AutoCloner

Multiple sequence alignment - TraesCS5A01G308000

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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	TraesCS5A01G308000	chr5A	100.000	2914	0	0	1	2914	520533477	520530564	0.000000e+00	5382
1	TraesCS5A01G308000	chr5B	91.399	1058	48	24	10	1051	491175014	491173984	0.000000e+00	1410
2	TraesCS5A01G308000	chr5B	94.963	814	36	2	1099	1909	491173962	491173151	0.000000e+00	1271
3	TraesCS5A01G308000	chr5B	85.850	841	109	9	2078	2914	436835922	436836756	0.000000e+00	885
4	TraesCS5A01G308000	chr5D	95.718	864	36	1	2052	2914	409343496	409342633	0.000000e+00	1389
5	TraesCS5A01G308000	chr5D	94.009	918	31	5	1120	2027	409358243	409357340	0.000000e+00	1369
6	TraesCS5A01G308000	chr5D	90.223	1074	53	24	2	1054	409009205	409008163	0.000000e+00	1354
7	TraesCS5A01G308000	chr5D	88.285	1067	53	30	3	1042	409359397	409358376	0.000000e+00	1212
8	TraesCS5A01G308000	chr5D	90.358	923	50	15	1108	2024	409008151	409007262	0.000000e+00	1175
9	TraesCS5A01G308000	chr5D	80.670	895	142	25	2036	2914	287694858	287695737	0.000000e+00	665
10	TraesCS5A01G308000	chr7A	86.996	892	107	9	2027	2913	406080928	406080041	0.000000e+00	996
11	TraesCS5A01G308000	chr7A	86.629	890	112	7	2027	2913	406101281	406100396	0.000000e+00	977
12	TraesCS5A01G308000	chr7A	86.034	895	111	12	2027	2913	443540032	443540920	0.000000e+00	948
13	TraesCS5A01G308000	chr4D	86.659	892	102	16	2029	2913	21870201	21869320	0.000000e+00	972
14	TraesCS5A01G308000	chr4D	81.266	758	102	25	1127	1864	30755116	30755853	7.000000e-161	577
15	TraesCS5A01G308000	chr4D	83.824	544	70	10	1357	1885	477363426	477362886	4.340000e-138	501
16	TraesCS5A01G308000	chr4D	84.500	200	23	6	1665	1860	30757513	30757708	1.070000e-44	191
17	TraesCS5A01G308000	chr1B	81.911	879	140	16	2036	2906	297390620	297389753	0.000000e+00	725
18	TraesCS5A01G308000	chr4B	80.134	896	150	24	2032	2914	56488952	56488072	0.000000e+00	643
19	TraesCS5A01G308000	chr4B	81.175	749	90	29	1146	1864	44082734	44083461	3.280000e-154	555
20	TraesCS5A01G308000	chr4B	89.438	445	39	6	1423	1860	44118916	44119359	3.280000e-154	555
21	TraesCS5A01G308000	chr4B	84.280	528	65	10	1372	1884	602039128	602038604	1.560000e-137	499
22	TraesCS5A01G308000	chr4A	89.593	442	37	4	1428	1860	571971958	571972399	1.180000e-153	553
23	TraesCS5A01G308000	chr4A	89.655	58	6	0	749	806	571971344	571971401	1.120000e-09	75
24	TraesCS5A01G308000	chrUn	93.939	66	4	0	1798	1863	455635117	455635052	1.850000e-17	100

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	TraesCS5A01G308000	chr5A	520530564	520533477	2913	True	5382.0	5382	100.0000	1	2914	1	chr5A.!!$R1	2913
