AutoCloner

Multiple sequence alignment - TraesCS5D01G301400

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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	TraesCS5D01G301400	chr5D	100.000	3269	0	0	1	3269	398330244	398333512	0.000000e+00	6037
1	TraesCS5D01G301400	chr5D	98.383	742	8	1	2532	3269	300774282	300773541	0.000000e+00	1301
2	TraesCS5D01G301400	chr5D	81.877	1076	124	22	796	1838	398245502	398246539	0.000000e+00	841
3	TraesCS5D01G301400	chr5D	75.829	1055	169	50	830	1840	398482775	398483787	1.070000e-124	457
4	TraesCS5D01G301400	chr5D	89.394	132	14	0	2031	2162	398247706	398247837	2.020000e-37	167
5	TraesCS5D01G301400	chr5A	90.687	1761	127	16	796	2533	503398575	503400321	0.000000e+00	2309
6	TraesCS5D01G301400	chr5A	76.588	1055	159	48	791	1803	503485524	503486532	1.750000e-137	499
7	TraesCS5D01G301400	chr5A	76.035	1039	168	49	798	1803	503439247	503440237	6.390000e-127	464
8	TraesCS5D01G301400	chr5A	82.371	329	20	10	796	1111	503268404	503268707	5.410000e-63	252
9	TraesCS5D01G301400	chr7D	98.912	735	6	2	2536	3269	71494433	71495166	0.000000e+00	1312
10	TraesCS5D01G301400	chr7D	98.776	735	8	1	2536	3269	62989369	62990103	0.000000e+00	1306
11	TraesCS5D01G301400	chr7D	98.501	734	11	0	2536	3269	24367950	24367217	0.000000e+00	1295
12	TraesCS5D01G301400	chr7D	98.310	710	12	0	1	710	531091622	531090913	0.000000e+00	1245
13	TraesCS5D01G301400	chr2D	98.777	736	7	2	2535	3269	521781143	521780409	0.000000e+00	1308
14	TraesCS5D01G301400	chr2D	98.638	734	10	0	2536	3269	471695285	471694552	0.000000e+00	1301
15	TraesCS5D01G301400	chr4D	98.776	735	8	1	2536	3269	31203738	31203004	0.000000e+00	1306
16	TraesCS5D01G301400	chr4D	94.085	710	39	1	1	710	348156625	348157331	0.000000e+00	1075
17	TraesCS5D01G301400	chr4D	78.205	234	35	9	2166	2394	465909654	465909432	5.690000e-28	135
18	TraesCS5D01G301400	chr1D	98.512	739	7	2	2534	3269	2769159	2768422	0.000000e+00	1301
19	TraesCS5D01G301400	chr1D	97.042	710	21	0	1	710	465182501	465183210	0.000000e+00	1195
20	TraesCS5D01G301400	chr1D	96.056	710	25	1	1	710	42282935	42283641	0.000000e+00	1153
21	TraesCS5D01G301400	chr1D	95.634	710	31	0	1	710	435139020	435138311	0.000000e+00	1140
22	TraesCS5D01G301400	chr3D	98.246	741	8	3	2532	3269	100530004	100530742	0.000000e+00	1291
23	TraesCS5D01G301400	chr3D	97.183	710	20	0	1	710	598240809	598241518	0.000000e+00	1201
24	TraesCS5D01G301400	chr3D	96.197	710	24	1	1	710	607362303	607361597	0.000000e+00	1158
25	TraesCS5D01G301400	chrUn	98.732	710	9	0	1	710	43706452	43707161	0.000000e+00	1262
26	TraesCS5D01G301400	chrUn	79.897	194	26	5	2164	2346	94974850	94974659	2.650000e-26	130
27	TraesCS5D01G301400	chr6D	97.465	710	18	0	1	710	464017111	464017820	0.000000e+00	1212
