AutoCloner

Multiple sequence alignment - TraesCS2A01G531500

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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	TraesCS2A01G531500	chr2A	100.000	2273	0	0	1	2273	748541328	748543600	0.000000e+00	4198.0
1	TraesCS2A01G531500	chr2A	86.127	519	68	3	769	1287	748550397	748550911	7.090000e-155	556.0
2	TraesCS2A01G531500	chr2A	83.333	642	65	13	935	1570	748558242	748558847	2.550000e-154	555.0
3	TraesCS2A01G531500	chr2A	80.221	814	90	32	13	771	748533974	748534771	1.540000e-151	545.0
4	TraesCS2A01G531500	chr2A	80.000	800	97	34	773	1570	748534801	748535539	1.200000e-147	532.0
5	TraesCS2A01G531500	chr2A	82.824	425	51	17	1	413	748549562	748549976	5.970000e-96	361.0
6	TraesCS2A01G531500	chr2A	85.515	359	34	13	1570	1922	748558897	748559243	2.150000e-95	359.0
7	TraesCS2A01G531500	chr2A	78.447	631	75	35	1	617	748528651	748529234	2.780000e-94	355.0
8	TraesCS2A01G531500	chr2A	89.189	259	28	0	1012	1270	748528087	748528345	7.830000e-85	324.0
9	TraesCS2A01G531500	chr2A	79.286	420	50	14	668	1086	748529232	748529615	2.240000e-65	259.0
10	TraesCS2A01G531500	chr2A	91.667	108	8	1	1380	1487	748529616	748529722	5.060000e-32	148.0
11	TraesCS2A01G531500	chr2A	100.000	34	0	0	1537	1570	748529750	748529783	1.880000e-06	63.9
12	TraesCS2A01G531500	chr2B	82.430	1218	115	38	633	1812	753988177	753989333	0.000000e+00	972.0
13	TraesCS2A01G531500	chr2B	87.097	806	80	8	769	1570	754010756	754011541	0.000000e+00	891.0
14	TraesCS2A01G531500	chr2B	83.064	803	86	18	769	1570	754004440	754005193	0.000000e+00	684.0
15	TraesCS2A01G531500	chr2B	89.152	507	39	7	1777	2273	754011896	754012396	3.210000e-173	617.0
16	TraesCS2A01G531500	chr2B	86.760	574	45	11	1	545	753987500	753988071	5.370000e-171	610.0
17	TraesCS2A01G531500	chr2B	89.044	429	35	7	1854	2273	753989314	753989739	2.590000e-144	521.0
18	TraesCS2A01G531500	chr2B	81.562	640	65	25	1	595	754001807	754002438	1.580000e-131	479.0
19	TraesCS2A01G531500	chr2B	81.443	388	40	5	1570	1925	754005238	754005625	2.860000e-74	289.0
20	TraesCS2A01G531500	chr2B	82.566	304	34	4	334	618	754010311	754010614	1.350000e-62	250.0
21	TraesCS2A01G531500	chr2B	89.516	124	13	0	1380	1503	754014153	754014276	8.410000e-35	158.0
22	TraesCS2A01G531500	chr2B	92.537	67	5	0	710	776	754010674	754010740	1.860000e-16	97.1
