AutoCloner

Multiple sequence alignment - TraesCS7D01G481800

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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	TraesCS7D01G481800	chr7D	100.000	2961	0	0	962	3922	591854453	591857413	0.000000e+00	5469.0
1	TraesCS7D01G481800	chr7D	100.000	580	0	0	1	580	591853492	591854071	0.000000e+00	1072.0
2	TraesCS7D01G481800	chr7A	96.782	2641	78	4	962	3601	683096637	683099271	0.000000e+00	4399.0
3	TraesCS7D01G481800	chr7A	87.087	333	26	10	224	539	683095865	683096197	1.040000e-95	361.0
4	TraesCS7D01G481800	chr7A	94.860	214	10	1	3597	3809	683099300	683099513	2.260000e-87	333.0
5	TraesCS7D01G481800	chr7B	93.763	2886	122	27	962	3814	671258390	671255530	0.000000e+00	4279.0
6	TraesCS7D01G481800	chr7B	88.519	1141	70	30	2816	3922	671066247	671065134	0.000000e+00	1325.0
7	TraesCS7D01G481800	chr7B	88.246	1140	74	29	2816	3922	671001328	671000216	0.000000e+00	1308.0
8	TraesCS7D01G481800	chr7B	88.168	1141	74	30	2816	3922	671184072	671182959	0.000000e+00	1303.0
9	TraesCS7D01G481800	chr7B	86.371	587	51	20	3	580	671259614	671259048	7.200000e-172	614.0
10	TraesCS7D01G481800	chr1D	92.354	2315	149	8	962	3261	463863524	463865825	0.000000e+00	3269.0
11	TraesCS7D01G481800	chr1D	94.118	85	4	1	3507	3591	463866411	463866494	1.140000e-25	128.0
12	TraesCS7D01G481800	chr1A	91.970	2117	146	7	1164	3261	555825060	555827171	0.000000e+00	2946.0
13	TraesCS7D01G481800	chr1B	93.676	1597	100	1	962	2558	639033876	639035471	0.000000e+00	2388.0
14	TraesCS7D01G481800	chr1B	87.871	742	60	11	2556	3277	639043609	639044340	0.000000e+00	845.0
15	TraesCS7D01G481800	chr1B	89.189	111	9	1	441	551	639033352	639033459	6.840000e-28	135.0
16	TraesCS7D01G481800	chrUn	88.344	1141	72	30	2816	3922	147236759	147235646	0.000000e+00	1314.0
17	TraesCS7D01G481800	chrUn	88.091	1142	74	31	2816	3922	147154942	147153828	0.000000e+00	1299.0
18	TraesCS7D01G481800	chrUn	88.081	1141	75	30	2816	3922	147306237	147305124	0.000000e+00	1297.0
19	TraesCS7D01G481800	chr5B	77.852	149	19	7	11	156	17977516	17977653	3.250000e-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	TraesCS7D01G481800	chr7D	591853492	591857413	3921	False	3270.500000	5469	100.000000	1	3922	2	chr7D.!!$F1	3921
1	TraesCS7D01G481800	chr7A	683095865	683099513	3648	False	1697.666667	4399	92.909667	224	3809	3	chr7A.!!$F1	3585
2	TraesCS7D01G481800	chr7B	671255530	671259614	4084	True	2446.500000	4279	90.067000	3	3814	2	chr7B.!!$R4	3811
3	TraesCS7D01G481800	chr7B	671065134	671066247	1113	True	1325.000000	1325	88.519000	2816	3922	1	chr7B.!!$R2	1106
4	TraesCS7D01G481800	chr7B	671000216	671001328	1112	True	1308.000000	1308	88.246000	2816	3922	1	chr7B.!!$R1	1106
5	TraesCS7D01G481800	chr7B	671182959	671184072	1113	True	1303.000000	1303	88.168000	2816	3922	1	chr7B.!!$R3	1106