28	TraesCS5D01G301400	chr5B	91.458	878	49	9	796	1657	478335692	478336559	0.000000e+00	1182
29	TraesCS5D01G301400	chr5B	88.222	883	71	8	1652	2533	478360484	478361334	0.000000e+00	1024
30	TraesCS5D01G301400	chr5B	75.992	1033	177	38	798	1803	478404593	478405581	4.940000e-128	468
31	TraesCS5D01G301400	chr5B	75.605	1033	161	35	804	1803	478425582	478426556	8.380000e-116	427
32	TraesCS5D01G301400	chr2A	82.836	268	30	11	2163	2418	40316546	40316809	3.280000e-55	226
33	TraesCS5D01G301400	chr6B	81.410	156	26	2	2264	2417	31870391	31870237	1.230000e-24	124

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	TraesCS5D01G301400	chr5D	398330244	398333512	3268	False	6037	6037	100.0000	1	3269	1	chr5D.!!$F1	3268
1	TraesCS5D01G301400	chr5D	300773541	300774282	741	True	1301	1301	98.3830	2532	3269	1	chr5D.!!$R1	737
2	TraesCS5D01G301400	chr5D	398245502	398247837	2335	False	504	841	85.6355	796	2162	2	chr5D.!!$F3	1366
3	TraesCS5D01G301400	chr5D	398482775	398483787	1012	False	457	457	75.8290	830	1840	1	chr5D.!!$F2	1010
4	TraesCS5D01G301400	chr5A	503398575	503400321	1746	False	2309	2309	90.6870	796	2533	1	chr5A.!!$F2	1737
5	TraesCS5D01G301400	chr5A	503485524	503486532	1008	False	499	499	76.5880	791	1803	1	chr5A.!!$F4	1012
6	TraesCS5D01G301400	chr5A	503439247	503440237	990	False	464	464	76.0350	798	1803	1	chr5A.!!$F3	1005
7	TraesCS5D01G301400	chr7D	71494433	71495166	733	False	1312	1312	98.9120	2536	3269	1	chr7D.!!$F2	733
8	TraesCS5D01G301400	chr7D	62989369	62990103	734	False	1306	1306	98.7760	2536	3269	1	chr7D.!!$F1	733
9	TraesCS5D01G301400	chr7D	24367217	24367950	733	True	1295	1295	98.5010	2536	3269	1	chr7D.!!$R1	733
10	TraesCS5D01G301400	chr7D	531090913	531091622	709	True	1245	1245	98.3100	1	710	1	chr7D.!!$R2	709
11	TraesCS5D01G301400	chr2D	521780409	521781143	734	True	1308	1308	98.7770	2535	3269	1	chr2D.!!$R2	734
12	TraesCS5D01G301400	chr2D	471694552	471695285	733	True	1301	1301	98.6380	2536	3269	1	chr2D.!!$R1	733
13	TraesCS5D01G301400	chr4D	31203004	31203738	734	True	1306	1306	98.7760	2536	3269	1	chr4D.!!$R1	733
14	TraesCS5D01G301400	chr4D	348156625	348157331	706	False	1075	1075	94.0850	1	710	1	chr4D.!!$F1	709
15	TraesCS5D01G301400	chr1D	2768422	2769159	737	True	1301	1301	98.5120	2534	3269	1	chr1D.!!$R1	735
16	TraesCS5D01G301400	chr1D	465182501	465183210	709	False	1195	1195	97.0420	1	710	1	chr1D.!!$F2	709
17	TraesCS5D01G301400	chr1D	42282935	42283641	706	False	1153	1153	96.0560	1	710	1	chr1D.!!$F1	709
18	TraesCS5D01G301400	chr1D	435138311	435139020	709	True	1140	1140	95.6340	1	710	1	chr1D.!!$R2	709
19	TraesCS5D01G301400	chr3D	100530004	100530742	738	False	1291	1291	98.2460	2532	3269	1	chr3D.!!$F1	737
