AutoCloner

Multiple sequence alignment - TraesCS4A01G080900

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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	TraesCS4A01G080900	chr4A	100.000	4447	0	0	1	4447	83407237	83402791	0.000000e+00	8213.0
1	TraesCS4A01G080900	chr4A	95.232	776	36	1	3669	4443	438694287	438693512	0.000000e+00	1227.0
2	TraesCS4A01G080900	chr4A	89.046	776	80	4	3669	4443	668645676	668644905	0.000000e+00	957.0
3	TraesCS4A01G080900	chr4B	92.982	3135	148	25	581	3671	467796187	467799293	0.000000e+00	4505.0
4	TraesCS4A01G080900	chr4B	92.035	565	41	4	3	565	467790248	467790810	0.000000e+00	791.0
5	TraesCS4A01G080900	chr4D	95.507	1647	58	8	1872	3515	380338246	380339879	0.000000e+00	2617.0
6	TraesCS4A01G080900	chr4D	92.781	1773	90	11	85	1851	380335700	380337440	0.000000e+00	2531.0
7	TraesCS4A01G080900	chr4D	87.597	774	94	2	3670	4443	82942478	82941707	0.000000e+00	896.0
8	TraesCS4A01G080900	chr4D	97.248	109	3	0	3520	3628	380341236	380341344	7.600000e-43	185.0
9	TraesCS4A01G080900	chr5A	93.686	776	47	1	3670	4443	602236849	602237624	0.000000e+00	1160.0
10	TraesCS4A01G080900	chr5A	81.767	713	121	8	3	711	616645934	616646641	4.960000e-164	588.0
11	TraesCS4A01G080900	chr6B	89.433	776	78	3	3669	4443	59935623	59936395	0.000000e+00	976.0
12	TraesCS4A01G080900	chr1B	89.175	776	80	4	3669	4443	410050701	410049929	0.000000e+00	965.0
13	TraesCS4A01G080900	chr6A	86.968	775	98	3	3670	4443	503930886	503931658	0.000000e+00	869.0
14	TraesCS4A01G080900	chr5B	86.710	775	99	4	3669	4443	485735979	485735209	0.000000e+00	857.0
15	TraesCS4A01G080900	chr5B	86.598	776	100	4	3669	4443	462212623	462211851	0.000000e+00	854.0
16	TraesCS4A01G080900	chr5B	90.566	53	4	1	3134	3185	299680039	299680091	7.980000e-08	69.4
17	TraesCS4A01G080900	chr5D	87.552	241	23	3	2976	3212	20094388	20094625	5.670000e-69	272.0
18	TraesCS4A01G080900	chr5D	82.784	273	33	7	3247	3516	20094620	20094881	9.620000e-57	231.0
19	TraesCS4A01G080900	chr2B	84.559	272	29	6	3247	3515	291851214	291851475	1.590000e-64	257.0
20	TraesCS4A01G080900	chr2B	83.088	272	32	7	3247	3515	532869461	532869201	7.440000e-58	235.0
21	TraesCS4A01G080900	chr3B	85.537	242	27	4	2975	3212	542403938	542403701	3.440000e-61	246.0
22	TraesCS4A01G080900	chr3B	83.150	273	32	8	3247	3515	542403706	542403444	2.070000e-58	237.0
23	TraesCS4A01G080900	chr3B	90.566	53	4	1	3134	3185	303333698	303333646	7.980000e-08	69.4
24	TraesCS4A01G080900	chr3B	91.837	49	4	0	3134	3182	554900672	554900720	7.980000e-08	69.4

