00	1018.0
8	TraesCS2B01G362400	chr1A	89.576	825	48	15	2	801	41411554	41412365	0.000000e+00	1013.0
9	TraesCS2B01G362400	chr1A	89.647	821	42	17	2066	2875	330752931	330752143	0.000000e+00	1005.0
10	TraesCS2B01G362400	chr1A	87.861	865	82	16	977	1824	41319803	41318945	0.000000e+00	994.0
11	TraesCS2B01G362400	chr1A	86.375	778	65	26	2049	2817	569470029	569469284	0.000000e+00	811.0
12	TraesCS2B01G362400	chr4B	89.025	1385	106	29	1	1350	369781764	369780391	0.000000e+00	1674.0
13	TraesCS2B01G362400	chr4B	86.720	1250	104	29	1379	2609	369780268	369779062	0.000000e+00	1332.0
14	TraesCS2B01G362400	chr4B	81.618	544	40	39	2362	2892	367921386	367921882	2.090000e-106	396.0
15	TraesCS2B01G362400	chr6B	88.681	1387	108	31	1	1350	578015589	578016963	0.000000e+00	1646.0
16	TraesCS2B01G362400	chr6B	88.452	1247	104	16	1380	2611	578017087	578018308	0.000000e+00	1469.0
17	TraesCS2B01G362400	chr6B	92.620	271	18	2	2607	2875	712066825	712066555	3.500000e-104	388.0
18	TraesCS2B01G362400	chr6B	89.324	281	23	6	2604	2879	101244312	101244034	2.130000e-91	346.0
19	TraesCS2B01G362400	chr6B	89.416	274	26	2	2600	2871	263842658	263842386	2.760000e-90	342.0
20	TraesCS2B01G362400	chr3A	87.156	1308	117	30	977	2258	323385494	323386776	0.000000e+00	1437.0
21	TraesCS2B01G362400	chr3A	92.127	724	43	5	1	723	323384527	323385237	0.000000e+00	1009.0
22	TraesCS2B01G362400	chr3A	92.202	654	44	3	1387	2036	486211413	486210763	0.000000e+00	918.0
23	TraesCS2B01G362400	chr3A	90.872	493	33	9	876	1363	486211966	486211481	0.000000e+00	651.0
24	TraesCS2B01G362400	chr3A	79.096	177	18	10	734	893	486212080	486211906	1.420000e-18	104.0
25	TraesCS2B01G362400	chr3B	89.982	1108	87	10	1379	2464	52856645	52855540	0.000000e+00	1410.0
26	TraesCS2B01G362400	chr2D	86.443	1313	136	30	977	2258	348076593	348075292	0.000000e+00	1400.0
27	TraesCS2B01G362400	chr2D	92.808	723	36	6	2	723	348077548	348076841	0.000000e+00	1033.0
28	TraesCS2B01G362400	chr2D	89.333	75	7	1	728	801	348076813	348076739	3.070000e-15	93.5
29	TraesCS2B01G362400	chr4A	88.308	1129	99	17	977	2081	527576825	527575706	0.000000e+00	1323.0
30	TraesCS2B01G362400	chr4A	91.136	801	49	12	2	801	527577812	527577033	0.000000e+00	1066.0
31	TraesCS2B01G362400	chr4A	86.264	779	66	26	2049	2818	624613476	624614222	0.000000e+00	808.0
32	TraesCS2B01G362400	chr4A	85.797	521	49	15	2007	2507	527575750	527575235	1.970000e-146	529.0
