AutoCloner

Multiple sequence alignment - TraesCS3D01G118500

Loading Multiple Alignment...

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	TraesCS3D01G118500	chr3D	100.000	4531	0	0	1	4531	73207586	73203056	0.000000e+00	8368.0
1	TraesCS3D01G118500	chr3B	92.573	3743	200	37	3	3711	118507996	118504298	0.000000e+00	5301.0
2	TraesCS3D01G118500	chr3B	91.791	134	10	1	583	716	655635116	655634984	7.740000e-43	185.0
3	TraesCS3D01G118500	chr3B	88.462	52	5	1	562	613	526697434	526697384	1.360000e-05	62.1
4	TraesCS3D01G118500	chr3A	94.799	3230	129	22	498	3711	86124603	86121397	0.000000e+00	4998.0
5	TraesCS3D01G118500	chr3A	82.482	137	23	1	561	697	533074678	533074813	7.960000e-23	119.0
6	TraesCS3D01G118500	chr3A	95.082	61	3	0	3723	3783	86120956	86120896	3.730000e-16	97.1
7	TraesCS3D01G118500	chr3A	91.429	70	6	0	837	906	568459591	568459522	3.730000e-16	97.1
8	TraesCS3D01G118500	chr3A	88.462	52	5	1	562	613	521307144	521307094	1.360000e-05	62.1
9	TraesCS3D01G118500	chr5B	91.845	1214	93	5	1674	2883	563519839	563518628	0.000000e+00	1688.0
10	TraesCS3D01G118500	chr5B	93.075	722	49	1	3810	4531	654502910	654502190	0.000000e+00	1055.0
11	TraesCS3D01G118500	chr5B	91.978	723	55	2	3810	4531	48933022	48933742	0.000000e+00	1011.0
12	TraesCS3D01G118500	chr5B	85.612	139	17	3	575	711	288327798	288327661	4.720000e-30	143.0
13	TraesCS3D01G118500	chr5B	87.500	96	11	1	821	915	681204923	681204828	4.790000e-20	110.0
14	TraesCS3D01G118500	chr5B	91.045	67	6	0	847	913	506203935	506203869	1.740000e-14	91.6
15	TraesCS3D01G118500	chr7B	94.044	722	43	0	3810	4531	93581254	93581975	0.000000e+00	1096.0
16	TraesCS3D01G118500	chr4B	91.064	470	42	0	1131	1600	615715613	615716082	1.780000e-178	636.0
17	TraesCS3D01G118500	chr4B	82.287	717	120	6	3817	4529	603576273	603575560	8.330000e-172	614.0
18	TraesCS3D01G118500	chr4B	91.011	89	7	1	479	566	606291543	606291455	7.960000e-23	119.0
19	TraesCS3D01G118500	chr4B	94.231	52	3	0	1599	1650	615764985	615765036	3.760000e-11	80.5
20	TraesCS3D01G118500	chr7A	93.571	140	8	1	574	713	637915541	637915679	1.650000e-49	207.0
21	TraesCS3D01G118500	chr7A	83.824	136	20	2	562	697	679957017	679957150	1.320000e-25	128.0
22	TraesCS3D01G118500	chr7D	92.857	140	8	2	574	713	552281657	552281794	7.690000e-48	202.0
23	TraesCS3D01G118500	chr6B	87.050	139	17	1	575	713	233039236	233039373	6.070000e-34	156.0
