AutoCloner

Multiple sequence alignment - TraesCS4B01G140000

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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	TraesCS4B01G140000	chr4B	100.000	2932	0	0	1	2932	184242488	184239557	0.000000e+00	5415.0
1	TraesCS4B01G140000	chr4D	95.019	2309	63	22	641	2932	121441013	121438740	0.000000e+00	3579.0
2	TraesCS4B01G140000	chr4D	84.000	525	58	15	136	641	294261191	294260674	5.680000e-132	481.0
3	TraesCS4B01G140000	chr4D	82.659	519	64	16	142	641	411306759	411306248	1.250000e-118	436.0
4	TraesCS4B01G140000	chr4D	90.071	141	10	4	1	141	121441150	121441014	2.320000e-41	180.0
5	TraesCS4B01G140000	chr4A	95.330	2184	69	13	761	2932	453613019	453610857	0.000000e+00	3437.0
6	TraesCS4B01G140000	chr3D	83.591	518	60	13	142	641	356407615	356407105	2.060000e-126	462.0
7	TraesCS4B01G140000	chr3D	82.890	526	62	16	136	641	354439986	354440503	5.760000e-122	448.0
8	TraesCS4B01G140000	chr3D	95.169	207	10	0	141	347	598055206	598055000	7.830000e-86	327.0
9	TraesCS4B01G140000	chr2D	83.048	525	59	17	137	641	329246937	329246423	1.600000e-122	449.0
10	TraesCS4B01G140000	chr2D	82.792	523	64	14	136	639	506564928	506564413	7.460000e-121	444.0
11	TraesCS4B01G140000	chr2D	82.792	523	64	14	136	639	506575363	506574848	7.460000e-121	444.0
12	TraesCS4B01G140000	chr5D	82.667	525	65	14	136	641	241192056	241191539	2.680000e-120	442.0
13	TraesCS4B01G140000	chr5B	91.304	299	22	3	332	628	444190943	444190647	3.520000e-109	405.0
14	TraesCS4B01G140000	chr2B	95.631	206	9	0	142	347	509155272	509155067	6.060000e-87	331.0
15	TraesCS4B01G140000	chr2B	96.040	202	8	0	140	341	135770189	135770390	2.180000e-86	329.0
16	TraesCS4B01G140000	chr2B	77.055	523	93	18	140	643	796466969	796466455	2.880000e-70	276.0
17	TraesCS4B01G140000	chr2B	74.632	544	120	13	1201	1735	549539572	549539038	1.060000e-54	224.0
18	TraesCS4B01G140000	chr2A	75.137	547	115	10	1201	1735	612306392	612305855	1.360000e-58	237.0
19	TraesCS4B01G140000	chr3A	76.562	384	82	7	1336	1715	688065379	688065000	1.380000e-48	204.0
20	TraesCS4B01G140000	chr3B	76.431	297	62	7	1420	1712	730432591	730432299	1.410000e-33	154.0
21	TraesCS4B01G140000	chr3B	83.951	81	13	0	1420	1500	730377185	730377105	8.710000e-11	78.7
22	TraesCS4B01G140000	chr3B	83.951	81	13	0	1420	1500	730413201	730413121	8.710000e-11	78.7

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	TraesCS4B01G140000	chr4B	184239557	184242488	2931	True	5415.0	5415	100.000	1	2932	1	chr4B.!!$R1	2931