33	TraesCS2B01G362400	chr5D	89.068	1052	70	24	1834	2875	240170922	240171938	0.000000e+00	1264.0
34	TraesCS2B01G362400	chr5D	87.000	800	77	16	1729	2507	51196486	51195693	0.000000e+00	876.0
35	TraesCS2B01G362400	chr7A	91.176	816	42	12	1	801	219381511	219380711	0.000000e+00	1081.0
36	TraesCS2B01G362400	chr7A	91.184	397	29	3	960	1350	219380423	219380027	4.240000e-148	534.0
37	TraesCS2B01G362400	chr2A	85.608	1077	78	37	1831	2878	764687684	764686656	0.000000e+00	1059.0
38	TraesCS2B01G362400	chr3D	89.455	825	49	15	2	801	75768378	75767567	0.000000e+00	1007.0
39	TraesCS2B01G362400	chr6A	84.486	477	44	19	2396	2871	517370725	517371172	7.360000e-121	444.0
40	TraesCS2B01G362400	chr6A	92.164	268	20	1	2605	2871	603049355	603049622	7.570000e-101	377.0
41	TraesCS2B01G362400	chrUn	81.801	544	39	39	2362	2892	214469059	214469555	4.490000e-108	401.0
42	TraesCS2B01G362400	chrUn	81.800	489	34	35	2362	2838	365509868	365509423	2.740000e-95	359.0

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	TraesCS2B01G362400	chr2B	516098505	516101397	2892	False	5343.000000	5343	100.000000	1	2893	1	chr2B.!!$F1	2892
1	TraesCS2B01G362400	chr2B	198521451	198522363	912	True	1245.000000	1245	91.376000	1379	2288	1	chr2B.!!$R1	909
2	TraesCS2B01G362400	chr2B	592572595	592573613	1018	False	1170.000000	1170	87.585000	1489	2504	1	chr2B.!!$F2	1015
3	TraesCS2B01G362400	chr1A	330761464	330763536	2072	True	1576.500000	1823	94.446500	1	2092	2	chr1A.!!$R4	2091
4	TraesCS2B01G362400	chr1A	41411554	41412365	811	False	1013.000000	1013	89.576000	2	801	1	chr1A.!!$F1	799
5	TraesCS2B01G362400	chr1A	41318945	41320770	1825	True	1006.000000	1018	88.779000	2	1824	2	chr1A.!!$R3	1822
6	TraesCS2B01G362400	chr1A	330752143	330752931	788	True	1005.000000	1005	89.647000	2066	2875	1	chr1A.!!$R1	809
7	TraesCS2B01G362400	chr1A	569469284	569470029	745	True	811.000000	811	86.375000	2049	2817	1	chr1A.!!$R2	768
8	TraesCS2B01G362400	chr4B	369779062	369781764	2702	True	1503.000000	1674	87.872500	1	2609	2	chr4B.!!$R1	2608
9	TraesCS2B01G362400	chr6B	578015589	578018308	2719	False	1557.500000	1646	88.566500	1	2611	2	chr6B.!!$F1	2610
10	TraesCS2B01G362400	chr3A	323384527	323386776	2249	False	1223.000000	1437	89.641500	1	2258	2	chr3A.!!$F1	2257
11	TraesCS2B01G362400	chr3A	486210763	486212080	1317	True	557.666667	918	87.390000	734	2036	3	chr3A.!!$R1	1302