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	TraesCS4A01G080900	chr4A	83402791	83407237	4446	True	8213.000000	8213	100.000000	1	4447	1	chr4A.!!$R1	4446
1	TraesCS4A01G080900	chr4A	438693512	438694287	775	True	1227.000000	1227	95.232000	3669	4443	1	chr4A.!!$R2	774
2	TraesCS4A01G080900	chr4A	668644905	668645676	771	True	957.000000	957	89.046000	3669	4443	1	chr4A.!!$R3	774
3	TraesCS4A01G080900	chr4B	467796187	467799293	3106	False	4505.000000	4505	92.982000	581	3671	1	chr4B.!!$F2	3090
4	TraesCS4A01G080900	chr4B	467790248	467790810	562	False	791.000000	791	92.035000	3	565	1	chr4B.!!$F1	562
5	TraesCS4A01G080900	chr4D	380335700	380341344	5644	False	1777.666667	2617	95.178667	85	3628	3	chr4D.!!$F1	3543
6	TraesCS4A01G080900	chr4D	82941707	82942478	771	True	896.000000	896	87.597000	3670	4443	1	chr4D.!!$R1	773
7	TraesCS4A01G080900	chr5A	602236849	602237624	775	False	1160.000000	1160	93.686000	3670	4443	1	chr5A.!!$F1	773
8	TraesCS4A01G080900	chr5A	616645934	616646641	707	False	588.000000	588	81.767000	3	711	1	chr5A.!!$F2	708
9	TraesCS4A01G080900	chr6B	59935623	59936395	772	False	976.000000	976	89.433000	3669	4443	1	chr6B.!!$F1	774
10	TraesCS4A01G080900	chr1B	410049929	410050701	772	True	965.000000	965	89.175000	3669	4443	1	chr1B.!!$R1	774
11	TraesCS4A01G080900	chr6A	503930886	503931658	772	False	869.000000	869	86.968000	3670	4443	1	chr6A.!!$F1	773
12	TraesCS4A01G080900	chr5B	485735209	485735979	770	True	857.000000	857	86.710000	3669	4443	1	chr5B.!!$R2	774
13	TraesCS4A01G080900	chr5B	462211851	462212623	772	True	854.000000	854	86.598000	3669	4443	1	chr5B.!!$R1	774

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	Hairpin	End Stability	Orientation
128	129	0.318699	CAAGTGAACTCAGCCGTCGA	60.319	55.000	0.00	0.0	4.20	F
1567	1572	0.327000	AAGAGCCTAGACCATGCCCT	60.327	55.000	0.00	0.0	5.19	F
2249	3050	1.377987	GCAATAGAACCGGGTGGCA	60.378	57.895	6.32	39.7	4.92	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1900	2696	0.179156	GATGCAACGCCCAACATCTG	60.179	55.0	0.00	36.75	2.90	R
2483	3284	0.676736	GGCTAGTCATCCTCTTCCGG	59.323	60.0	0.00	0.00	5.14	R
3467	4274	0.806868	CCAACGCAATGCAGAGTCAT	59.193	50.0	5.91	0.00	3.06	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	0.399949	ACTCTTGGTGGTCCAGTCCA	60.400	55.000	0.00	0.00	45.22	4.02
69	70	3.054434	ACATCTGTTATGTAGGGCAAGCA	60.054	43.478	0.00	0.00	0.00	3.91
70	71	3.931907	TCTGTTATGTAGGGCAAGCAT	57.068	42.857	0.00	0.00	0.00	3.79
71	72	3.544684	TCTGTTATGTAGGGCAAGCATG	58.455	45.455	0.00	0.00	0.00	4.06
128	129	0.318699	CAAGTGAACTCAGCCGTCGA	60.319	55.000	0.00	0.00	0.00	4.20