6	TraesCS7D01G481800	chr1D	463863524	463866494	2970	False	1698.500000	3269	93.236000	962	3591	2	chr1D.!!$F1	2629
7	TraesCS7D01G481800	chr1A	555825060	555827171	2111	False	2946.000000	2946	91.970000	1164	3261	1	chr1A.!!$F1	2097
8	TraesCS7D01G481800	chr1B	639033352	639035471	2119	False	1261.500000	2388	91.432500	441	2558	2	chr1B.!!$F2	2117
9	TraesCS7D01G481800	chr1B	639043609	639044340	731	False	845.000000	845	87.871000	2556	3277	1	chr1B.!!$F1	721
10	TraesCS7D01G481800	chrUn	147235646	147236759	1113	True	1314.000000	1314	88.344000	2816	3922	1	chrUn.!!$R2	1106
11	TraesCS7D01G481800	chrUn	147153828	147154942	1114	True	1299.000000	1299	88.091000	2816	3922	1	chrUn.!!$R1	1106
12	TraesCS7D01G481800	chrUn	147305124	147306237	1113	True	1297.000000	1297	88.081000	2816	3922	1	chrUn.!!$R3	1106

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
113	115	0.459237	CGTCTTCAGCTCGCTCCAAT	60.459	55.0	0.0	0.0	0.00	3.16	F
2000	2328	0.038166	GGTGAGGGATCAGTTGCCAA	59.962	55.0	0.0	0.0	38.58	4.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2077	2405	0.033228	GCATCTCCTCATCCTCGGTG	59.967	60.000	0.0	0.0	0.00	4.94	R
3322	4033	1.227527	GGCAAACAACACCTTGGCC	60.228	57.895	0.0	0.0	41.05	5.36	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	1.443802	GGCCTTAGCACAGTGACTTC	58.556	55.000	4.15	0.00	42.56	3.01
34	35	2.289072	GCCTTAGCACAGTGACTTCTCA	60.289	50.000	4.15	0.00	39.53	3.27
39	40	1.731160	GCACAGTGACTTCTCAGATGC	59.269	52.381	4.15	0.00	0.00	3.91
43	44	1.554160	AGTGACTTCTCAGATGCCCAG	59.446	52.381	0.00	0.00	0.00	4.45
46	47	2.497675	TGACTTCTCAGATGCCCAGTAC	59.502	50.000	0.00	0.00	0.00	2.73
60	61	1.001815	CCAGTACAACAAGGTTTGCCG	60.002	52.381	0.00	0.00	40.50	5.69
66	68	0.822121	AACAAGGTTTGCCGGACTCC	60.822	55.000	5.05	0.77	40.50	3.85
88	90	1.453379	GAGGGAGGGACGATGACGA	60.453	63.158	0.00	0.00	42.66	4.20
90	92	2.408022	GGAGGGACGATGACGACG	59.592	66.667	0.00	0.00	42.66	5.12
108	110	1.507174	GGTACGTCTTCAGCTCGCT	59.493	57.895	0.00	0.00	0.00	4.93
109	111	0.523757	GGTACGTCTTCAGCTCGCTC	60.524	60.000	0.00	0.00	0.00	5.03
110	112	0.523757	GTACGTCTTCAGCTCGCTCC	60.524	60.000	0.00	0.00	0.00	4.70
111	113	0.958876	TACGTCTTCAGCTCGCTCCA	60.959	55.000	0.00	0.00	0.00	3.86
112	114	1.080501	CGTCTTCAGCTCGCTCCAA	60.081	57.895	0.00	0.00	0.00	3.53
113	115	0.459237	CGTCTTCAGCTCGCTCCAAT	60.459	55.000	0.00	0.00	0.00	3.16
114	116	1.285578	GTCTTCAGCTCGCTCCAATC	58.714	55.000	0.00	0.00	0.00	2.67
115	117	0.897621	TCTTCAGCTCGCTCCAATCA	59.102	50.000	0.00	0.00	0.00	2.57
122	124	1.266175	GCTCGCTCCAATCATCCAATG	59.734	52.381	0.00	0.00	0.00	2.82
132	134	4.885907	CCAATCATCCAATGCTTGTAGTCT	59.114	41.667	3.64	0.00	35.28	3.24
140	142	4.424626	CAATGCTTGTAGTCTTCGCTAGA	58.575	43.478	0.00	0.00	0.00	2.43
142	144	6.209361	CAATGCTTGTAGTCTTCGCTAGATA	58.791	40.000	0.00	0.00	34.79	1.98
