AutoCloner

Multiple sequence alignment - TraesCS2D01G406400

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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	TraesCS2D01G406400	chr2D	100.000	3263	0	0	1	3263	521581749	521578487	0.000000e+00	6026.0
1	TraesCS2D01G406400	chr2D	90.891	2536	191	27	731	3260	521763573	521761072	0.000000e+00	3367.0
2	TraesCS2D01G406400	chr2D	88.619	2548	238	31	732	3260	521588388	521585874	0.000000e+00	3051.0
3	TraesCS2D01G406400	chr2D	85.807	1536	156	31	963	2468	521873327	521871824	0.000000e+00	1572.0
4	TraesCS2D01G406400	chr2D	100.000	622	0	0	3626	4247	521578124	521577503	0.000000e+00	1149.0
5	TraesCS2D01G406400	chr2D	86.097	971	121	10	2296	3260	521784547	521783585	0.000000e+00	1033.0
6	TraesCS2D01G406400	chr2D	91.218	706	58	4	1	703	102292227	102291523	0.000000e+00	957.0
7	TraesCS2D01G406400	chr2D	83.759	979	127	9	1333	2299	521790837	521789879	0.000000e+00	898.0
8	TraesCS2D01G406400	chr2D	88.506	261	28	1	3887	4145	637320889	637320629	8.860000e-82	315.0
9	TraesCS2D01G406400	chr2D	87.356	261	31	1	3887	4145	189855202	189855462	8.930000e-77	298.0
10	TraesCS2D01G406400	chr2D	95.918	49	1	1	4199	4247	521578978	521578931	1.270000e-10	78.7
11	TraesCS2D01G406400	chr2B	96.854	2575	77	2	690	3263	614234124	614236695	0.000000e+00	4303.0
12	TraesCS2D01G406400	chr2B	91.012	2559	188	28	733	3260	613232385	613234932	0.000000e+00	3413.0
13	TraesCS2D01G406400	chr2B	88.830	2068	176	26	731	2775	613901678	613903713	0.000000e+00	2488.0
14	TraesCS2D01G406400	chr2B	86.157	1322	139	22	1955	3260	613212353	613213646	0.000000e+00	1387.0
15	TraesCS2D01G406400	chr2B	89.600	1000	82	14	963	1960	613205441	613206420	0.000000e+00	1251.0
16	TraesCS2D01G406400	chr2B	91.810	696	51	3	1	690	185810820	185811515	0.000000e+00	965.0
17	TraesCS2D01G406400	chr2B	91.506	624	51	1	3626	4247	614236790	614237413	0.000000e+00	857.0
18	TraesCS2D01G406400	chr2B	91.537	449	32	6	2816	3260	613903710	613904156	7.800000e-172	614.0
19	TraesCS2D01G406400	chr2B	86.017	472	60	3	2777	3247	614237371	614237837	6.340000e-138	501.0
20	TraesCS2D01G406400	chr2B	95.349	43	1	1	4205	4247	613213187	613213228	2.740000e-07	67.6
21	TraesCS2D01G406400	chr2B	91.837	49	3	1	4199	4247	613234442	613234489	2.740000e-07	67.6
22	TraesCS2D01G406400	chr2A	94.322	2536	113	9	731	3263	665984742	665987249	0.000000e+00	3856.0