24	TraesCS3D01G118500	chr6A	85.211	142	21	0	580	721	263886881	263887022	3.650000e-31	147.0
25	TraesCS3D01G118500	chr6D	85.507	138	20	0	584	721	221843014	221843151	1.310000e-30	145.0
26	TraesCS3D01G118500	chr6D	84.337	83	12	1	847	928	301049677	301049595	3.760000e-11	80.5
27	TraesCS3D01G118500	chr4A	84.173	139	16	5	779	914	86932914	86932779	3.680000e-26	130.0
28	TraesCS3D01G118500	chr4D	83.969	131	17	3	787	915	21700212	21700340	6.160000e-24	122.0
29	TraesCS3D01G118500	chr2D	90.805	87	6	2	479	565	636534333	636534417	1.030000e-21	115.0
30	TraesCS3D01G118500	chr5A	98.113	53	1	0	860	912	616638849	616638797	4.830000e-15	93.5
31	TraesCS3D01G118500	chr2A	84.337	83	12	1	483	565	26727497	26727416	3.760000e-11	80.5

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	TraesCS3D01G118500	chr3D	73203056	73207586	4530	True	8368.00	8368	100.0000	1	4531	1	chr3D.!!$R1	4530
1	TraesCS3D01G118500	chr3B	118504298	118507996	3698	True	5301.00	5301	92.5730	3	3711	1	chr3B.!!$R1	3708
2	TraesCS3D01G118500	chr3A	86120896	86124603	3707	True	2547.55	4998	94.9405	498	3783	2	chr3A.!!$R3	3285
3	TraesCS3D01G118500	chr5B	563518628	563519839	1211	True	1688.00	1688	91.8450	1674	2883	1	chr5B.!!$R3	1209
4	TraesCS3D01G118500	chr5B	654502190	654502910	720	True	1055.00	1055	93.0750	3810	4531	1	chr5B.!!$R4	721
5	TraesCS3D01G118500	chr5B	48933022	48933742	720	False	1011.00	1011	91.9780	3810	4531	1	chr5B.!!$F1	721
6	TraesCS3D01G118500	chr7B	93581254	93581975	721	False	1096.00	1096	94.0440	3810	4531	1	chr7B.!!$F1	721
7	TraesCS3D01G118500	chr4B	603575560	603576273	713	True	614.00	614	82.2870	3817	4529	1	chr4B.!!$R1	712

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
884	909	1.521681	CGCGAGGGTTCCCTTCATC	60.522	63.158	12.04	36.43	2.92	F
1523	1552	0.792640	GAGCATGTCACCTGTTCGTG	59.207	55.000	0.00	34.93	4.35	F
2866	2903	1.007238	CTCCCCAGAACCAGGACTCTA	59.993	57.143	0.00	0.00	2.43	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2673	2710	0.320596	GCTGAGAGTCAAGTGCAGCT	60.321	55.0	0.00	0.00	46.17	4.24	R
3221	3259	1.286501	GCACGATTATGCCGAGACAA	58.713	50.0	0.00	0.00	39.86	3.18	R
3793	4265	0.325602	CACCCTTTGGCGTACCCTAA	59.674	55.0	2.61	0.91	33.59	2.69	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