1	TraesCS4B01G140000	chr4D	121438740	121441150	2410	True	1879.5	3579	92.545	1	2932	2	chr4D.!!$R3	2931
2	TraesCS4B01G140000	chr4D	294260674	294261191	517	True	481.0	481	84.000	136	641	1	chr4D.!!$R1	505
3	TraesCS4B01G140000	chr4D	411306248	411306759	511	True	436.0	436	82.659	142	641	1	chr4D.!!$R2	499
4	TraesCS4B01G140000	chr4A	453610857	453613019	2162	True	3437.0	3437	95.330	761	2932	1	chr4A.!!$R1	2171
5	TraesCS4B01G140000	chr3D	356407105	356407615	510	True	462.0	462	83.591	142	641	1	chr3D.!!$R1	499
6	TraesCS4B01G140000	chr3D	354439986	354440503	517	False	448.0	448	82.890	136	641	1	chr3D.!!$F1	505
7	TraesCS4B01G140000	chr2D	329246423	329246937	514	True	449.0	449	83.048	137	641	1	chr2D.!!$R1	504
8	TraesCS4B01G140000	chr2D	506564413	506564928	515	True	444.0	444	82.792	136	639	1	chr2D.!!$R2	503
9	TraesCS4B01G140000	chr2D	506574848	506575363	515	True	444.0	444	82.792	136	639	1	chr2D.!!$R3	503
10	TraesCS4B01G140000	chr5D	241191539	241192056	517	True	442.0	442	82.667	136	641	1	chr5D.!!$R1	505
11	TraesCS4B01G140000	chr2B	796466455	796466969	514	True	276.0	276	77.055	140	643	1	chr2B.!!$R3	503
12	TraesCS4B01G140000	chr2B	549539038	549539572	534	True	224.0	224	74.632	1201	1735	1	chr2B.!!$R2	534
13	TraesCS4B01G140000	chr2A	612305855	612306392	537	True	237.0	237	75.137	1201	1735	1	chr2A.!!$R1	534

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
751	765	0.804989	CGAAAGCAGTGAACATCCCC	59.195	55.0	0.00	0.00	0.0	4.81	F
1177	1200	0.377905	TGCACGCATTGATCAATCGG	59.622	50.0	27.95	20.98	0.0	4.18	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1898	1930	0.809636	CTATTGTGCGTCCGCCATCA	60.810	55.000	9.43	3.48	41.09	3.07	R
2321	2363	2.039480	AGATACATGCGGCATTGATCCT	59.961	45.455	21.64	11.08	0.00	3.24	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
29	30	2.284112	ATTTGGGTGCAGGCCAGG	60.284	61.111	5.01	0.00	0.00	4.45
39	40	1.619807	GCAGGCCAGGCATCCAAATT	61.620	55.000	15.19	0.00	0.00	1.82
44	45	1.559368	CCAGGCATCCAAATTGGTGA	58.441	50.000	12.28	0.00	39.03	4.02
48	49	4.566070	CCAGGCATCCAAATTGGTGAAAAT	60.566	41.667	12.28	0.00	39.03	1.82
51	52	6.016108	CAGGCATCCAAATTGGTGAAAATTTT	60.016	34.615	12.28	2.28	37.59	1.82
112	113	1.071605	GAGACCACGTGTTCATCTGC	58.928	55.000	15.90	3.81	0.00	4.26
119	120	1.081892	CGTGTTCATCTGCAGGGAAG	58.918	55.000	15.13	1.52	0.00	3.46
120	121	1.338105	CGTGTTCATCTGCAGGGAAGA	60.338	52.381	15.13	13.57	0.00	2.87
121	122	2.354259	GTGTTCATCTGCAGGGAAGAG	58.646	52.381	15.13	0.00	0.00	2.85