225	226	1.001706	GCTATGGAGTCGCGTACATCA	60.002	52.381	5.77	6.27	0.00	3.07
231	232	0.606604	AGTCGCGTACATCAGGGTTT	59.393	50.000	5.77	0.00	0.00	3.27
316	317	4.029809	GCCCAACACCGGTAGCCT	62.030	66.667	6.87	0.00	0.00	4.58
375	376	2.414785	GCGCACCCGGGATTTGATT	61.415	57.895	32.02	0.00	34.32	2.57
376	377	1.098712	GCGCACCCGGGATTTGATTA	61.099	55.000	32.02	0.00	34.32	1.75
455	456	3.782523	TCCCAGAATAGAGCATTGTTCCT	59.217	43.478	0.00	0.00	0.00	3.36
472	473	3.719268	TCCTATCACCAATTGTGCAGT	57.281	42.857	4.43	0.00	45.03	4.40
591	593	2.831526	TCTGGCCTGCATCGCTATATTA	59.168	45.455	3.32	0.00	0.00	0.98
602	604	5.352569	GCATCGCTATATTAAGCCACTTCAT	59.647	40.000	0.00	0.00	39.43	2.57
625	627	4.101448	GAGTGCCGAGGCCACCAT	62.101	66.667	12.05	0.00	41.09	3.55
661	664	2.097110	AACTGAGTCCCACACTACCA	57.903	50.000	0.00	0.00	34.41	3.25
750	753	4.704540	CCCCAATTATACAGCTGTTGTTGA	59.295	41.667	27.06	6.71	41.29	3.18
778	781	7.840342	TGCTCTTAGATTGATCTTTCTGTTC	57.160	36.000	0.00	0.00	38.32	3.18
816	819	2.202236	AATCGAGCTGGCCACCATGT	62.202	55.000	0.00	0.00	30.82	3.21
817	820	2.881539	ATCGAGCTGGCCACCATGTG	62.882	60.000	0.00	0.00	30.82	3.21
818	821	3.446570	GAGCTGGCCACCATGTGC	61.447	66.667	0.00	1.85	30.82	4.57
821	824	4.720902	CTGGCCACCATGTGCGGA	62.721	66.667	0.00	0.00	30.82	5.54
822	825	4.045781	TGGCCACCATGTGCGGAT	62.046	61.111	0.00	0.00	31.34	4.18
823	826	3.520862	GGCCACCATGTGCGGATG	61.521	66.667	0.00	0.00	31.34	3.51
867	870	0.601576	TTCACCGTTGGATGGTCACG	60.602	55.000	0.00	0.00	34.66	4.35
1030	1033	0.890996	CAAGGGGTGAGAAGTGTGGC	60.891	60.000	0.00	0.00	0.00	5.01
1031	1034	2.358737	GGGGTGAGAAGTGTGGCG	60.359	66.667	0.00	0.00	0.00	5.69
1039	1042	0.814010	AGAAGTGTGGCGTTGTGTCC	60.814	55.000	0.00	0.00	0.00	4.02
1040	1043	0.814010	GAAGTGTGGCGTTGTGTCCT	60.814	55.000	0.00	0.00	0.00	3.85
1041	1044	1.095228	AAGTGTGGCGTTGTGTCCTG	61.095	55.000	0.00	0.00	0.00	3.86
1067	1070	0.532862	CTACCCATGATCACCGTGCC	60.533	60.000	0.00	0.00	0.00	5.01
1315	1318	0.810031	CGCCCGTTCTATGGAGGTTG	60.810	60.000	0.00	0.00	0.00	3.77
1368	1371	1.609072	GTTTCTTGGTGGCTTCAGGTC	59.391	52.381	0.00	0.00	0.00	3.85
1443	1446	8.338259	CCGATTTTCTACGAGAATCAAATTGAT	58.662	33.333	2.07	2.07	39.09	2.57
1557	1562	4.887748	TGACTGAAACTGAAAGAGCCTAG	58.112	43.478	0.00	0.00	37.43	3.02
1560	1565	4.249661	CTGAAACTGAAAGAGCCTAGACC	58.750	47.826	0.00	0.00	37.43	3.85
1561	1566	3.646162	TGAAACTGAAAGAGCCTAGACCA	59.354	43.478	0.00	0.00	37.43	4.02
1567	1572	0.327000	AAGAGCCTAGACCATGCCCT	60.327	55.000	0.00	0.00	0.00	5.19
1611	1616	1.473677	TGATTTTCTCCAATGCAGGCG	59.526	47.619	0.00	0.00	0.00	5.52