23	TraesCS2A01G531500	chr2B	90.196	51	5	0	568	618	753988070	753988120	1.460000e-07	67.6
24	TraesCS2A01G531500	chr2B	93.023	43	3	0	1404	1446	753997429	753997471	1.880000e-06	63.9
25	TraesCS2A01G531500	chr2D	87.885	520	51	4	774	1287	618003880	618004393	3.230000e-168	601.0
26	TraesCS2A01G531500	chr2D	80.411	730	80	26	769	1487	618060516	618061193	4.360000e-137	497.0
27	TraesCS2A01G531500	chr2D	89.655	319	31	2	994	1311	618132561	618132878	2.720000e-109	405.0
28	TraesCS2A01G531500	chr2D	88.973	263	29	0	1011	1273	587111806	587111544	2.180000e-85	326.0
29	TraesCS2A01G531500	chr2D	77.256	532	57	33	264	766	618003342	618003838	1.040000e-63	254.0
30	TraesCS2A01G531500	chr2D	90.840	131	10	2	2011	2140	43409018	43408889	8.350000e-40	174.0
31	TraesCS2A01G531500	chr2D	89.130	138	13	2	2011	2147	458155122	458155258	1.080000e-38	171.0
32	TraesCS2A01G531500	chr2D	88.406	138	14	2	2011	2147	35507082	35507218	5.020000e-37	165.0
33	TraesCS2A01G531500	chr1A	93.525	139	7	2	2010	2147	558543111	558542974	2.960000e-49	206.0
34	TraesCS2A01G531500	chr7A	88.811	143	12	3	2008	2147	701493465	701493606	3.000000e-39	172.0
35	TraesCS2A01G531500	chrUn	88.406	138	15	1	2011	2147	46258679	46258542	5.020000e-37	165.0
36	TraesCS2A01G531500	chrUn	87.943	141	16	1	2008	2147	258935526	258935666	5.020000e-37	165.0

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	TraesCS2A01G531500	chr2A	748541328	748543600	2272	False	4198.00	4198	100.0000	1	2273	1	chr2A.!!$F1	2272
1	TraesCS2A01G531500	chr2A	748533974	748535539	1565	False	538.50	545	80.1105	13	1570	2	chr2A.!!$F3	1557
2	TraesCS2A01G531500	chr2A	748549562	748550911	1349	False	458.50	556	84.4755	1	1287	2	chr2A.!!$F4	1286
3	TraesCS2A01G531500	chr2A	748558242	748559243	1001	False	457.00	555	84.4240	935	1922	2	chr2A.!!$F5	987
4	TraesCS2A01G531500	chr2A	748528087	748529783	1696	False	229.98	355	87.7178	1	1570	5	chr2A.!!$F2	1569
5	TraesCS2A01G531500	chr2B	753987500	753989739	2239	False	542.65	972	87.1075	1	2273	4	chr2B.!!$F2	2272
6	TraesCS2A01G531500	chr2B	754001807	754005625	3818	False	484.00	684	82.0230	1	1925	3	chr2B.!!$F3	1924
7	TraesCS2A01G531500	chr2B	754010311	754014276	3965	False	402.62	891	88.1736	334	2273	5	chr2B.!!$F4	1939
8	TraesCS2A01G531500	chr2D	618060516	618061193	677	False	497.00	497	80.4110	769	1487	1	chr2D.!!$F3	718
