AutoCloner

Multiple sequence alignment - TraesCS2A01G381100

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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	TraesCS2A01G381100	chr2A	100.000	4261	0	0	1	4261	624457285	624461545	0.000000e+00	7869
1	TraesCS2A01G381100	chr2A	89.461	2989	213	57	555	3498	624393902	624396833	0.000000e+00	3681
2	TraesCS2A01G381100	chr2A	89.308	2759	226	43	784	3498	624446916	624449649	0.000000e+00	3397
3	TraesCS2A01G381100	chr2A	88.314	2533	254	30	990	3498	624359557	624362071	0.000000e+00	3000
4	TraesCS2A01G381100	chr2A	79.778	361	32	22	3831	4181	624397170	624397499	1.540000e-54	224
5	TraesCS2A01G381100	chr2D	93.449	3740	185	32	485	4220	481987899	481991582	0.000000e+00	5494
6	TraesCS2A01G381100	chr2D	93.924	3588	148	31	371	3925	481960852	481964402	0.000000e+00	5354
7	TraesCS2A01G381100	chr2D	89.229	3008	250	33	537	3498	481688163	481691142	0.000000e+00	3692
8	TraesCS2A01G381100	chr2D	91.010	2525	203	17	989	3498	481656074	481658589	0.000000e+00	3384
9	TraesCS2A01G381100	chr2D	87.776	499	48	5	1	486	481987258	481987756	4.780000e-159	571
10	TraesCS2A01G381100	chr2D	95.370	216	10	0	4005	4220	481964450	481964665	1.130000e-90	344
11	TraesCS2A01G381100	chr2D	84.036	332	22	12	543	869	481655676	481655981	1.500000e-74	291
12	TraesCS2A01G381100	chr2D	93.919	148	9	0	51	198	481960688	481960835	1.540000e-54	224
13	TraesCS2A01G381100	chr2D	86.341	205	19	5	1	196	481687651	481687855	9.280000e-52	215
14	TraesCS2A01G381100	chr2D	92.000	150	10	1	1	148	481703162	481703311	4.320000e-50	209
15	TraesCS2A01G381100	chr2D	85.535	159	23	0	198	356	73402885	73403043	2.640000e-37	167
16	TraesCS2A01G381100	chr2D	100.000	67	0	0	1	67	481960614	481960680	1.610000e-24	124
17	TraesCS2A01G381100	chr2D	78.421	190	34	6	185	372	79992044	79991860	2.690000e-22	117
18	TraesCS2A01G381100	chr2B	93.032	3545	173	27	692	4220	565209751	565213237	0.000000e+00	5110
19	TraesCS2A01G381100	chr2B	91.250	2983	220	22	534	3498	565188530	565191489	0.000000e+00	4024
20	TraesCS2A01G381100	chr2B	88.286	2988	256	46	547	3504	565076034	565078957	0.000000e+00	3493
21	TraesCS2A01G381100	chr2B	88.442	199	17	4	1	193	565209297	565209495	7.120000e-58	235
22	TraesCS2A01G381100	chr2B	85.217	115	9	1	534	640	565209640	565209754	1.250000e-20	111
23	TraesCS2A01G381100	chr5B	87.421	159	20	0	198	356	278430462	278430620	2.620000e-42	183
24	TraesCS2A01G381100	chr5B	80.982	163	28	3	195	356	13084110	13084270	4.470000e-25	126