20	TraesCS5D01G301400	chr3D	598240809	598241518	709	False	1201	1201	97.1830	1	710	1	chr3D.!!$F2	709
21	TraesCS5D01G301400	chr3D	607361597	607362303	706	True	1158	1158	96.1970	1	710	1	chr3D.!!$R1	709
22	TraesCS5D01G301400	chrUn	43706452	43707161	709	False	1262	1262	98.7320	1	710	1	chrUn.!!$F1	709
23	TraesCS5D01G301400	chr6D	464017111	464017820	709	False	1212	1212	97.4650	1	710	1	chr6D.!!$F1	709
24	TraesCS5D01G301400	chr5B	478335692	478336559	867	False	1182	1182	91.4580	796	1657	1	chr5B.!!$F1	861
25	TraesCS5D01G301400	chr5B	478360484	478361334	850	False	1024	1024	88.2220	1652	2533	1	chr5B.!!$F2	881
26	TraesCS5D01G301400	chr5B	478404593	478405581	988	False	468	468	75.9920	798	1803	1	chr5B.!!$F3	1005
27	TraesCS5D01G301400	chr5B	478425582	478426556	974	False	427	427	75.6050	804	1803	1	chr5B.!!$F4	999

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
730	740	0.609131	CCCTTTGTGACCGCCTCATT	60.609	55.0	0.0	0.0	0.0	2.57	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2438	3542	0.600057	AGGCAGCAAAAGCAAGTAGC	59.4	50.0	0.0	0.0	46.19	3.58	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
718	728	2.047560	GGCTACGACGCCCTTTGT	60.048	61.111	8.25	0.00	44.41	2.83
719	729	2.388232	GGCTACGACGCCCTTTGTG	61.388	63.158	8.25	0.00	44.41	3.33
720	730	1.373748	GCTACGACGCCCTTTGTGA	60.374	57.895	0.00	0.00	0.00	3.58
721	731	1.623973	GCTACGACGCCCTTTGTGAC	61.624	60.000	0.00	0.00	0.00	3.67
722	732	1.005867	TACGACGCCCTTTGTGACC	60.006	57.895	0.00	0.00	0.00	4.02
723	733	2.752322	TACGACGCCCTTTGTGACCG	62.752	60.000	0.00	0.00	0.00	4.79
724	734	3.723348	GACGCCCTTTGTGACCGC	61.723	66.667	0.00	0.00	0.00	5.68
727	737	3.056328	GCCCTTTGTGACCGCCTC	61.056	66.667	0.00	0.00	0.00	4.70
728	738	2.429930	CCCTTTGTGACCGCCTCA	59.570	61.111	0.00	0.00	0.00	3.86
729	739	1.002134	CCCTTTGTGACCGCCTCAT	60.002	57.895	0.00	0.00	0.00	2.90
730	740	0.609131	CCCTTTGTGACCGCCTCATT	60.609	55.000	0.00	0.00	0.00	2.57
731	741	1.247567	CCTTTGTGACCGCCTCATTT	58.752	50.000	0.00	0.00	0.00	2.32
732	742	2.432444	CCTTTGTGACCGCCTCATTTA	58.568	47.619	0.00	0.00	0.00	1.40
733	743	2.817258	CCTTTGTGACCGCCTCATTTAA	59.183	45.455	0.00	0.00	0.00	1.52
734	744	3.254657	CCTTTGTGACCGCCTCATTTAAA	59.745	43.478	0.00	0.00	0.00	1.52
735	745	4.082245	CCTTTGTGACCGCCTCATTTAAAT	60.082	41.667	0.00	0.00	0.00	1.40
736	746	5.461032	TTTGTGACCGCCTCATTTAAATT	57.539	34.783	0.00	0.00	0.00	1.82
737	747	4.433186	TGTGACCGCCTCATTTAAATTG	57.567	40.909	0.00	0.00	0.00	2.32
738	748	4.075682	TGTGACCGCCTCATTTAAATTGA	58.924	39.130	0.00	0.00	0.00	2.57
739	749	4.520874	TGTGACCGCCTCATTTAAATTGAA	59.479	37.500	0.00	0.00	0.00	2.69
740	750	5.184864	TGTGACCGCCTCATTTAAATTGAAT	59.815	36.000	0.00	0.00	0.00	2.57
741	751	6.375736	TGTGACCGCCTCATTTAAATTGAATA	59.624	34.615	0.00	0.00	0.00	1.75