9	TraesCS2A01G531500	chr2D	618003342	618004393	1051	False	427.50	601	82.5705	264	1287	2	chr2D.!!$F5	1023

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
619	3195	0.470766	ACAAAGTTCACACGGCCCTA	59.529	50.0	0.0	0.0	0.0	3.53	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1693	4542	0.109086	CTGTCGACTCGAGCCACAAT	60.109	55.0	17.92	0.0	36.23	2.71	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
190	780	8.814038	AATTCCCATATCTATATTGAAGGTGC	57.186	34.615	0.00	0.00	0.00	5.01
214	804	6.628844	GCCATCAAGCAATCCATTTAGTTTCT	60.629	38.462	0.00	0.00	0.00	2.52
221	811	7.500141	AGCAATCCATTTAGTTTCTGTTTTGT	58.500	30.769	0.00	0.00	0.00	2.83
269	862	7.837202	TGGTTCGTCCACAATAAATAGTTAG	57.163	36.000	0.00	0.00	41.93	2.34
291	888	1.141657	TGATCCTTACCATCTGCAGGC	59.858	52.381	15.13	0.00	0.00	4.85
308	912	3.719924	CAGGCTTTCTGATCAGAGCTAG	58.280	50.000	26.89	23.02	46.18	3.42
362	977	8.350722	GTTTTTCTTTCTAAGTTTCCTAGGGTG	58.649	37.037	9.46	0.00	0.00	4.61
378	993	2.028748	AGGGTGATGCAAGCAAATGAAC	60.029	45.455	0.00	0.00	28.10	3.18
432	1066	2.817258	TCTTTTGAACCATGCTAACCCG	59.183	45.455	0.00	0.00	0.00	5.28
438	1072	0.675522	ACCATGCTAACCCGTTTCCG	60.676	55.000	0.00	0.00	0.00	4.30
447	1082	4.033243	GCTAACCCGTTTCCGTAATAACAG	59.967	45.833	0.00	0.00	0.00	3.16
449	1084	2.302733	ACCCGTTTCCGTAATAACAGGT	59.697	45.455	0.00	0.00	31.77	4.00
471	1137	7.009265	CAGGTCGATAATACAACAGTGTAAGTG	59.991	40.741	10.60	2.17	43.41	3.16
567	1268	2.513204	CTGAGGCGCACAGATGGG	60.513	66.667	23.11	2.63	41.65	4.00
582	1283	0.836400	ATGGGTGAGTCCGGTGTCTT	60.836	55.000	0.00	0.00	37.00	3.01
602	3107	1.960689	TCTCCATCAGACGTTGACACA	59.039	47.619	0.00	0.00	38.99	3.72
606	3111	2.872245	CCATCAGACGTTGACACAAAGT	59.128	45.455	3.15	3.15	38.99	2.66
618	3194	1.101049	CACAAAGTTCACACGGCCCT	61.101	55.000	0.00	0.00	0.00	5.19
619	3195	0.470766	ACAAAGTTCACACGGCCCTA	59.529	50.000	0.00	0.00	0.00	3.53
620	3196	1.073284	ACAAAGTTCACACGGCCCTAT	59.927	47.619	0.00	0.00	0.00	2.57
621	3197	1.737793	CAAAGTTCACACGGCCCTATC	59.262	52.381	0.00	0.00	0.00	2.08
624	3200	2.463752	AGTTCACACGGCCCTATCTAA	58.536	47.619	0.00	0.00	0.00	2.10
625	3201	3.039011	AGTTCACACGGCCCTATCTAAT	58.961	45.455	0.00	0.00	0.00	1.73
626	3202	3.069729	AGTTCACACGGCCCTATCTAATC	59.930	47.826	0.00	0.00	0.00	1.75
628	3204	3.305720	TCACACGGCCCTATCTAATCTT	58.694	45.455	0.00	0.00	0.00	2.40