1698	1704	5.009010	CCCTTCGATTGATGTCCTAATTTGG	59.991	44.000	0.00	0.00	0.00	3.28
1702	1708	4.024893	CGATTGATGTCCTAATTTGGTCCG	60.025	45.833	5.81	0.00	0.00	4.79
1712	1718	4.217550	CCTAATTTGGTCCGCTCTTCAAAA	59.782	41.667	0.00	0.00	33.62	2.44
1738	1744	6.707440	TTAATATGTTCGTTCCAATGCCAT	57.293	33.333	0.00	0.00	0.00	4.40
1769	1779	4.883083	ACATGTACAATGAGACGAACTGT	58.117	39.130	0.00	0.00	0.00	3.55
1773	1783	3.469008	ACAATGAGACGAACTGTTGGA	57.531	42.857	9.59	0.00	0.00	3.53
1774	1785	4.008074	ACAATGAGACGAACTGTTGGAT	57.992	40.909	9.59	0.00	0.00	3.41
1900	2696	6.084326	TGTTTTAGCTGGAATGACCTTTTC	57.916	37.500	0.00	0.00	39.86	2.29
1940	2736	2.165319	AGGTCTTTCGTGCCTTGTAC	57.835	50.000	0.00	0.00	0.00	2.90
1965	2761	8.581578	ACGGTGGATGTTAACTGAATAATTTTT	58.418	29.630	7.22	0.00	0.00	1.94
2192	2992	1.827969	CCTTCTCTTCCTCGACCACAT	59.172	52.381	0.00	0.00	0.00	3.21
2249	3050	1.377987	GCAATAGAACCGGGTGGCA	60.378	57.895	6.32	0.00	39.70	4.92
2268	3069	2.352960	GCATTGGGAGAATTCAGTCGTC	59.647	50.000	8.44	0.00	0.00	4.20
2728	3529	1.479323	GGCATTGGCTCATTGACATGT	59.521	47.619	0.00	0.00	40.87	3.21
2797	3598	5.066505	CAGGTAATGGGTTGTTCTCTAATGC	59.933	44.000	0.00	0.00	0.00	3.56
2835	3636	4.572389	GTCTGTGGAATAACACCATGCTAG	59.428	45.833	0.00	0.00	40.62	3.42
2965	3766	9.587772	GAGATGACAAAATTACTTAGCTACAGA	57.412	33.333	0.00	0.00	0.00	3.41
3039	3840	4.402155	TGCCTTTTATGCCCTTGATAACAG	59.598	41.667	0.00	0.00	0.00	3.16
3113	3915	6.590357	CGACATTCCGAATAAATGGATGTAC	58.410	40.000	0.00	0.00	38.23	2.90
3142	3944	4.190001	CAAAGGAGATGTCTGATGGTCTG	58.810	47.826	0.00	0.00	0.00	3.51
3453	4260	5.121768	ACATAGCGTGTTCTTTCCAATGTAC	59.878	40.000	0.00	0.00	38.01	2.90
3497	4304	3.486841	GCATTGCGTTGGTGCTTATATTG	59.513	43.478	0.00	0.00	36.02	1.90
3503	4310	3.242739	CGTTGGTGCTTATATTGTGGAGC	60.243	47.826	0.00	0.00	35.74	4.70
3635	5794	2.368875	AGTGTTGACCTAAGACCACAGG	59.631	50.000	0.00	0.00	33.24	4.00
3957	6116	5.965033	AGAAGGAGAAAGCATGGAATCTA	57.035	39.130	0.00	0.00	0.00	1.98
4007	6166	0.105760	AAACCATGGTTGTGGAGGCA	60.106	50.000	30.44	0.00	42.02	4.75
4072	6231	4.766373	TGTTGATGACACCAAGCATAATGT	59.234	37.500	0.00	0.00	32.00	2.71
4255	6418	1.203440	AGTTTCCTGCCTCCCCTTCTA	60.203	52.381	0.00	0.00	0.00	2.10
4389	6552	6.829849	TGCCATTTCCAAGAAGAGAAATTTT	58.170	32.000	0.00	0.00	39.97	1.82
4443	6606	4.128925	TGCACTAGCTAATCCTGAACTG	57.871	45.455	0.00	0.00	42.74	3.16
4444	6607	3.515502	TGCACTAGCTAATCCTGAACTGT	59.484	43.478	0.00	0.00	42.74	3.55
4445	6608	3.868077	GCACTAGCTAATCCTGAACTGTG	59.132	47.826	0.00	0.00	37.91	3.66