25	TraesCS2A01G381100	chr5A	84.756	164	23	2	194	356	137279565	137279727	3.410000e-36	163
26	TraesCS2A01G381100	chr6B	84.906	159	23	1	198	356	365358327	365358170	4.410000e-35	159
27	TraesCS2A01G381100	chr7D	83.750	160	25	1	197	356	622372181	622372339	2.650000e-32	150
28	TraesCS2A01G381100	chr3A	81.395	172	28	3	195	365	356085370	356085202	2.070000e-28	137

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	TraesCS2A01G381100	chr2A	624457285	624461545	4260	False	7869.000000	7869	100.00000	1	4261	1	chr2A.!!$F3	4260
1	TraesCS2A01G381100	chr2A	624446916	624449649	2733	False	3397.000000	3397	89.30800	784	3498	1	chr2A.!!$F2	2714
2	TraesCS2A01G381100	chr2A	624359557	624362071	2514	False	3000.000000	3000	88.31400	990	3498	1	chr2A.!!$F1	2508
3	TraesCS2A01G381100	chr2A	624393902	624397499	3597	False	1952.500000	3681	84.61950	555	4181	2	chr2A.!!$F4	3626
4	TraesCS2A01G381100	chr2D	481987258	481991582	4324	False	3032.500000	5494	90.61250	1	4220	2	chr2D.!!$F6	4219
5	TraesCS2A01G381100	chr2D	481687651	481691142	3491	False	1953.500000	3692	87.78500	1	3498	2	chr2D.!!$F4	3497
6	TraesCS2A01G381100	chr2D	481655676	481658589	2913	False	1837.500000	3384	87.52300	543	3498	2	chr2D.!!$F3	2955
7	TraesCS2A01G381100	chr2D	481960614	481964665	4051	False	1511.500000	5354	95.80325	1	4220	4	chr2D.!!$F5	4219
8	TraesCS2A01G381100	chr2B	565188530	565191489	2959	False	4024.000000	4024	91.25000	534	3498	1	chr2B.!!$F2	2964
9	TraesCS2A01G381100	chr2B	565076034	565078957	2923	False	3493.000000	3493	88.28600	547	3504	1	chr2B.!!$F1	2957
10	TraesCS2A01G381100	chr2B	565209297	565213237	3940	False	1818.666667	5110	88.89700	1	4220	3	chr2B.!!$F3	4219

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
258	320	0.317479	CTATAGGCTACACACGGGGC	59.683	60.0	0.0	0.0	0.00	5.80	F
623	982	0.455295	GTCGACTGAGTCCAGCTTCG	60.455	60.0	8.7	0.0	44.16	3.79	F
759	1183	1.187087	CCCACTCTCTCACACCTACC	58.813	60.0	0.0	0.0	0.00	3.18	F
1628	2196	0.399091	TGCTCCAGGGATACTCAGGG	60.399	60.0	0.0	0.0	0.00	4.45	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1491	2059	0.179094	ACGAGGCAAAGAACACACGA	60.179	50.000	0.00	0.0	0.00	4.35	R
1508	2076	0.921347	CCGCGTTAAGGAATCTGACG	59.079	55.000	4.92	0.0	36.83	4.35	R
1972	2540	1.067565	TCATGACCTCACAGAAGACGC	60.068	52.381	0.00	0.0	0.00	5.19	R
3412	4003	1.003580	CTGTCTACCCAACACTGCCAT	59.996	52.381	0.00	0.0	0.00	4.40	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
77	104	1.291877	GCTACGGTGGCAGTTGAGTG	61.292	60.000	11.90	0.00	0.00	3.51
87	114	1.136141	GCAGTTGAGTGCACGAATCAG	60.136	52.381	12.01	3.11	43.41	2.90