114	115	8.954950	TTTTCATACATGGTCAACATTTGTTT	57.045	26.923	0.00	0.00	37.84	2.83
116	117	8.586570	TTCATACATGGTCAACATTTGTTTTC	57.413	30.769	0.00	0.00	37.84	2.29
118	119	9.072375	TCATACATGGTCAACATTTGTTTTCTA	57.928	29.630	0.00	0.00	37.84	2.10
119	120	9.859427	CATACATGGTCAACATTTGTTTTCTAT	57.141	29.630	0.00	0.00	37.84	1.98
123	124	9.128107	CATGGTCAACATTTGTTTTCTATACAC	57.872	33.333	0.00	0.00	37.84	2.90
124	125	8.226819	TGGTCAACATTTGTTTTCTATACACA	57.773	30.769	0.00	0.00	35.83	3.72
125	126	8.855110	TGGTCAACATTTGTTTTCTATACACAT	58.145	29.630	0.00	0.00	35.83	3.21
327	332	8.503458	AACATTTTTCAAATGGTTGATCAACA	57.497	26.923	33.42	22.09	43.29	3.33
343	348	8.336806	GTTGATCAACAATTTTCAAATGCAAGA	58.663	29.630	29.43	0.00	40.76	3.02
358	363	9.545105	TCAAATGCAAGATTAACATTTTTGAGT	57.455	25.926	0.00	0.00	40.94	3.41
459	478	5.259832	TGCATGATTCACTTTTCACACAA	57.740	34.783	0.00	0.00	0.00	3.33
462	481	6.762187	TGCATGATTCACTTTTCACACAAATT	59.238	30.769	0.00	0.00	0.00	1.82
591	611	7.498900	TCACATGCTTTCCGAATTATAAGATGT	59.501	33.333	0.00	0.00	0.00	3.06
845	870	3.324930	CAGAGCACCTGGGCTGGA	61.325	66.667	13.37	0.00	45.99	3.86
882	907	2.920912	ACGCGAGGGTTCCCTTCA	60.921	61.111	15.93	0.00	36.43	3.02
884	909	1.521681	CGCGAGGGTTCCCTTCATC	60.522	63.158	12.04	0.00	36.43	2.92
1523	1552	0.792640	GAGCATGTCACCTGTTCGTG	59.207	55.000	0.00	0.00	34.93	4.35
1588	1617	1.165270	AATGCACGGCTTGGTACTTC	58.835	50.000	0.00	0.00	0.00	3.01
1691	1720	2.800544	GTGTATCAACAGCGTCAGTTGT	59.199	45.455	13.60	6.78	44.97	3.32
1806	1835	1.960689	GGCAGTGTGGTGGTAATGTTT	59.039	47.619	0.00	0.00	0.00	2.83
1870	1900	1.942657	ACACAGTGCACACAATCAGTC	59.057	47.619	21.04	0.00	0.00	3.51
1882	1912	6.091441	GCACACAATCAGTCCTAAAGAGTAAG	59.909	42.308	0.00	0.00	0.00	2.34
1934	1964	3.684305	TGTATGCAACTCGGATTTCACAG	59.316	43.478	0.00	0.00	0.00	3.66
1937	1967	1.126846	GCAACTCGGATTTCACAGACG	59.873	52.381	0.00	0.00	0.00	4.18
1960	1990	6.594159	ACGTTTTGATGATAGGAATCGACTTT	59.406	34.615	0.00	0.00	34.60	2.66
1984	2019	4.989168	GTGTTCTGAGTGGTAAGTTAGGTG	59.011	45.833	0.00	0.00	0.00	4.00
2010	2045	1.129251	CTGAGCGGCATGTAAGTTGTG	59.871	52.381	1.45	0.00	0.00	3.33
2027	2062	3.558931	TGTGTGTGGAATCTGTTCAGT	57.441	42.857	0.00	0.00	36.01	3.41
2055	2090	5.333339	CCACTTCGTGTTCTTCAATGTAGTG	60.333	44.000	0.00	0.00	34.78	2.74
2341	2378	7.094631	TGTAGCATGTGTTCGTTAACTAAGAT	58.905	34.615	3.71	0.00	36.51	2.40
