AutoCloner

Multiple sequence alignment - TraesCS1A01G187300

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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	TraesCS1A01G187300	chr1A	100.000	4268	0	0	1	4268	338213804	338218071	0.000000e+00	7882
1	TraesCS1A01G187300	chr1B	94.410	3381	153	19	912	4267	350025786	350029155	0.000000e+00	5164
2	TraesCS1A01G187300	chr1B	96.515	1234	41	2	1871	3103	570299139	570300371	0.000000e+00	2039
3	TraesCS1A01G187300	chr1B	91.680	1250	80	12	3031	4267	350055882	350057120	0.000000e+00	1711
4	TraesCS1A01G187300	chr1B	96.901	710	22	0	1433	2142	350053822	350054531	0.000000e+00	1190
5	TraesCS1A01G187300	chr1B	93.028	459	26	4	3114	3571	570300560	570301013	0.000000e+00	665
6	TraesCS1A01G187300	chr1B	94.044	319	14	2	1003	1321	570298828	570299141	2.990000e-131	479
7	TraesCS1A01G187300	chr1B	79.412	374	33	21	1	374	350024636	350024965	1.540000e-54	224
8	TraesCS1A01G187300	chr1D	92.240	3660	167	39	1	3614	261842862	261839274	0.000000e+00	5077
9	TraesCS1A01G187300	chr1D	93.313	643	34	5	3629	4267	261839290	261838653	0.000000e+00	941
10	TraesCS1A01G187300	chr7B	95.596	1703	67	5	1871	3571	516800388	516798692	0.000000e+00	2723
11	TraesCS1A01G187300	chr7B	95.244	1703	68	6	1871	3571	656196068	656197759	0.000000e+00	2684
12	TraesCS1A01G187300	chr7B	94.044	319	15	1	1003	1321	656195756	656196070	8.300000e-132	481
13	TraesCS1A01G187300	chr7B	93.730	319	16	1	1003	1321	516800700	516800386	3.860000e-130	475
14	TraesCS1A01G187300	chr2B	95.967	1562	56	4	1871	3431	467877234	467875679	0.000000e+00	2529
15	TraesCS1A01G187300	chr2B	94.357	319	14	1	1003	1321	467877546	467877232	1.780000e-133	486
16	TraesCS1A01G187300	chr4B	81.437	2144	354	38	1128	3255	644094585	644096700	0.000000e+00	1714
17	TraesCS1A01G187300	chr4D	81.004	2211	363	43	1071	3255	500468029	500470208	0.000000e+00	1703
18	TraesCS1A01G187300	chr5A	80.638	2257	377	46	1029	3255	681384770	681386996	0.000000e+00	1692
19	TraesCS1A01G187300	chr6B	81.294	572	102	4	1222	1789	520782196	520782766	3.890000e-125	459

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	TraesCS1A01G187300	chr1A	338213804	338218071	4267	False	7882.0	7882	100.0000	1	4268	1	chr1A.!!$F1	4267
1	TraesCS1A01G187300	chr1B	350024636	350029155	4519	False	2694.0	5164	86.9110	1	4267	2	chr1B.!!$F1	4266
2	TraesCS1A01G187300	chr1B	350053822	350057120	3298	False	1450.5	1711	94.2905	1433	4267	2	chr1B.!!$F2	2834
3	TraesCS1A01G187300	chr1B	570298828	570301013	2185	False	1061.0	2039	94.5290	1003	3571	3	chr1B.!!$F3	2568
4	TraesCS1A01G187300	chr1D	261838653	261842862	4209	True	3009.0	5077	92.7765	1	4267	2	chr1D.!!$R1	4266