147	149	6.424509	GCTTGTAGTCTTCGCTAGATAGTCTA	59.575	42.308	0.00	0.00	34.79	2.59
150	152	4.947645	AGTCTTCGCTAGATAGTCTACGT	58.052	43.478	0.00	0.00	34.79	3.57
197	216	3.574284	TTGTAGTGGCATGATGTTTGC	57.426	42.857	0.00	0.00	39.41	3.68
206	225	4.081365	TGGCATGATGTTTGCTGAAATGAT	60.081	37.500	0.00	0.00	40.03	2.45
207	226	5.127356	TGGCATGATGTTTGCTGAAATGATA	59.873	36.000	0.00	0.00	40.03	2.15
208	227	5.690409	GGCATGATGTTTGCTGAAATGATAG	59.310	40.000	0.00	0.00	40.03	2.08
209	228	6.270815	GCATGATGTTTGCTGAAATGATAGT	58.729	36.000	0.00	0.00	37.14	2.12
210	229	6.755141	GCATGATGTTTGCTGAAATGATAGTT	59.245	34.615	0.00	0.00	37.14	2.24
211	230	7.277098	GCATGATGTTTGCTGAAATGATAGTTT	59.723	33.333	0.00	0.00	37.14	2.66
212	231	9.146984	CATGATGTTTGCTGAAATGATAGTTTT	57.853	29.630	0.00	0.00	0.00	2.43
213	232	9.715121	ATGATGTTTGCTGAAATGATAGTTTTT	57.285	25.926	0.00	0.00	0.00	1.94
245	264	9.672086	CACAATAGAATGTTTTTCTCGGTTTTA	57.328	29.630	0.00	0.00	0.00	1.52
310	330	2.434359	CGTGACTCGGCCCTTTCC	60.434	66.667	0.00	0.00	35.71	3.13
345	389	3.479269	CGGCGGTCGCAAACTCTC	61.479	66.667	17.21	0.00	44.11	3.20
346	390	3.479269	GGCGGTCGCAAACTCTCG	61.479	66.667	17.21	0.00	44.11	4.04
347	391	4.135493	GCGGTCGCAAACTCTCGC	62.135	66.667	10.67	0.00	41.49	5.03
1124	1452	3.536917	CCATCCGCTACCTCCGCA	61.537	66.667	0.00	0.00	0.00	5.69
1125	1453	2.028190	CATCCGCTACCTCCGCAG	59.972	66.667	0.00	0.00	0.00	5.18
1130	1458	2.659897	GCTACCTCCGCAGCATCG	60.660	66.667	0.00	0.00	37.73	3.84
1216	1544	1.298713	CCTTCTCGACGCCATCTCG	60.299	63.158	0.00	0.00	0.00	4.04
1241	1569	4.972733	TCGACGACCCCGGGTTCA	62.973	66.667	21.85	0.00	40.78	3.18
1294	1622	2.416432	GGTAGCCTTCGAGCTCGGT	61.416	63.158	33.98	15.52	43.67	4.69
1648	1976	1.289160	TCCTGGGGATGGAGTTTCAG	58.711	55.000	0.00	0.00	0.00	3.02
1882	2210	2.747855	CGGCAGGAGTTCAAGGGC	60.748	66.667	0.00	0.00	0.00	5.19
1960	2288	1.131126	CACCGATTGTTCACATCTGGC	59.869	52.381	0.00	0.00	0.00	4.85
2000	2328	0.038166	GGTGAGGGATCAGTTGCCAA	59.962	55.000	0.00	0.00	38.58	4.52
2017	2345	1.069022	CCAACAGCATTGGTTGACTCG	60.069	52.381	10.82	0.00	46.56	4.18
2026	2354	4.260375	GCATTGGTTGACTCGTATGATCAC	60.260	45.833	0.00	0.00	0.00	3.06
2041	2369	6.035005	CGTATGATCACTTACAGGAAACACTG	59.965	42.308	0.00	0.00	44.03	3.66
2046	2374	4.080807	TCACTTACAGGAAACACTGGACAA	60.081	41.667	0.00	0.00	42.75	3.18
2077	2405	3.083997	AGGAGGGGCCACGACATC	61.084	66.667	4.39	0.00	40.02	3.06
2080	2408	3.682292	GAGGGGCCACGACATCACC	62.682	68.421	4.39	0.00	0.00	4.02
2176	2504	2.028420	TGAAGATGAGGGTCAATGCG	57.972	50.000	0.00	0.00	0.00	4.73
2207	2535	4.216472	AGCTTGTAAGAAAGGCAGTAAAGC	59.784	41.667	0.00	0.00	38.18	3.51
2326	2654	3.201045	GGAGGAGGTGGCTAGATTTCTTT	59.799	47.826	0.00	0.00	0.00	2.52
2341	2669	0.944386	TCTTTTGCTGCTGTCGGAAC	59.056	50.000	0.00	0.00	0.00	3.62