168	201	2.554032	AGCTTTGATCAACCTCCAAACG	59.446	45.455	7.89	0.00	0.00	3.60
206	268	8.478877	CAACTGAAAACATATACTACTCCCTCT	58.521	37.037	0.00	0.00	0.00	3.69
207	269	8.012957	ACTGAAAACATATACTACTCCCTCTG	57.987	38.462	0.00	0.00	0.00	3.35
210	272	8.822805	TGAAAACATATACTACTCCCTCTGTTT	58.177	33.333	0.00	0.00	37.22	2.83
224	286	8.706521	ACTCCCTCTGTTTCTAAATATAAGTCC	58.293	37.037	0.00	0.00	0.00	3.85
256	318	4.924305	TTTACTATAGGCTACACACGGG	57.076	45.455	4.43	0.00	0.00	5.28
258	320	0.317479	CTATAGGCTACACACGGGGC	59.683	60.000	0.00	0.00	0.00	5.80
266	328	2.229302	GCTACACACGGGGCAAAATAAA	59.771	45.455	0.00	0.00	0.00	1.40
277	339	8.522830	CACGGGGCAAAATAAATGAATCTATAT	58.477	33.333	0.00	0.00	0.00	0.86
322	384	4.404394	TCCGAATGCAGTCTTTATAGTGGA	59.596	41.667	12.92	5.86	0.00	4.02
325	387	6.073548	CCGAATGCAGTCTTTATAGTGGAATC	60.074	42.308	12.92	0.00	0.00	2.52
358	421	8.379331	AGGATTTATATTTAGGAACAGAGGAGC	58.621	37.037	0.00	0.00	0.00	4.70
430	510	0.455410	CCATACCAACGTTGCCCATG	59.545	55.000	22.93	20.95	0.00	3.66
617	976	2.265904	CCCACGTCGACTGAGTCCA	61.266	63.158	14.70	0.00	0.00	4.02
621	980	1.173444	ACGTCGACTGAGTCCAGCTT	61.173	55.000	14.70	0.00	44.16	3.74
623	982	0.455295	GTCGACTGAGTCCAGCTTCG	60.455	60.000	8.70	0.00	44.16	3.79
691	1106	4.500116	GGCGACAGGAGCTCCGTC	62.500	72.222	31.19	31.19	42.08	4.79
692	1107	4.500116	GCGACAGGAGCTCCGTCC	62.500	72.222	32.89	25.96	42.08	4.79
693	1108	4.180946	CGACAGGAGCTCCGTCCG	62.181	72.222	32.89	28.09	42.05	4.79
703	1118	3.605749	CTCCGTCCGCACCAACCAT	62.606	63.158	0.00	0.00	0.00	3.55
759	1183	1.187087	CCCACTCTCTCACACCTACC	58.813	60.000	0.00	0.00	0.00	3.18
760	1184	1.272760	CCCACTCTCTCACACCTACCT	60.273	57.143	0.00	0.00	0.00	3.08
761	1185	2.025226	CCCACTCTCTCACACCTACCTA	60.025	54.545	0.00	0.00	0.00	3.08
765	1189	5.120399	CACTCTCTCACACCTACCTACTAG	58.880	50.000	0.00	0.00	0.00	2.57
769	1193	5.723405	TCTCTCACACCTACCTACTAGTACA	59.277	44.000	0.00	0.00	0.00	2.90
1508	2076	3.414549	TTTTCGTGTGTTCTTTGCCTC	57.585	42.857	0.00	0.00	0.00	4.70
1509	2077	0.934496	TTCGTGTGTTCTTTGCCTCG	59.066	50.000	0.00	0.00	0.00	4.63
1622	2190	3.391296	TCAATACCTTGCTCCAGGGATAC	59.609	47.826	0.02	0.00	36.31	2.24
1628	2196	0.399091	TGCTCCAGGGATACTCAGGG	60.399	60.000	0.00	0.00	0.00	4.45
1972	2540	0.671781	CTTGCTGAGGTCTTGTCGGG	60.672	60.000	0.00	0.00	0.00	5.14
2237	2805	0.670546	CCACCAAGTCAATCGAGCGT	60.671	55.000	0.00	0.00	0.00	5.07
2525	3093	1.831106	TGCTCCGAGCTCCAATTCTTA	59.169	47.619	20.87	0.00	42.97	2.10