1	TraesCS5A01G308000	chr5B	491173151	491175014	1863	True	1340.5	1410	93.1810	10	1909	2	chr5B.!!$R1	1899
2	TraesCS5A01G308000	chr5B	436835922	436836756	834	False	885.0	885	85.8500	2078	2914	1	chr5B.!!$F1	836
3	TraesCS5A01G308000	chr5D	409342633	409343496	863	True	1389.0	1389	95.7180	2052	2914	1	chr5D.!!$R1	862
4	TraesCS5A01G308000	chr5D	409357340	409359397	2057	True	1290.5	1369	91.1470	3	2027	2	chr5D.!!$R3	2024
5	TraesCS5A01G308000	chr5D	409007262	409009205	1943	True	1264.5	1354	90.2905	2	2024	2	chr5D.!!$R2	2022
6	TraesCS5A01G308000	chr5D	287694858	287695737	879	False	665.0	665	80.6700	2036	2914	1	chr5D.!!$F1	878
7	TraesCS5A01G308000	chr7A	406080041	406080928	887	True	996.0	996	86.9960	2027	2913	1	chr7A.!!$R1	886
8	TraesCS5A01G308000	chr7A	406100396	406101281	885	True	977.0	977	86.6290	2027	2913	1	chr7A.!!$R2	886
9	TraesCS5A01G308000	chr7A	443540032	443540920	888	False	948.0	948	86.0340	2027	2913	1	chr7A.!!$F1	886
10	TraesCS5A01G308000	chr4D	21869320	21870201	881	True	972.0	972	86.6590	2029	2913	1	chr4D.!!$R1	884
11	TraesCS5A01G308000	chr4D	477362886	477363426	540	True	501.0	501	83.8240	1357	1885	1	chr4D.!!$R2	528
12	TraesCS5A01G308000	chr4D	30755116	30757708	2592	False	384.0	577	82.8830	1127	1864	2	chr4D.!!$F1	737
13	TraesCS5A01G308000	chr1B	297389753	297390620	867	True	725.0	725	81.9110	2036	2906	1	chr1B.!!$R1	870
14	TraesCS5A01G308000	chr4B	56488072	56488952	880	True	643.0	643	80.1340	2032	2914	1	chr4B.!!$R1	882
15	TraesCS5A01G308000	chr4B	44082734	44083461	727	False	555.0	555	81.1750	1146	1864	1	chr4B.!!$F1	718
16	TraesCS5A01G308000	chr4B	602038604	602039128	524	True	499.0	499	84.2800	1372	1884	1	chr4B.!!$R2	512
17	TraesCS5A01G308000	chr4A	571971344	571972399	1055	False	314.0	553	89.6240	749	1860	2	chr4A.!!$F1	1111

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
452	476	0.179026	CTCTGTCTGCATCCCATGGG	60.179	60.0	26.3	26.3	0.0	4.0	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1949	4045	0.17668	GAAATGGCAGGAGCTCTCGA	59.823	55.0	14.64	1.13	41.7	4.04	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
95	100	4.558860	GGCTTCTTTTCGCATTTGTATGTC	59.441	41.667	0.00	0.00	34.12	3.06
117	123	2.596904	AGACGCGTACAGCCAAATAT	57.403	45.000	13.97	0.00	44.76	1.28
120	126	4.049186	AGACGCGTACAGCCAAATATAAG	58.951	43.478	13.97	0.00	44.76	1.73
133	139	5.649395	GCCAAATATAAGCTGCTGGATATCA	59.351	40.000	1.35	0.00	0.00	2.15
140	146	5.557576	AAGCTGCTGGATATCATTGTAGA	57.442	39.130	1.35	0.00	0.00	2.59
267	277	5.452944	CGAGAAAGAGTGTATAGAAAGCGTC	59.547	44.000	0.00	0.00	0.00	5.19
452	476	0.179026	CTCTGTCTGCATCCCATGGG	60.179	60.000	26.30	26.30	0.00	4.00
454	478	2.280404	CTGTCTGCATCCCATGGGCT	62.280	60.000	27.41	14.87	34.68	5.19