12	TraesCS2B01G362400	chr3B	52855540	52856645	1105	True	1410.000000	1410	89.982000	1379	2464	1	chr3B.!!$R1	1085
13	TraesCS2B01G362400	chr2D	348075292	348077548	2256	True	842.166667	1400	89.528000	2	2258	3	chr2D.!!$R1	2256
14	TraesCS2B01G362400	chr4A	527575235	527577812	2577	True	972.666667	1323	88.413667	2	2507	3	chr4A.!!$R1	2505
15	TraesCS2B01G362400	chr4A	624613476	624614222	746	False	808.000000	808	86.264000	2049	2818	1	chr4A.!!$F1	769
16	TraesCS2B01G362400	chr5D	240170922	240171938	1016	False	1264.000000	1264	89.068000	1834	2875	1	chr5D.!!$F1	1041
17	TraesCS2B01G362400	chr5D	51195693	51196486	793	True	876.000000	876	87.000000	1729	2507	1	chr5D.!!$R1	778
18	TraesCS2B01G362400	chr7A	219380027	219381511	1484	True	807.500000	1081	91.180000	1	1350	2	chr7A.!!$R1	1349
19	TraesCS2B01G362400	chr2A	764686656	764687684	1028	True	1059.000000	1059	85.608000	1831	2878	1	chr2A.!!$R1	1047
20	TraesCS2B01G362400	chr3D	75767567	75768378	811	True	1007.000000	1007	89.455000	2	801	1	chr3D.!!$R1	799

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
897	1154	0.105246	TTGGTGCCCCCACTTCAATT	60.105	50.0	0.0	0.0	45.19	2.32	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2014	2406	0.481567	CTCCATCCTTGGGCATGGAT	59.518	55.0	9.6	6.87	46.12	3.41	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
69	70	0.394762	ATGTGATGGCTGCGGTTGAT	60.395	50.000	0.00	0.00	0.00	2.57
199	202	7.573710	TGCAGGTATTAGTGAACCATTTAGAT	58.426	34.615	0.00	0.00	38.30	1.98
202	205	7.385205	CAGGTATTAGTGAACCATTTAGATCCG	59.615	40.741	0.00	0.00	38.30	4.18
213	216	4.881850	CCATTTAGATCCGTTTTAGTGGCT	59.118	41.667	0.00	0.00	0.00	4.75
214	217	5.357032	CCATTTAGATCCGTTTTAGTGGCTT	59.643	40.000	0.00	0.00	0.00	4.35
239	245	6.995511	TTTGATCGTTTCCTAATTACTGGG	57.004	37.500	0.00	0.00	0.00	4.45
295	301	1.399714	ATTCTACCTCGTGGATGCGA	58.600	50.000	11.17	0.00	39.22	5.10
302	308	2.414750	TCGTGGATGCGAGCTATGA	58.585	52.632	0.00	0.00	35.83	2.15
384	390	2.035449	CGCATGATGCCCTCAAAATGAT	59.965	45.455	12.40	0.00	41.12	2.45
668	674	5.355350	CCTGGTCACAAATTAGAGATGGTTC	59.645	44.000	0.00	0.00	0.00	3.62
672	678	3.065371	CACAAATTAGAGATGGTTCGGCC	59.935	47.826	0.00	0.00	37.90	6.13
732	738	1.064017	AGCTCAAGTGTTGGGTTTGGA	60.064	47.619	0.00	0.00	32.32	3.53
788	825	9.390795	GCTCAATTCTATGTTGTAATGCATTAG	57.609	33.333	19.41	8.01	0.00	1.73
888	1145	0.831711	ACAATTCTGTTGGTGCCCCC	60.832	55.000	0.00	0.00	28.57	5.40