23	TraesCS2D01G406400	chr2A	91.673	2534	178	8	731	3263	665949845	665952346	0.000000e+00	3480.0
24	TraesCS2D01G406400	chr2A	93.878	49	2	1	4199	4247	665951855	665951902	5.890000e-09	73.1
25	TraesCS2D01G406400	chr6D	92.816	696	48	2	1	694	469365516	469366211	0.000000e+00	1007.0
26	TraesCS2D01G406400	chr6D	87.739	261	30	1	3887	4145	108464588	108464848	1.920000e-78	303.0
27	TraesCS2D01G406400	chr4B	92.374	695	51	2	1	693	610120242	610119548	0.000000e+00	989.0
28	TraesCS2D01G406400	chr4A	92.297	688	51	2	5	690	652091797	652092484	0.000000e+00	976.0
29	TraesCS2D01G406400	chr4A	91.822	697	51	4	1	693	724797106	724796412	0.000000e+00	966.0
30	TraesCS2D01G406400	chr1B	91.908	692	52	4	1	690	47511828	47511139	0.000000e+00	965.0
31	TraesCS2D01G406400	chr1B	87.405	262	29	3	3887	4145	638749769	638749509	8.930000e-77	298.0
32	TraesCS2D01G406400	chr6B	91.631	693	56	2	1	691	624792112	624792804	0.000000e+00	957.0
33	TraesCS2D01G406400	chr7B	91.311	702	55	3	1	696	9677803	9678504	0.000000e+00	953.0
34	TraesCS2D01G406400	chr5A	88.123	261	29	1	3887	4145	73031832	73032092	4.120000e-80	309.0
35	TraesCS2D01G406400	chr7D	87.879	264	27	3	3887	4145	579026615	579026878	5.340000e-79	305.0
36	TraesCS2D01G406400	chrUn	87.121	264	32	1	3887	4148	273320060	273319797	8.930000e-77	298.0
37	TraesCS2D01G406400	chr3A	87.356	261	31	1	3887	4145	122222286	122222026	8.930000e-77	298.0

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	TraesCS2D01G406400	chr2D	521577503	521581749	4246	True	2417.90	6026	98.639333	1	4247	3	chr2D.!!$R8	4246
1	TraesCS2D01G406400	chr2D	521761072	521763573	2501	True	3367.00	3367	90.891000	731	3260	1	chr2D.!!$R3	2529
2	TraesCS2D01G406400	chr2D	521585874	521588388	2514	True	3051.00	3051	88.619000	732	3260	1	chr2D.!!$R2	2528
3	TraesCS2D01G406400	chr2D	521871824	521873327	1503	True	1572.00	1572	85.807000	963	2468	1	chr2D.!!$R6	1505
4	TraesCS2D01G406400	chr2D	521783585	521784547	962	True	1033.00	1033	86.097000	2296	3260	1	chr2D.!!$R4	964
5	TraesCS2D01G406400	chr2D	102291523	102292227	704	True	957.00	957	91.218000	1	703	1	chr2D.!!$R1	702
6	TraesCS2D01G406400	chr2D	521789879	521790837	958	True	898.00	898	83.759000	1333	2299	1	chr2D.!!$R5	966
7	TraesCS2D01G406400	chr2B	614234124	614237837	3713	False	1887.00	4303	91.459000	690	4247	3	chr2B.!!$F6	3557
8	TraesCS2D01G406400	chr2B	613232385	613234932	2547	False	1740.30	3413	91.424500	733	4247	2	chr2B.!!$F4	3514