124	125	2.235898	GTTCATCTGCAGGGAAGAGACT	59.764	50.000	15.13	0.00	0.00	3.24
135	136	5.813157	GCAGGGAAGAGACTACTGTAAATTC	59.187	44.000	0.00	0.00	0.00	2.17
138	139	8.192110	CAGGGAAGAGACTACTGTAAATTCTAC	58.808	40.741	0.00	0.00	0.00	2.59
147	148	9.341078	GACTACTGTAAATTCTACTAGGCTAGT	57.659	37.037	28.60	28.60	42.68	2.57
167	168	5.855740	AGTCATAGTGGGAGTAACTTAGC	57.144	43.478	0.00	0.00	0.00	3.09
178	179	8.689972	GTGGGAGTAACTTAGCTAGTAACATAA	58.310	37.037	0.00	0.00	35.54	1.90
180	181	7.859875	GGGAGTAACTTAGCTAGTAACATAACG	59.140	40.741	0.00	0.00	35.54	3.18
183	184	6.882458	AACTTAGCTAGTAACATAACGCAC	57.118	37.500	0.00	0.00	35.54	5.34
221	224	7.403312	TGCTTATGTGGCAAGTATTTAATGT	57.597	32.000	0.00	0.00	36.71	2.71
223	226	7.121907	TGCTTATGTGGCAAGTATTTAATGTGA	59.878	33.333	0.00	0.00	36.71	3.58
224	227	7.645340	GCTTATGTGGCAAGTATTTAATGTGAG	59.355	37.037	0.00	0.00	0.00	3.51
263	277	5.012251	TGTTACTGTAACATAGTGCTTCCCA	59.988	40.000	25.14	2.58	43.23	4.37
266	280	4.286032	ACTGTAACATAGTGCTTCCCAAGA	59.714	41.667	0.00	0.00	0.00	3.02
267	281	4.575885	TGTAACATAGTGCTTCCCAAGAC	58.424	43.478	0.00	0.00	0.00	3.01
280	294	5.106515	GCTTCCCAAGACAAAATGAGTCTAC	60.107	44.000	0.00	0.00	45.11	2.59
282	296	5.935945	TCCCAAGACAAAATGAGTCTACAA	58.064	37.500	0.00	0.00	45.11	2.41
283	297	5.997746	TCCCAAGACAAAATGAGTCTACAAG	59.002	40.000	0.00	0.00	45.11	3.16
284	298	5.335191	CCCAAGACAAAATGAGTCTACAAGC	60.335	44.000	0.00	0.00	45.11	4.01
289	303	9.944376	AAGACAAAATGAGTCTACAAGCTAATA	57.056	29.630	0.00	0.00	45.11	0.98
299	313	9.587772	GAGTCTACAAGCTAATAAATGAAGTCA	57.412	33.333	0.00	0.00	0.00	3.41
330	344	8.792830	AACACTACTATCATGTTACTTTGCAT	57.207	30.769	0.00	0.00	34.84	3.96
353	367	2.086869	TGAAAGTACTACCTCCGTCCG	58.913	52.381	0.00	0.00	0.00	4.79
402	416	6.375736	TCGTGCCAAATTTTGACCATAGATTA	59.624	34.615	10.72	0.00	0.00	1.75
403	417	6.692681	CGTGCCAAATTTTGACCATAGATTAG	59.307	38.462	10.72	0.00	0.00	1.73
430	444	2.704725	AAATGTTCACGCATGTCACC	57.295	45.000	0.00	0.00	0.00	4.02
434	448	1.064803	TGTTCACGCATGTCACCAAAC	59.935	47.619	0.00	0.00	0.00	2.93
442	456	6.094742	TCACGCATGTCACCAAACATTATATT	59.905	34.615	0.00	0.00	37.78	1.28
443	457	6.751425	CACGCATGTCACCAAACATTATATTT	59.249	34.615	0.00	0.00	37.78	1.40
476	490	4.630069	ACGTTCAAATACGAATCCAAGGAG	59.370	41.667	2.93	0.00	43.99	3.69
569	583	3.189618	GGGACCTATAAACCAAGACGG	57.810	52.381	0.00	0.00	42.50	4.79
583	597	4.263683	ACCAAGACGGAGGTAGTAGTAACT	60.264	45.833	0.00	0.00	36.07	2.24
593	607	7.437862	CGGAGGTAGTAGTAACTTAGACTAGTG	59.562	44.444	0.00	0.00	37.15	2.74