889	1146	0.831288	CAATTCTGTTGGTGCCCCCA	60.831	55.000	0.00	0.00	43.27	4.96
890	1147	0.831711	AATTCTGTTGGTGCCCCCAC	60.832	55.000	0.00	0.00	45.19	4.61
891	1148	1.729267	ATTCTGTTGGTGCCCCCACT	61.729	55.000	0.00	0.00	45.19	4.00
892	1149	1.943730	TTCTGTTGGTGCCCCCACTT	61.944	55.000	0.00	0.00	45.19	3.16
893	1150	1.903404	CTGTTGGTGCCCCCACTTC	60.903	63.158	0.00	0.00	45.19	3.01
894	1151	2.197324	GTTGGTGCCCCCACTTCA	59.803	61.111	0.00	0.00	45.19	3.02
895	1152	1.456705	GTTGGTGCCCCCACTTCAA	60.457	57.895	0.00	0.00	45.19	2.69
896	1153	0.831711	GTTGGTGCCCCCACTTCAAT	60.832	55.000	0.00	0.00	45.19	2.57
897	1154	0.105246	TTGGTGCCCCCACTTCAATT	60.105	50.000	0.00	0.00	45.19	2.32
898	1155	0.541764	TGGTGCCCCCACTTCAATTC	60.542	55.000	0.00	0.00	41.75	2.17
899	1156	0.251787	GGTGCCCCCACTTCAATTCT	60.252	55.000	0.00	0.00	41.75	2.40
900	1157	1.005450	GGTGCCCCCACTTCAATTCTA	59.995	52.381	0.00	0.00	41.75	2.10
901	1158	2.358195	GGTGCCCCCACTTCAATTCTAT	60.358	50.000	0.00	0.00	41.75	1.98
902	1159	3.365472	GTGCCCCCACTTCAATTCTATT	58.635	45.455	0.00	0.00	38.93	1.73
903	1160	3.769300	GTGCCCCCACTTCAATTCTATTT	59.231	43.478	0.00	0.00	38.93	1.40
904	1161	4.023291	TGCCCCCACTTCAATTCTATTTC	58.977	43.478	0.00	0.00	0.00	2.17
905	1162	4.264352	TGCCCCCACTTCAATTCTATTTCT	60.264	41.667	0.00	0.00	0.00	2.52
906	1163	4.098501	GCCCCCACTTCAATTCTATTTCTG	59.901	45.833	0.00	0.00	0.00	3.02
907	1164	4.646492	CCCCCACTTCAATTCTATTTCTGG	59.354	45.833	0.00	0.00	0.00	3.86
908	1165	5.264395	CCCCACTTCAATTCTATTTCTGGT	58.736	41.667	0.00	0.00	0.00	4.00
909	1166	5.716703	CCCCACTTCAATTCTATTTCTGGTT	59.283	40.000	0.00	0.00	0.00	3.67
910	1167	6.127619	CCCCACTTCAATTCTATTTCTGGTTC	60.128	42.308	0.00	0.00	0.00	3.62
911	1168	6.660949	CCCACTTCAATTCTATTTCTGGTTCT	59.339	38.462	0.00	0.00	0.00	3.01
912	1169	7.177392	CCCACTTCAATTCTATTTCTGGTTCTT	59.823	37.037	0.00	0.00	0.00	2.52
913	1170	8.579863	CCACTTCAATTCTATTTCTGGTTCTTT	58.420	33.333	0.00	0.00	0.00	2.52
975	1255	7.068839	TGGTTCTTTCTAATTTTGTTGGTGCTA	59.931	33.333	0.00	0.00	0.00	3.49
1360	1687	4.822896	TCAAGGTTTGTACATAACCACACC	59.177	41.667	27.19	13.79	46.01	4.16
1414	1795	8.107095	AGCTATTTGACTAACCTTTCCATAACA	58.893	33.333	0.00	0.00	0.00	2.41
1526	1910	2.309528	TTGCTACAGGAAGGTATGCG	57.690	50.000	0.00	0.00	0.00	4.73
1675	2065	0.332632	CATGGGGAAGATGGTGGTGT	59.667	55.000	0.00	0.00	0.00	4.16
1794	2185	1.730501	CAACATGTCCGATGCAGTCT	58.269	50.000	0.00	0.00	0.00	3.24
