AutoCloner

Multiple sequence alignment - TraesCS2A01G289400

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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	TraesCS2A01G289400	chr2A	100.000	5030	0	0	1	5030	498039965	498044994	0.000000e+00	9289.0
1	TraesCS2A01G289400	chr2A	81.648	267	47	2	2704	2969	497653850	497653585	2.360000e-53	220.0
2	TraesCS2A01G289400	chr2B	96.694	4628	119	14	3	4603	436957556	436962176	0.000000e+00	7668.0
3	TraesCS2A01G289400	chr2B	76.780	969	185	24	2704	3638	436239392	436238430	1.620000e-139	507.0
4	TraesCS2A01G289400	chr2B	85.398	226	33	0	4805	5030	436962721	436962946	8.420000e-58	235.0
5	TraesCS2A01G289400	chr2B	96.748	123	3	1	666	787	114324921	114324799	2.370000e-48	204.0
6	TraesCS2A01G289400	chr2B	86.139	101	12	2	4723	4822	245172428	245172329	1.910000e-19	108.0
7	TraesCS2A01G289400	chr2B	85.294	102	14	1	4721	4822	778784500	778784400	2.480000e-18	104.0
8	TraesCS2A01G289400	chr2D	97.357	4200	77	13	1	4175	367919225	367923415	0.000000e+00	7110.0
9	TraesCS2A01G289400	chr2D	89.727	623	35	14	4213	4810	367923418	367924036	0.000000e+00	769.0
10	TraesCS2A01G289400	chr2D	94.776	134	6	1	659	791	605712388	605712255	1.840000e-49	207.0
11	TraesCS2A01G289400	chr2D	80.451	266	48	4	2704	2967	367503918	367503655	3.070000e-47	200.0
12	TraesCS2A01G289400	chr2D	86.538	104	12	2	4720	4822	189279703	189279601	4.120000e-21	113.0
13	TraesCS2A01G289400	chr4B	76.115	1076	213	34	2516	3561	600656376	600655315	1.600000e-144	523.0
14	TraesCS2A01G289400	chr4B	76.754	228	51	2	3812	4038	600655055	600654829	5.290000e-25	126.0
15	TraesCS2A01G289400	chr4D	81.343	268	48	2	2704	2970	476304561	476304295	3.050000e-52	217.0
16	TraesCS2A01G289400	chr4D	96.825	126	3	1	663	787	614529	614654	5.100000e-50	209.0
17	TraesCS2A01G289400	chr4D	94.074	135	7	1	659	792	381397893	381397759	2.370000e-48	204.0
18	TraesCS2A01G289400	chr4D	77.586	232	46	5	3810	4038	476303406	476303178	8.780000e-28	135.0
19	TraesCS2A01G289400	chr6B	96.094	128	4	1	663	789	209249737	209249864	1.840000e-49	207.0
20	TraesCS2A01G289400	chr6B	89.231	65	6	1	531	595	29054529	29054592	4.170000e-11	80.5
21	TraesCS2A01G289400	chr1D	95.385	130	5	1	658	786	445057542	445057671	6.600000e-49	206.0
22	TraesCS2A01G289400	chr1D	84.264	197	24	7	4800	4993	413660462	413660654	8.600000e-43	185.0
23	TraesCS2A01G289400	chr1D	80.620	129	11	6	477	595	329727248	329727372	2.490000e-13	87.9