5	TraesCS1A01G187300	chr7B	516798692	516800700	2008	True	1599.0	2723	94.6630	1003	3571	2	chr7B.!!$R1	2568
6	TraesCS1A01G187300	chr7B	656195756	656197759	2003	False	1582.5	2684	94.6440	1003	3571	2	chr7B.!!$F1	2568
7	TraesCS1A01G187300	chr2B	467875679	467877546	1867	True	1507.5	2529	95.1620	1003	3431	2	chr2B.!!$R1	2428
8	TraesCS1A01G187300	chr4B	644094585	644096700	2115	False	1714.0	1714	81.4370	1128	3255	1	chr4B.!!$F1	2127
9	TraesCS1A01G187300	chr4D	500468029	500470208	2179	False	1703.0	1703	81.0040	1071	3255	1	chr4D.!!$F1	2184
10	TraesCS1A01G187300	chr5A	681384770	681386996	2226	False	1692.0	1692	80.6380	1029	3255	1	chr5A.!!$F1	2226
11	TraesCS1A01G187300	chr6B	520782196	520782766	570	False	459.0	459	81.2940	1222	1789	1	chr6B.!!$F1	567

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	End Stability	Orientation
33	34	0.110056	GCATGTTTGAGACTGTGGCG	60.110	55.000	5.69	F
1041	1427	0.105709	CCTTCCTCCTCCTCTCCCTC	60.106	65.000	4.30	F
1438	1836	1.758122	GGGGTGGTGATTGGCATCC	60.758	63.158	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1438	1836	1.144057	GCAGTATCCCGGTGTCCAG	59.856	63.158	0.00	0.00	3.86	R
2523	2926	0.809636	CCGCGAGTATGTTCATGCCA	60.810	55.000	8.23	0.00	4.92	R
3399	4448	0.898320	CCGGATGTTCTGGAGACACT	59.102	55.000	0.00	45.95	3.55	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
31	32	1.068748	GCAGCATGTTTGAGACTGTGG	60.069	52.381	0.00	0.00	39.31	4.17
32	33	1.068748	CAGCATGTTTGAGACTGTGGC	60.069	52.381	0.00	0.00	0.00	5.01
33	34	0.110056	GCATGTTTGAGACTGTGGCG	60.110	55.000	0.00	0.00	0.00	5.69
34	35	1.511850	CATGTTTGAGACTGTGGCGA	58.488	50.000	0.00	0.00	0.00	5.54
35	36	1.195448	CATGTTTGAGACTGTGGCGAC	59.805	52.381	0.00	0.00	0.00	5.19
65	66	1.598130	GCCAAACGAGCTCTGTGGT	60.598	57.895	21.45	7.44	0.00	4.16
73	75	2.359230	GCTCTGTGGTCTGTGGCC	60.359	66.667	0.00	0.00	0.00	5.36
114	116	6.897663	GGAAACACGAATTTTGTTACTTTTGC	59.102	34.615	6.77	0.00	36.13	3.68
134	136	2.809446	CGCGACAGAGGATTGATTGTA	58.191	47.619	0.00	0.00	0.00	2.41
136	138	3.521560	GCGACAGAGGATTGATTGTACA	58.478	45.455	0.00	0.00	0.00	2.90
140	142	5.582269	CGACAGAGGATTGATTGTACATTGT	59.418	40.000	0.00	0.00	0.00	2.71
141	143	6.237942	CGACAGAGGATTGATTGTACATTGTC	60.238	42.308	0.00	0.00	0.00	3.18
142	144	5.882557	ACAGAGGATTGATTGTACATTGTCC	59.117	40.000	0.00	0.97	0.00	4.02
143	145	5.297776	CAGAGGATTGATTGTACATTGTCCC	59.702	44.000	0.00	0.00	0.00	4.46
144	146	5.192522	AGAGGATTGATTGTACATTGTCCCT	59.807	40.000	0.00	0.00	0.00	4.20
145	147	5.831103	AGGATTGATTGTACATTGTCCCTT	58.169	37.500	0.00	0.00	0.00	3.95
146	148	5.888161	AGGATTGATTGTACATTGTCCCTTC	59.112	40.000	0.00	0.00	0.00	3.46