594	608	8.264347	GGAGGTAGTAGTAACTTAGACTAGTGT	58.736	40.741	0.00	0.00	37.15	3.55
596	610	7.978975	AGGTAGTAGTAACTTAGACTAGTGTCG	59.021	40.741	0.00	0.00	41.30	4.35
598	612	7.593875	AGTAGTAACTTAGACTAGTGTCGTG	57.406	40.000	0.00	0.00	39.52	4.35
599	613	6.091986	AGTAGTAACTTAGACTAGTGTCGTGC	59.908	42.308	0.00	0.00	39.52	5.34
600	614	8.220375	AGTAGTAACTTAGACTAGTGTCGTGCA	61.220	40.741	0.00	0.00	39.52	4.57
646	660	2.167693	CCACTATGACCAGCCTTAACGA	59.832	50.000	0.00	0.00	0.00	3.85
706	720	1.278699	ACGTAGGGCCGGAAACATTAA	59.721	47.619	5.05	0.00	0.00	1.40
714	728	4.460034	GGGCCGGAAACATTAACTCTTTAA	59.540	41.667	5.05	0.00	0.00	1.52
738	752	8.452989	AATTTAGATGAACATTTGTCGAAAGC	57.547	30.769	0.00	0.00	0.00	3.51
739	753	6.552859	TTAGATGAACATTTGTCGAAAGCA	57.447	33.333	0.00	0.00	0.00	3.91
740	754	5.039480	AGATGAACATTTGTCGAAAGCAG	57.961	39.130	0.00	0.00	0.00	4.24
741	755	4.516698	AGATGAACATTTGTCGAAAGCAGT	59.483	37.500	0.00	0.00	0.00	4.40
742	756	3.951306	TGAACATTTGTCGAAAGCAGTG	58.049	40.909	0.00	0.00	0.00	3.66
743	757	3.625313	TGAACATTTGTCGAAAGCAGTGA	59.375	39.130	0.00	0.00	0.00	3.41
744	758	4.095632	TGAACATTTGTCGAAAGCAGTGAA	59.904	37.500	0.00	0.00	0.00	3.18
745	759	3.952535	ACATTTGTCGAAAGCAGTGAAC	58.047	40.909	0.00	0.00	0.00	3.18
746	760	3.376859	ACATTTGTCGAAAGCAGTGAACA	59.623	39.130	0.00	0.00	0.00	3.18
747	761	4.036734	ACATTTGTCGAAAGCAGTGAACAT	59.963	37.500	0.00	0.00	0.00	2.71
748	762	3.878086	TTGTCGAAAGCAGTGAACATC	57.122	42.857	0.00	0.00	0.00	3.06
749	763	2.143122	TGTCGAAAGCAGTGAACATCC	58.857	47.619	0.00	0.00	0.00	3.51
750	764	1.464997	GTCGAAAGCAGTGAACATCCC	59.535	52.381	0.00	0.00	0.00	3.85
751	765	0.804989	CGAAAGCAGTGAACATCCCC	59.195	55.000	0.00	0.00	0.00	4.81
752	766	1.177401	GAAAGCAGTGAACATCCCCC	58.823	55.000	0.00	0.00	0.00	5.40
830	850	6.506538	AATATCTATCTTCCTTGGCAGTGT	57.493	37.500	0.00	0.00	0.00	3.55
938	959	6.758416	CCGATCGATCCATCACACAAATATAT	59.242	38.462	18.66	0.00	0.00	0.86
939	960	7.920682	CCGATCGATCCATCACACAAATATATA	59.079	37.037	18.66	0.00	0.00	0.86
940	961	8.746751	CGATCGATCCATCACACAAATATATAC	58.253	37.037	19.51	0.00	0.00	1.47
941	962	8.634475	ATCGATCCATCACACAAATATATACG	57.366	34.615	0.00	0.00	0.00	3.06
993	1014	8.233868	CGATCAGTGGCTATAGCTGATATATAC	58.766	40.741	23.53	11.31	46.29	1.47
1177	1200	0.377905	TGCACGCATTGATCAATCGG	59.622	50.000	27.95	20.98	0.00	4.18
1410	1433	4.680237	TCCACGGCAAGCTCCACG	62.680	66.667	0.00	0.00	0.00	4.94
1898	1930	1.152963	GGGCCAGGTCATATGCGTT	60.153	57.895	4.39	0.00	0.00	4.84