24	TraesCS2A01G289400	chr7A	94.697	132	6	1	657	787	615329613	615329744	2.370000e-48	204.0
25	TraesCS2A01G289400	chr7A	86.111	72	6	2	458	529	286975	286908	1.940000e-09	75.0
26	TraesCS2A01G289400	chr6D	84.038	213	28	3	4806	5012	394127288	394127076	3.070000e-47	200.0
27	TraesCS2A01G289400	chr5B	84.021	194	30	1	4801	4994	537628223	537628415	8.600000e-43	185.0
28	TraesCS2A01G289400	chr3B	84.293	191	28	2	4805	4994	568573587	568573776	8.600000e-43	185.0
29	TraesCS2A01G289400	chr3B	82.775	209	35	1	4805	5012	568894943	568895151	8.600000e-43	185.0
30	TraesCS2A01G289400	chr5A	86.503	163	22	0	4805	4967	643323155	643323317	4.000000e-41	180.0
31	TraesCS2A01G289400	chr3D	82.632	190	33	0	4805	4994	18422477	18422666	8.660000e-38	169.0
32	TraesCS2A01G289400	chr3A	81.313	198	35	2	4801	4998	610046639	610046834	5.210000e-35	159.0
33	TraesCS2A01G289400	chr3A	77.358	212	33	7	394	595	27037688	27037482	1.480000e-20	111.0
34	TraesCS2A01G289400	chr6A	80.952	210	26	4	400	600	109489708	109489504	2.430000e-33	154.0
35	TraesCS2A01G289400	chr6A	100.000	28	0	0	634	661	158047849	158047876	9.000000e-03	52.8
36	TraesCS2A01G289400	chr7B	80.711	197	30	7	400	595	423772642	423772453	4.060000e-31	147.0
37	TraesCS2A01G289400	chr7D	87.619	105	10	3	4720	4822	400468258	400468155	8.850000e-23	119.0
38	TraesCS2A01G289400	chr7D	85.294	102	14	1	4720	4820	190949826	190949927	2.480000e-18	104.0
39	TraesCS2A01G289400	chr7D	84.259	108	14	3	4726	4832	206699879	206699774	8.910000e-18	102.0
40	TraesCS2A01G289400	chr7D	89.474	76	8	0	520	595	606706604	606706679	4.140000e-16	97.1
41	TraesCS2A01G289400	chr1A	87.255	102	12	1	4720	4820	147340815	147340714	1.140000e-21	115.0
42	TraesCS2A01G289400	chr1A	76.705	176	32	8	4548	4715	547576515	547576341	6.940000e-14	89.8
43	TraesCS2A01G289400	chr4A	84.615	104	15	1	4720	4822	406173830	406173727	8.910000e-18	102.0
44	TraesCS2A01G289400	chrUn	76.699	206	33	13	395	595	92702146	92701951	3.200000e-17	100.0
45	TraesCS2A01G289400	chr5D	88.158	76	7	2	520	594	450540134	450540208	6.940000e-14	89.8
46	TraesCS2A01G289400	chr5D	86.842	76	8	2	520	594	388328811	388328885	3.230000e-12	84.2
47	TraesCS2A01G289400	chr1B	75.120	209	34	7	395	594	31685222	31685023	1.160000e-11	82.4

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	TraesCS2A01G289400	chr2A	498039965	498044994	5029	False	9289.0	9289	100.0000	1	5030	1	chr2A.!!$F1	5029
1	TraesCS2A01G289400	chr2B	436957556	436962946	5390	False	3951.5	7668	91.0460	3	5030	2	chr2B.!!$F1	5027