488	516	2.965477	GCAGCAGCAGTAATGATAGC	57.035	50.000	0.00	0.00	41.58	2.97
491	519	3.725490	CAGCAGCAGTAATGATAGCTCA	58.275	45.455	0.00	0.00	34.61	4.26
611	640	2.886604	GCATGGCGCCGTACGTTA	60.887	61.111	23.37	0.59	46.11	3.18
699	728	8.904099	ATTTGGGTTAGATTGCATACTACTAC	57.096	34.615	0.00	0.00	0.00	2.73
700	729	7.670605	TTGGGTTAGATTGCATACTACTACT	57.329	36.000	0.00	0.00	0.00	2.57
701	730	7.670605	TGGGTTAGATTGCATACTACTACTT	57.329	36.000	0.00	0.00	0.00	2.24
702	731	8.771521	TGGGTTAGATTGCATACTACTACTTA	57.228	34.615	0.00	0.00	0.00	2.24
703	732	8.636213	TGGGTTAGATTGCATACTACTACTTAC	58.364	37.037	0.00	0.00	0.00	2.34
704	733	7.806960	GGGTTAGATTGCATACTACTACTTACG	59.193	40.741	0.00	0.00	0.00	3.18
705	734	8.348507	GGTTAGATTGCATACTACTACTTACGT	58.651	37.037	0.00	0.00	0.00	3.57
729	758	9.353999	CGTATATACGTACCTACTGTGTATACA	57.646	37.037	24.02	0.08	44.13	2.29
753	787	7.093640	ACACGTATTAGGAAAAGATACTGACCA	60.094	37.037	0.00	0.00	0.00	4.02
839	894	2.371179	TCGTCCATACTAGATCGGTCCT	59.629	50.000	0.00	0.00	0.00	3.85
859	914	4.802051	ATGCAATGCGAGGCCCGT	62.802	61.111	13.97	0.00	41.15	5.28
862	917	2.125310	CAATGCGAGGCCCGTGTA	60.125	61.111	13.97	0.00	41.15	2.90
863	918	2.173669	CAATGCGAGGCCCGTGTAG	61.174	63.158	13.97	1.18	41.15	2.74
864	919	4.530857	ATGCGAGGCCCGTGTAGC	62.531	66.667	13.97	2.00	41.15	3.58
967	1036	1.781025	TTTGTTCGCTGAACGCTGGG	61.781	55.000	13.90	0.00	44.55	4.45
981	1050	7.228906	GCTGAACGCTGGGTATATATATAGAGA	59.771	40.741	2.53	0.00	35.14	3.10
982	1051	8.678593	TGAACGCTGGGTATATATATAGAGAG	57.321	38.462	2.53	4.68	0.00	3.20
983	1052	8.491958	TGAACGCTGGGTATATATATAGAGAGA	58.508	37.037	2.53	0.00	0.00	3.10
1042	1121	5.400782	CGTATATGCTGCTGTCTTAACTCTG	59.599	44.000	0.00	0.00	0.00	3.35
1043	1122	2.462456	TGCTGCTGTCTTAACTCTGG	57.538	50.000	0.00	0.00	0.00	3.86
1053	1132	6.419413	GCTGTCTTAACTCTGGATTATCTTCG	59.581	42.308	0.00	0.00	0.00	3.79
1055	1134	8.239038	TGTCTTAACTCTGGATTATCTTCGAT	57.761	34.615	0.00	0.00	0.00	3.59
1056	1135	8.138074	TGTCTTAACTCTGGATTATCTTCGATG	58.862	37.037	0.00	0.00	0.00	3.84
1058	1137	4.944619	ACTCTGGATTATCTTCGATGCA	57.055	40.909	0.00	0.00	0.00	3.96
1059	1138	5.282055	ACTCTGGATTATCTTCGATGCAA	57.718	39.130	0.00	0.00	0.00	4.08
1060	1139	5.674525	ACTCTGGATTATCTTCGATGCAAA	58.325	37.500	0.00	0.00	0.00	3.68
1061	1140	6.115446	ACTCTGGATTATCTTCGATGCAAAA	58.885	36.000	0.00	0.00	0.00	2.44
1062	1141	6.599244	ACTCTGGATTATCTTCGATGCAAAAA	59.401	34.615	0.00	0.00	0.00	1.94
1094	1173	1.964223	GGATTATCTCTGCCTCGTCCA	59.036	52.381	0.00	0.00	0.00	4.02
1099	1178	1.079543	CTCTGCCTCGTCCACAAGG	60.080	63.158	0.00	0.00	35.65	3.61