2735	3303	0.389025	TCAAGAGCTGCGTGAAGACA	59.611	50.000	0.00	0.00	31.94	3.41
2900	3468	1.392853	CAGAAGATGCGTGCAGTTCTC	59.607	52.381	15.60	2.88	33.52	2.87
3191	3759	1.066303	GTGTTCGTTGCCATGAACCAA	59.934	47.619	17.58	0.55	45.20	3.67
3317	3907	0.886563	ATTTCAGAAGCCTGCAGTGC	59.113	50.000	13.81	15.45	40.20	4.40
3319	3909	0.887836	TTCAGAAGCCTGCAGTGCTG	60.888	55.000	24.47	16.08	39.48	4.41
3519	4194	5.187687	ACCGGTTCAAGAAAGTAAAACTCA	58.812	37.500	0.00	0.00	0.00	3.41
3648	4323	7.230913	TCAGTACTCTGCTTACTAAGTTCAGTT	59.769	37.037	0.00	0.00	41.10	3.16
3650	4325	7.868415	AGTACTCTGCTTACTAAGTTCAGTTTG	59.132	37.037	0.00	0.00	0.00	2.93
3668	4343	9.444600	TTCAGTTTGGACTTTAGTATAATGACC	57.555	33.333	0.00	0.00	32.54	4.02
3795	4470	7.602265	CCTAACACCAAAACCATCCTTAATTTG	59.398	37.037	0.00	0.00	0.00	2.32
3806	4481	5.507482	CCATCCTTAATTTGCTGCTCATCTG	60.507	44.000	0.00	0.00	0.00	2.90
3833	4508	2.612212	GTCCATAACCAAGGCACATACG	59.388	50.000	0.00	0.00	0.00	3.06
3834	4509	2.237643	TCCATAACCAAGGCACATACGT	59.762	45.455	0.00	0.00	0.00	3.57
3835	4510	2.354510	CCATAACCAAGGCACATACGTG	59.645	50.000	0.00	0.00	46.56	4.49
3912	4593	8.847196	GTCATACGTAGGCAGGAATATATATGA	58.153	37.037	1.53	0.00	0.00	2.15
3959	4652	7.065324	CGTATTTGTATTCTACTCCTTTTGGCA	59.935	37.037	0.00	0.00	40.12	4.92
3989	4682	5.830000	ATCTACACGTATCAACAGCTGTA	57.170	39.130	22.01	5.63	0.00	2.74
4000	4693	0.179111	ACAGCTGTATGTGCGCGTAT	60.179	50.000	20.16	1.62	35.28	3.06
4028	4721	2.717044	CCACCGTATCCTGCCGACA	61.717	63.158	0.00	0.00	0.00	4.35
4044	4737	6.479990	CCTGCCGACATATGTATAATGTATGG	59.520	42.308	8.71	1.49	31.68	2.74
4116	4809	4.728772	TGGATGAAATGAAGGTGTCAACT	58.271	39.130	0.00	0.00	40.50	3.16
4135	4828	2.020720	CTAGCTGTGTCCTGATCTCGT	58.979	52.381	0.00	0.00	0.00	4.18
4208	4901	0.038159	GTGTCCGAGTTCAGAGTGGG	60.038	60.000	0.00	0.00	0.00	4.61
4220	4913	0.322636	AGAGTGGGTCGTCGACAGAT	60.323	55.000	25.64	9.24	33.68	2.90
4221	4914	0.099082	GAGTGGGTCGTCGACAGATC	59.901	60.000	25.64	13.46	33.68	2.75
4232	4925	2.200792	CGACAGATCGCTGATGTTCT	57.799	50.000	0.00	0.00	45.17	3.01
4233	4926	2.115595	CGACAGATCGCTGATGTTCTC	58.884	52.381	0.00	0.00	45.17	2.87
4234	4927	2.468831	GACAGATCGCTGATGTTCTCC	58.531	52.381	0.00	0.00	45.17	3.71
4235	4928	2.100584	GACAGATCGCTGATGTTCTCCT	59.899	50.000	0.00	0.00	45.17	3.69
4236	4929	2.159128	ACAGATCGCTGATGTTCTCCTG	60.159	50.000	0.00	0.00	45.17	3.86
4237	4930	1.202510	AGATCGCTGATGTTCTCCTGC	60.203	52.381	0.00	0.00	0.00	4.85
4238	4931	0.538584	ATCGCTGATGTTCTCCTGCA	59.461	50.000	0.00	0.00	0.00	4.41
