AutoCloner

Multiple sequence alignment - TraesCS5D01G437700

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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	TraesCS5D01G437700	chr5D	100.000	3581	0	0	1	3581	491526312	491529892	0.000000e+00	6613.0
1	TraesCS5D01G437700	chr5D	79.225	284	56	2	1066	1346	45380087	45379804	1.010000e-45	195.0
2	TraesCS5D01G437700	chr5B	94.554	2846	105	28	346	3161	606300520	606303345	0.000000e+00	4351.0
3	TraesCS5D01G437700	chr5B	79.297	1053	191	17	1442	2473	45393548	45394594	0.000000e+00	712.0
4	TraesCS5D01G437700	chr5B	93.796	274	10	4	3313	3581	606303485	606303756	4.300000e-109	405.0
5	TraesCS5D01G437700	chr5B	79.758	331	22	17	22	307	606300191	606300521	7.840000e-47	198.0
6	TraesCS5D01G437700	chr5B	79.004	281	56	2	1066	1343	45392370	45392650	4.720000e-44	189.0
7	TraesCS5D01G437700	chr5A	90.912	2806	125	54	101	2843	613699322	613702060	0.000000e+00	3650.0
8	TraesCS5D01G437700	chr5A	79.353	1051	191	21	1442	2473	36330853	36331896	0.000000e+00	715.0
9	TraesCS5D01G437700	chr5A	95.157	351	13	3	3234	3581	613702598	613702947	5.230000e-153	551.0
10	TraesCS5D01G437700	chr5A	93.696	349	11	4	2847	3190	613702102	613702444	2.470000e-141	512.0
11	TraesCS5D01G437700	chr5A	100.000	36	0	0	3188	3223	613702525	613702560	2.310000e-07	67.6
12	TraesCS5D01G437700	chr2B	93.860	798	36	3	1638	2435	298515211	298514427	0.000000e+00	1190.0
13	TraesCS5D01G437700	chr2B	93.217	457	31	0	1975	2431	105742910	105743366	0.000000e+00	673.0
14	TraesCS5D01G437700	chr4A	79.291	1072	196	19	1442	2498	597014698	597015758	0.000000e+00	726.0
15	TraesCS5D01G437700	chr4B	78.884	1075	204	16	1442	2502	11657230	11656165	0.000000e+00	706.0
16	TraesCS5D01G437700	chr4D	79.271	1042	185	24	1442	2466	6424424	6425451	0.000000e+00	699.0
17	TraesCS5D01G437700	chr3B	93.886	458	28	0	1975	2432	130115237	130115694	0.000000e+00	691.0
18	TraesCS5D01G437700	chr3B	76.800	1000	191	31	1444	2418	795839880	795840863	1.140000e-144	523.0
19	TraesCS5D01G437700	chr3D	76.923	1001	184	36	1444	2416	593236137	593237118	3.170000e-145	525.0
20	TraesCS5D01G437700	chr6A	75.352	994	192	34	1448	2416	609157824	609158789	2.550000e-116	429.0

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	TraesCS5D01G437700	chr5D	491526312	491529892	3580	False	6613.000000	6613	100.000000	1	3581	1	chr5D.!!$F1	3580