629	3205	3.321111	TCACACGGCCCTATCTAATCTTC	59.679	47.826	0.00	0.00	0.00	2.87
630	3206	2.633481	ACACGGCCCTATCTAATCTTCC	59.367	50.000	0.00	0.00	0.00	3.46
631	3207	2.900546	CACGGCCCTATCTAATCTTCCT	59.099	50.000	0.00	0.00	0.00	3.36
632	3208	2.900546	ACGGCCCTATCTAATCTTCCTG	59.099	50.000	0.00	0.00	0.00	3.86
634	3210	2.354203	GGCCCTATCTAATCTTCCTGCG	60.354	54.545	0.00	0.00	0.00	5.18
635	3211	2.300437	GCCCTATCTAATCTTCCTGCGT	59.700	50.000	0.00	0.00	0.00	5.24
636	3212	3.862642	GCCCTATCTAATCTTCCTGCGTG	60.863	52.174	0.00	0.00	0.00	5.34
651	3269	2.585247	GTGCGCGTCACCCCTATC	60.585	66.667	18.78	0.00	39.79	2.08
674	3292	7.667575	TCTAATCTTATCTCTCTGCCTTGTT	57.332	36.000	0.00	0.00	0.00	2.83
693	3311	3.701532	TTTGGCTGTAACGGACAAAAG	57.298	42.857	5.30	0.00	43.74	2.27
701	3319	1.815817	AACGGACAAAAGCATGGCCC	61.816	55.000	0.00	0.00	46.56	5.80
702	3320	2.274645	CGGACAAAAGCATGGCCCA	61.275	57.895	0.00	0.00	46.56	5.36
703	3321	1.293179	GGACAAAAGCATGGCCCAC	59.707	57.895	0.00	0.00	43.22	4.61
704	3322	1.187567	GGACAAAAGCATGGCCCACT	61.188	55.000	0.00	0.00	43.22	4.00
705	3323	0.681175	GACAAAAGCATGGCCCACTT	59.319	50.000	0.00	0.00	0.00	3.16
706	3324	1.892474	GACAAAAGCATGGCCCACTTA	59.108	47.619	0.00	0.00	0.00	2.24
794	3492	2.269241	GGCCGCCTGTTTAGCTCT	59.731	61.111	0.71	0.00	0.00	4.09
811	3509	3.712187	GCTCTGGCTCTTCTGTGTATAC	58.288	50.000	0.00	0.00	35.22	1.47
872	3586	1.284657	CAGCGTCAATTCAGCGAGAT	58.715	50.000	0.00	0.00	35.78	2.75
876	3590	2.469516	GCGTCAATTCAGCGAGATAGTC	59.530	50.000	0.00	0.00	0.00	2.59
882	3596	4.582701	ATTCAGCGAGATAGTCCAAGAG	57.417	45.455	0.00	0.00	0.00	2.85
915	3634	2.762745	TCTTTCAGTACCGCAACTTCC	58.237	47.619	0.00	0.00	0.00	3.46
923	3642	1.073199	CCGCAACTTCCCAAGTCCT	59.927	57.895	0.00	0.00	41.91	3.85
991	3713	1.597937	CGCAGCAAGAACAACAAGGAC	60.598	52.381	0.00	0.00	0.00	3.85
992	3714	1.405105	GCAGCAAGAACAACAAGGACA	59.595	47.619	0.00	0.00	0.00	4.02
998	3726	3.214696	AGAACAACAAGGACAAGGAGG	57.785	47.619	0.00	0.00	0.00	4.30
1008	3736	2.123982	CAAGGAGGGATGGCTGCC	60.124	66.667	12.87	12.87	0.00	4.85
1074	3802	4.785453	GCCCTCAAGGACCAGGCG	62.785	72.222	0.00	0.00	38.24	5.52
1174	3908	4.691359	AGGGCCCCAAGCAGCTTG	62.691	66.667	26.03	26.03	46.50	4.01
1240	3974	3.615811	AGGAGGGGCTGAGGACCA	61.616	66.667	0.00	0.00	44.19	4.02
1290	4024	9.134055	CCAAATTAGGAGTACTAGTAGCTTAGT	57.866	37.037	1.87	0.00	37.61	2.24