1965	1997	2.456119	CGTGAGAAGCCGCATCCAC	61.456	63.158	0.00	0.54	0.00	4.02
1974	2006	3.706140	CGCATCCACGGCTAGAAC	58.294	61.111	0.00	0.00	0.00	3.01
1996	2028	7.814587	AGAACCTAAGTTTTGCTTGATTATTGC	59.185	33.333	0.00	0.00	38.05	3.56
2017	2049	3.795826	GCAAGATGATTCAGATTGCCAGC	60.796	47.826	20.13	3.81	40.20	4.85
2061	2093	2.031120	TGAGTTTGCAAGGGAAACTGG	58.969	47.619	18.43	0.00	42.42	4.00
2354	2396	3.672808	GCATGTATCTCCTCCCATGAAG	58.327	50.000	0.00	0.00	37.47	3.02
2362	2404	3.198635	TCTCCTCCCATGAAGACAATGTC	59.801	47.826	5.02	5.02	0.00	3.06
2408	2450	5.303747	ACTAGTTCTGATGAGTTGACTCG	57.696	43.478	6.66	0.00	45.72	4.18
2425	2469	3.692593	GACTCGGAGAAAAGAGAGTAGCT	59.307	47.826	12.86	0.00	43.17	3.32
2461	2505	0.698818	GCTTCCCTTCTTCCCCTTCA	59.301	55.000	0.00	0.00	0.00	3.02
2505	2549	2.159382	CTTATCGGTGCCAAACAACCT	58.841	47.619	0.00	0.00	29.21	3.50
2510	2554	1.405821	CGGTGCCAAACAACCTTAACA	59.594	47.619	0.00	0.00	29.21	2.41
2536	2580	7.611467	ACAACAACAAGATTAAGAGGATGCATA	59.389	33.333	0.00	0.00	0.00	3.14
2576	2620	4.006989	AGCTTACCACGCATATTCAACAA	58.993	39.130	0.00	0.00	0.00	2.83
2589	2633	6.513066	GCATATTCAACAAAGCAAAGGCAAAA	60.513	34.615	0.00	0.00	44.61	2.44

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
18	19	4.746309	TGGATGCCTGGCCTGCAC	62.746	66.667	20.53	14.41	42.38	4.57
29	30	6.968250	TGAAAATTTTCACCAATTTGGATGC	58.032	32.000	26.01	0.00	41.88	3.91
84	85	1.906574	ACACGTGGTCTCATTGGGTAT	59.093	47.619	21.57	0.00	0.00	2.73
88	89	1.877637	TGAACACGTGGTCTCATTGG	58.122	50.000	31.99	0.00	31.73	3.16
112	113	7.176589	AGAATTTACAGTAGTCTCTTCCCTG	57.823	40.000	0.00	0.00	0.00	4.45
119	120	8.454570	AGCCTAGTAGAATTTACAGTAGTCTC	57.545	38.462	0.00	0.00	0.00	3.36
120	121	9.563748	CTAGCCTAGTAGAATTTACAGTAGTCT	57.436	37.037	0.00	0.00	0.00	3.24
121	122	9.341078	ACTAGCCTAGTAGAATTTACAGTAGTC	57.659	37.037	1.61	0.00	37.23	2.59
124	125	9.863650	ATGACTAGCCTAGTAGAATTTACAGTA	57.136	33.333	3.93	0.00	39.59	2.74
135	136	5.221966	ACTCCCACTATGACTAGCCTAGTAG	60.222	48.000	3.93	1.46	39.59	2.57
138	139	4.107127	ACTCCCACTATGACTAGCCTAG	57.893	50.000	0.00	0.00	0.00	3.02
147	148	6.670617	ACTAGCTAAGTTACTCCCACTATGA	58.329	40.000	0.00	0.00	33.35	2.15
167	168	5.647589	TCTTGGAGTGCGTTATGTTACTAG	58.352	41.667	0.00	0.00	0.00	2.57
178	179	3.123050	GCAAAAATTTCTTGGAGTGCGT	58.877	40.909	12.13	0.00	0.00	5.24
180	181	6.424812	ACATAAGCAAAAATTTCTTGGAGTGC	59.575	34.615	12.13	0.00	0.00	4.40
183	184	6.128472	GCCACATAAGCAAAAATTTCTTGGAG	60.128	38.462	12.13	2.29	0.00	3.86