2362	2399	7.105241	AGATAATTGGCATCTCTTTTTGGTC	57.895	36.000	0.00	0.00	0.00	4.02
2407	2444	5.875910	TCACAAAATCATTCATTTGCCCATC	59.124	36.000	0.00	0.00	39.55	3.51
2457	2494	3.410631	TGAATTAACTTGTGCCCTCGA	57.589	42.857	0.00	0.00	0.00	4.04
2535	2572	1.965414	TCTGGCCCAAGTCCTTGATA	58.035	50.000	8.59	0.00	42.93	2.15
2673	2710	3.258872	CCTTCTCATTTGGAAATGTGGCA	59.741	43.478	11.02	0.00	44.66	4.92
2706	2743	1.899814	TCTCAGCTGTACCAAACCGAT	59.100	47.619	14.67	0.00	0.00	4.18
2866	2903	1.007238	CTCCCCAGAACCAGGACTCTA	59.993	57.143	0.00	0.00	0.00	2.43
2925	2962	2.751259	TCATGATGCTCCTTGAAGTTGC	59.249	45.455	0.00	0.00	0.00	4.17
3542	3580	4.209452	TGACGATGCTTGTCAAGTTTTC	57.791	40.909	14.03	7.70	42.99	2.29
3544	3582	5.053811	TGACGATGCTTGTCAAGTTTTCTA	58.946	37.500	14.03	0.00	42.99	2.10
3549	3587	6.524586	CGATGCTTGTCAAGTTTTCTATTTCC	59.475	38.462	14.03	0.00	0.00	3.13
3552	3590	5.851703	GCTTGTCAAGTTTTCTATTTCCGAC	59.148	40.000	14.03	0.00	0.00	4.79
3605	3648	7.766283	AGAAAGCAAAGATATTTACAAGAGGC	58.234	34.615	0.00	0.00	0.00	4.70
3616	3659	1.600636	CAAGAGGCTTTGCACCGGA	60.601	57.895	9.46	0.00	0.00	5.14
3642	3685	3.446442	ACATCTGAGCAAAGAACCCAT	57.554	42.857	0.00	0.00	0.00	4.00
3690	3733	0.679505	TCTCACAAACCGGTGGAGAG	59.320	55.000	20.71	20.71	39.27	3.20
3711	3754	3.003480	GCTCCTACTTTAACACCTGCAG	58.997	50.000	6.78	6.78	0.00	4.41
3712	3755	3.600388	CTCCTACTTTAACACCTGCAGG	58.400	50.000	31.60	31.60	42.17	4.85
3713	3756	3.244582	TCCTACTTTAACACCTGCAGGA	58.755	45.455	39.19	14.42	38.94	3.86
3714	3757	3.260884	TCCTACTTTAACACCTGCAGGAG	59.739	47.826	39.19	32.56	38.94	3.69
3716	3759	2.054799	ACTTTAACACCTGCAGGAGGA	58.945	47.619	39.19	20.26	46.33	3.71
3717	3760	2.039084	ACTTTAACACCTGCAGGAGGAG	59.961	50.000	39.19	25.68	46.33	3.69
3727	4199	2.752238	AGGAGGAGGACAGCGTCG	60.752	66.667	3.27	0.00	32.65	5.12
3745	4217	1.009222	GTATACACGCCCGAGGTCG	60.009	63.158	0.00	0.00	39.44	4.79
3785	4257	3.521995	CAGTTGTCTGCGGATCACT	57.478	52.632	0.00	0.64	34.79	3.41
3786	4258	1.800805	CAGTTGTCTGCGGATCACTT	58.199	50.000	0.00	0.00	34.79	3.16
3787	4259	2.146342	CAGTTGTCTGCGGATCACTTT	58.854	47.619	0.00	0.00	34.79	2.66
3788	4260	2.549754	CAGTTGTCTGCGGATCACTTTT	59.450	45.455	0.00	0.00	34.79	2.27
3789	4261	3.003689	CAGTTGTCTGCGGATCACTTTTT	59.996	43.478	0.00	0.00	34.79	1.94