9	TraesCS2D01G406400	chr2B	613901678	613904156	2478	False	1551.00	2488	90.183500	731	3260	2	chr2B.!!$F5	2529
10	TraesCS2D01G406400	chr2B	613205441	613206420	979	False	1251.00	1251	89.600000	963	1960	1	chr2B.!!$F2	997
11	TraesCS2D01G406400	chr2B	185810820	185811515	695	False	965.00	965	91.810000	1	690	1	chr2B.!!$F1	689
12	TraesCS2D01G406400	chr2B	613212353	613213646	1293	False	727.30	1387	90.753000	1955	4247	2	chr2B.!!$F3	2292
13	TraesCS2D01G406400	chr2A	665984742	665987249	2507	False	3856.00	3856	94.322000	731	3263	1	chr2A.!!$F1	2532
14	TraesCS2D01G406400	chr2A	665949845	665952346	2501	False	1776.55	3480	92.775500	731	4247	2	chr2A.!!$F2	3516
15	TraesCS2D01G406400	chr6D	469365516	469366211	695	False	1007.00	1007	92.816000	1	694	1	chr6D.!!$F2	693
16	TraesCS2D01G406400	chr4B	610119548	610120242	694	True	989.00	989	92.374000	1	693	1	chr4B.!!$R1	692
17	TraesCS2D01G406400	chr4A	652091797	652092484	687	False	976.00	976	92.297000	5	690	1	chr4A.!!$F1	685
18	TraesCS2D01G406400	chr4A	724796412	724797106	694	True	966.00	966	91.822000	1	693	1	chr4A.!!$R1	692
19	TraesCS2D01G406400	chr1B	47511139	47511828	689	True	965.00	965	91.908000	1	690	1	chr1B.!!$R1	689
20	TraesCS2D01G406400	chr6B	624792112	624792804	692	False	957.00	957	91.631000	1	691	1	chr6B.!!$F1	690
21	TraesCS2D01G406400	chr7B	9677803	9678504	701	False	953.00	953	91.311000	1	696	1	chr7B.!!$F1	695

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
219	221	0.891904	TGTCTCCGACGTCATGGTGA	60.892	55.000	17.16	12.62	34.95	4.02	F
345	350	1.067071	GTTCAGGTTTCCTCCGACGAT	60.067	52.381	0.00	0.00	0.00	3.73	F
1347	1405	1.303643	GTTCCTGGGGCTGAACCTG	60.304	63.158	0.00	0.00	39.10	4.00	F
1977	2047	0.812811	CTCCATGGATGCTCACCGTG	60.813	60.000	16.63	0.00	42.21	4.94	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1801	1859	0.897621	ATGGAGATGACGTCACAGCA	59.102	50.000	22.71	3.33	0.00	4.41	R
1806	1864	2.685388	GAGAGACATGGAGATGACGTCA	59.315	50.000	22.48	22.48	33.36	4.35	R
3112	3221	1.215423	AGTCAGTTCCTGGTTTGGCTT	59.785	47.619	0.00	0.00	31.51	4.35	R
3723	3834	1.133761	GGAGAAGGTTAGGAATGGGCC	60.134	57.143	0.00	0.00	0.00	5.80	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
56	57	1.375396	CCGGCGGTGTCTTTCATGA	60.375	57.895	19.97	0.00	0.00	3.07
89	90	2.744202	AGTTGATGGCATCGTGTCTTTC	59.256	45.455	21.65	6.49	0.00	2.62
134	136	1.549950	GGGTTCATGGATGGTGTTGGT	60.550	52.381	0.00	0.00	0.00	3.67