254	268	3.319122	ACTCATTTTGTCTTGGGAAGCAC	59.681	43.478	0.00	0.00	0.00	4.40
255	269	3.565307	ACTCATTTTGTCTTGGGAAGCA	58.435	40.909	0.00	0.00	0.00	3.91
256	270	3.823304	AGACTCATTTTGTCTTGGGAAGC	59.177	43.478	0.00	0.00	41.45	3.86
258	272	5.935945	TGTAGACTCATTTTGTCTTGGGAA	58.064	37.500	1.67	0.00	41.45	3.97
259	273	5.560722	TGTAGACTCATTTTGTCTTGGGA	57.439	39.130	1.67	0.00	41.45	4.37
263	277	8.854614	ATTAGCTTGTAGACTCATTTTGTCTT	57.145	30.769	0.00	0.00	41.45	3.01
305	319	8.792830	ATGCAAAGTAACATGATAGTAGTGTT	57.207	30.769	0.00	0.00	39.26	3.32
306	320	8.792830	AATGCAAAGTAACATGATAGTAGTGT	57.207	30.769	0.00	0.00	0.00	3.55
325	339	6.046593	CGGAGGTAGTACTTTCATAATGCAA	58.953	40.000	0.00	0.00	0.00	4.08
327	341	5.598769	ACGGAGGTAGTACTTTCATAATGC	58.401	41.667	0.00	0.00	0.00	3.56
330	344	4.336433	CGGACGGAGGTAGTACTTTCATAA	59.664	45.833	0.00	0.00	0.00	1.90
337	351	1.225704	CCCGGACGGAGGTAGTACT	59.774	63.158	13.13	0.00	37.50	2.73
402	416	5.008613	ACATGCGTGAACATTTTGTTAGTCT	59.991	36.000	14.17	0.00	41.28	3.24
403	417	5.212194	ACATGCGTGAACATTTTGTTAGTC	58.788	37.500	14.17	0.00	41.28	2.59
420	434	7.754069	AAAATATAATGTTTGGTGACATGCG	57.246	32.000	0.00	0.00	40.03	4.73
454	468	4.868171	TCTCCTTGGATTCGTATTTGAACG	59.132	41.667	0.00	0.00	44.19	3.95
486	500	9.195411	ACTAACAAAATGTTAATGCATGTCAAG	57.805	29.630	0.00	0.00	41.70	3.02
522	536	5.971763	TGTAGTTTGTGCCAAATTTTGACT	58.028	33.333	10.72	7.29	0.00	3.41
564	578	6.156083	AGTCTAAGTTACTACTACCTCCGTCT	59.844	42.308	0.00	0.00	33.17	4.18
569	583	9.313118	GACACTAGTCTAAGTTACTACTACCTC	57.687	40.741	0.00	0.00	41.64	3.85
583	597	5.355910	TGTCATATGCACGACACTAGTCTAA	59.644	40.000	10.51	0.00	42.73	2.10
593	607	4.294416	AGACTAGTGTCATATGCACGAC	57.706	45.455	18.35	5.93	45.20	4.34
594	608	5.589050	ACTTAGACTAGTGTCATATGCACGA	59.411	40.000	18.35	14.56	45.20	4.35
596	610	8.407064	AGTAACTTAGACTAGTGTCATATGCAC	58.593	37.037	17.36	17.36	45.20	4.57
598	612	8.077386	GGAGTAACTTAGACTAGTGTCATATGC	58.923	40.741	0.00	0.00	45.20	3.14
599	613	8.569641	GGGAGTAACTTAGACTAGTGTCATATG	58.430	40.741	0.00	0.00	45.20	1.78
600	614	7.724951	GGGGAGTAACTTAGACTAGTGTCATAT	59.275	40.741	0.00	0.00	45.20	1.78
601	615	7.059156	GGGGAGTAACTTAGACTAGTGTCATA	58.941	42.308	0.00	0.00	45.20	2.15
605	619	5.015515	GTGGGGAGTAACTTAGACTAGTGT	58.984	45.833	0.00	0.00	0.00	3.55
606	620	5.262804	AGTGGGGAGTAACTTAGACTAGTG	58.737	45.833	0.00	0.00	0.00	2.74
646	660	1.304134	GGACCTGGCACCCGAATTT	60.304	57.895	0.00	0.00	0.00	1.82
681	695	3.892104	TTCCGGCCCTACGTGGTCT	62.892	63.158	0.00	0.00	0.00	3.85