1305	4039	2.033151	GCTTAGTGGTGTTGTGTTCGTC	60.033	50.000	0.00	0.00	0.00	4.20
1350	4092	5.935945	ACCCCATGATCGATGTAAATACAA	58.064	37.500	0.54	0.00	39.99	2.41
1354	4096	6.293407	CCCATGATCGATGTAAATACAACACC	60.293	42.308	0.54	0.00	39.99	4.16
1372	4114	7.262772	ACAACACCATGATGATGATGAAAATC	58.737	34.615	4.00	0.00	26.29	2.17
1396	4138	6.203530	TCTCGGCTATGATGATGTTGAAAATC	59.796	38.462	0.00	0.00	0.00	2.17
1453	4221	4.158394	TGTGCTTCCATGGCTATTTTCTTC	59.842	41.667	6.96	0.00	0.00	2.87
1504	4273	5.992217	AGAGGAAGAATGTTCACAGTTACAC	59.008	40.000	0.00	0.00	0.00	2.90
1510	4279	1.485480	TGTTCACAGTTACACGGGGAA	59.515	47.619	0.00	0.00	33.44	3.97
1520	4289	0.106918	ACACGGGGAAAGCAACTCAA	60.107	50.000	0.00	0.00	0.00	3.02
1534	4303	3.044986	CAACTCAACAAAACGAGGCATG	58.955	45.455	0.00	0.00	33.36	4.06
1600	4432	0.108662	GGCTGCCCTCCAAAATTTCG	60.109	55.000	7.66	0.00	0.00	3.46
1614	4446	6.587226	TCCAAAATTTCGCATCTTCTTTGATG	59.413	34.615	0.00	0.00	44.72	3.07
1633	4465	1.697432	TGGAATTCGAACACCTCCAGT	59.303	47.619	18.79	0.00	32.42	4.00
1643	4475	1.598130	ACCTCCAGTTCGCTGCAAC	60.598	57.895	0.00	3.76	43.67	4.17
1666	4501	4.400251	CCGGTGGCCGTTAGAGATTATATA	59.600	45.833	0.00	0.00	46.80	0.86
1692	4541	3.815401	GTGTACTTTGACTGGATGTGCTT	59.185	43.478	0.00	0.00	0.00	3.91
1693	4542	4.994852	GTGTACTTTGACTGGATGTGCTTA	59.005	41.667	0.00	0.00	0.00	3.09
1711	4560	1.170442	TATTGTGGCTCGAGTCGACA	58.830	50.000	19.50	14.45	0.00	4.35
1744	4605	3.163594	GGCGAACATGTTCTGAATTTCG	58.836	45.455	30.45	19.41	39.02	3.46
1754	4615	1.460743	TCTGAATTTCGTTGCTCTGCG	59.539	47.619	0.00	0.00	0.00	5.18
1759	4621	0.531974	TTTCGTTGCTCTGCGGTCTT	60.532	50.000	0.00	0.00	0.00	3.01
1768	4630	1.078848	CTGCGGTCTTCTCAAGGGG	60.079	63.158	0.00	0.00	0.00	4.79
1771	4633	1.604378	CGGTCTTCTCAAGGGGCAT	59.396	57.895	0.00	0.00	0.00	4.40
1806	4808	3.106054	AGTGAGCCTGATCAGAGTGATT	58.894	45.455	24.62	2.78	37.20	2.57
1912	4920	1.933853	CAGGCAAGCCGTGTAGAATAC	59.066	52.381	5.28	0.00	41.04	1.89
1991	5006	7.434492	CAACGGTGACTATTAGAGATTATGGT	58.566	38.462	0.00	0.00	0.00	3.55
2017	5032	2.375174	TGTTCCTGTCCAACTAGGCATT	59.625	45.455	0.00	0.00	37.29	3.56
2104	5120	9.650539	TTCAGAATTCACTTCATTTTTGAAACA	57.349	25.926	8.44	0.00	36.24	2.83
2140	5156	2.731572	TGAACTAAGTAGGGTCGGAGG	58.268	52.381	0.00	0.00	0.00	4.30