142	144	2.748058	GATGGTGTTGGTGAGGCGGT	62.748	60.000	0.00	0.00	0.00	5.68
219	221	0.891904	TGTCTCCGACGTCATGGTGA	60.892	55.000	17.16	12.62	34.95	4.02
321	323	1.255667	GGGTCTGTGGTCGAAGGCTA	61.256	60.000	0.00	0.00	0.00	3.93
329	331	1.689813	TGGTCGAAGGCTAACAGTTCA	59.310	47.619	0.00	0.00	0.00	3.18
345	350	1.067071	GTTCAGGTTTCCTCCGACGAT	60.067	52.381	0.00	0.00	0.00	3.73
385	390	4.816385	GGTGTCAGTTCTGAAGTTTGATGA	59.184	41.667	3.99	0.00	0.00	2.92
534	539	7.334858	AGAGGTGATCTGTCTTTTTATCCTTC	58.665	38.462	0.00	0.00	36.69	3.46
632	637	2.090760	TGTATGGTCGGTGCTTACGTA	58.909	47.619	0.00	0.00	0.00	3.57
633	638	2.689471	TGTATGGTCGGTGCTTACGTAT	59.311	45.455	0.00	0.00	0.00	3.06
648	653	8.628279	GTGCTTACGTATCTTATAACTTGATCG	58.372	37.037	0.00	0.00	0.00	3.69
978	1032	2.502213	TATATGCTCCCACACGAACG	57.498	50.000	0.00	0.00	0.00	3.95
1347	1405	1.303643	GTTCCTGGGGCTGAACCTG	60.304	63.158	0.00	0.00	39.10	4.00
1348	1406	2.538141	TTCCTGGGGCTGAACCTGG	61.538	63.158	0.00	0.00	45.53	4.45
1349	1407	2.935481	CCTGGGGCTGAACCTGGA	60.935	66.667	0.00	0.00	46.70	3.86
1977	2047	0.812811	CTCCATGGATGCTCACCGTG	60.813	60.000	16.63	0.00	42.21	4.94
2330	2412	2.451167	CGAGCGTCGACTACCTCGT	61.451	63.158	27.31	4.10	43.74	4.18
2884	2969	1.607801	CCAGCAGGTCTCGGTGATCA	61.608	60.000	0.00	0.00	33.71	2.92
2886	2971	0.900182	AGCAGGTCTCGGTGATCACA	60.900	55.000	26.47	6.94	0.00	3.58
3099	3208	0.819582	TGGACGTATTTCCGAGGGAC	59.180	55.000	0.00	0.00	38.69	4.46
3112	3221	1.486310	CGAGGGACCTGGAATTCATCA	59.514	52.381	7.93	0.00	0.00	3.07
3126	3235	2.673775	TCATCAAGCCAAACCAGGAA	57.326	45.000	0.00	0.00	0.00	3.36
3177	3286	2.997315	AGTGCTGCGAGGGTGCTA	60.997	61.111	0.00	0.00	35.36	3.49
3248	3357	3.114606	TCTCCATCACCTTTGCCTGATA	58.885	45.455	0.00	0.00	0.00	2.15
3653	3764	8.244802	GCTATATGATCGAACTATACAAGGTGT	58.755	37.037	0.00	0.00	0.00	4.16
3669	3780	4.426736	AGGTGTCGAGGAAAACCTTAAA	57.573	40.909	0.00	0.00	40.14	1.52
3708	3819	1.742761	CACGGTTGAGAGATGGCATT	58.257	50.000	0.00	0.00	0.00	3.56
3721	3832	0.465705	TGGCATTGAGATCTCGGGAC	59.534	55.000	17.76	11.91	0.00	4.46
3723	3834	1.539929	GGCATTGAGATCTCGGGACTG	60.540	57.143	17.76	10.82	0.00	3.51
3724	3835	1.539929	GCATTGAGATCTCGGGACTGG	60.540	57.143	17.76	4.46	0.00	4.00
3746	3857	3.373110	GCCCATTCCTAACCTTCTCCATT	60.373	47.826	0.00	0.00	0.00	3.16
3747	3858	4.210331	CCCATTCCTAACCTTCTCCATTG	58.790	47.826	0.00	0.00	0.00	2.82