2	TraesCS2A01G289400	chr2B	436238430	436239392	962	True	507.0	507	76.7800	2704	3638	1	chr2B.!!$R3	934
3	TraesCS2A01G289400	chr2D	367919225	367924036	4811	False	3939.5	7110	93.5420	1	4810	2	chr2D.!!$F1	4809
4	TraesCS2A01G289400	chr4B	600654829	600656376	1547	True	324.5	523	76.4345	2516	4038	2	chr4B.!!$R1	1522

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
21	22	1.527736	TGGTGTTTAGCGCTTACAACG	59.472	47.619	25.64	32.21	4.10	F
23	24	2.221517	GGTGTTTAGCGCTTACAACGAA	59.778	45.455	18.68	0.00	3.85	F
1037	1061	1.873591	GAAACCACTGTGCAACGAGAT	59.126	47.619	1.29	42.39	2.75	F
2346	2372	1.549170	GGTATGTATGCGGACCTAGGG	59.451	57.143	14.81	0.00	3.53	F
3690	3750	1.067821	GATACTGACTCTCCAAGCGGG	59.932	57.143	0.00	38.37	6.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1031	1055	0.034896	AAGCCGTTTGGTCATCTCGT	59.965	50.0	0.00	0.00	37.67	4.18	R
1624	1648	0.610232	ACCATTGTGCCCTCTTCAGC	60.610	55.0	0.00	0.00	0.00	4.26	R
2433	2460	0.382158	TGTGCGACGAAAATTGCCAA	59.618	45.0	0.00	0.00	0.00	4.52	R
3705	3765	0.100861	CGGACTTCCTAGGCTTCGTC	59.899	60.0	2.96	7.39	0.00	4.20	R
4546	4618	0.034767	TCAGCTTTGGAGATGCCCTG	60.035	55.0	0.00	0.00	39.14	4.45	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
21	22	1.527736	TGGTGTTTAGCGCTTACAACG	59.472	47.619	25.64	0.00	32.21	4.10
23	24	2.221517	GGTGTTTAGCGCTTACAACGAA	59.778	45.455	18.68	0.00	0.00	3.85
107	108	4.749245	ATGTTCAGAGGCTTTTTACACG	57.251	40.909	0.00	0.00	0.00	4.49
108	109	3.537580	TGTTCAGAGGCTTTTTACACGT	58.462	40.909	0.00	0.00	0.00	4.49
119	120	4.377911	TTTTTACACGTGCACACTATCG	57.622	40.909	17.22	3.88	0.00	2.92
156	157	2.358957	CGGTGTATGGGATATGGCATG	58.641	52.381	10.98	0.00	0.00	4.06
175	176	8.330638	TGGCATGGGATATAGTATTGCTAATA	57.669	34.615	0.00	0.00	32.72	0.98
281	284	3.868757	ACTGTGCGCTTGTAATCTCTA	57.131	42.857	9.73	0.00	0.00	2.43
354	357	8.661352	ATTTGTGAATGTTTACTTTTCCCTTG	57.339	30.769	0.00	0.00	0.00	3.61
379	382	8.418662	TGGTTCCATAATGTAGTACATGTAGAC	58.581	37.037	16.46	8.25	37.97	2.59
773	797	8.115490	AGACAAATCTAAGACAAGAATTTGGG	57.885	34.615	9.98	0.00	34.16	4.12
780	804	2.637872	AGACAAGAATTTGGGACGGAGA	59.362	45.455	0.00	0.00	38.66	3.71
793	817	3.018149	GGACGGAGAGAGTACATGTTCT	58.982	50.000	2.30	3.52	0.00	3.01
1031	1055	2.722094	AGTTGAGAAACCACTGTGCAA	58.278	42.857	1.29	0.00	0.00	4.08
1037	1061	1.873591	GAAACCACTGTGCAACGAGAT	59.126	47.619	1.29	0.00	42.39	2.75