1	TraesCS5D01G437700	chr5B	606300191	606303756	3565	False	1651.333333	4351	89.369333	22	3581	3	chr5B.!!$F2	3559
2	TraesCS5D01G437700	chr5B	45392370	45394594	2224	False	450.500000	712	79.150500	1066	2473	2	chr5B.!!$F1	1407
3	TraesCS5D01G437700	chr5A	613699322	613702947	3625	False	1195.150000	3650	94.941250	101	3581	4	chr5A.!!$F2	3480
4	TraesCS5D01G437700	chr5A	36330853	36331896	1043	False	715.000000	715	79.353000	1442	2473	1	chr5A.!!$F1	1031
5	TraesCS5D01G437700	chr2B	298514427	298515211	784	True	1190.000000	1190	93.860000	1638	2435	1	chr2B.!!$R1	797
6	TraesCS5D01G437700	chr4A	597014698	597015758	1060	False	726.000000	726	79.291000	1442	2498	1	chr4A.!!$F1	1056
7	TraesCS5D01G437700	chr4B	11656165	11657230	1065	True	706.000000	706	78.884000	1442	2502	1	chr4B.!!$R1	1060
8	TraesCS5D01G437700	chr4D	6424424	6425451	1027	False	699.000000	699	79.271000	1442	2466	1	chr4D.!!$F1	1024
9	TraesCS5D01G437700	chr3B	795839880	795840863	983	False	523.000000	523	76.800000	1444	2418	1	chr3B.!!$F2	974
10	TraesCS5D01G437700	chr3D	593236137	593237118	981	False	525.000000	525	76.923000	1444	2416	1	chr3D.!!$F1	972
11	TraesCS5D01G437700	chr6A	609157824	609158789	965	False	429.000000	429	75.352000	1448	2416	1	chr6A.!!$F1	968

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
529	594	0.461961	GCCATTGCCTAGACTCGACT	59.538	55.0	0.0	0.0	0.0	4.18	F
921	1016	0.627986	AATCTTGAGCCTTCCCCTGG	59.372	55.0	0.0	0.0	0.0	4.45	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2155	3080	2.872557	CAGCATGGTGTTCTGCCG	59.127	61.111	16.8	0.00	39.22	5.69	R
2886	3874	2.894565	GCCATGCTGCGAGATCTGC	61.895	63.158	0.0	5.01	0.00	4.26	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
20	21	2.981875	CCTCACACGGTTTCTTTTTCG	58.018	47.619	0.00	0.00	0.00	3.46
32	33	3.552604	TCTTTTTCGAAATCCCGCTTG	57.447	42.857	12.12	0.00	0.00	4.01
48	49	1.112459	CTTGTTCTTCGCACGCAAAC	58.888	50.000	0.00	0.00	0.00	2.93
62	63	2.124122	CGCAAACCCTTTTCTTTTCCG	58.876	47.619	0.00	0.00	0.00	4.30
90	92	6.880822	AAAAACTTTCTTTTTACAGTCCGC	57.119	33.333	0.00	0.00	30.64	5.54
91	93	3.872560	ACTTTCTTTTTACAGTCCGCG	57.127	42.857	0.00	0.00	0.00	6.46
92	94	2.032290	ACTTTCTTTTTACAGTCCGCGC	60.032	45.455	0.00	0.00	0.00	6.86
93	95	0.869730	TTCTTTTTACAGTCCGCGCC	59.130	50.000	0.00	0.00	0.00	6.53