3870	4342	2.232452	AGACATCCACTCCGAAAGTCTG	59.768	50.000	0.00	0.00	35.45	3.51
3943	4415	5.162075	CAGTTCCTAAGTTCGTCGAAGATT	58.838	41.667	8.18	9.04	40.67	2.40
4013	4485	0.458889	CCCATTGCGTTGCTTCCATG	60.459	55.000	0.00	0.00	0.00	3.66
4056	4528	1.025812	ACCGCATCAAAACGTTTCCA	58.974	45.000	15.01	4.08	0.00	3.53
4083	4555	6.257994	TCCCTTAGAGATACGTTTCCTAGA	57.742	41.667	0.00	0.00	0.00	2.43
4207	4679	3.310501	CGCACTGCAACAAGATATGATCA	59.689	43.478	0.00	0.00	0.00	2.92
4237	4709	3.973206	TCCTCTTGGTCGCATAGAAAA	57.027	42.857	0.00	0.00	34.23	2.29
4306	4778	0.111832	TCCACAGACGGTACTGGACT	59.888	55.000	6.65	2.31	41.59	3.85
4496	4970	3.865745	CAGTTGTACGTCCATGAGAATCC	59.134	47.826	0.00	0.00	0.00	3.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
5	6	7.499321	ACCAAAACATTACAATCTGTACGAA	57.501	32.000	0.00	0.00	31.69	3.85
6	7	8.780846	ATACCAAAACATTACAATCTGTACGA	57.219	30.769	0.00	0.00	31.69	3.43
93	94	9.859427	ATAGAAAACAAATGTTGACCATGTATG	57.141	29.630	0.00	0.00	38.44	2.39
98	99	8.855110	TGTGTATAGAAAACAAATGTTGACCAT	58.145	29.630	0.00	0.00	38.44	3.55
311	316	9.953697	ATTTGAAAATTGTTGATCAACCATTTG	57.046	25.926	33.88	0.00	42.27	2.32
314	319	7.228906	TGCATTTGAAAATTGTTGATCAACCAT	59.771	29.630	30.66	23.98	40.46	3.55
315	320	6.541278	TGCATTTGAAAATTGTTGATCAACCA	59.459	30.769	30.66	22.88	40.46	3.67
317	322	8.336806	TCTTGCATTTGAAAATTGTTGATCAAC	58.663	29.630	28.10	28.10	38.97	3.18
433	450	6.762187	TGTGTGAAAAGTGAATCATGCATTTT	59.238	30.769	0.00	0.00	0.00	1.82
438	455	6.774354	ATTTGTGTGAAAAGTGAATCATGC	57.226	33.333	0.00	0.00	0.00	4.06
567	587	7.807977	ACATCTTATAATTCGGAAAGCATGT	57.192	32.000	0.00	0.00	0.00	3.21
620	640	6.147328	GTGTGTAGGTTCACTCATTTTAGTCC	59.853	42.308	0.00	0.00	38.90	3.85
684	704	7.116519	CCTCGGTTCCGAAATATAAGATCTTTC	59.883	40.741	14.36	3.61	38.03	2.62
688	708	5.047519	TCCCTCGGTTCCGAAATATAAGATC	60.048	44.000	14.79	0.00	38.03	2.75
691	711	4.595762	TCCCTCGGTTCCGAAATATAAG	57.404	45.455	14.79	1.97	38.03	1.73
813	837	0.979709	CTCTGAGGCCACAGGATCCA	60.980	60.000	27.23	9.09	38.31	3.41
814	838	1.828768	CTCTGAGGCCACAGGATCC	59.171	63.158	27.23	2.48	38.31	3.36
938	967	0.320334	TGTCACGTATGGTGCTGGTG	60.320	55.000	0.00	0.00	46.56	4.17
943	972	1.006832	GATGGTGTCACGTATGGTGC	58.993	55.000	0.00	0.00	46.56	5.01
1036	1065	1.002544	CGGAGAACCTTCTGGAAGCTT	59.997	52.381	0.00	0.00	37.73	3.74