4446	6609	3.868077	CACTAGCTAATCCTGAACTGTGC	59.132	47.826	0.00	0.00	0.00	4.57

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	1.132977	TGGACTGGACCACCAAGAGTA	60.133	52.381	1.28	0.00	46.32	2.59
1	2	0.399949	TGGACTGGACCACCAAGAGT	60.400	55.000	1.28	0.00	46.32	3.24
20	21	2.338984	GACCAACTGGCTCGTCGT	59.661	61.111	0.00	0.00	39.32	4.34
23	24	2.283529	ATCCGACCAACTGGCTCGT	61.284	57.895	15.03	1.41	39.32	4.18
41	42	4.625324	GCCCTACATAACAGATGTTGGACA	60.625	45.833	16.52	0.00	44.08	4.02
88	89	2.119495	GAGATCCAAGGCCCTACTTCA	58.881	52.381	0.00	0.00	0.00	3.02
204	205	1.267261	GATGTACGCGACTCCATAGCT	59.733	52.381	15.93	0.00	0.00	3.32
231	232	4.308458	ACAACGCGGGTGCAGCTA	62.308	61.111	16.65	0.00	42.97	3.32
316	317	3.454573	ATTGACGGACGGCGGCTA	61.455	61.111	14.66	0.00	0.00	3.93
336	337	1.833630	TCTAGCTGCACTGTTAGCCAT	59.166	47.619	1.02	0.00	40.76	4.40
375	376	1.404986	GCGCCGAACATATATGCCCTA	60.405	52.381	12.79	0.00	0.00	3.53
376	377	0.673644	GCGCCGAACATATATGCCCT	60.674	55.000	12.79	0.00	0.00	5.19
472	473	3.554696	TTTTTAGGGCGGCGGCTCA	62.555	57.895	32.30	17.75	44.30	4.26
591	593	1.072331	ACTCCGAACATGAAGTGGCTT	59.928	47.619	0.00	0.00	0.00	4.35
637	640	1.143684	AGTGTGGGACTCAGTTTGCAT	59.856	47.619	0.00	0.00	30.68	3.96
661	664	2.114670	CCTCCGGCGAACAATGCAT	61.115	57.895	9.30	0.00	0.00	3.96
778	781	9.643652	GCTCGATTAGTTTCAGATTTGATAAAG	57.356	33.333	0.00	0.00	32.27	1.85
782	785	6.259608	CCAGCTCGATTAGTTTCAGATTTGAT	59.740	38.462	0.00	0.00	32.27	2.57
823	826	2.677836	TGCTCGTCAGAAAATATGGCAC	59.322	45.455	0.00	0.00	0.00	5.01
1030	1033	3.716006	CCGCAGCAGGACACAACG	61.716	66.667	0.00	0.00	0.00	4.10
1031	1034	4.030452	GCCGCAGCAGGACACAAC	62.030	66.667	7.39	0.00	39.53	3.32
1039	1042	2.671370	ATCATGGGTAGCCGCAGCAG	62.671	60.000	6.45	0.00	43.56	4.24
1040	1043	2.665008	GATCATGGGTAGCCGCAGCA	62.665	60.000	6.45	0.00	43.56	4.41
1041	1044	1.963338	GATCATGGGTAGCCGCAGC	60.963	63.158	6.45	0.00	36.91	5.25
1244	1247	0.877649	CGAACTCGATGGCCTGGATG	60.878	60.000	3.32	0.00	43.02	3.51
1306	1309	2.610438	AATCAAGTGGCAACCTCCAT	57.390	45.000	0.00	0.00	38.57	3.41
1315	1318	0.960364	TCGGCAGGAAATCAAGTGGC	60.960	55.000	0.00	0.00	0.00	5.01
1368	1371	2.461110	GCCGACAGTTATGGCCACG	61.461	63.158	8.16	4.85	43.06	4.94
1443	1446	9.275398	TCTTGCTTAAGAAAACTTACGGAATTA	57.725	29.630	6.67	0.00	0.00	1.40
1459	1464	7.156876	TGTCCAAATACCATTCTTGCTTAAG	57.843	36.000	0.00	0.00	0.00	1.85
1523	1528	7.482654	TCAGTTTCAGTCAACATGTTTCTAG	57.517	36.000	8.77	0.00	0.00	2.43
1524	1529	7.857734	TTCAGTTTCAGTCAACATGTTTCTA	57.142	32.000	8.77	0.00	0.00	2.10