4239	4932	0.108472	TCGCTGATGTTCTCCTGCAG	60.108	55.000	6.78	6.78	0.00	4.41
4240	4933	0.108472	CGCTGATGTTCTCCTGCAGA	60.108	55.000	17.39	0.00	0.00	4.26
4241	4934	1.472904	CGCTGATGTTCTCCTGCAGAT	60.473	52.381	17.39	0.00	0.00	2.90
4242	4935	2.641305	GCTGATGTTCTCCTGCAGATT	58.359	47.619	17.39	0.00	0.00	2.40
4243	4936	2.355132	GCTGATGTTCTCCTGCAGATTG	59.645	50.000	17.39	4.71	0.00	2.67
4244	4937	2.355132	CTGATGTTCTCCTGCAGATTGC	59.645	50.000	17.39	1.77	45.29	3.56
4245	4938	2.026542	TGATGTTCTCCTGCAGATTGCT	60.027	45.455	17.39	0.00	45.31	3.91
4246	4939	1.817357	TGTTCTCCTGCAGATTGCTG	58.183	50.000	17.39	0.00	45.31	4.41
4247	4940	1.348696	TGTTCTCCTGCAGATTGCTGA	59.651	47.619	17.39	1.10	45.31	4.26
4248	4941	2.026542	TGTTCTCCTGCAGATTGCTGAT	60.027	45.455	17.39	0.00	45.31	2.90
4249	4942	3.198417	TGTTCTCCTGCAGATTGCTGATA	59.802	43.478	17.39	0.00	45.31	2.15
4250	4943	3.465742	TCTCCTGCAGATTGCTGATAC	57.534	47.619	17.39	0.00	45.31	2.24
4251	4944	2.767960	TCTCCTGCAGATTGCTGATACA	59.232	45.455	17.39	0.00	45.31	2.29
4252	4945	3.198417	TCTCCTGCAGATTGCTGATACAA	59.802	43.478	17.39	0.00	45.31	2.41
4253	4946	3.273434	TCCTGCAGATTGCTGATACAAC	58.727	45.455	17.39	0.00	45.31	3.32
4254	4947	2.031314	CCTGCAGATTGCTGATACAACG	59.969	50.000	17.39	0.00	45.31	4.10
4255	4948	2.931969	CTGCAGATTGCTGATACAACGA	59.068	45.455	8.42	0.00	45.31	3.85
4256	4949	2.931969	TGCAGATTGCTGATACAACGAG	59.068	45.455	2.48	0.00	45.31	4.18
4257	4950	2.286294	GCAGATTGCTGATACAACGAGG	59.714	50.000	0.00	0.00	45.17	4.63
4258	4951	2.286294	CAGATTGCTGATACAACGAGGC	59.714	50.000	0.00	0.00	45.17	4.70
4259	4952	1.599542	GATTGCTGATACAACGAGGCC	59.400	52.381	0.00	0.00	31.03	5.19
4260	4953	0.613260	TTGCTGATACAACGAGGCCT	59.387	50.000	3.86	3.86	0.00	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
77	104	2.434185	TCCGTGGCTGATTCGTGC	60.434	61.111	0.00	0.00	0.00	5.34
87	114	2.380084	TGTTCTTATCACTCCGTGGC	57.620	50.000	0.00	0.00	33.87	5.01
103	130	2.038329	TCGACCCCTCCGGATGTT	59.962	61.111	3.57	0.00	34.64	2.71
228	290	9.095065	CGTGTGTAGCCTATAGTAAAATTTCTT	57.905	33.333	0.00	0.00	0.00	2.52
230	292	7.042254	CCCGTGTGTAGCCTATAGTAAAATTTC	60.042	40.741	0.00	0.00	0.00	2.17
232	294	6.285990	CCCGTGTGTAGCCTATAGTAAAATT	58.714	40.000	0.00	0.00	0.00	1.82
237	299	2.867624	CCCCGTGTGTAGCCTATAGTA	58.132	52.381	0.00	0.00	0.00	1.82
241	303	1.268992	TTGCCCCGTGTGTAGCCTAT	61.269	55.000	0.00	0.00	0.00	2.57
251	313	5.009854	AGATTCATTTATTTTGCCCCGTG	57.990	39.130	0.00	0.00	0.00	4.94
286	348	7.499563	AGACTGCATTCGGATATATATAGACGT	59.500	37.037	14.66	0.00	0.00	4.34