1523	1552	2.178273	GCCGCACACCGAATTTCC	59.822	61.111	0.00	0.00	40.02	3.13
1568	1597	2.352388	GAAGTACCAAGCCGTGCATTA	58.648	47.619	0.00	0.00	0.00	1.90
1588	1617	2.672651	TGCACCACCATCTTGGCG	60.673	61.111	0.00	0.00	42.67	5.69
1604	1633	3.806651	TGGTGTCGCACAACAGTG	58.193	55.556	11.20	0.00	41.58	3.66
1691	1720	4.094646	ATCACCGGATGGCACGCA	62.095	61.111	9.46	0.00	39.70	5.24
1806	1835	5.751586	AGTCTCTTAACCCACTTGAAAACA	58.248	37.500	0.00	0.00	0.00	2.83
1870	1900	4.028993	TGCAAACCCCTTACTCTTTAGG	57.971	45.455	0.00	0.00	0.00	2.69
1934	1964	5.749109	AGTCGATTCCTATCATCAAAACGTC	59.251	40.000	0.00	0.00	0.00	4.34
1937	1967	7.693951	CACAAAGTCGATTCCTATCATCAAAAC	59.306	37.037	0.00	0.00	0.00	2.43
1960	1990	4.652421	ACCTAACTTACCACTCAGAACACA	59.348	41.667	0.00	0.00	0.00	3.72
1984	2019	1.438651	TACATGCCGCTCAGACAAAC	58.561	50.000	0.00	0.00	0.00	2.93
2010	2045	2.808543	GTGGACTGAACAGATTCCACAC	59.191	50.000	25.76	14.32	46.04	3.82
2226	2263	6.998074	TGGTTGAGACAAGTTGATATTCAGTT	59.002	34.615	10.54	0.00	0.00	3.16
2341	2378	5.083122	TGGACCAAAAAGAGATGCCAATTA	58.917	37.500	0.00	0.00	0.00	1.40
2362	2399	9.599866	TTGTGATGTTTGTATATCTTACTCTGG	57.400	33.333	0.00	0.00	0.00	3.86
2407	2444	1.470098	ACCAGCAGCTTTAGCATTTCG	59.530	47.619	4.33	0.00	45.16	3.46
2457	2494	9.039165	ACAAACAGGGAAATATCATCTTTTGAT	57.961	29.630	0.00	0.00	46.86	2.57
2535	2572	7.957002	TCTCATTCTGTGTAAAGAAGAGAAGT	58.043	34.615	9.54	0.00	39.47	3.01
2673	2710	0.320596	GCTGAGAGTCAAGTGCAGCT	60.321	55.000	0.00	0.00	46.17	4.24
2706	2743	1.761449	TGCCTGCAGTTCTTGTTTGA	58.239	45.000	13.81	0.00	0.00	2.69
2866	2903	2.483876	CTCGTACGAATTGGGATGCAT	58.516	47.619	20.00	0.00	0.00	3.96
2946	2983	5.181811	CCAATAAACTGACTGATGCTGTTGA	59.818	40.000	0.00	0.00	0.00	3.18
3221	3259	1.286501	GCACGATTATGCCGAGACAA	58.713	50.000	0.00	0.00	39.86	3.18
3267	3305	5.367937	AGCATGGTCTCTTGTCTGGTAATAT	59.632	40.000	0.00	0.00	0.00	1.28
3343	3381	8.251026	GGTGTATATAGAACATACATAGCAGCA	58.749	37.037	0.00	0.00	40.13	4.41
3529	3567	6.954944	TGTCGGAAATAGAAAACTTGACAAG	58.045	36.000	13.77	13.77	31.55	3.16
3542	3580	2.572191	TGGCGTACTGTCGGAAATAG	57.428	50.000	0.00	0.00	0.00	1.73
3544	3582	2.396590	ATTGGCGTACTGTCGGAAAT	57.603	45.000	0.00	0.00	0.00	2.17
3549	3587	2.218953	ATGGTATTGGCGTACTGTCG	57.781	50.000	0.00	0.00	0.00	4.35
3552	3590	9.302345	CTATAAAGATATGGTATTGGCGTACTG	57.698	37.037	0.00	0.00	0.00	2.74