94	96	0.952010	TCTTTTTACAGTCCGCGCCC	60.952	55.000	0.00	0.00	0.00	6.13
95	97	2.235536	CTTTTTACAGTCCGCGCCCG	62.236	60.000	0.00	0.00	0.00	6.13
204	234	1.762460	CCATACGCCCCTCTCCACT	60.762	63.158	0.00	0.00	0.00	4.00
205	235	1.742768	CATACGCCCCTCTCCACTC	59.257	63.158	0.00	0.00	0.00	3.51
258	322	4.373116	CCGTCCGTCCACCACTGG	62.373	72.222	0.00	0.00	39.23	4.00
307	371	2.802414	GTCGTCCGTTCCGTTCCG	60.802	66.667	0.00	0.00	0.00	4.30
308	372	3.286751	TCGTCCGTTCCGTTCCGT	61.287	61.111	0.00	0.00	0.00	4.69
309	373	2.355009	CGTCCGTTCCGTTCCGTT	60.355	61.111	0.00	0.00	0.00	4.44
310	374	2.651137	CGTCCGTTCCGTTCCGTTG	61.651	63.158	0.00	0.00	0.00	4.10
311	375	2.662527	TCCGTTCCGTTCCGTTGC	60.663	61.111	0.00	0.00	0.00	4.17
312	376	4.067016	CCGTTCCGTTCCGTTGCG	62.067	66.667	0.00	0.00	0.00	4.85
313	377	3.332409	CGTTCCGTTCCGTTGCGT	61.332	61.111	0.00	0.00	0.00	5.24
314	378	2.873604	CGTTCCGTTCCGTTGCGTT	61.874	57.895	0.00	0.00	0.00	4.84
315	379	1.368374	GTTCCGTTCCGTTGCGTTG	60.368	57.895	0.00	0.00	0.00	4.10
339	403	2.686816	CGTTGCGTTCCATCACCCC	61.687	63.158	0.00	0.00	0.00	4.95
412	476	0.889186	CCTTGTCCCAGACCCAAACG	60.889	60.000	0.00	0.00	0.00	3.60
476	540	2.203549	CTGCCCCCTTTCTGACCCTC	62.204	65.000	0.00	0.00	0.00	4.30
522	587	2.202878	GCGTCGCCATTGCCTAGA	60.203	61.111	5.75	0.00	0.00	2.43
524	589	1.141881	CGTCGCCATTGCCTAGACT	59.858	57.895	0.00	0.00	0.00	3.24
525	590	0.872021	CGTCGCCATTGCCTAGACTC	60.872	60.000	0.00	0.00	0.00	3.36
526	591	0.872021	GTCGCCATTGCCTAGACTCG	60.872	60.000	0.00	0.00	0.00	4.18
527	592	1.035385	TCGCCATTGCCTAGACTCGA	61.035	55.000	0.00	0.00	0.00	4.04
528	593	0.872021	CGCCATTGCCTAGACTCGAC	60.872	60.000	0.00	0.00	0.00	4.20
529	594	0.461961	GCCATTGCCTAGACTCGACT	59.538	55.000	0.00	0.00	0.00	4.18
530	595	1.537135	GCCATTGCCTAGACTCGACTC	60.537	57.143	0.00	0.00	0.00	3.36
621	701	2.194201	CCTTTTTGGCTCCGGTAAGA	57.806	50.000	0.00	0.00	0.00	2.10
622	702	2.723273	CCTTTTTGGCTCCGGTAAGAT	58.277	47.619	0.00	0.00	0.00	2.40
623	703	3.089284	CCTTTTTGGCTCCGGTAAGATT	58.911	45.455	0.00	0.00	0.00	2.40
645	725	1.026182	TCCGGCATTCACATGTGAGC	61.026	55.000	26.48	25.45	41.13	4.26
803	888	2.158415	TCCGTCCCCCGATTTATACTCT	60.158	50.000	0.00	0.00	39.56	3.24
843	933	4.778143	GCCGACATTGCTCCGGGT	62.778	66.667	0.00	0.00	43.17	5.28
844	934	2.819595	CCGACATTGCTCCGGGTG	60.820	66.667	0.00	0.00	39.59	4.61