742	752	7.068103	TGTGACCGCCTCATTTAAATTGAATAT	59.932	33.333	0.00	0.00	0.00	1.28
743	753	8.564574	GTGACCGCCTCATTTAAATTGAATATA	58.435	33.333	0.00	0.00	0.00	0.86
744	754	9.295825	TGACCGCCTCATTTAAATTGAATATAT	57.704	29.630	0.00	0.00	0.00	0.86
823	833	2.807676	ACTTGGCCATAAGTTCCTTGG	58.192	47.619	6.09	0.00	37.62	3.61
840	850	4.104102	TCCTTGGTTAGTTCCACTGTCAAT	59.896	41.667	0.00	0.00	37.20	2.57
971	992	5.704053	AGCAAACTTAGTTAATTACACGGCT	59.296	36.000	0.00	0.00	0.00	5.52
972	993	6.875195	AGCAAACTTAGTTAATTACACGGCTA	59.125	34.615	0.00	0.00	0.00	3.93
1031	1052	3.446161	CACCATTGGAGCATCAGAACAAT	59.554	43.478	10.37	0.00	36.25	2.71
1059	1091	4.327680	TGACTCATTTCTCTCGTCTCTGA	58.672	43.478	0.00	0.00	0.00	3.27
1230	1287	3.793144	GCAAGAGCAAGACCGCCG	61.793	66.667	0.00	0.00	41.58	6.46
1317	1374	3.233980	ACGCACTCACTCTGGCCA	61.234	61.111	4.71	4.71	0.00	5.36
1348	1405	1.134670	AGTGGACTATCGCAAGGCTTC	60.135	52.381	0.00	0.00	38.47	3.86
1350	1407	1.137086	TGGACTATCGCAAGGCTTCTC	59.863	52.381	0.00	0.00	38.47	2.87
1351	1408	1.137086	GGACTATCGCAAGGCTTCTCA	59.863	52.381	0.00	0.00	38.47	3.27
1360	1417	2.511145	GGCTTCTCAGCTCGGCAG	60.511	66.667	0.00	0.00	46.44	4.85
1485	1557	0.824595	TCCCCTCTTCAACGACGACA	60.825	55.000	0.00	0.00	0.00	4.35
1512	1584	1.139989	CTGCTGTTACAGTGGTGACG	58.860	55.000	14.23	0.00	36.37	4.35
1522	1594	2.234661	ACAGTGGTGACGATGATGATGT	59.765	45.455	0.00	0.00	0.00	3.06
1577	1658	2.357952	CGATGATGAGTTGTCGGTCCTA	59.642	50.000	0.00	0.00	0.00	2.94
1664	1745	4.519350	CAGGCTGCTGATATGTTCATCAAT	59.481	41.667	0.00	0.00	34.59	2.57
1712	1797	2.054232	TCTAGGGTCTAGCTTCCACG	57.946	55.000	0.00	0.00	0.00	4.94
1762	1853	2.994990	TTTTTCCCGAGTGTCCACG	58.005	52.632	0.00	0.00	36.20	4.94
1803	1898	6.043411	AGAAATCAATACGAGTAGGAGTTGC	58.957	40.000	0.00	0.00	0.00	4.17
1852	1947	8.443953	TTTGTCCTTTATTTTCCCAAATGTTG	57.556	30.769	0.00	0.00	34.29	3.33
1939	2035	6.886459	AGCACCAATCTTGATATTTGTACAGT	59.114	34.615	0.00	0.00	0.00	3.55
1944	2040	8.184192	CCAATCTTGATATTTGTACAGTGTTCC	58.816	37.037	0.00	0.00	0.00	3.62
2068	3170	4.440802	CCAGTCATCAGCTACTACCACTTC	60.441	50.000	0.00	0.00	0.00	3.01
2117	3219	4.307443	TCATACAGAGCCAATCTACACG	57.693	45.455	0.00	0.00	36.10	4.49
2228	3330	6.834168	AAATTCACATATTTCAGTCGGGTT	57.166	33.333	0.00	0.00	0.00	4.11
2266	3370	5.122396	ACCCTGAAATTTCGAGAAAGATTCG	59.878	40.000	13.34	12.19	35.02	3.34
2395	3499	8.550710	TTTCGAAGAGGTCCGAAATTATTTTA	57.449	30.769	0.00	0.00	45.90	1.52
2427	3531	6.731292	ACTAAAAACCTTGCTTTCTCCATT	57.269	33.333	0.00	0.00	0.00	3.16
2433	3537	4.948847	ACCTTGCTTTCTCCATTTCAAAC	58.051	39.130	0.00	0.00	0.00	2.93
2434	3538	4.202253	ACCTTGCTTTCTCCATTTCAAACC	60.202	41.667	0.00	0.00	0.00	3.27