1594	1599	1.541147	CTTCGCCTGCATTGGAGAAAA	59.459	47.619	11.39	0.00	43.36	2.29
1611	1616	2.147150	GGCTGGTTGTTGTCTCTCTTC	58.853	52.381	0.00	0.00	0.00	2.87
1698	1704	8.911247	ACATATTAAAATTTTGAAGAGCGGAC	57.089	30.769	13.76	0.00	0.00	4.79
1712	1718	7.551585	TGGCATTGGAACGAACATATTAAAAT	58.448	30.769	0.00	0.00	0.00	1.82
1729	1735	2.997980	TGTAGTGTACCATGGCATTGG	58.002	47.619	13.04	12.53	42.82	3.16
1754	1764	5.362556	AAATCCAACAGTTCGTCTCATTG	57.637	39.130	0.00	0.00	0.00	2.82
1769	1779	5.523438	ACTTTAACGCTTCCAAAATCCAA	57.477	34.783	0.00	0.00	0.00	3.53
1773	1783	6.569780	ACTCAAACTTTAACGCTTCCAAAAT	58.430	32.000	0.00	0.00	0.00	1.82
1774	1785	5.956642	ACTCAAACTTTAACGCTTCCAAAA	58.043	33.333	0.00	0.00	0.00	2.44
1900	2696	0.179156	GATGCAACGCCCAACATCTG	60.179	55.000	0.00	0.00	36.75	2.90
1940	2736	8.859156	CAAAAATTATTCAGTTAACATCCACCG	58.141	33.333	8.61	0.00	0.00	4.94
1965	2761	7.987750	TCAGTTATAACATAGGTGCAAAACA	57.012	32.000	17.65	0.00	0.00	2.83
2151	2951	9.338622	AGAAGGTTGTGTTATATATAAAGCACC	57.661	33.333	17.26	14.83	0.00	5.01
2249	3050	3.981071	TGACGACTGAATTCTCCCAAT	57.019	42.857	7.05	0.00	0.00	3.16
2476	3277	3.197983	AGTCATCCTCTTCCGGTTTAAGG	59.802	47.826	0.00	4.95	0.00	2.69
2483	3284	0.676736	GGCTAGTCATCCTCTTCCGG	59.323	60.000	0.00	0.00	0.00	5.14
2728	3529	1.280710	CCACTACCTTGGCATGTGGTA	59.719	52.381	14.05	12.01	42.11	3.25
2835	3636	9.874215	GTACCACTCTGAAGTTGTTAAATAAAC	57.126	33.333	0.00	0.00	33.67	2.01
2965	3766	6.383726	ACAATATGAAAAACACTATGGGCCAT	59.616	34.615	24.69	24.69	0.00	4.40
3039	3840	9.939802	ATAAGAAACGGGTATATTCAATACTCC	57.060	33.333	0.00	0.00	0.00	3.85
3213	4017	1.480954	TCAGATTCCTCACCTTACCGC	59.519	52.381	0.00	0.00	0.00	5.68
3311	4117	9.367160	CCATACATATTTACCAAAAAGGGAGAT	57.633	33.333	0.00	0.00	43.89	2.75
3453	4260	7.509141	TGCAGAGTCATCTTCTATCTTCTAG	57.491	40.000	0.00	0.00	31.64	2.43
3464	4271	2.105006	ACGCAATGCAGAGTCATCTT	57.895	45.000	5.91	0.00	31.64	2.40
3467	4274	0.806868	CCAACGCAATGCAGAGTCAT	59.193	50.000	5.91	0.00	0.00	3.06
3497	4304	2.291741	GCATATAACTTGGCTGCTCCAC	59.708	50.000	0.00	0.00	46.55	4.02
3503	4310	4.581824	AGATTGTGGCATATAACTTGGCTG	59.418	41.667	0.00	0.00	40.12	4.85
3957	6116	6.773638	ACAGTGTGTTATCTTCTGATTCCTT	58.226	36.000	0.00	0.00	34.32	3.36
4007	6166	5.102313	GCCTGCGCTTTTTCTTTGTTATAT	58.898	37.500	9.73	0.00	0.00	0.86
4236	6399	1.286248	TAGAAGGGGAGGCAGGAAAC	58.714	55.000	0.00	0.00	0.00	2.78
4255	6418	2.277008	ATCACCTCTCCCACATCCTT	57.723	50.000	0.00	0.00	0.00	3.36
4389	6552	7.630082	AGTTATGGTTAGCTGAATTACCTTCA	58.370	34.615	0.00	0.00	41.61	3.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.