900	995	4.587189	GCCTCCGTTCGGATCGGG	62.587	72.222	23.19	12.93	46.82	5.14
921	1016	0.627986	AATCTTGAGCCTTCCCCTGG	59.372	55.000	0.00	0.00	0.00	4.45
933	1030	2.078665	CCCCTGGTCGGATTCCCAT	61.079	63.158	0.00	0.00	33.16	4.00
935	1032	0.687354	CCCTGGTCGGATTCCCATAG	59.313	60.000	0.00	0.00	33.16	2.23
982	1079	3.909258	TTCGTCAGTTCGCCGGAGC	62.909	63.158	5.05	0.00	0.00	4.70
1098	1195	2.763215	GGGATGAACTGGGGCACA	59.237	61.111	0.00	0.00	0.00	4.57
1221	1318	4.201679	CTCGCCGGCACCGACATA	62.202	66.667	28.98	0.00	42.83	2.29
1371	1471	2.264120	GAGCCCCTCTTCCTCTTGCC	62.264	65.000	0.00	0.00	0.00	4.52
2155	3080	3.268103	ATGGACCTCACCGGCAACC	62.268	63.158	0.00	0.00	35.61	3.77
2577	3526	0.108472	TCCAGCTCTTGATGTCGCAG	60.108	55.000	0.00	0.00	0.00	5.18
2627	3576	3.189080	TCAGTTGATCATTTGTTGCCTCG	59.811	43.478	0.00	0.00	0.00	4.63
2637	3586	6.230472	TCATTTGTTGCCTCGTAGCATATAT	58.770	36.000	3.08	0.00	43.64	0.86
2801	3751	4.785301	TCATTCAGAATCCCAGATCCAAC	58.215	43.478	0.00	0.00	0.00	3.77
2886	3874	4.092120	CGAGTACAGTTGATTCAGAGTCG	58.908	47.826	0.00	0.00	0.00	4.18
2912	3900	2.441532	GCAGCATGGCCATGGAGT	60.442	61.111	39.72	9.14	39.16	3.85
2913	3901	1.152902	GCAGCATGGCCATGGAGTA	60.153	57.895	39.72	3.07	39.16	2.59
3223	4313	2.054799	AGGCACCTTGGACAAGTTCTA	58.945	47.619	10.81	0.00	36.72	2.10
3226	4316	3.007614	GGCACCTTGGACAAGTTCTACTA	59.992	47.826	10.81	0.00	36.72	1.82
3227	4317	3.995048	GCACCTTGGACAAGTTCTACTAC	59.005	47.826	10.81	0.00	36.72	2.73
3228	4318	4.502604	GCACCTTGGACAAGTTCTACTACA	60.503	45.833	10.81	0.00	36.72	2.74
3229	4319	5.794894	CACCTTGGACAAGTTCTACTACAT	58.205	41.667	10.81	0.00	36.72	2.29
3230	4320	6.231211	CACCTTGGACAAGTTCTACTACATT	58.769	40.000	10.81	0.00	36.72	2.71
3232	4322	7.228706	CACCTTGGACAAGTTCTACTACATTTT	59.771	37.037	10.81	0.00	36.72	1.82
3268	4385	1.451028	GGAGGCATGGACACTCTGC	60.451	63.158	0.00	0.00	35.16	4.26
3310	4427	5.763698	TCAACAAACGAACACCCAACATATA	59.236	36.000	0.00	0.00	0.00	0.86
3345	4463	3.434641	CAGTGATCTGTGCACCAAACTAG	59.565	47.826	15.69	3.61	36.95	2.57
3424	4545	6.144402	CCAAGTATTTGCTGATTTGAACACAC	59.856	38.462	0.00	0.00	32.79	3.82
3506	4629	6.347725	GCCTTGAGCATATAACAGGTTAATCG	60.348	42.308	0.00	0.00	42.97	3.34

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	2.610374	TCGAAAAAGAAACCGTGTGAGG	59.390	45.455	0.00	0.00	37.30	3.86