147	149	5.067805	GGATTGATTGTACATTGTCCCTTCC	59.932	44.000	0.00	0.00	0.00	3.46
153	155	1.905637	ACATTGTCCCTTCCGTTTCC	58.094	50.000	0.00	0.00	0.00	3.13
173	175	4.939271	TCCTCCGGTTCAAAATTCAAAAC	58.061	39.130	0.00	0.00	0.00	2.43
179	181	3.001838	GGTTCAAAATTCAAAACACGGGC	59.998	43.478	0.00	0.00	0.00	6.13
200	202	2.749044	CGTTGCTGCCAGCCAGAT	60.749	61.111	15.29	0.00	44.64	2.90
201	203	2.882876	GTTGCTGCCAGCCAGATG	59.117	61.111	15.29	0.00	44.64	2.90
202	204	3.066190	TTGCTGCCAGCCAGATGC	61.066	61.111	15.29	0.00	44.64	3.91
224	226	3.224955	GCGAGATGCGTTTTGATGG	57.775	52.632	0.00	0.00	43.41	3.51
225	227	0.726827	GCGAGATGCGTTTTGATGGA	59.273	50.000	0.00	0.00	43.41	3.41
226	228	1.331756	GCGAGATGCGTTTTGATGGAT	59.668	47.619	0.00	0.00	43.41	3.41
228	230	2.286595	CGAGATGCGTTTTGATGGATGG	60.287	50.000	0.00	0.00	34.64	3.51
235	258	5.885881	TGCGTTTTGATGGATGGTTATTAC	58.114	37.500	0.00	0.00	0.00	1.89
249	272	7.664318	GGATGGTTATTACTCCATATTTCCGTT	59.336	37.037	0.00	0.00	43.45	4.44
258	281	9.635404	TTACTCCATATTTCCGTTTTTATGGAT	57.365	29.630	10.12	5.13	45.48	3.41
320	343	1.518903	GCCCTTTCCCAGATATGCGC	61.519	60.000	0.00	0.00	0.00	6.09
350	373	1.005394	GTCCTCCGTTTTCCTCGCA	60.005	57.895	0.00	0.00	0.00	5.10
374	397	1.515954	GATCATCGACCACCACCGT	59.484	57.895	0.00	0.00	0.00	4.83
438	461	4.712425	GTCCACGTCGACCACCCG	62.712	72.222	10.58	0.00	0.00	5.28
518	544	3.439540	CAACCGGCCATTGACCCG	61.440	66.667	10.63	8.26	43.97	5.28
522	548	4.114997	CGGCCATTGACCCGCAAC	62.115	66.667	2.24	0.00	39.78	4.17
525	551	4.114997	CCATTGACCCGCAACGCC	62.115	66.667	0.00	0.00	39.78	5.68
526	552	3.361158	CATTGACCCGCAACGCCA	61.361	61.111	0.00	0.00	39.78	5.69
545	587	1.343821	CCGCTGCGTTACACGAATC	59.656	57.895	21.59	0.00	46.05	2.52
626	668	0.675633	CACCAGCTTCCCAACCAAAG	59.324	55.000	0.00	0.00	0.00	2.77
627	669	0.469892	ACCAGCTTCCCAACCAAAGG	60.470	55.000	0.00	0.00	0.00	3.11
628	670	0.469892	CCAGCTTCCCAACCAAAGGT	60.470	55.000	0.00	0.00	37.65	3.50
672	720	2.437897	GGGCCAGCTATCCCCATG	59.562	66.667	4.39	0.00	38.70	3.66
698	747	2.359975	CGAGACAGGGTTTGGGGC	60.360	66.667	0.00	0.00	0.00	5.80
750	799	2.742746	GGTACTAGATCCACCGGGG	58.257	63.158	6.32	0.00	38.37	5.73
848	917	2.046507	CTGCCCTCCAGCTCACAC	60.047	66.667	0.00	0.00	34.21	3.82
852	921	2.304056	CCCTCCAGCTCACACCCAT	61.304	63.158	0.00	0.00	0.00	4.00
1041	1427	0.105709	CCTTCCTCCTCCTCTCCCTC	60.106	65.000	0.00	0.00	0.00	4.30
1235	1633	2.218759	CGCGCATCATTTACTCCTACAC	59.781	50.000	8.75	0.00	0.00	2.90
1438	1836	1.758122	GGGGTGGTGATTGGCATCC	60.758	63.158	0.00	0.00	0.00	3.51
3331	4380	2.282391	TGCTGCGCTTCCATGGTT	60.282	55.556	12.58	0.00	0.00	3.67
3332	4381	1.870055	CTGCTGCGCTTCCATGGTTT	61.870	55.000	12.58	0.00	0.00	3.27