1874	2265	1.559682	GTCATGGAGCTCCCTGGTTTA	59.440	52.381	30.60	14.05	33.21	2.01
1875	2266	1.839994	TCATGGAGCTCCCTGGTTTAG	59.160	52.381	30.60	10.57	33.21	1.85
1999	2391	1.547675	GCCATTCACCACCTCTCCAAA	60.548	52.381	0.00	0.00	0.00	3.28
2007	2399	2.105821	ACCACCTCTCCAAATTCAACGA	59.894	45.455	0.00	0.00	0.00	3.85
2055	2447	3.419858	CAAGGATGGAGTGCCCCT	58.580	61.111	0.00	0.00	0.00	4.79
2058	2522	3.813724	GGATGGAGTGCCCCTGGG	61.814	72.222	5.50	5.50	38.57	4.45
2147	2616	5.537188	TGTATTTGGTCAGAAAAACCATGC	58.463	37.500	0.00	0.00	45.89	4.06
2317	2808	8.880244	TGTGGCTCTATATATGTGGACTTTTAT	58.120	33.333	0.00	0.00	0.00	1.40
2438	2970	7.448748	AAACTACTTACATAAACAGGCAAGG	57.551	36.000	0.00	0.00	0.00	3.61
2441	2973	3.506067	ACTTACATAAACAGGCAAGGTGC	59.494	43.478	0.00	0.00	44.08	5.01
2463	2995	6.697019	GTGCTGCTGAAATTTTGTTTCTCTTA	59.303	34.615	0.00	0.00	0.00	2.10
2464	2996	6.697019	TGCTGCTGAAATTTTGTTTCTCTTAC	59.303	34.615	0.00	0.00	0.00	2.34
2465	2997	6.920210	GCTGCTGAAATTTTGTTTCTCTTACT	59.080	34.615	0.00	0.00	0.00	2.24
2466	2998	8.076178	GCTGCTGAAATTTTGTTTCTCTTACTA	58.924	33.333	0.00	0.00	0.00	1.82
2467	2999	9.950680	CTGCTGAAATTTTGTTTCTCTTACTAA	57.049	29.630	0.00	0.00	0.00	2.24
2876	3421	4.186856	GGAACCAAACACACCCATAATG	57.813	45.455	0.00	0.00	0.00	1.90
2877	3422	3.584834	GAACCAAACACACCCATAATGC	58.415	45.455	0.00	0.00	0.00	3.56
2878	3423	2.888212	ACCAAACACACCCATAATGCT	58.112	42.857	0.00	0.00	0.00	3.79
2879	3424	3.238597	ACCAAACACACCCATAATGCTT	58.761	40.909	0.00	0.00	0.00	3.91
2880	3425	3.006752	ACCAAACACACCCATAATGCTTG	59.993	43.478	0.00	0.00	0.00	4.01
2881	3426	3.257873	CCAAACACACCCATAATGCTTGA	59.742	43.478	0.00	0.00	0.00	3.02
2882	3427	4.262377	CCAAACACACCCATAATGCTTGAA	60.262	41.667	0.00	0.00	0.00	2.69
2883	3428	4.519540	AACACACCCATAATGCTTGAAC	57.480	40.909	0.00	0.00	0.00	3.18
2884	3429	3.495331	ACACACCCATAATGCTTGAACA	58.505	40.909	0.00	0.00	0.00	3.18
2885	3430	3.255642	ACACACCCATAATGCTTGAACAC	59.744	43.478	0.00	0.00	0.00	3.32
2886	3431	3.507233	CACACCCATAATGCTTGAACACT	59.493	43.478	0.00	0.00	0.00	3.55
2887	3432	3.758554	ACACCCATAATGCTTGAACACTC	59.241	43.478	0.00	0.00	0.00	3.51
2888	3433	4.012374	CACCCATAATGCTTGAACACTCT	58.988	43.478	0.00	0.00	0.00	3.24
2889	3434	4.095483	CACCCATAATGCTTGAACACTCTC	59.905	45.833	0.00	0.00	0.00	3.20
2890	3435	4.263462	ACCCATAATGCTTGAACACTCTCA	60.263	41.667	0.00	0.00	0.00	3.27