287	349	7.866729	AGACTGCATTCGGATATATATAGACG	58.133	38.462	10.84	10.84	0.00	4.18
297	359	6.266786	TCCACTATAAAGACTGCATTCGGATA	59.733	38.462	0.00	0.00	0.00	2.59
301	363	6.703607	AGATTCCACTATAAAGACTGCATTCG	59.296	38.462	0.00	0.00	0.00	3.34
336	398	8.713971	TCATGCTCCTCTGTTCCTAAATATAAA	58.286	33.333	0.00	0.00	0.00	1.40
358	421	3.591023	TCACCTTTTTGCATGCATCATG	58.409	40.909	23.37	13.84	43.91	3.07
430	510	3.261981	TCCGAGGAATCTAACTTTGCC	57.738	47.619	0.00	0.00	0.00	4.52
690	1105	0.179004	ACTGAAATGGTTGGTGCGGA	60.179	50.000	0.00	0.00	0.00	5.54
691	1106	0.039256	CACTGAAATGGTTGGTGCGG	60.039	55.000	0.00	0.00	0.00	5.69
692	1107	0.039256	CCACTGAAATGGTTGGTGCG	60.039	55.000	0.00	0.00	34.77	5.34
693	1108	3.892200	CCACTGAAATGGTTGGTGC	57.108	52.632	0.00	0.00	34.77	5.01
703	1118	0.534203	GGCGAGGTTGACCACTGAAA	60.534	55.000	2.56	0.00	38.89	2.69
759	1183	3.528594	CGCAGCCGTGTACTAGTAG	57.471	57.895	1.87	0.00	0.00	2.57
787	1211	3.479088	AGGGAGGGGAGGGATTAAATAGA	59.521	47.826	0.00	0.00	0.00	1.98
982	1511	2.602933	CCATCGAAATATGCAGCAACGG	60.603	50.000	0.00	0.00	0.00	4.44
986	1515	2.874086	CACTCCATCGAAATATGCAGCA	59.126	45.455	0.00	0.00	0.00	4.41
1230	1759	3.688086	GACTCGTCCAGCTCCACT	58.312	61.111	0.00	0.00	0.00	4.00
1489	2057	1.329292	CGAGGCAAAGAACACACGAAA	59.671	47.619	0.00	0.00	0.00	3.46
1491	2059	0.179094	ACGAGGCAAAGAACACACGA	60.179	50.000	0.00	0.00	0.00	4.35
1500	2068	2.393271	AGGAATCTGACGAGGCAAAG	57.607	50.000	0.00	0.00	0.00	2.77
1508	2076	0.921347	CCGCGTTAAGGAATCTGACG	59.079	55.000	4.92	0.00	36.83	4.35
1509	2077	1.134907	TCCCGCGTTAAGGAATCTGAC	60.135	52.381	4.92	0.00	0.00	3.51
1622	2190	1.103987	TCTCGAAGCGGATCCCTGAG	61.104	60.000	6.06	8.36	0.00	3.35
1628	2196	3.784845	GAGGATCTCGAAGCGGATC	57.215	57.895	4.26	4.26	38.01	3.36
1916	2484	1.089920	CCTCGAAAAGCACCATGGAG	58.910	55.000	21.47	12.70	0.00	3.86
1972	2540	1.067565	TCATGACCTCACAGAAGACGC	60.068	52.381	0.00	0.00	0.00	5.19
2237	2805	3.250744	GTCGTTGACGGAATTGATCTCA	58.749	45.455	3.48	0.00	40.29	3.27
2360	2928	1.886313	CATGAGCTTGCCGATCGCT	60.886	57.895	10.32	0.00	38.78	4.93
2525	3093	1.152756	GTTGGTCACAGGGTTGCCT	60.153	57.895	0.00	0.00	0.00	4.75
2735	3303	2.175202	CTCAGTGTCTTCCTAGCCACT	58.825	52.381	0.00	0.00	0.00	4.00
2942	3510	2.654912	GGCAAACACCGACGTCTCG	61.655	63.158	14.70	5.97	39.83	4.04
3044	3612	2.111932	TACGGTTTTGCTGTGCTGCG	62.112	55.000	0.00	0.00	37.27	5.18
3191	3759	3.121030	GCGTCGATGTGCTTGCCT	61.121	61.111	6.48	0.00	0.00	4.75
3267	3835	4.872691	ACGCTACTCTTCCATTTCTTGATG	59.127	41.667	0.00	0.00	0.00	3.07