3333	4382	1.290009	GCTGCGCTTCCATGGTTTT	59.710	52.632	12.58	0.00	0.00	2.43
3334	4383	1.010419	GCTGCGCTTCCATGGTTTTG	61.010	55.000	12.58	2.02	0.00	2.44
3443	4492	4.811557	CGTCTGAAAATAGAGGGAATCCAC	59.188	45.833	0.09	0.00	34.83	4.02
3449	4498	0.106708	TAGAGGGAATCCACGCATGC	59.893	55.000	7.91	7.91	34.83	4.06
3481	4531	4.672587	TTATCTGAGGGTCGAGATTTGG	57.327	45.455	0.00	0.00	31.29	3.28
3522	4572	0.445436	GCTACACTCACTGCATGCAC	59.555	55.000	18.46	0.00	0.00	4.57
3589	4639	1.745864	AACGTGTTCGGTGGCAACA	60.746	52.632	2.26	0.00	43.38	3.33
3645	4695	4.392940	ACACCTCCTTGATGAAAACTCTG	58.607	43.478	0.00	0.00	0.00	3.35
3673	4723	0.236711	CAAGGCAAAGTGAGTGCTCG	59.763	55.000	0.00	0.00	41.88	5.03
3720	4770	2.053627	GCAAAGCAAAGTGATGGTTCG	58.946	47.619	0.00	0.00	39.92	3.95
3868	4920	0.109272	CTTGCACATGGCTTCTGCAG	60.109	55.000	7.63	7.63	41.76	4.41
3928	4980	5.706916	TCTTTTGATTTGCATCTCTTCAGC	58.293	37.500	0.00	0.00	0.00	4.26
4045	5101	2.031120	TGGAACCAGCAAACAGGAAAG	58.969	47.619	0.00	0.00	0.00	2.62
4046	5102	1.269778	GGAACCAGCAAACAGGAAAGC	60.270	52.381	0.00	0.00	0.00	3.51
4048	5104	1.035139	ACCAGCAAACAGGAAAGCAG	58.965	50.000	0.00	0.00	0.00	4.24
4079	5135	1.484240	GCACCTCTCCAGTCTAATGCT	59.516	52.381	0.00	0.00	0.00	3.79
4126	5182	8.583810	AGTTTTTGAATGTTGAAGATGATGTG	57.416	30.769	0.00	0.00	0.00	3.21
4267	5328	7.147312	TCAATGTATTTCCTTTTCTGCAACAG	58.853	34.615	0.00	0.00	0.00	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
15	16	1.195448	GTCGCCACAGTCTCAAACATG	59.805	52.381	0.00	0.00	0.00	3.21
46	47	2.328099	CCACAGAGCTCGTTTGGCC	61.328	63.158	15.63	0.00	0.00	5.36
103	105	1.525197	CTCTGTCGCGCAAAAGTAACA	59.475	47.619	8.75	0.00	0.00	2.41
114	116	1.645034	ACAATCAATCCTCTGTCGCG	58.355	50.000	0.00	0.00	0.00	5.87
134	136	1.423921	AGGAAACGGAAGGGACAATGT	59.576	47.619	0.00	0.00	0.00	2.71
136	138	1.004394	GGAGGAAACGGAAGGGACAAT	59.996	52.381	0.00	0.00	0.00	2.71
140	142	3.384348	CGGAGGAAACGGAAGGGA	58.616	61.111	0.00	0.00	0.00	4.20
153	155	4.206200	CGTGTTTTGAATTTTGAACCGGAG	59.794	41.667	9.46	0.00	0.00	4.63
189	191	2.515290	CATCGCATCTGGCTGGCA	60.515	61.111	3.18	3.18	41.67	4.92
190	192	3.962421	GCATCGCATCTGGCTGGC	61.962	66.667	0.00	0.00	41.67	4.85
191	193	3.646976	CGCATCGCATCTGGCTGG	61.647	66.667	0.00	0.00	41.67	4.85
192	194	2.586914	TCGCATCGCATCTGGCTG	60.587	61.111	0.00	0.00	41.67	4.85
193	195	2.097201	ATCTCGCATCGCATCTGGCT	62.097	55.000	0.00	0.00	41.67	4.75
194	196	1.667191	ATCTCGCATCGCATCTGGC	60.667	57.895	0.00	0.00	39.90	4.85
195	197	1.898459	GCATCTCGCATCGCATCTGG	61.898	60.000	0.00	0.00	41.79	3.86
196	198	1.491999	GCATCTCGCATCGCATCTG	59.508	57.895	0.00	0.00	41.79	2.90