1080	1104	4.558226	AGACTCACTTATTGGTGATGCA	57.442	40.909	0.00	0.00	43.94	3.96
1602	1626	5.943416	AGGATTCAATGGTGTCGAATTACAA	59.057	36.000	0.00	0.00	29.67	2.41
1624	1648	6.258727	ACAACATAGAATCACCAAGCTTATCG	59.741	38.462	0.00	0.00	0.00	2.92
1832	1858	2.352503	ATGCATTCCTTTTCACGTGC	57.647	45.000	11.67	0.00	0.00	5.34
1943	1969	8.258007	TCACTAATTAGTCAGTACCCAGATTTG	58.742	37.037	15.35	0.00	33.46	2.32
2108	2134	4.485163	GTTCGTTCTTATTGCTGGCATTT	58.515	39.130	0.00	0.00	0.00	2.32
2123	2149	8.406730	TGCTGGCATTTGAATATATAACATCA	57.593	30.769	0.00	0.00	0.00	3.07
2346	2372	1.549170	GGTATGTATGCGGACCTAGGG	59.451	57.143	14.81	0.00	0.00	3.53
2400	2426	2.746269	GCATTGCTTCTTGCTTCAACA	58.254	42.857	0.16	0.00	43.37	3.33
2433	2460	7.171630	ACTCTAGATCTGTTTTCAACGGTAT	57.828	36.000	5.18	0.00	38.89	2.73
2435	2462	7.545965	ACTCTAGATCTGTTTTCAACGGTATTG	59.454	37.037	5.18	0.00	38.89	1.90
2467	2494	2.164422	TCGCACAGGTCTCAGAACATAG	59.836	50.000	0.00	0.00	0.00	2.23
2478	2505	9.647918	AGGTCTCAGAACATAGATATCTTACAA	57.352	33.333	11.25	0.00	0.00	2.41
2628	2655	7.179076	TCTCTCCCAGGTATAAACAACTTAC	57.821	40.000	0.00	0.00	0.00	2.34
2655	2682	6.079712	ACAGTTTTGCTCCTTATAAGGGAT	57.920	37.500	27.65	5.95	46.47	3.85
2826	2858	2.555199	CTATCTCTTGGTTGCTTCCCG	58.445	52.381	0.00	0.00	0.00	5.14
3666	3726	1.679153	GCAGTGGAGAAACCGGAAAAA	59.321	47.619	9.46	0.00	42.61	1.94
3690	3750	1.067821	GATACTGACTCTCCAAGCGGG	59.932	57.143	0.00	0.00	38.37	6.13
3705	3765	1.375523	CGGGGTTTCGGAAGGTCAG	60.376	63.158	0.00	0.00	0.00	3.51
3714	3774	1.878656	CGGAAGGTCAGACGAAGCCT	61.879	60.000	0.00	0.00	0.00	4.58
3909	3978	1.614317	GGACCTGAATCACCCACCTTG	60.614	57.143	0.00	0.00	0.00	3.61
3972	4041	0.550914	ACTTGGCAGAGGGTCACAAA	59.449	50.000	0.00	0.00	0.00	2.83
4058	4127	6.040278	TGTTAACAAAAGCATGAGGTGATCAA	59.960	34.615	5.64	0.00	42.53	2.57
4109	4178	6.182507	TGTTGATCTTAAAGGGTACAGTGT	57.817	37.500	0.00	0.00	0.00	3.55
4175	4244	6.014070	TGGCAGGTAGAGTATGTTAGTTTTGA	60.014	38.462	0.00	0.00	0.00	2.69
4178	4247	7.603024	GCAGGTAGAGTATGTTAGTTTTGAACT	59.397	37.037	0.00	0.00	45.40	3.01
4185	4254	8.974060	AGTATGTTAGTTTTGAACTCAAGGAA	57.026	30.769	0.00	0.00	41.77	3.36
4188	4257	7.083875	TGTTAGTTTTGAACTCAAGGAAGTG	57.916	36.000	0.00	0.00	41.77	3.16
4202	4271	5.939883	TCAAGGAAGTGTTGTCAGAATATGG	59.060	40.000	0.00	0.00	0.00	2.74
4411	4482	5.018539	TCCTAGTCCAATCATGTAAACGG	57.981	43.478	0.00	0.00	0.00	4.44
4532	4604	1.908619	TCTCTAAGTTGATGCCCTGCA	59.091	47.619	0.00	0.00	44.86	4.41