1106	1185	0.895530	CTCGTCCACAAGGCTTAGGA	59.104	55.000	14.57	14.57	33.74	2.94
1142	1314	3.821587	ACATGGAGCTACCTACAGGTGAA	60.822	47.826	11.29	0.00	44.75	3.18
1184	1356	3.133183	ACTCTATTTCTTTCTCCTCCGGC	59.867	47.826	0.00	0.00	0.00	6.13
1214	1386	1.059838	CACACATCATCAGCGTGCG	59.940	57.895	0.00	0.00	33.89	5.34
1290	1478	0.470341	GGAAGCTACCTCCATCACCC	59.530	60.000	0.00	0.00	0.00	4.61
1294	1482	1.904771	CTACCTCCATCACCCGCAA	59.095	57.895	0.00	0.00	0.00	4.85
1295	1483	0.179073	CTACCTCCATCACCCGCAAG	60.179	60.000	0.00	0.00	0.00	4.01
1353	1565	4.314440	GCGACCACAGTGGAGGCA	62.314	66.667	27.39	0.00	40.96	4.75
1757	1993	1.593209	GAAGACGGGCACGACAACA	60.593	57.895	19.19	0.00	44.60	3.33
1946	4042	1.296056	CCGTCATGGTGAACCGAACC	61.296	60.000	0.00	0.00	39.43	3.62
1947	4043	1.623081	CGTCATGGTGAACCGAACCG	61.623	60.000	0.00	0.00	40.86	4.44
1948	4044	0.320073	GTCATGGTGAACCGAACCGA	60.320	55.000	0.00	0.00	40.86	4.69
1949	4045	0.611200	TCATGGTGAACCGAACCGAT	59.389	50.000	0.00	0.00	40.86	4.18
2044	4140	3.936453	CGTTTAGTTCATCGGGATTTCCA	59.064	43.478	0.00	0.00	37.91	3.53
2050	4146	3.213206	TCATCGGGATTTCCATGAAGG	57.787	47.619	0.00	0.00	37.91	3.46
2057	4153	2.244769	GGATTTCCATGAAGGGGAAGGA	59.755	50.000	0.00	0.00	44.70	3.36
2089	4187	5.117287	GCATAGTAGCGAAGTATTTTCCTCG	59.883	44.000	0.00	0.00	0.00	4.63
2103	4201	8.487028	AGTATTTTCCTCGGTTAAGAATCAGAT	58.513	33.333	0.00	0.00	0.00	2.90
2156	4256	4.725790	ACAGATAAACGGTACCTACACC	57.274	45.455	10.90	0.00	35.04	4.16
2198	4302	2.002018	AACGAAGGCAAGGGGGTTGA	62.002	55.000	0.00	0.00	38.60	3.18
2382	4490	7.391554	GCATCTCTCCCATAAGCATAATAACAA	59.608	37.037	0.00	0.00	0.00	2.83
2509	4620	2.704596	AGCATCCATCTGCATCTACTGT	59.295	45.455	0.00	0.00	44.77	3.55
2888	5004	9.418839	TCCATATCATAAAACCACAATTCATCA	57.581	29.630	0.00	0.00	0.00	3.07

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
42	45	9.809096	CTCTTTCGTGCATGGTTCTATATATAT	57.191	33.333	5.98	0.00	0.00	0.86
43	46	8.803235	ACTCTTTCGTGCATGGTTCTATATATA	58.197	33.333	5.98	0.00	0.00	0.86
44	47	7.671302	ACTCTTTCGTGCATGGTTCTATATAT	58.329	34.615	5.98	0.00	0.00	0.86
45	48	7.050970	ACTCTTTCGTGCATGGTTCTATATA	57.949	36.000	5.98	0.00	0.00	0.86
80	83	3.060230	CGTCTTCGACATACAAATGCGAA	59.940	43.478	13.10	13.10	43.12	4.70
82	85	2.842069	GCGTCTTCGACATACAAATGCG	60.842	50.000	0.00	0.00	39.71	4.73
95	100	1.279527	TTTGGCTGTACGCGTCTTCG	61.280	55.000	18.63	3.96	40.44	3.79
109	114	5.649395	TGATATCCAGCAGCTTATATTTGGC	59.351	40.000	0.00	0.00	0.00	4.52
117	123	6.670695	TCTACAATGATATCCAGCAGCTTA	57.329	37.500	0.00	0.00	0.00	3.09
120	126	4.094590	GCATCTACAATGATATCCAGCAGC	59.905	45.833	0.00	0.00	0.00	5.25
133	139	8.796475	ACTCACTAAACAATTTGCATCTACAAT	58.204	29.630	0.00	0.00	0.00	2.71