1	2	3.936902	TCGAAAAAGAAACCGTGTGAG	57.063	42.857	0.00	0.00	0.00	3.51
2	3	4.681835	TTTCGAAAAAGAAACCGTGTGA	57.318	36.364	8.44	0.00	35.44	3.58
3	4	4.439776	GGATTTCGAAAAAGAAACCGTGTG	59.560	41.667	15.66	0.00	42.12	3.82
4	5	4.498513	GGGATTTCGAAAAAGAAACCGTGT	60.499	41.667	15.66	0.00	42.12	4.49
6	7	3.304190	CGGGATTTCGAAAAAGAAACCGT	60.304	43.478	15.66	0.00	41.14	4.83
7	8	3.231160	CGGGATTTCGAAAAAGAAACCG	58.769	45.455	15.66	16.70	42.12	4.44
8	9	2.984471	GCGGGATTTCGAAAAAGAAACC	59.016	45.455	15.66	10.88	42.12	3.27
9	10	3.897325	AGCGGGATTTCGAAAAAGAAAC	58.103	40.909	15.66	3.57	42.12	2.78
10	11	4.202070	ACAAGCGGGATTTCGAAAAAGAAA	60.202	37.500	15.66	0.00	43.28	2.52
11	12	3.316868	ACAAGCGGGATTTCGAAAAAGAA	59.683	39.130	15.66	0.00	0.00	2.52
12	13	2.882137	ACAAGCGGGATTTCGAAAAAGA	59.118	40.909	15.66	0.00	0.00	2.52
13	14	3.282831	ACAAGCGGGATTTCGAAAAAG	57.717	42.857	15.66	7.67	0.00	2.27
14	15	3.316868	AGAACAAGCGGGATTTCGAAAAA	59.683	39.130	15.66	0.00	0.00	1.94
15	16	2.882137	AGAACAAGCGGGATTTCGAAAA	59.118	40.909	15.66	0.00	0.00	2.29
16	17	2.500229	AGAACAAGCGGGATTTCGAAA	58.500	42.857	13.91	13.91	0.00	3.46
17	18	2.178912	AGAACAAGCGGGATTTCGAA	57.821	45.000	0.00	0.00	0.00	3.71
18	19	2.073816	GAAGAACAAGCGGGATTTCGA	58.926	47.619	0.00	0.00	0.00	3.71
19	20	1.201921	CGAAGAACAAGCGGGATTTCG	60.202	52.381	0.00	0.00	0.00	3.46
20	21	1.465856	GCGAAGAACAAGCGGGATTTC	60.466	52.381	0.00	0.00	0.00	2.17
32	33	1.370051	GGGTTTGCGTGCGAAGAAC	60.370	57.895	0.00	0.00	0.00	3.01
258	322	4.660938	GGTGGGGTGTGGACTGGC	62.661	72.222	0.00	0.00	0.00	4.85
307	371	2.947109	AACGCAACGCAACGCAAC	60.947	55.556	0.00	0.00	0.00	4.17
308	372	2.946597	CAACGCAACGCAACGCAA	60.947	55.556	0.00	0.00	0.00	4.85
312	376	2.901303	GAACGCAACGCAACGCAAC	61.901	57.895	0.00	0.00	0.00	4.17
313	377	2.649349	GAACGCAACGCAACGCAA	60.649	55.556	0.00	0.00	0.00	4.85
314	378	4.599434	GGAACGCAACGCAACGCA	62.599	61.111	0.00	0.00	0.00	5.24
315	379	3.872409	ATGGAACGCAACGCAACGC	62.872	57.895	0.00	0.00	0.00	4.84
341	405	3.151022	GTGAGCCGAGGAGGGGAG	61.151	72.222	0.00	0.00	41.48	4.30
342	406	4.779733	GGTGAGCCGAGGAGGGGA	62.780	72.222	0.00	0.00	41.48	4.81
344	408	2.765807	ATGGTGAGCCGAGGAGGG	60.766	66.667	0.00	0.00	41.48	4.30
345	409	1.617018	TTGATGGTGAGCCGAGGAGG	61.617	60.000	0.00	0.00	44.97	4.30