3751	3862	2.500098	TCCTAACCTTCTCCATTGTCGG	59.500	50.000	0.00	0.00	0.00	4.79
3757	3868	0.391130	TTCTCCATTGTCGGCGAAGG	60.391	55.000	12.92	11.88	0.00	3.46
3852	3963	2.843545	TTGGAGGTGGCCAAGGTC	59.156	61.111	7.24	4.04	42.75	3.85
3890	4001	2.158254	CGGTTGATGGTCATATGCATCG	59.842	50.000	0.19	0.00	0.00	3.84
3896	4007	7.413000	GGTTGATGGTCATATGCATCGTTATAC	60.413	40.741	0.19	9.37	0.00	1.47
3899	4010	6.256912	TGGTCATATGCATCGTTATACGTA	57.743	37.500	0.19	0.00	43.14	3.57
3900	4011	6.319399	TGGTCATATGCATCGTTATACGTAG	58.681	40.000	0.19	0.00	43.14	3.51
3927	4038	5.192327	AGTTGCCAAGAAAGAGTTCAATG	57.808	39.130	0.00	0.00	36.09	2.82
3932	4043	4.776743	CCAAGAAAGAGTTCAATGACACG	58.223	43.478	0.00	0.00	36.09	4.49
3933	4044	4.511454	CCAAGAAAGAGTTCAATGACACGA	59.489	41.667	0.00	0.00	36.09	4.35
3944	4055	6.201044	AGTTCAATGACACGAGTAAGAAACTG	59.799	38.462	0.00	0.00	39.07	3.16
3945	4056	5.838529	TCAATGACACGAGTAAGAAACTGA	58.161	37.500	0.00	0.00	39.07	3.41
3956	4067	7.384387	ACGAGTAAGAAACTGAGGTATTTTCAC	59.616	37.037	0.00	0.00	39.07	3.18
3957	4068	7.384115	CGAGTAAGAAACTGAGGTATTTTCACA	59.616	37.037	0.00	0.00	39.07	3.58
3966	4077	4.246458	GAGGTATTTTCACAAGTCGCTCT	58.754	43.478	0.00	0.00	0.00	4.09
3967	4078	4.246458	AGGTATTTTCACAAGTCGCTCTC	58.754	43.478	0.00	0.00	0.00	3.20
4018	4129	7.694388	TCTCGTATCGTTTTTCATGGATTAG	57.306	36.000	0.00	0.00	0.00	1.73
4044	4157	7.525360	GCATCTTGAGGTTCTTTTGGGAATAAA	60.525	37.037	0.00	0.00	0.00	1.40
4046	4159	7.951591	TCTTGAGGTTCTTTTGGGAATAAAAG	58.048	34.615	0.00	0.00	44.88	2.27
4057	4170	8.900983	TTTTGGGAATAAAAGAATTGTCTTGG	57.099	30.769	0.00	0.00	43.59	3.61
4060	4173	8.713708	TGGGAATAAAAGAATTGTCTTGGTAA	57.286	30.769	0.00	0.00	43.59	2.85
4092	4205	6.819397	AGAACAATAGAACAAAGGTTAGCC	57.181	37.500	0.00	0.00	37.36	3.93
4095	4208	6.382919	ACAATAGAACAAAGGTTAGCCCTA	57.617	37.500	0.00	0.00	45.47	3.53
4097	4210	6.012771	ACAATAGAACAAAGGTTAGCCCTACT	60.013	38.462	0.00	0.00	45.47	2.57
4102	4215	3.197983	ACAAAGGTTAGCCCTACTGCTAG	59.802	47.826	0.00	0.00	45.47	3.42
4136	4249	5.990668	AGGATTGTAGGTCCATTACAGTTC	58.009	41.667	0.00	0.00	38.25	3.01
4143	4256	2.633488	GTCCATTACAGTTCTGCTCCC	58.367	52.381	0.00	0.00	0.00	4.30
4149	4262	1.447489	CAGTTCTGCTCCCGCTCTG	60.447	63.158	0.00	0.00	36.97	3.35
4150	4263	1.910772	AGTTCTGCTCCCGCTCTGT	60.911	57.895	0.00	0.00	36.97	3.41
4158	4271	2.281761	CCCGCTCTGTTGGCTTGT	60.282	61.111	0.00	0.00	0.00	3.16