197	199	2.020494	CGCATCTCGCATCGCATCT	61.020	57.895	0.00	0.00	42.60	2.90
198	200	1.825285	AACGCATCTCGCATCGCATC	61.825	55.000	0.00	0.00	42.60	3.91
199	201	1.431488	AAACGCATCTCGCATCGCAT	61.431	50.000	0.00	0.00	42.60	4.73
200	202	1.634757	AAAACGCATCTCGCATCGCA	61.635	50.000	0.00	0.00	42.60	5.10
201	203	1.060937	AAAACGCATCTCGCATCGC	59.939	52.632	0.00	0.00	42.60	4.58
202	204	0.369931	TCAAAACGCATCTCGCATCG	59.630	50.000	0.00	0.00	42.60	3.84
223	225	7.166167	ACGGAAATATGGAGTAATAACCATCC	58.834	38.462	0.00	0.00	44.45	3.51
224	226	8.617290	AACGGAAATATGGAGTAATAACCATC	57.383	34.615	0.00	0.00	44.45	3.51
225	227	8.990163	AAACGGAAATATGGAGTAATAACCAT	57.010	30.769	0.00	0.00	46.73	3.55
226	228	8.810990	AAAACGGAAATATGGAGTAATAACCA	57.189	30.769	0.00	0.00	40.57	3.67
258	281	7.448420	TGCCTCATGAAAACATGGAATAAAAA	58.552	30.769	9.74	0.00	33.61	1.94
338	361	2.746277	CCCCCTGCGAGGAAAACG	60.746	66.667	4.00	0.00	37.67	3.60
356	379	0.527817	GACGGTGGTGGTCGATGATC	60.528	60.000	0.00	0.00	0.00	2.92
363	386	3.118454	CGCATGACGGTGGTGGTC	61.118	66.667	0.00	0.00	38.44	4.02
374	397	0.539986	GGGGGACTAGAAACGCATGA	59.460	55.000	0.00	0.00	0.00	3.07
419	442	2.257676	GGTGGTCGACGTGGACTC	59.742	66.667	26.58	19.60	37.12	3.36
420	443	3.300765	GGGTGGTCGACGTGGACT	61.301	66.667	26.58	0.00	37.12	3.85
432	455	3.697747	TACGAACAGGGCGGGTGG	61.698	66.667	0.00	0.00	0.00	4.61
455	478	4.922026	ACCACGGTGGCGTGAACC	62.922	66.667	26.62	0.00	42.67	3.62
489	514	2.297912	CCGGTTGACACGACACGTC	61.298	63.158	0.00	0.00	38.32	4.34
490	515	2.278989	CCGGTTGACACGACACGT	60.279	61.111	0.00	0.00	42.36	4.49
492	517	3.343421	GGCCGGTTGACACGACAC	61.343	66.667	1.90	0.00	0.00	3.67
495	520	1.963855	CAATGGCCGGTTGACACGA	60.964	57.895	13.83	0.00	0.00	4.35
577	619	1.671379	GATATTTCCTCGGGGCCGC	60.671	63.158	10.38	10.38	39.59	6.53
579	621	0.325272	GGAGATATTTCCTCGGGGCC	59.675	60.000	0.00	0.00	34.27	5.80
580	622	0.325272	GGGAGATATTTCCTCGGGGC	59.675	60.000	11.83	0.00	37.40	5.80
582	624	0.984995	GGGGGAGATATTTCCTCGGG	59.015	60.000	11.83	0.00	38.72	5.14
610	652	0.675633	CACCTTTGGTTGGGAAGCTG	59.324	55.000	0.00	0.00	31.02	4.24
627	669	2.750237	GGATTCCGGTGCCACCAC	60.750	66.667	15.45	0.00	38.47	4.16
628	670	4.402528	CGGATTCCGGTGCCACCA	62.403	66.667	17.53	0.00	44.15	4.17
649	691	3.537874	GATAGCTGGCCCGGTCGT	61.538	66.667	0.71	0.00	0.00	4.34
680	728	2.359975	CCCCAAACCCTGTCTCGC	60.360	66.667	0.00	0.00	0.00	5.03
711	760	1.929806	TAGTACGTGCCGCTGACTGG	61.930	60.000	0.00	0.00	0.00	4.00
732	781	1.470165	GCCCCGGTGGATCTAGTACC	61.470	65.000	12.67	0.00	35.39	3.34
733	782	1.803366	CGCCCCGGTGGATCTAGTAC	61.803	65.000	12.67	0.00	35.39	2.73