346	410	0.460987	GTTGATGGTGAGCCGAGGAG	60.461	60.000	0.00	0.00	37.67	3.69
347	411	1.596934	GTTGATGGTGAGCCGAGGA	59.403	57.895	0.00	0.00	37.67	3.71
348	412	1.450312	GGTTGATGGTGAGCCGAGG	60.450	63.158	0.00	0.00	37.67	4.63
349	413	1.450312	GGGTTGATGGTGAGCCGAG	60.450	63.158	0.00	0.00	37.67	4.63
350	414	2.668632	GGGTTGATGGTGAGCCGA	59.331	61.111	0.00	0.00	37.67	5.54
351	415	2.438434	GGGGTTGATGGTGAGCCG	60.438	66.667	0.00	0.00	37.67	5.52
352	416	1.077429	GAGGGGTTGATGGTGAGCC	60.077	63.158	0.00	0.00	0.00	4.70
412	476	2.725815	GCGTTGCTTCGTTGGTGC	60.726	61.111	3.52	0.00	0.00	5.01
476	540	0.905337	ACCGAGGTTGAGAGGAAGGG	60.905	60.000	0.00	0.00	0.00	3.95
520	585	1.735571	GCGAAAGAGAGAGTCGAGTCT	59.264	52.381	22.67	22.67	36.92	3.24
521	586	1.202098	GGCGAAAGAGAGAGTCGAGTC	60.202	57.143	12.54	12.54	36.92	3.36
522	587	0.806241	GGCGAAAGAGAGAGTCGAGT	59.194	55.000	0.00	0.00	36.92	4.18
524	589	1.645704	CCGGCGAAAGAGAGAGTCGA	61.646	60.000	9.30	0.00	36.92	4.20
525	590	1.226435	CCGGCGAAAGAGAGAGTCG	60.226	63.158	9.30	0.00	37.82	4.18
526	591	0.741915	ATCCGGCGAAAGAGAGAGTC	59.258	55.000	9.30	0.00	0.00	3.36
527	592	1.135333	GAATCCGGCGAAAGAGAGAGT	59.865	52.381	9.30	0.00	0.00	3.24
528	593	1.135139	TGAATCCGGCGAAAGAGAGAG	59.865	52.381	9.30	0.00	0.00	3.20
529	594	1.182667	TGAATCCGGCGAAAGAGAGA	58.817	50.000	9.30	0.00	0.00	3.10
530	595	1.661112	GTTGAATCCGGCGAAAGAGAG	59.339	52.381	9.30	0.00	0.00	3.20
617	697	5.184864	ACATGTGAATGCCGGAAAAATCTTA	59.815	36.000	5.05	0.00	0.00	2.10
621	701	3.257873	TCACATGTGAATGCCGGAAAAAT	59.742	39.130	26.02	0.00	36.53	1.82
622	702	2.625314	TCACATGTGAATGCCGGAAAAA	59.375	40.909	26.02	0.00	36.53	1.94
623	703	2.228582	CTCACATGTGAATGCCGGAAAA	59.771	45.455	27.63	2.81	39.39	2.29
841	931	3.003763	AGCCGAAGAGGGGACACC	61.004	66.667	0.00	0.00	41.48	4.16
842	932	1.827399	TTCAGCCGAAGAGGGGACAC	61.827	60.000	0.00	0.00	41.48	3.67
843	933	0.909610	ATTCAGCCGAAGAGGGGACA	60.910	55.000	0.00	0.00	41.48	4.02
844	934	0.179070	GATTCAGCCGAAGAGGGGAC	60.179	60.000	0.00	0.00	41.48	4.46
851	941	1.783711	CGAATCGAGATTCAGCCGAAG	59.216	52.381	21.32	4.16	45.60	3.79
900	995	2.373224	CAGGGGAAGGCTCAAGATTTC	58.627	52.381	0.00	0.00	0.00	2.17
921	1016	0.663568	CGACGCTATGGGAATCCGAC	60.664	60.000	0.00	0.00	35.24	4.79
933	1030	1.773054	GATCTCTGGACGCGACGCTA	61.773	60.000	15.93	0.00	0.00	4.26