2141	5157	2.030371	GAACTAAGTAGGGTCGGAGGG	58.970	57.143	0.00	0.00	0.00	4.30
2164	5180	4.000988	GACCCGCAACAAATTCTTCTCTA	58.999	43.478	0.00	0.00	0.00	2.43
2184	5200	8.117813	TCTCTAATTGTTTTAATGGGGAACAC	57.882	34.615	0.00	0.00	33.42	3.32
2202	5218	7.147742	GGGGAACACCATGTATATGTTTTTCAT	60.148	37.037	0.00	0.00	42.91	2.57
2234	5250	2.296692	CTTTGCGCGAATCGACCTGG	62.297	60.000	12.10	0.00	41.67	4.45

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	6.016192	TCAGAGATAACGGAATAGCTGTAAGG	60.016	42.308	0.00	0.00	34.15	2.69
135	720	3.070878	TGTCACTTCAACACCTGCAGATA	59.929	43.478	17.39	0.00	0.00	1.98
181	771	1.702182	TTGCTTGATGGCACCTTCAA	58.298	45.000	15.03	15.03	42.27	2.69
190	780	6.755141	CAGAAACTAAATGGATTGCTTGATGG	59.245	38.462	0.00	0.00	0.00	3.51
214	804	4.022068	GGAGGCAGATCAATGAACAAAACA	60.022	41.667	0.00	0.00	0.00	2.83
221	811	3.349927	CAACTGGAGGCAGATCAATGAA	58.650	45.455	0.00	0.00	0.00	2.57
229	819	1.073722	CCAAGCAACTGGAGGCAGA	59.926	57.895	0.00	0.00	38.96	4.26
269	862	2.492012	CTGCAGATGGTAAGGATCAGC	58.508	52.381	8.42	0.00	34.01	4.26
291	888	5.593909	TCTTCCTCTAGCTCTGATCAGAAAG	59.406	44.000	25.09	20.79	36.94	2.62
327	941	5.644636	ACTTAGAAAGAAAAACGTGTGACCA	59.355	36.000	0.00	0.00	0.00	4.02
362	977	1.997606	GCCAGTTCATTTGCTTGCATC	59.002	47.619	0.00	0.00	0.00	3.91
378	993	4.321527	GGATTCCTCTTGTTGAAAAGCCAG	60.322	45.833	0.00	0.00	30.68	4.85
432	1066	7.704789	ATTATCGACCTGTTATTACGGAAAC	57.295	36.000	0.00	0.00	31.98	2.78
438	1072	9.525409	ACTGTTGTATTATCGACCTGTTATTAC	57.475	33.333	0.00	0.00	0.00	1.89
447	1082	6.810182	ACACTTACACTGTTGTATTATCGACC	59.190	38.462	0.00	0.00	38.05	4.79
449	1084	7.595604	TGACACTTACACTGTTGTATTATCGA	58.404	34.615	0.00	0.00	38.05	3.59
471	1137	7.382110	ACTCATGGTACTGATATTATGCTGAC	58.618	38.462	0.00	0.00	0.00	3.51
562	1263	1.218316	GACACCGGACTCACCCATC	59.782	63.158	9.46	0.00	34.64	3.51
567	1268	0.244178	GGAGAAGACACCGGACTCAC	59.756	60.000	9.46	0.58	0.00	3.51
582	1283	1.960689	TGTGTCAACGTCTGATGGAGA	59.039	47.619	1.43	0.00	36.14	3.71
602	3107	1.628846	AGATAGGGCCGTGTGAACTTT	59.371	47.619	8.57	0.00	0.00	2.66
606	3111	3.305720	AGATTAGATAGGGCCGTGTGAA	58.694	45.455	8.57	0.00	0.00	3.18
618	3194	2.862530	GCGCACGCAGGAAGATTAGATA	60.863	50.000	10.65	0.00	41.49	1.98
619	3195	1.858091	CGCACGCAGGAAGATTAGAT	58.142	50.000	0.00	0.00	0.00	1.98
620	3196	0.806102	GCGCACGCAGGAAGATTAGA	60.806	55.000	10.65	0.00	41.49	2.10