3616	3659	4.217118	GGTTCTTTGCTCAGATGTTCACAT	59.783	41.667	0.00	0.00	39.70	3.21
3642	3685	0.192566	AGGACTTGGGTGGAGTGGTA	59.807	55.000	0.00	0.00	0.00	3.25
3690	3733	3.003480	CTGCAGGTGTTAAAGTAGGAGC	58.997	50.000	5.57	0.00	0.00	4.70
3711	3754	1.102222	ATACGACGCTGTCCTCCTCC	61.102	60.000	0.00	0.00	0.00	4.30
3712	3755	1.263752	GTATACGACGCTGTCCTCCTC	59.736	57.143	0.00	0.00	0.00	3.71
3713	3756	1.307097	GTATACGACGCTGTCCTCCT	58.693	55.000	0.00	0.00	0.00	3.69
3714	3757	1.019673	TGTATACGACGCTGTCCTCC	58.980	55.000	0.00	0.00	0.00	4.30
3715	3758	2.102474	GTGTATACGACGCTGTCCTC	57.898	55.000	0.00	0.00	35.54	3.71
3727	4199	1.009222	CGACCTCGGGCGTGTATAC	60.009	63.158	2.29	0.00	35.37	1.47
3745	4217	3.846602	CTTTTGCGTGGCCCTGTGC	62.847	63.158	0.00	0.00	40.16	4.57
3790	4262	2.158490	ACCCTTTGGCGTACCCTAAAAA	60.158	45.455	2.61	0.00	33.59	1.94
3791	4263	1.424684	ACCCTTTGGCGTACCCTAAAA	59.575	47.619	2.61	0.00	33.59	1.52
3792	4264	1.066471	ACCCTTTGGCGTACCCTAAA	58.934	50.000	2.61	0.00	33.59	1.85
3793	4265	0.325602	CACCCTTTGGCGTACCCTAA	59.674	55.000	2.61	0.91	33.59	2.69
3794	4266	1.555477	CCACCCTTTGGCGTACCCTA	61.555	60.000	2.61	0.00	39.07	3.53
3795	4267	2.754375	CACCCTTTGGCGTACCCT	59.246	61.111	2.61	0.00	33.59	4.34
3796	4268	2.360726	CCACCCTTTGGCGTACCC	60.361	66.667	0.00	0.00	39.07	3.69
3804	4276	1.203001	TCCCTAACTTGCCACCCTTTG	60.203	52.381	0.00	0.00	0.00	2.77
3805	4277	1.154430	TCCCTAACTTGCCACCCTTT	58.846	50.000	0.00	0.00	0.00	3.11
3806	4278	1.285078	GATCCCTAACTTGCCACCCTT	59.715	52.381	0.00	0.00	0.00	3.95
3807	4279	0.919710	GATCCCTAACTTGCCACCCT	59.080	55.000	0.00	0.00	0.00	4.34
3808	4280	0.623723	TGATCCCTAACTTGCCACCC	59.376	55.000	0.00	0.00	0.00	4.61
3870	4342	7.997482	TCATGTAGTTAGTGAGGATTAGTGTC	58.003	38.462	0.00	0.00	0.00	3.67
3982	4454	1.881925	CGCAATGGGAGAGTGTTTGGA	60.882	52.381	0.00	0.00	0.00	3.53
4013	4485	0.469070	ATGCTCATCTGCTGGAGTCC	59.531	55.000	0.73	0.73	33.66	3.85
4056	4528	4.833938	GGAAACGTATCTCTAAGGGATCCT	59.166	45.833	12.58	0.00	33.87	3.24
4207	4679	2.224066	CGACCAAGAGGAAGACACAGTT	60.224	50.000	0.00	0.00	38.69	3.16
4237	4709	1.608590	CAAGACCAAACTTCCGCATGT	59.391	47.619	0.00	0.00	0.00	3.21
4306	4778	2.490509	CAAGATCTTCATGTGGCTTGCA	59.509	45.455	4.57	0.00	0.00	4.08

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.