2891	3436	4.095483	CCCATAATGCTTGAACACTCTCAC	59.905	45.833	0.00	0.00	0.00	3.51
2892	3437	4.940046	CCATAATGCTTGAACACTCTCACT	59.060	41.667	0.00	0.00	0.00	3.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
69	70	7.722285	AGCACATAGGTAAACTTAAGGTCAAAA	59.278	33.333	7.53	0.00	0.00	2.44
214	217	7.666388	TCCCAGTAATTAGGAAACGATCAAAAA	59.334	33.333	0.00	0.00	0.00	1.94
239	245	4.632153	AGAGGTCATGTGTTGTGTTACTC	58.368	43.478	0.00	0.00	0.00	2.59
295	301	3.723235	CTGGCCGCACGTCATAGCT	62.723	63.158	0.00	0.00	0.00	3.32
384	390	3.118519	GGCGGAGGTTGAATAACTCCTTA	60.119	47.826	7.23	0.00	36.99	2.69
432	438	1.363807	GAAAGCTGCAAACGCCCTT	59.636	52.632	1.02	0.00	0.00	3.95
668	674	2.721231	CAAACATATGCCCGGCCG	59.279	61.111	21.04	21.04	0.00	6.13
732	738	5.938125	ACTTGAGCATTACACGGTAGAATTT	59.062	36.000	0.00	0.00	0.00	1.82
811	848	9.715123	CAAACAACAGCATACGATTATTTATGA	57.285	29.630	0.00	0.00	0.00	2.15
812	849	9.715123	TCAAACAACAGCATACGATTATTTATG	57.285	29.630	0.00	0.00	0.00	1.90
815	913	6.747280	GCTCAAACAACAGCATACGATTATTT	59.253	34.615	0.00	0.00	35.56	1.40
828	926	2.945008	TGAAGTGGAGCTCAAACAACAG	59.055	45.455	17.19	0.00	0.00	3.16
950	1207	6.280643	AGCACCAACAAAATTAGAAAGAACC	58.719	36.000	0.00	0.00	0.00	3.62
951	1208	9.476202	AATAGCACCAACAAAATTAGAAAGAAC	57.524	29.630	0.00	0.00	0.00	3.01
955	1212	9.050601	CCAAAATAGCACCAACAAAATTAGAAA	57.949	29.630	0.00	0.00	0.00	2.52
975	1255	8.877864	TCAATCCTATACAGAACAACCAAAAT	57.122	30.769	0.00	0.00	0.00	1.82
1360	1687	5.541953	TCAGGATGAGTGTGATTATGGAG	57.458	43.478	0.00	0.00	42.56	3.86
1414	1795	3.054361	GGGATGGTCCTACATGAAGTGTT	60.054	47.826	0.00	0.00	35.41	3.32
1675	2065	0.405198	TTCCTTCCCATGAGCAGCAA	59.595	50.000	0.00	0.00	0.00	3.91
1794	2185	5.939883	ACTTGATAGCAATAGCAACTTCACA	59.060	36.000	0.00	0.00	45.49	3.58
1839	2230	6.491403	AGCTCCATGACAGAATTGTAAAGTTT	59.509	34.615	0.00	0.00	37.76	2.66
1874	2265	5.245751	AGACAATCAATAGATCATCCTCGCT	59.754	40.000	0.00	0.00	31.90	4.93
1875	2266	5.477510	AGACAATCAATAGATCATCCTCGC	58.522	41.667	0.00	0.00	31.90	5.03
2014	2406	0.481567	CTCCATCCTTGGGCATGGAT	59.518	55.000	9.60	6.87	46.12	3.41
2039	2431	2.311854	CCAGGGGCACTCCATCCTT	61.312	63.158	0.00	0.00	37.22	3.36
2147	2616	9.565090	CATTTCATACATCACATATATAGGGGG	57.435	37.037	0.00	0.00	0.00	5.40
2261	2742	9.958180	CCATATGGTCATATTACAGTCCAATAA	57.042	33.333	14.09	0.00	31.98	1.40
2317	2808	6.930731	TCAAGTATACAGTGCAAGTACATCA	58.069	36.000	5.50	0.00	0.00	3.07