621	3197	1.638467	GCGCACGCAGGAAGATTAG	59.362	57.895	10.65	0.00	41.49	1.73
624	3200	4.742201	ACGCGCACGCAGGAAGAT	62.742	61.111	16.04	0.00	45.53	2.40
651	3269	7.226325	CCAAACAAGGCAGAGAGATAAGATTAG	59.774	40.741	0.00	0.00	0.00	1.73
674	3292	1.335496	GCTTTTGTCCGTTACAGCCAA	59.665	47.619	0.00	0.00	39.87	4.52
678	3296	2.668279	GCCATGCTTTTGTCCGTTACAG	60.668	50.000	0.00	0.00	39.87	2.74
693	3311	0.609131	ACAGTGTAAGTGGGCCATGC	60.609	55.000	10.70	0.00	43.12	4.06
701	3319	2.030893	TCGTTCCCGTACAGTGTAAGTG	60.031	50.000	14.03	4.16	38.18	3.16
702	3320	2.227388	CTCGTTCCCGTACAGTGTAAGT	59.773	50.000	14.03	0.00	35.01	2.24
703	3321	2.485426	TCTCGTTCCCGTACAGTGTAAG	59.515	50.000	4.11	6.92	35.01	2.34
704	3322	2.485426	CTCTCGTTCCCGTACAGTGTAA	59.515	50.000	4.11	0.00	35.01	2.41
705	3323	2.079158	CTCTCGTTCCCGTACAGTGTA	58.921	52.381	0.00	0.00	35.01	2.90
706	3324	0.879765	CTCTCGTTCCCGTACAGTGT	59.120	55.000	0.00	0.00	35.01	3.55
738	3356	3.217626	AGCTCACTTTTGCTTGCTTACT	58.782	40.909	0.00	0.00	35.86	2.24
740	3358	3.480470	AGAGCTCACTTTTGCTTGCTTA	58.520	40.909	17.77	0.00	39.91	3.09
794	3492	3.055385	GGGTTGTATACACAGAAGAGCCA	60.055	47.826	4.68	0.00	35.67	4.75
803	3501	1.603306	GGGCGGGGTTGTATACACA	59.397	57.895	4.68	0.00	0.00	3.72
828	3526	2.637382	TGTGTTGATGGGAGCAAGAGTA	59.363	45.455	0.00	0.00	0.00	2.59
872	3586	4.348486	ACAGAGCTGATTCTCTTGGACTA	58.652	43.478	4.21	0.00	41.22	2.59
876	3590	4.205065	AGAACAGAGCTGATTCTCTTGG	57.795	45.455	4.21	0.00	41.22	3.61
882	3596	5.350091	GGTACTGAAAGAACAGAGCTGATTC	59.650	44.000	4.21	4.91	40.63	2.52
915	3634	2.766263	TGTATGGCAGTAGAGGACTTGG	59.234	50.000	0.00	0.00	35.64	3.61
923	3642	4.342378	GTGATCCTTCTGTATGGCAGTAGA	59.658	45.833	0.00	0.00	42.88	2.59
985	3705	0.394899	GCCATCCCTCCTTGTCCTTG	60.395	60.000	0.00	0.00	0.00	3.61
991	3713	2.123982	GGCAGCCATCCCTCCTTG	60.124	66.667	6.55	0.00	0.00	3.61
992	3714	3.424105	GGGCAGCCATCCCTCCTT	61.424	66.667	15.19	0.00	40.66	3.36
1027	3755	3.129502	CACGCTCATGGCCACCAG	61.130	66.667	8.16	8.21	36.75	4.00
1209	3943	3.077556	TCCTCGGCCTTCTCTGCC	61.078	66.667	0.00	0.00	45.70	4.85
1240	3974	2.092753	CCCAACAGCTGAGGTACATCAT	60.093	50.000	23.35	0.00	0.00	2.45
1290	4024	1.425267	CTGCGACGAACACAACACCA	61.425	55.000	0.00	0.00	0.00	4.17
1320	4060	2.180204	CGATCATGGGGTTGTCGCC	61.180	63.158	0.00	0.00	45.39	5.54