4160	4273	1.283793	CCGCTCTGTTGGCTTGTTG	59.716	57.895	0.00	0.00	0.00	3.33
4243	4356	0.395311	TGACCCTGGCCTAGTCTACG	60.395	60.000	17.49	0.00	0.00	3.51

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
56	57	2.341101	ATCAACTCCGAGACGCCGT	61.341	57.895	1.33	0.00	0.00	5.68
105	106	1.855295	TCCATGAACCCTACGCTACA	58.145	50.000	0.00	0.00	0.00	2.74
134	136	3.936203	GTCACCACCACCGCCTCA	61.936	66.667	0.00	0.00	0.00	3.86
148	150	1.895798	GAGACACACCTGATGGAGTCA	59.104	52.381	0.00	0.00	34.94	3.41
219	221	0.182775	ACGACAAAACCTCCCTGCTT	59.817	50.000	0.00	0.00	0.00	3.91
321	323	1.766496	TCGGAGGAAACCTGAACTGTT	59.234	47.619	0.00	0.00	31.76	3.16
329	331	0.531200	GACATCGTCGGAGGAAACCT	59.469	55.000	4.32	0.00	36.03	3.50
410	415	4.818546	CCATAGCCGTTGAAAGAATCAGAT	59.181	41.667	0.00	0.00	39.77	2.90
497	502	1.140312	TCACCTCTTCACCCAAGCTT	58.860	50.000	0.00	0.00	31.26	3.74
551	556	2.876079	GCCTGTTCCTTTCCTTCGACAT	60.876	50.000	0.00	0.00	0.00	3.06
690	696	0.171903	GCCTGGCATGATGTGTTGTC	59.828	55.000	15.17	0.00	0.00	3.18
978	1032	2.603953	GCTTTTCTTGCTTGAGATGCC	58.396	47.619	0.00	0.00	0.00	4.40
1584	1642	3.659089	AAACTCATCGACCGGCGGG	62.659	63.158	31.78	13.85	41.33	6.13
1801	1859	0.897621	ATGGAGATGACGTCACAGCA	59.102	50.000	22.71	3.33	0.00	4.41
1806	1864	2.685388	GAGAGACATGGAGATGACGTCA	59.315	50.000	22.48	22.48	33.36	4.35
1977	2047	3.845259	TCCATGGTACTCGCGGCC	61.845	66.667	12.58	4.55	0.00	6.13
2376	2458	2.511373	CTGAAGCCCATACGCGCA	60.511	61.111	5.73	0.00	0.00	6.09
2670	2754	1.732259	GTCGTCATCATTGCCGACTTT	59.268	47.619	2.68	0.00	44.55	2.66
3099	3208	3.368739	GGTTTGGCTTGATGAATTCCAGG	60.369	47.826	2.27	0.00	0.00	4.45
3112	3221	1.215423	AGTCAGTTCCTGGTTTGGCTT	59.785	47.619	0.00	0.00	31.51	4.35
3126	3235	3.755378	ACACGTATACCGAGAAAGTCAGT	59.245	43.478	0.00	0.00	40.70	3.41
3631	3742	6.484308	TCGACACCTTGTATAGTTCGATCATA	59.516	38.462	0.00	0.00	0.00	2.15
3637	3748	3.376234	TCCTCGACACCTTGTATAGTTCG	59.624	47.826	0.00	0.00	0.00	3.95
3642	3753	4.824289	GGTTTTCCTCGACACCTTGTATA	58.176	43.478	0.00	0.00	36.94	1.47
3669	3780	1.843206	GCAAGAGAGGGGAGGAGAAAT	59.157	52.381	0.00	0.00	0.00	2.17
3708	3819	1.758514	GGCCAGTCCCGAGATCTCA	60.759	63.158	22.31	0.00	0.00	3.27
3721	3832	1.566231	AGAAGGTTAGGAATGGGCCAG	59.434	52.381	13.78	0.00	0.00	4.85
3723	3834	1.133761	GGAGAAGGTTAGGAATGGGCC	60.134	57.143	0.00	0.00	0.00	5.80