140	146	4.832266	TGGGACTCACTAAACAATTTGCAT	59.168	37.500	0.00	0.00	0.00	3.96
267	277	2.031314	TCTCGTACGATTCCTAGCAACG	59.969	50.000	19.87	2.30	0.00	4.10
299	309	6.258068	GGCTCACATAGTTTACGCTTTCTATT	59.742	38.462	0.00	0.00	0.00	1.73
488	516	1.526686	TGCAAGCACACACCCTGAG	60.527	57.895	0.00	0.00	0.00	3.35
611	640	1.097547	GGGTGCATGCATCTACGCTT	61.098	55.000	29.06	0.00	0.00	4.68
705	734	9.353999	CGTGTATACACAGTAGGTACGTATATA	57.646	37.037	30.17	0.00	46.75	0.86
706	735	7.872993	ACGTGTATACACAGTAGGTACGTATAT	59.127	37.037	30.17	5.32	46.75	0.86
707	736	7.207383	ACGTGTATACACAGTAGGTACGTATA	58.793	38.462	30.17	0.00	46.75	1.47
708	737	6.049149	ACGTGTATACACAGTAGGTACGTAT	58.951	40.000	30.17	5.88	46.75	3.06
709	738	5.416083	ACGTGTATACACAGTAGGTACGTA	58.584	41.667	30.17	0.00	46.75	3.57
710	739	4.253685	ACGTGTATACACAGTAGGTACGT	58.746	43.478	30.17	18.38	46.75	3.57
711	740	4.864916	ACGTGTATACACAGTAGGTACG	57.135	45.455	30.17	17.82	46.75	3.67
712	741	8.499162	CCTAATACGTGTATACACAGTAGGTAC	58.501	40.741	30.17	5.67	46.75	3.34
729	758	7.341256	TCTGGTCAGTATCTTTTCCTAATACGT	59.659	37.037	0.00	0.00	32.39	3.57
730	759	7.713750	TCTGGTCAGTATCTTTTCCTAATACG	58.286	38.462	0.00	0.00	32.39	3.06
731	760	9.482627	CATCTGGTCAGTATCTTTTCCTAATAC	57.517	37.037	0.00	0.00	0.00	1.89
744	778	0.753262	GGGCGTCATCTGGTCAGTAT	59.247	55.000	0.00	0.00	0.00	2.12
747	781	2.202797	CGGGCGTCATCTGGTCAG	60.203	66.667	0.00	0.00	0.00	3.51
851	906	1.437986	CTACAGCTACACGGGCCTC	59.562	63.158	0.84	0.00	0.00	4.70
863	918	1.139654	TGTCCATCCATCAGCTACAGC	59.860	52.381	0.00	0.00	42.49	4.40
864	919	3.118482	ACTTGTCCATCCATCAGCTACAG	60.118	47.826	0.00	0.00	0.00	2.74
983	1052	9.610705	ACGAGACAATCCGTATATACAGTATAT	57.389	33.333	15.96	15.96	37.23	0.86
985	1054	7.918536	ACGAGACAATCCGTATATACAGTAT	57.081	36.000	13.22	0.00	37.23	2.12
986	1055	8.306761	TCTACGAGACAATCCGTATATACAGTA	58.693	37.037	13.22	0.00	39.98	2.74
987	1056	7.117523	GTCTACGAGACAATCCGTATATACAGT	59.882	40.741	13.22	3.24	44.45	3.55
988	1057	7.454642	GTCTACGAGACAATCCGTATATACAG	58.545	42.308	13.22	1.66	44.45	2.74
989	1058	7.356641	GTCTACGAGACAATCCGTATATACA	57.643	40.000	13.22	0.00	44.45	2.29
1065	1144	6.072199	AGGCAGAGATAATCCAGAGTTTTT	57.928	37.500	0.00	0.00	0.00	1.94
1066	1145	5.679601	GAGGCAGAGATAATCCAGAGTTTT	58.320	41.667	0.00	0.00	0.00	2.43
1067	1146	4.202202	CGAGGCAGAGATAATCCAGAGTTT	60.202	45.833	0.00	0.00	0.00	2.66
1068	1147	3.320541	CGAGGCAGAGATAATCCAGAGTT	59.679	47.826	0.00	0.00	0.00	3.01
1070	1149	2.890311	ACGAGGCAGAGATAATCCAGAG	59.110	50.000	0.00	0.00	0.00	3.35
1071	1150	2.887783	GACGAGGCAGAGATAATCCAGA	59.112	50.000	0.00	0.00	0.00	3.86
1072	1151	2.029470	GGACGAGGCAGAGATAATCCAG	60.029	54.545	0.00	0.00	0.00	3.86