2437	3541	2.028112	GCTTTCTCCATTTCAAACCCCC	60.028	50.000	0.00	0.00	0.00	5.40
2438	3542	1.917872	TTCTCCATTTCAAACCCCCG	58.082	50.000	0.00	0.00	0.00	5.73
2439	3543	0.610785	TCTCCATTTCAAACCCCCGC	60.611	55.000	0.00	0.00	0.00	6.13
2440	3544	0.611896	CTCCATTTCAAACCCCCGCT	60.612	55.000	0.00	0.00	0.00	5.52
2441	3545	0.699399	TCCATTTCAAACCCCCGCTA	59.301	50.000	0.00	0.00	0.00	4.26
2442	3546	0.815095	CCATTTCAAACCCCCGCTAC	59.185	55.000	0.00	0.00	0.00	3.58
2443	3547	1.615919	CCATTTCAAACCCCCGCTACT	60.616	52.381	0.00	0.00	0.00	2.57
2444	3548	2.167662	CATTTCAAACCCCCGCTACTT	58.832	47.619	0.00	0.00	0.00	2.24
2451	3555	0.893727	ACCCCCGCTACTTGCTTTTG	60.894	55.000	0.00	0.00	40.11	2.44
2480	3584	1.737838	TAGCATTGCTTTCCACTCCG	58.262	50.000	17.71	0.00	40.44	4.63
2619	3723	3.672511	CGGGACTAAATATGCGCGACTAT	60.673	47.826	12.10	2.10	38.72	2.12
3016	4124	3.668596	ACAACTTCGAACAAGTTTCCG	57.331	42.857	0.00	0.00	38.32	4.30
3117	4225	4.891756	TCGGTATAGTGTTCTCCTTTAGGG	59.108	45.833	0.00	0.00	35.41	3.53

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
219	220	1.004044	CAGTCAAGAGGGACATGCCTT	59.996	52.381	0.00	0.00	40.29	4.35
710	720	3.056328	GAGGCGGTCACAAAGGGC	61.056	66.667	0.00	0.00	0.00	5.19
711	721	0.609131	AATGAGGCGGTCACAAAGGG	60.609	55.000	0.00	0.00	38.28	3.95
712	722	1.247567	AAATGAGGCGGTCACAAAGG	58.752	50.000	0.00	0.00	38.28	3.11
713	723	4.497473	TTTAAATGAGGCGGTCACAAAG	57.503	40.909	0.00	0.00	38.28	2.77
714	724	5.010112	TCAATTTAAATGAGGCGGTCACAAA	59.990	36.000	0.39	0.00	38.28	2.83
715	725	4.520874	TCAATTTAAATGAGGCGGTCACAA	59.479	37.500	0.39	0.00	38.28	3.33
716	726	4.075682	TCAATTTAAATGAGGCGGTCACA	58.924	39.130	0.39	0.00	38.28	3.58
717	727	4.695217	TCAATTTAAATGAGGCGGTCAC	57.305	40.909	0.39	0.00	38.28	3.67
718	728	5.913137	ATTCAATTTAAATGAGGCGGTCA	57.087	34.783	0.39	0.00	40.38	4.02
840	850	7.069950	ACATGTGGAGTGAGCACTATAAGAATA	59.930	37.037	0.00	0.00	42.66	1.75
953	971	8.485591	GCAACTATAGCCGTGTAATTAACTAAG	58.514	37.037	0.00	0.00	0.00	2.18
971	992	3.259374	GCTAGCTGGAGGATGCAACTATA	59.741	47.826	7.70	0.00	34.60	1.31
972	993	2.038295	GCTAGCTGGAGGATGCAACTAT	59.962	50.000	7.70	0.00	34.60	2.12
1031	1052	2.419159	CGAGAGAAATGAGTCATGGGCA	60.419	50.000	6.34	0.00	0.00	5.36
1059	1091	5.253096	AGAAATGGTGTAGGTTACTGGGATT	59.747	40.000	0.00	0.00	0.00	3.01
1230	1287	3.934962	GGCGAGGATGAGGAGCCC	61.935	72.222	0.00	0.00	41.81	5.19
1280	1337	4.442192	GCGTGGATCTTCTTAGAGACCATT	60.442	45.833	0.00	0.00	40.41	3.16
1317	1374	0.251653	TAGTCCACTCTCTGCCGGTT	60.252	55.000	1.90	0.00	0.00	4.44
1348	1405	0.594540	CTCGATTCTGCCGAGCTGAG	60.595	60.000	0.00	0.00	45.37	3.35
1350	1407	4.009539	CTCGATTCTGCCGAGCTG	57.990	61.111	0.00	0.00	45.37	4.24
1360	1417	1.202313	CGACTGGTCCCTTCTCGATTC	60.202	57.143	0.00	0.00	0.00	2.52