3724	3835	1.564348	TGGAGAAGGTTAGGAATGGGC	59.436	52.381	0.00	0.00	0.00	5.36
3746	3857	4.373116	GGTCAGCCTTCGCCGACA	62.373	66.667	0.00	0.00	43.11	4.35
3747	3858	4.070552	AGGTCAGCCTTCGCCGAC	62.071	66.667	0.00	0.00	44.18	4.79
3751	3862	1.446966	GACTCAGGTCAGCCTTCGC	60.447	63.158	0.00	0.00	44.18	4.70
3757	3868	2.716017	CCTCCCGACTCAGGTCAGC	61.716	68.421	0.00	0.00	42.21	4.26
3769	3880	2.946988	TATGCACCTCTCCCCTCCCG	62.947	65.000	0.00	0.00	0.00	5.14
3872	3983	6.310224	CGTATAACGATGCATATGACCATCAA	59.690	38.462	17.97	7.71	46.05	2.57
3875	3986	5.720202	ACGTATAACGATGCATATGACCAT	58.280	37.500	6.97	0.81	46.05	3.55
3890	4001	4.497300	TGGCAACTTGGACTACGTATAAC	58.503	43.478	0.00	0.00	37.61	1.89
3896	4007	2.163818	TCTTGGCAACTTGGACTACG	57.836	50.000	0.00	0.00	37.61	3.51
3899	4010	3.217626	CTCTTTCTTGGCAACTTGGACT	58.782	45.455	0.00	0.00	37.61	3.85
3900	4011	2.952310	ACTCTTTCTTGGCAACTTGGAC	59.048	45.455	0.00	0.00	37.61	4.02
3927	4038	4.240175	ACCTCAGTTTCTTACTCGTGTC	57.760	45.455	0.00	0.00	33.85	3.67
3932	4043	8.603242	TGTGAAAATACCTCAGTTTCTTACTC	57.397	34.615	0.00	0.00	40.91	2.59
3933	4044	8.974060	TTGTGAAAATACCTCAGTTTCTTACT	57.026	30.769	0.00	0.00	40.91	2.24
3944	4055	4.246458	AGAGCGACTTGTGAAAATACCTC	58.754	43.478	0.00	0.00	0.00	3.85
3945	4056	4.246458	GAGAGCGACTTGTGAAAATACCT	58.754	43.478	0.00	0.00	0.00	3.08
3966	4077	1.531423	AGAACTCAACTACGGAGCGA	58.469	50.000	0.00	0.00	35.79	4.93
3967	4078	2.349297	AAGAACTCAACTACGGAGCG	57.651	50.000	0.00	0.00	35.79	5.03
4018	4129	3.157087	TCCCAAAAGAACCTCAAGATGC	58.843	45.455	0.00	0.00	0.00	3.91
4050	4163	8.684386	TTGTTCTAATGATTGTTACCAAGACA	57.316	30.769	0.00	0.00	33.17	3.41
4088	4201	1.286849	TGTGGACTAGCAGTAGGGCTA	59.713	52.381	0.00	0.00	43.70	3.93
4092	4205	1.550524	TGCTTGTGGACTAGCAGTAGG	59.449	52.381	11.19	0.00	46.54	3.18
4102	4215	2.749621	CCTACAATCCTTGCTTGTGGAC	59.250	50.000	1.41	0.00	37.29	4.02
4143	4256	0.040958	GACAACAAGCCAACAGAGCG	60.041	55.000	0.00	0.00	34.64	5.03
4149	4262	4.072131	TCCTTCATAGACAACAAGCCAAC	58.928	43.478	0.00	0.00	0.00	3.77
4150	4263	4.072131	GTCCTTCATAGACAACAAGCCAA	58.928	43.478	0.00	0.00	34.27	4.52
4158	4271	4.245660	CAGCTTTCGTCCTTCATAGACAA	58.754	43.478	0.00	0.00	33.70	3.18
4160	4273	3.190874	CCAGCTTTCGTCCTTCATAGAC	58.809	50.000	0.00	0.00	0.00	2.59
4203	4316	1.154225	GGCCTTCATTGCGTTGACG	60.154	57.895	0.00	0.00	43.27	4.35

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.