3412	4003	1.003580	CTGTCTACCCAACACTGCCAT	59.996	52.381	0.00	0.00	0.00	4.40
3416	4007	5.365619	AGTTTTACTGTCTACCCAACACTG	58.634	41.667	0.00	0.00	0.00	3.66
3498	4091	5.625311	GCATGAGTTTTACTTTCTTGAACCG	59.375	40.000	0.00	0.00	0.00	4.44
3519	4194	2.274760	GGCAGCTCTGGAAGGCAT	59.725	61.111	0.00	0.00	33.36	4.40
3648	4323	9.747898	AATGTTGGTCATTATACTAAAGTCCAA	57.252	29.630	0.00	0.00	43.93	3.53
3650	4325	9.174166	ACAATGTTGGTCATTATACTAAAGTCC	57.826	33.333	0.00	0.00	43.93	3.85
3748	4423	8.680903	GTTAGGATCTTCATTCATGTGACATTT	58.319	33.333	0.00	0.00	0.00	2.32
3806	4481	3.378427	GTGCCTTGGTTATGGACATCTTC	59.622	47.826	0.00	0.00	0.00	2.87
3833	4508	2.663879	CGCAGAGAAACTTCATGTGCAC	60.664	50.000	10.75	10.75	32.34	4.57
3834	4509	1.532437	CGCAGAGAAACTTCATGTGCA	59.468	47.619	0.00	0.00	32.34	4.57
3835	4510	1.727213	GCGCAGAGAAACTTCATGTGC	60.727	52.381	0.30	13.79	41.75	4.57
3836	4511	1.802960	AGCGCAGAGAAACTTCATGTG	59.197	47.619	11.47	4.68	32.91	3.21
3912	4593	2.943033	GCGCCACATACCTTACAATCTT	59.057	45.455	0.00	0.00	0.00	2.40
3959	4652	8.818057	GCTGTTGATACGTGTAGATTAAAGAAT	58.182	33.333	0.00	0.00	0.00	2.40
3989	4682	2.794910	GACAGTCAATATACGCGCACAT	59.205	45.455	5.73	1.44	0.00	3.21
4000	4693	3.383505	CAGGATACGGTGGACAGTCAATA	59.616	47.826	2.17	0.00	46.39	1.90
4028	4721	5.368145	CAGCCGGCCATACATTATACATAT	58.632	41.667	26.15	0.00	0.00	1.78
4116	4809	2.130272	ACGAGATCAGGACACAGCTA	57.870	50.000	0.00	0.00	0.00	3.32
4135	4828	5.417894	TGCTTTCTGTTTCTCCTATCGAGTA	59.582	40.000	0.00	0.00	39.84	2.59
4220	4913	0.108472	CTGCAGGAGAACATCAGCGA	60.108	55.000	5.57	0.00	34.28	4.93
4221	4914	0.108472	TCTGCAGGAGAACATCAGCG	60.108	55.000	15.13	0.00	34.28	5.18
4222	4915	2.328819	ATCTGCAGGAGAACATCAGC	57.671	50.000	15.13	0.00	33.12	4.26
4223	4916	2.355132	GCAATCTGCAGGAGAACATCAG	59.645	50.000	15.13	0.00	44.26	2.90
4224	4917	2.362736	GCAATCTGCAGGAGAACATCA	58.637	47.619	15.13	0.00	44.26	3.07
4236	4929	2.286294	CCTCGTTGTATCAGCAATCTGC	59.714	50.000	0.00	0.00	45.46	4.26
4237	4930	2.286294	GCCTCGTTGTATCAGCAATCTG	59.714	50.000	0.00	0.00	41.67	2.90
4238	4931	2.555199	GCCTCGTTGTATCAGCAATCT	58.445	47.619	0.00	0.00	0.00	2.40
4239	4932	1.599542	GGCCTCGTTGTATCAGCAATC	59.400	52.381	0.00	0.00	0.00	2.67
4240	4933	1.210478	AGGCCTCGTTGTATCAGCAAT	59.790	47.619	0.00	0.00	0.00	3.56
4241	4934	0.613260	AGGCCTCGTTGTATCAGCAA	59.387	50.000	0.00	0.00	0.00	3.91
4242	4935	2.286826	AGGCCTCGTTGTATCAGCA	58.713	52.632	0.00	0.00	0.00	4.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.