935	1032	2.600122	AAGATCTCTGGACGCGACGC	62.600	60.000	15.93	10.49	0.00	5.19
982	1079	0.392193	ATTGTTCAGGCCTCTCTGCG	60.392	55.000	0.00	0.00	34.91	5.18
1221	1318	1.690219	GGATGGCGACCATGACCTCT	61.690	60.000	14.84	0.00	45.26	3.69
1420	1524	7.036996	TGCAAACAGAACATCATCAGTAAAA	57.963	32.000	0.00	0.00	0.00	1.52
2155	3080	2.872557	CAGCATGGTGTTCTGCCG	59.127	61.111	16.80	0.00	39.22	5.69
2460	3406	3.106407	GCGGCGGCGATCTGTATC	61.106	66.667	36.87	10.85	0.00	2.24
2840	3798	7.041167	TCGATTTCAGTCATCACTCATGTTTTT	60.041	33.333	0.00	0.00	33.66	1.94
2841	3799	6.427853	TCGATTTCAGTCATCACTCATGTTTT	59.572	34.615	0.00	0.00	33.66	2.43
2843	3801	5.482006	TCGATTTCAGTCATCACTCATGTT	58.518	37.500	0.00	0.00	33.66	2.71
2844	3802	5.077134	TCGATTTCAGTCATCACTCATGT	57.923	39.130	0.00	0.00	33.66	3.21
2845	3803	5.107824	ACTCGATTTCAGTCATCACTCATG	58.892	41.667	0.00	0.00	0.00	3.07
2864	3852	4.092120	CGACTCTGAATCAACTGTACTCG	58.908	47.826	0.00	0.00	0.00	4.18
2886	3874	2.894565	GCCATGCTGCGAGATCTGC	61.895	63.158	0.00	5.01	0.00	4.26
2912	3900	9.725019	CCAAATCCTGCTCACTTTGTATATATA	57.275	33.333	0.00	0.00	0.00	0.86
2913	3901	8.220559	ACCAAATCCTGCTCACTTTGTATATAT	58.779	33.333	0.00	0.00	0.00	0.86
3223	4313	8.903820	ACTTCAGTGCTTCTTTAAAAATGTAGT	58.096	29.630	0.00	0.00	0.00	2.73
3226	4316	6.980397	CCACTTCAGTGCTTCTTTAAAAATGT	59.020	34.615	1.01	0.00	44.34	2.71
3227	4317	7.202526	TCCACTTCAGTGCTTCTTTAAAAATG	58.797	34.615	1.01	0.00	44.34	2.32
3228	4318	7.346751	TCCACTTCAGTGCTTCTTTAAAAAT	57.653	32.000	1.01	0.00	44.34	1.82
3229	4319	6.183360	CCTCCACTTCAGTGCTTCTTTAAAAA	60.183	38.462	1.01	0.00	44.34	1.94
3230	4320	5.299279	CCTCCACTTCAGTGCTTCTTTAAAA	59.701	40.000	1.01	0.00	44.34	1.52
3232	4322	4.389374	CCTCCACTTCAGTGCTTCTTTAA	58.611	43.478	1.01	0.00	44.34	1.52
3237	4354	0.250467	TGCCTCCACTTCAGTGCTTC	60.250	55.000	1.01	0.00	44.34	3.86
3268	4385	1.277273	TGAGGGTGATGCAGAGACAAG	59.723	52.381	0.00	0.00	0.00	3.16
3406	4527	4.624882	GTGTTGTGTGTTCAAATCAGCAAA	59.375	37.500	0.00	0.00	0.00	3.68
3424	4545	5.102020	TCATTGTACATTTCGGTGTGTTG	57.898	39.130	0.00	0.00	33.62	3.33
3499	4622	5.121768	ACAGTATGCAGTTCAACCGATTAAC	59.878	40.000	0.00	0.00	42.53	2.01
3506	4629	5.472137	TCCTTTAACAGTATGCAGTTCAACC	59.528	40.000	0.00	0.00	42.53	3.77

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.