2424	2948	1.403249	GCAGCACCTTGCCTGTTTATG	60.403	52.381	0.00	0.00	46.52	1.90
2433	2965	2.159327	AAATTTCAGCAGCACCTTGC	57.841	45.000	0.00	0.00	45.46	4.01
2438	2970	5.045872	AGAGAAACAAAATTTCAGCAGCAC	58.954	37.500	0.00	0.00	0.00	4.40
2441	2973	9.950680	TTAGTAAGAGAAACAAAATTTCAGCAG	57.049	29.630	0.00	0.00	0.00	4.24
2466	2998	9.293404	TCTCTTCAAAATGACAGAGATGATTTT	57.707	29.630	13.42	0.00	36.59	1.82
2467	2999	8.859236	TCTCTTCAAAATGACAGAGATGATTT	57.141	30.769	13.42	0.00	36.59	2.17
2612	3155	9.781834	GTGTGCTTATACTTGCATGTAAAATAA	57.218	29.630	15.56	10.29	41.45	1.40
2613	3156	9.173021	AGTGTGCTTATACTTGCATGTAAAATA	57.827	29.630	15.56	3.53	41.45	1.40
2614	3157	8.055279	AGTGTGCTTATACTTGCATGTAAAAT	57.945	30.769	15.56	4.43	41.45	1.82
2615	3158	7.447374	AGTGTGCTTATACTTGCATGTAAAA	57.553	32.000	15.56	5.51	41.45	1.52
2616	3159	8.611757	CATAGTGTGCTTATACTTGCATGTAAA	58.388	33.333	15.56	10.43	41.45	2.01
2617	3160	7.984617	TCATAGTGTGCTTATACTTGCATGTAA	59.015	33.333	15.56	2.61	41.45	2.41
2618	3161	7.438160	GTCATAGTGTGCTTATACTTGCATGTA	59.562	37.037	14.16	14.16	41.45	2.29
2619	3162	6.258727	GTCATAGTGTGCTTATACTTGCATGT	59.741	38.462	10.40	10.40	41.45	3.21
2620	3163	6.258507	TGTCATAGTGTGCTTATACTTGCATG	59.741	38.462	0.00	0.00	41.45	4.06
2621	3164	6.348498	TGTCATAGTGTGCTTATACTTGCAT	58.652	36.000	0.00	0.00	41.45	3.96
2622	3165	5.729510	TGTCATAGTGTGCTTATACTTGCA	58.270	37.500	0.00	0.00	36.79	4.08
2623	3166	6.042777	TCTGTCATAGTGTGCTTATACTTGC	58.957	40.000	0.00	0.00	0.00	4.01
2624	3167	8.654230	AATCTGTCATAGTGTGCTTATACTTG	57.346	34.615	0.00	0.00	0.00	3.16
2625	3168	7.928706	GGAATCTGTCATAGTGTGCTTATACTT	59.071	37.037	0.00	0.00	0.00	2.24
2626	3169	7.069950	TGGAATCTGTCATAGTGTGCTTATACT	59.930	37.037	0.00	0.00	0.00	2.12
2627	3170	7.169982	GTGGAATCTGTCATAGTGTGCTTATAC	59.830	40.741	0.00	0.00	0.00	1.47
2628	3171	7.147742	TGTGGAATCTGTCATAGTGTGCTTATA	60.148	37.037	0.00	0.00	0.00	0.98
2629	3172	6.051717	GTGGAATCTGTCATAGTGTGCTTAT	58.948	40.000	0.00	0.00	0.00	1.73
2630	3173	5.046663	TGTGGAATCTGTCATAGTGTGCTTA	60.047	40.000	0.00	0.00	0.00	3.09
2631	3174	4.256920	GTGGAATCTGTCATAGTGTGCTT	58.743	43.478	0.00	0.00	0.00	3.91
2632	3175	3.261643	TGTGGAATCTGTCATAGTGTGCT	59.738	43.478	0.00	0.00	0.00	4.40
2867	3412	4.263462	TGAGAGTGTTCAAGCATTATGGGT	60.263	41.667	0.00	0.00	0.00	4.51

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.