1350	4092	6.017357	CGAGATTTTCATCATCATCATGGTGT	60.017	38.462	5.73	0.00	41.40	4.16
1354	4096	5.181433	AGCCGAGATTTTCATCATCATCATG	59.819	40.000	0.00	0.00	0.00	3.07
1372	4114	5.739752	TTTTCAACATCATCATAGCCGAG	57.260	39.130	0.00	0.00	0.00	4.63
1396	4138	5.186021	AGGGTGATATAAACTCATAGCCGAG	59.814	44.000	0.00	0.00	39.05	4.63
1453	4221	3.132925	CAAACATCAACCTTTGGCCTTG	58.867	45.455	3.32	0.00	0.00	3.61
1504	4273	1.028905	TTGTTGAGTTGCTTTCCCCG	58.971	50.000	0.00	0.00	0.00	5.73
1510	4279	2.479560	GCCTCGTTTTGTTGAGTTGCTT	60.480	45.455	0.00	0.00	0.00	3.91
1520	4289	1.317613	TTCTGCATGCCTCGTTTTGT	58.682	45.000	16.68	0.00	0.00	2.83
1534	4303	3.304324	GCTGAAGTTCCTCTGTTTTCTGC	60.304	47.826	0.00	0.00	36.22	4.26
1594	4426	5.902613	TCCATCAAAGAAGATGCGAAATT	57.097	34.783	0.00	0.00	43.15	1.82
1600	4432	5.490139	TCGAATTCCATCAAAGAAGATGC	57.510	39.130	0.00	0.00	43.15	3.91
1614	4446	2.474410	ACTGGAGGTGTTCGAATTCC	57.526	50.000	0.00	7.30	0.00	3.01
1666	4501	5.278463	GCACATCCAGTCAAAGTACACAAAT	60.278	40.000	0.00	0.00	0.00	2.32
1692	4541	1.132453	CTGTCGACTCGAGCCACAATA	59.868	52.381	17.92	0.00	36.23	1.90
1693	4542	0.109086	CTGTCGACTCGAGCCACAAT	60.109	55.000	17.92	0.00	36.23	2.71
1711	4560	1.215647	GTTCGCCACCATCTCGTCT	59.784	57.895	0.00	0.00	0.00	4.18
1720	4581	1.234821	TTCAGAACATGTTCGCCACC	58.765	50.000	28.18	8.57	43.97	4.61
1744	4605	0.319900	TGAGAAGACCGCAGAGCAAC	60.320	55.000	0.00	0.00	0.00	4.17
1754	4615	0.620556	TCATGCCCCTTGAGAAGACC	59.379	55.000	0.00	0.00	0.00	3.85
1768	4630	6.709846	AGGCTCACTTTAATTAGATCTCATGC	59.290	38.462	0.00	0.00	0.00	4.06
1771	4633	7.423844	TCAGGCTCACTTTAATTAGATCTCA	57.576	36.000	0.00	0.00	0.00	3.27
1912	4920	2.315901	TGAATATGAGCATCGTACGCG	58.684	47.619	11.24	3.53	39.83	6.01
1916	4924	8.661352	TTCAAATTCTGAATATGAGCATCGTA	57.339	30.769	2.85	0.00	41.53	3.43
1991	5006	0.828022	AGTTGGACAGGAACACGACA	59.172	50.000	0.00	0.00	0.00	4.35
2140	5156	0.966179	AAGAATTTGTTGCGGGTCCC	59.034	50.000	0.00	0.00	0.00	4.46
2141	5157	1.886542	AGAAGAATTTGTTGCGGGTCC	59.113	47.619	0.00	0.00	0.00	4.46
2164	5180	5.896073	TGGTGTTCCCCATTAAAACAATT	57.104	34.783	0.00	0.00	34.90	2.32
2184	5200	9.800433	TGCAACTAATGAAAAACATATACATGG	57.200	29.630	0.00	0.00	38.38	3.66
2220	5236	2.956964	GAGCCAGGTCGATTCGCG	60.957	66.667	0.00	0.00	42.69	5.87

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.