4591	4664	4.459390	CAAATTTGCTCCACATCCATCA	57.541	40.909	5.01	0.00	0.00	3.07
4619	4696	1.526575	GGGCCAATCCGCATACATGG	61.527	60.000	4.39	0.00	34.94	3.66
4620	4697	1.526575	GGCCAATCCGCATACATGGG	61.527	60.000	0.00	0.00	40.08	4.00
4651	4938	0.179009	ATCCAACGCTGCCTGCATAT	60.179	50.000	0.00	0.00	43.06	1.78
4657	4944	3.631145	ACGCTGCCTGCATATATTTTG	57.369	42.857	0.00	0.00	43.06	2.44
4717	5004	4.449743	GCACGGCGGATTTCATATAAACTA	59.550	41.667	13.24	0.00	0.00	2.24
4721	5008	8.073768	CACGGCGGATTTCATATAAACTAAATT	58.926	33.333	13.24	0.00	0.00	1.82
4723	5010	9.537848	CGGCGGATTTCATATAAACTAAATTAC	57.462	33.333	0.00	0.00	0.00	1.89
4781	5119	4.038763	ACCTAATCTAAATGATCGTCGGCA	59.961	41.667	0.00	0.00	33.57	5.69
4827	5243	0.613260	CCCGGGAAGTGAAGATGTCA	59.387	55.000	18.48	0.00	0.00	3.58
4834	5250	0.534412	AGTGAAGATGTCAGCCTCCG	59.466	55.000	0.00	0.00	36.74	4.63
4835	5251	0.247736	GTGAAGATGTCAGCCTCCGT	59.752	55.000	0.00	0.00	36.74	4.69
4836	5252	0.247460	TGAAGATGTCAGCCTCCGTG	59.753	55.000	0.00	0.00	0.00	4.94
4840	5256	3.649277	ATGTCAGCCTCCGTGTCGC	62.649	63.158	0.00	0.00	0.00	5.19
4878	5294	1.079819	CGTCGATGTTCAGCCCACT	60.080	57.895	0.00	0.00	0.00	4.00
4907	5323	2.509964	GCTTTAATGGGAGGGGAAGAGA	59.490	50.000	0.00	0.00	0.00	3.10
4910	5326	0.423544	AATGGGAGGGGAAGAGAGGT	59.576	55.000	0.00	0.00	0.00	3.85
4968	5384	0.612174	ACTACTCTTCCTCGCTGCCA	60.612	55.000	0.00	0.00	0.00	4.92
4998	5414	1.006825	CGAACGTGTCGGCTTGATGA	61.007	55.000	10.88	0.00	46.45	2.92
4999	5415	1.359848	GAACGTGTCGGCTTGATGAT	58.640	50.000	0.00	0.00	0.00	2.45
5000	5416	1.732259	GAACGTGTCGGCTTGATGATT	59.268	47.619	0.00	0.00	0.00	2.57
5012	5428	1.271127	TGATGATTGTGGAGGCGGGA	61.271	55.000	0.00	0.00	0.00	5.14
5013	5429	0.109342	GATGATTGTGGAGGCGGGAT	59.891	55.000	0.00	0.00	0.00	3.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
11	12	8.425491	CCTAAATATCACTATTCGTTGTAAGCG	58.575	37.037	0.00	0.00	0.00	4.68
23	24	7.451566	GCCATTTTCACCCCTAAATATCACTAT	59.548	37.037	0.00	0.00	0.00	2.12
107	108	1.682451	TAGGGGCCGATAGTGTGCAC	61.682	60.000	10.75	10.75	0.00	4.57
108	109	0.762842	ATAGGGGCCGATAGTGTGCA	60.763	55.000	0.00	0.00	0.00	4.57
119	120	0.539669	CCGGATTTGGAATAGGGGCC	60.540	60.000	0.00	0.00	0.00	5.80
156	157	8.651389	TGCCAGATATTAGCAATACTATATCCC	58.349	37.037	0.00	0.00	32.56	3.85
175	176	5.843421	ACTGGATAGTCTTATTCTGCCAGAT	59.157	40.000	12.03	0.00	39.18	2.90
220	221	3.496160	CGGATACTACCATTTTGGAGGGG	60.496	52.174	0.00	0.00	40.96	4.79