1073	1152	1.964223	GGACGAGGCAGAGATAATCCA	59.036	52.381	0.00	0.00	0.00	3.41
1074	1153	1.964223	TGGACGAGGCAGAGATAATCC	59.036	52.381	0.00	0.00	0.00	3.01
1075	1154	2.362397	TGTGGACGAGGCAGAGATAATC	59.638	50.000	0.00	0.00	0.00	1.75
1103	1182	8.830741	AGCTCCATGTATAATTAAGCTAATCCT	58.169	33.333	4.19	0.00	36.88	3.24
1106	1185	9.892130	GGTAGCTCCATGTATAATTAAGCTAAT	57.108	33.333	12.22	0.00	41.14	1.73
1142	1314	2.580601	GCCGTGGTGGTAGGAGTGT	61.581	63.158	0.00	0.00	41.21	3.55
1184	1356	2.832563	TGATGTGTGTACTGTGGTGTG	58.167	47.619	0.00	0.00	0.00	3.82
1277	1465	1.622607	CCTTGCGGGTGATGGAGGTA	61.623	60.000	0.00	0.00	0.00	3.08
1290	1478	4.717629	TGAGCCGTCGTCCTTGCG	62.718	66.667	0.00	0.00	0.00	4.85
1294	1482	3.063084	GAGGTGAGCCGTCGTCCT	61.063	66.667	0.00	0.00	40.50	3.85
1295	1483	4.131088	GGAGGTGAGCCGTCGTCC	62.131	72.222	0.00	0.00	40.50	4.79
1353	1565	1.153745	GAGTCGCCATGAACTCGCT	60.154	57.895	0.00	0.00	0.00	4.93
1404	1616	0.607217	CTGCATGAACCACTGGAGCA	60.607	55.000	0.71	0.00	0.00	4.26
1912	4008	4.261572	CCATGACGGACACATCAAGTTTTT	60.262	41.667	0.00	0.00	36.56	1.94
1913	4009	3.253188	CCATGACGGACACATCAAGTTTT	59.747	43.478	0.00	0.00	36.56	2.43
1914	4010	2.813754	CCATGACGGACACATCAAGTTT	59.186	45.455	0.00	0.00	36.56	2.66
1915	4011	2.224523	ACCATGACGGACACATCAAGTT	60.225	45.455	0.00	0.00	38.63	2.66
1932	4028	0.459585	CGATCGGTTCGGTTCACCAT	60.460	55.000	7.38	0.00	44.28	3.55
1946	4042	1.804396	ATGGCAGGAGCTCTCGATCG	61.804	60.000	14.64	9.36	41.70	3.69
1947	4043	0.392336	AATGGCAGGAGCTCTCGATC	59.608	55.000	14.64	0.00	41.70	3.69
1948	4044	0.835941	AAATGGCAGGAGCTCTCGAT	59.164	50.000	14.64	3.51	41.70	3.59
1949	4045	0.176680	GAAATGGCAGGAGCTCTCGA	59.823	55.000	14.64	1.13	41.70	4.04
2044	4140	3.073650	GCTACATCATCCTTCCCCTTCAT	59.926	47.826	0.00	0.00	0.00	2.57
2050	4146	4.899352	ACTATGCTACATCATCCTTCCC	57.101	45.455	0.00	0.00	0.00	3.97
2057	4153	5.713792	ACTTCGCTACTATGCTACATCAT	57.286	39.130	0.00	0.00	0.00	2.45
2089	4187	8.889717	TGGTTCGATAAAATCTGATTCTTAACC	58.110	33.333	2.92	11.47	0.00	2.85
2103	4201	5.367945	AGGCTCCTATTGGTTCGATAAAA	57.632	39.130	0.00	0.00	34.23	1.52
2156	4256	4.279671	TGGGTACAAGTATTTGCTTTGTGG	59.720	41.667	0.00	0.00	37.85	4.17
2198	4302	0.250338	GGCAAGAACGAGGGAACTGT	60.250	55.000	0.00	0.00	44.43	3.55
2382	4490	5.313712	CAACAGTAATTTGTCTACCCACCT	58.686	41.667	0.00	0.00	0.00	4.00
2509	4620	4.049186	GCGCTCTCGAAATGGAGTAATAA	58.951	43.478	0.00	0.00	38.10	1.40
2759	4873	6.287589	TGAGTTTTCTTTGGGCAAGTTAAA	57.712	33.333	0.00	0.00	33.66	1.52
2888	5004	4.380843	TGTGGTGTATTTGTTGGGATCT	57.619	40.909	0.00	0.00	0.00	2.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.