734	783	1.529948	CGCCCCGGTGGATCTAGTA	60.530	63.158	12.67	0.00	35.39	1.82
735	784	2.838225	CGCCCCGGTGGATCTAGT	60.838	66.667	12.67	0.00	35.39	2.57
736	785	4.301027	GCGCCCCGGTGGATCTAG	62.301	72.222	12.67	0.00	35.39	2.43
750	799	2.881352	GCTCCTACTGTGTCGCGC	60.881	66.667	0.00	0.00	0.00	6.86
780	830	2.044053	ATTGCATCGGTGTGGGGG	60.044	61.111	0.00	0.00	0.00	5.40
848	917	2.757099	GGGAGCAGTGGCAATGGG	60.757	66.667	17.41	0.00	44.61	4.00
1235	1633	4.619227	AGCCGGTGAACACGTGGG	62.619	66.667	21.57	11.18	0.00	4.61
1438	1836	1.144057	GCAGTATCCCGGTGTCCAG	59.856	63.158	0.00	0.00	0.00	3.86
2183	2585	1.669115	CAGAGCACCACCTTGTCGG	60.669	63.158	0.00	0.00	39.35	4.79
2523	2926	0.809636	CCGCGAGTATGTTCATGCCA	60.810	55.000	8.23	0.00	0.00	4.92
2938	3342	2.126031	GGTCGTCGCCTTGAGGTC	60.126	66.667	0.00	0.00	37.57	3.85
2949	3353	3.444805	AGCTCTGCCTCGGTCGTC	61.445	66.667	0.00	0.00	0.00	4.20
2952	3356	1.446966	GTTCAGCTCTGCCTCGGTC	60.447	63.158	0.00	0.00	0.00	4.79
3331	4380	2.279385	GCAGCCTGCGCAAACAAA	60.279	55.556	13.05	0.00	37.52	2.83
3398	4447	1.276421	CCGGATGTTCTGGAGACACTT	59.724	52.381	0.00	0.00	45.95	3.16
3399	4448	0.898320	CCGGATGTTCTGGAGACACT	59.102	55.000	0.00	0.00	45.95	3.55
3416	4465	2.426024	TCCCTCTATTTTCAGACGACCG	59.574	50.000	0.00	0.00	0.00	4.79
3481	4531	4.437930	GCCAACTAGTCATGCAGTTCATTC	60.438	45.833	0.00	0.00	32.72	2.67
3522	4572	1.744522	TGTTTGCATGATCCACCATCG	59.255	47.619	0.00	0.00	33.61	3.84
3589	4639	2.125106	GCATCGAGGGAAAGGCGT	60.125	61.111	0.00	0.00	0.00	5.68
3590	4640	2.897350	GGCATCGAGGGAAAGGCG	60.897	66.667	0.00	0.00	0.00	5.52
3597	4647	0.539051	AGAAGAGTTGGCATCGAGGG	59.461	55.000	0.00	0.00	0.00	4.30
3637	4687	1.873591	CTTGCCGCAGTACAGAGTTTT	59.126	47.619	0.00	0.00	0.00	2.43
3638	4688	1.512926	CTTGCCGCAGTACAGAGTTT	58.487	50.000	0.00	0.00	0.00	2.66
3645	4695	1.210155	CTTTGCCTTGCCGCAGTAC	59.790	57.895	0.00	0.00	40.53	2.73
3673	4723	4.216257	ACATGCTAATGACTGTGTTTCCAC	59.784	41.667	0.00	0.00	38.39	4.02
3743	4795	5.220777	CCGATAATTAACATGCTGGAAACGT	60.221	40.000	0.00	0.00	0.00	3.99
3788	4840	1.671054	GCTCACCAGCACCGCTAAA	60.671	57.895	0.00	0.00	46.06	1.85
3868	4920	0.398318	AGAACCAGTGGGAGACAAGC	59.602	55.000	15.21	0.00	38.05	4.01
3928	4980	6.610741	AAAAAGACTGAAGAGTGCAGTAAG	57.389	37.500	0.00	0.00	45.94	2.34
3957	5013	8.765219	TCGAAGAGAAAACTCACTTTATCAAAG	58.235	33.333	0.00	0.00	44.10	2.77
4045	5101	3.721035	AGAGGTGCAATTTGTTTTCTGC	58.279	40.909	0.00	0.00	35.32	4.26
4046	5102	4.202141	TGGAGAGGTGCAATTTGTTTTCTG	60.202	41.667	0.00	0.00	0.00	3.02
4048	5104	4.202151	ACTGGAGAGGTGCAATTTGTTTTC	60.202	41.667	0.00	0.00	0.00	2.29

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.