281	284	8.949421	ACCATCTCATAAATAAAGGTACCATCT	58.051	33.333	15.94	0.00	0.00	2.90
354	357	8.639761	AGTCTACATGTACTACATTATGGAACC	58.360	37.037	0.08	0.00	36.53	3.62
580	583	4.159879	CACTAGACGGTACTTCCTCCATTT	59.840	45.833	0.00	0.00	0.00	2.32
773	797	3.942748	AGAGAACATGTACTCTCTCCGTC	59.057	47.826	19.93	2.10	44.04	4.79
780	804	9.469097	AAGTATTAGACAGAGAACATGTACTCT	57.531	33.333	0.00	0.00	43.13	3.24
793	817	9.424319	CTGAGCAAGTAAAAAGTATTAGACAGA	57.576	33.333	0.00	0.00	0.00	3.41
990	1014	2.711542	TCTAGTGACATCTGTGCTCGA	58.288	47.619	0.00	0.00	0.00	4.04
1031	1055	0.034896	AAGCCGTTTGGTCATCTCGT	59.965	50.000	0.00	0.00	37.67	4.18
1037	1061	2.250939	CGCTCAAGCCGTTTGGTCA	61.251	57.895	0.00	0.00	37.39	4.02
1602	1626	4.752101	GCGATAAGCTTGGTGATTCTATGT	59.248	41.667	9.86	0.00	44.04	2.29
1624	1648	0.610232	ACCATTGTGCCCTCTTCAGC	60.610	55.000	0.00	0.00	0.00	4.26
1943	1969	7.307493	TGCAACATACACTTTAGATGTGATC	57.693	36.000	0.00	0.00	38.65	2.92
2346	2372	3.648339	ATGGCCGTGATATTGAAATGC	57.352	42.857	0.00	0.00	0.00	3.56
2433	2460	0.382158	TGTGCGACGAAAATTGCCAA	59.618	45.000	0.00	0.00	0.00	4.52
2435	2462	0.729140	CCTGTGCGACGAAAATTGCC	60.729	55.000	0.00	0.00	0.00	4.52
2467	2494	8.699283	AAGTACAGAAACCGTTGTAAGATATC	57.301	34.615	0.00	0.00	32.08	1.63
2478	2505	7.416101	GCTTATCTAGGTAAGTACAGAAACCGT	60.416	40.741	21.21	0.00	37.09	4.83
2509	2536	1.226746	CGAAGGGAACAAGACACCAC	58.773	55.000	0.00	0.00	0.00	4.16
2826	2858	2.038164	GGTATGGATAACCCGAACCCTC	59.962	54.545	0.00	0.00	36.71	4.30
3546	3606	0.996462	CACTGTAACCATACCGTGCG	59.004	55.000	0.00	0.00	39.38	5.34
3567	3627	1.364678	TGTCCTGAATCCTCTACCCCA	59.635	52.381	0.00	0.00	0.00	4.96
3666	3726	3.295973	GCTTGGAGAGTCAGTATCCTCT	58.704	50.000	0.00	0.00	37.45	3.69
3690	3750	0.316204	TCGTCTGACCTTCCGAAACC	59.684	55.000	1.55	0.00	0.00	3.27
3705	3765	0.100861	CGGACTTCCTAGGCTTCGTC	59.899	60.000	2.96	7.39	0.00	4.20
3714	3774	0.738975	CAGATCGTGCGGACTTCCTA	59.261	55.000	5.27	0.00	0.00	2.94
3806	3875	1.485895	GCTGCTTCTCCTCCTCAATCT	59.514	52.381	0.00	0.00	0.00	2.40
3909	3978	1.254954	AGTCTACCACGACCACCTTC	58.745	55.000	0.00	0.00	34.46	3.46
3948	4017	0.402121	GACCCTCTGCCAAGTTCCTT	59.598	55.000	0.00	0.00	0.00	3.36
3972	4041	6.126863	TGATCTTTAGGAATGGACAACACT	57.873	37.500	0.00	0.00	0.00	3.55
4058	4127	7.299246	TGCTACAGAAAAGGTTAGACTAGTT	57.701	36.000	0.00	0.00	0.00	2.24
4175	4244	4.487714	TCTGACAACACTTCCTTGAGTT	57.512	40.909	0.00	0.00	0.00	3.01