1371	1428	2.504244	CGCGAAGTCGACTGGTCC	60.504	66.667	20.85	8.05	43.02	4.46
1485	1557	3.565482	CCACTGTAACAGCAGTTGACATT	59.435	43.478	4.52	0.00	46.45	2.71
1511	1583	2.490991	AGCACATCCACATCATCATCG	58.509	47.619	0.00	0.00	0.00	3.84
1512	1584	4.451435	CAGTAGCACATCCACATCATCATC	59.549	45.833	0.00	0.00	0.00	2.92
1522	1594	0.179076	CGCATCCAGTAGCACATCCA	60.179	55.000	0.00	0.00	0.00	3.41
1577	1658	3.372897	TCTCTTGCTCCTGATCACATCT	58.627	45.455	0.00	0.00	0.00	2.90
1712	1797	1.141053	CCTAGGCCAAGGTACATCCAC	59.859	57.143	5.01	0.00	39.02	4.02
1803	1898	4.569943	ACAGGTCATTGTGTGCTAAGTAG	58.430	43.478	0.00	0.00	0.00	2.57
1914	2010	6.886459	ACTGTACAAATATCAAGATTGGTGCT	59.114	34.615	0.00	0.00	29.40	4.40
1939	2035	3.948719	GTGAGGGGCGGTGGAACA	61.949	66.667	0.00	0.00	39.98	3.18
1944	2040	1.303236	TGATTTGTGAGGGGCGGTG	60.303	57.895	0.00	0.00	0.00	4.94
2043	3145	3.024547	TGGTAGTAGCTGATGACTGGTC	58.975	50.000	0.00	0.00	0.00	4.02
2058	3160	9.877178	CAGTATCTCTTTTAATGAAGTGGTAGT	57.123	33.333	0.00	0.00	0.00	2.73
2068	3170	8.345565	CCCGAATTTCCAGTATCTCTTTTAATG	58.654	37.037	0.00	0.00	0.00	1.90
2205	3307	6.403200	CGAACCCGACTGAAATATGTGAATTT	60.403	38.462	0.00	0.00	38.22	1.82
2206	3308	5.064707	CGAACCCGACTGAAATATGTGAATT	59.935	40.000	0.00	0.00	38.22	2.17
2207	3309	4.570772	CGAACCCGACTGAAATATGTGAAT	59.429	41.667	0.00	0.00	38.22	2.57
2228	3330	9.418045	GAAATTTCAGGGTCAAAAATATTTCGA	57.582	29.630	13.40	0.00	0.00	3.71
2241	3343	6.502136	AATCTTTCTCGAAATTTCAGGGTC	57.498	37.500	17.99	0.00	0.00	4.46
2376	3480	7.771826	TCGGAAATAAAATAATTTCGGACCTCT	59.228	33.333	12.67	0.00	43.99	3.69
2395	3499	6.156748	AGCAAGGTTTTTAGTTTCGGAAAT	57.843	33.333	6.43	0.00	0.00	2.17
2427	3531	0.891904	GCAAGTAGCGGGGGTTTGAA	60.892	55.000	0.00	0.00	0.00	2.69
2438	3542	0.600057	AGGCAGCAAAAGCAAGTAGC	59.400	50.000	0.00	0.00	46.19	3.58
2439	3543	2.157738	AGAGGCAGCAAAAGCAAGTAG	58.842	47.619	0.00	0.00	0.00	2.57
2440	3544	2.276732	AGAGGCAGCAAAAGCAAGTA	57.723	45.000	0.00	0.00	0.00	2.24
2441	3545	1.406903	AAGAGGCAGCAAAAGCAAGT	58.593	45.000	0.00	0.00	0.00	3.16
2442	3546	2.521105	AAAGAGGCAGCAAAAGCAAG	57.479	45.000	0.00	0.00	0.00	4.01
2443	3547	2.288395	GCTAAAGAGGCAGCAAAAGCAA	60.288	45.455	0.00	0.00	37.73	3.91
2444	3548	1.270550	GCTAAAGAGGCAGCAAAAGCA	59.729	47.619	0.00	0.00	37.73	3.91
2451	3555	1.101331	AGCAATGCTAAAGAGGCAGC	58.899	50.000	5.69	0.00	43.15	5.25
2480	3584	7.764443	TGTGGAGTTAGCACTATAGAAATGTTC	59.236	37.037	6.78	0.00	31.22	3.18
2753	3861	0.988832	TCCCGGTTAGCCACAAGAAT	59.011	50.000	0.00	0.00	34.09	2.40
3016	4124	5.680619	TGGTCATCCATCCTAATTGTGTAC	58.319	41.667	0.00	0.00	39.03	2.90
3117	4225	5.964958	TTTTCATGAGGGAAGTCATCAAC	57.035	39.130	0.00	0.00	34.81	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.