714	728	7.592938	TGCTTTCGACAAATGTTCATCTAAAT	58.407	30.769	0.00	0.00	0.00	1.40
731	745	1.610624	GGGGATGTTCACTGCTTTCGA	60.611	52.381	0.00	0.00	0.00	3.71
734	748	3.363787	GGGGGATGTTCACTGCTTT	57.636	52.632	0.00	0.00	0.00	3.51
759	773	5.118510	CGACTGCTTTTTGTTCACTGTTTTT	59.881	36.000	0.00	0.00	0.00	1.94
763	777	3.006940	TCGACTGCTTTTTGTTCACTGT	58.993	40.909	0.00	0.00	0.00	3.55
830	850	1.553706	GAGTCCCCTCCAAGTTCGTA	58.446	55.000	0.00	0.00	0.00	3.43
857	877	6.294361	ACATCATGCTTAGTTACCACACTA	57.706	37.500	0.00	0.00	0.00	2.74
938	959	7.041635	TGCATTACTAGCCAAGTTATACGTA	57.958	36.000	0.00	0.00	39.80	3.57
939	960	5.909477	TGCATTACTAGCCAAGTTATACGT	58.091	37.500	0.00	0.00	39.80	3.57
940	961	5.405571	CCTGCATTACTAGCCAAGTTATACG	59.594	44.000	0.00	0.00	39.80	3.06
941	962	5.701290	CCCTGCATTACTAGCCAAGTTATAC	59.299	44.000	0.00	0.00	39.80	1.47
993	1014	0.320683	TGACACCTGCCATCGTGAAG	60.321	55.000	0.00	0.00	34.05	3.02
1177	1200	3.081445	CGCACGTACAAAATGAATCGAC	58.919	45.455	0.00	0.00	0.00	4.20
1898	1930	0.809636	CTATTGTGCGTCCGCCATCA	60.810	55.000	9.43	3.48	41.09	3.07
1965	1997	3.335579	AGCAAAACTTAGGTTCTAGCCG	58.664	45.455	0.00	0.00	34.14	5.52
1974	2006	7.814107	TCTTGCAATAATCAAGCAAAACTTAGG	59.186	33.333	0.00	0.00	46.30	2.69
1995	2027	3.795826	GCTGGCAATCTGAATCATCTTGC	60.796	47.826	16.68	16.68	41.04	4.01
1996	2028	3.380320	TGCTGGCAATCTGAATCATCTTG	59.620	43.478	0.00	1.88	0.00	3.02
2061	2093	4.211164	GTCTGTGCTTTATTTGTTTTGCCC	59.789	41.667	0.00	0.00	0.00	5.36
2321	2363	2.039480	AGATACATGCGGCATTGATCCT	59.961	45.455	21.64	11.08	0.00	3.24
2354	2396	6.595326	TCTCTTGTATTGGTGATGACATTGTC	59.405	38.462	9.93	9.93	0.00	3.18
2362	2404	8.517878	AGTTTTTGATCTCTTGTATTGGTGATG	58.482	33.333	0.00	0.00	0.00	3.07
2408	2450	4.021016	TGTGGAAGCTACTCTCTTTTCTCC	60.021	45.833	0.00	0.00	0.00	3.71
2425	2469	5.306678	AGGGAAGCATTTGTAAATTGTGGAA	59.693	36.000	0.00	0.00	30.30	3.53
2491	2535	2.166664	TGTGTTAAGGTTGTTTGGCACC	59.833	45.455	0.00	0.00	0.00	5.01
2505	2549	8.740123	TCCTCTTAATCTTGTTGTTGTGTTAA	57.260	30.769	0.00	0.00	0.00	2.01
2510	2554	5.769662	TGCATCCTCTTAATCTTGTTGTTGT	59.230	36.000	0.00	0.00	0.00	3.32
2536	2580	4.899352	AGCTCCCTCGCTTTTATATGAT	57.101	40.909	0.00	0.00	36.74	2.45
2548	2592	2.202756	GCGTGGTAAGCTCCCTCG	60.203	66.667	17.68	17.68	40.82	4.63
2576	2620	6.868339	GTGAGTATACATTTTTGCCTTTGCTT	59.132	34.615	5.50	0.00	38.71	3.91
2589	2633	5.957771	ACATGGACTGGTGAGTATACATT	57.042	39.130	5.50	0.00	30.16	2.71

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.