4178	4247	5.939883	CCATATTCTGACAACACTTCCTTGA	59.060	40.000	0.00	0.00	0.00	3.02
4182	4251	4.589908	ACCCATATTCTGACAACACTTCC	58.410	43.478	0.00	0.00	0.00	3.46
4185	4254	4.908601	TGACCCATATTCTGACAACACT	57.091	40.909	0.00	0.00	0.00	3.55
4232	4301	7.956420	ACATGAATAAACACACTAGTCGAAA	57.044	32.000	0.00	0.00	0.00	3.46
4459	4530	7.543520	GCTAGCTTTGATTCAAGCAGTAATTTT	59.456	33.333	7.70	3.58	0.00	1.82
4465	4536	2.751806	GGCTAGCTTTGATTCAAGCAGT	59.248	45.455	15.72	6.03	0.00	4.40
4532	4604	0.332972	GCCCTGAGGACATTTCCCTT	59.667	55.000	0.00	0.00	44.10	3.95
4546	4618	0.034767	TCAGCTTTGGAGATGCCCTG	60.035	55.000	0.00	0.00	39.14	4.45
4591	4664	0.620556	CGGATTGGCCCCTATATGCT	59.379	55.000	0.00	0.00	0.00	3.79
4622	4699	2.566010	CGTTGGATGGCCGTTTGG	59.434	61.111	0.00	0.00	36.79	3.28
4623	4700	2.126502	GCGTTGGATGGCCGTTTG	60.127	61.111	0.00	0.00	36.79	2.93
4624	4701	2.282180	AGCGTTGGATGGCCGTTT	60.282	55.556	0.00	0.00	36.79	3.60
4625	4702	3.055719	CAGCGTTGGATGGCCGTT	61.056	61.111	0.00	0.00	36.79	4.44
4671	4958	5.576384	GCTTGCACAAATTTCATCCGATTAA	59.424	36.000	0.00	0.00	0.00	1.40
4680	4967	1.850377	CCGTGCTTGCACAAATTTCA	58.150	45.000	22.97	0.00	0.00	2.69
4812	5150	2.626840	GAGGCTGACATCTTCACTTCC	58.373	52.381	0.00	0.00	0.00	3.46
4860	5276	0.172578	TAGTGGGCTGAACATCGACG	59.827	55.000	0.00	0.00	0.00	5.12
4890	5306	1.657162	ACCTCTCTTCCCCTCCCATTA	59.343	52.381	0.00	0.00	0.00	1.90
4891	5307	0.423544	ACCTCTCTTCCCCTCCCATT	59.576	55.000	0.00	0.00	0.00	3.16
4893	5309	1.081092	CACCTCTCTTCCCCTCCCA	59.919	63.158	0.00	0.00	0.00	4.37
4894	5310	1.690985	CCACCTCTCTTCCCCTCCC	60.691	68.421	0.00	0.00	0.00	4.30
4907	5323	2.936032	GTCCCAGGAAGGCCACCT	60.936	66.667	14.57	14.57	38.40	4.00
4936	5352	3.895232	AGAGTAGTGCATGGTAGGTTG	57.105	47.619	0.00	0.00	0.00	3.77
4937	5353	3.197983	GGAAGAGTAGTGCATGGTAGGTT	59.802	47.826	0.00	0.00	0.00	3.50
4981	5397	1.464608	CAATCATCAAGCCGACACGTT	59.535	47.619	0.00	0.00	0.00	3.99
4986	5402	1.667724	CTCCACAATCATCAAGCCGAC	59.332	52.381	0.00	0.00	0.00	4.79
4994	5410	0.109342	ATCCCGCCTCCACAATCATC	59.891	55.000	0.00	0.00	0.00	2.92
4998	5414	1.987807	CTCCATCCCGCCTCCACAAT	61.988	60.000	0.00	0.00	0.00	2.71
4999	5415	2.609299	TCCATCCCGCCTCCACAA	60.609	61.111	0.00	0.00	0.00	3.33
5000	5416	3.083349	CTCCATCCCGCCTCCACA	61.083	66.667	0.00	0.00	0.00	4.17
5012	5428	4.672251	GGACATTGCTGGCTCCAT	57.328	55.556	0.00	0.00	0.00	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.