2351	2679	2.037121	TGCTGTCGGAACTTCAAGATGA	59.963	45.455	0.00	0.00	0.00	2.92
2360	2688	6.536582	TCGGAACTTCAAGATGATCAAGATTC	59.463	38.462	0.00	0.00	0.00	2.52
2833	3164	7.040755	ACTCTCCGAGATATTGATTGTACTCAG	60.041	40.741	0.00	0.00	33.32	3.35
2834	3165	6.773200	TCTCCGAGATATTGATTGTACTCAGT	59.227	38.462	0.00	0.00	0.00	3.41
2835	3166	7.285629	TCTCCGAGATATTGATTGTACTCAGTT	59.714	37.037	0.00	0.00	0.00	3.16
3015	3365	6.384305	AGTGGGTAGAGCAAATACTGATTAGT	59.616	38.462	0.00	0.00	40.99	2.24
3077	3428	1.139058	GATCGGGAGGTGCTACATGTT	59.861	52.381	2.30	0.00	0.00	2.71
3165	3518	5.572896	GCTAGTTTTACCATTGAATGTGCAC	59.427	40.000	10.75	10.75	0.00	4.57
3331	4042	2.231235	AGCTAAAATTTCGGCCAAGGTG	59.769	45.455	2.24	0.00	0.00	4.00
3351	4062	4.021544	GGTGTTGTTTGCCTATGATTTGGA	60.022	41.667	0.00	0.00	0.00	3.53
3451	4163	5.256474	AGCATAACTTGTTTGGCTATGACT	58.744	37.500	8.95	0.09	29.96	3.41
3632	4393	9.899226	GCAAACTCATTGTTCTCTTAATTAGTT	57.101	29.630	0.00	0.00	41.32	2.24
3697	4458	6.015772	GGGTATGGCTCAAAAACTTTGTCTAA	60.016	38.462	0.00	0.00	0.00	2.10
3702	4463	8.057536	TGGCTCAAAAACTTTGTCTAACTTTA	57.942	30.769	0.00	0.00	0.00	1.85
3805	4572	3.306472	TTGGTTCAGGTAGGCTGTTTT	57.694	42.857	0.00	0.00	0.00	2.43
3819	4586	1.815003	CTGTTTTAGGCCCTCTGCTTG	59.185	52.381	0.00	0.00	40.92	4.01
3821	4588	0.611896	TTTTAGGCCCTCTGCTTGCC	60.612	55.000	0.00	0.00	45.70	4.52
3840	4607	1.771073	CGCGTGTCCACTTTCTGCAA	61.771	55.000	0.00	0.00	0.00	4.08
3847	4614	4.268405	GTGTCCACTTTCTGCAACAAATTG	59.732	41.667	0.00	0.00	38.99	2.32
3848	4615	4.159321	TGTCCACTTTCTGCAACAAATTGA	59.841	37.500	0.00	0.00	38.15	2.57
3850	4617	5.754890	GTCCACTTTCTGCAACAAATTGATT	59.245	36.000	0.00	0.00	38.15	2.57
3857	4624	7.712264	TTCTGCAACAAATTGATTTTGGTAG	57.288	32.000	0.00	0.00	43.46	3.18
3862	4629	6.146021	GCAACAAATTGATTTTGGTAGACTGG	59.854	38.462	0.00	0.00	43.46	4.00
3869	4636	6.870971	TGATTTTGGTAGACTGGTTTACAC	57.129	37.500	4.31	0.00	0.00	2.90
3870	4637	5.467399	TGATTTTGGTAGACTGGTTTACACG	59.533	40.000	4.31	0.00	0.00	4.49
3878	4645	4.995124	AGACTGGTTTACACGTAGCATAG	58.005	43.478	0.00	0.00	0.00	2.23
3889	4656	5.974108	ACACGTAGCATAGTTTCCTTACAT	58.026	37.500	0.00	0.00	0.00	2.29
3914	4681	5.411781	GTGTAACTGTAGGGATGTCTTCTG	58.588	45.833	0.00	0.00	0.00	3.02
3917	4684	2.499289	ACTGTAGGGATGTCTTCTGCAG	59.501	50.000	7.63	7.63	43.55	4.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
14	15	3.256879	TCTGAGAAGTCACTGTGCTAAGG	59.743	47.826	2.12	0.00	0.00	2.69
15	16	4.511617	TCTGAGAAGTCACTGTGCTAAG	57.488	45.455	2.12	0.00	0.00	2.18
20	21	2.344950	GGCATCTGAGAAGTCACTGTG	58.655	52.381	0.17	0.17	0.00	3.66
24	25	1.277557	ACTGGGCATCTGAGAAGTCAC	59.722	52.381	0.00	0.00	0.00	3.67
31	32	2.768253	TGTTGTACTGGGCATCTGAG	57.232	50.000	0.00	0.00	0.00	3.35
34	35	1.705186	ACCTTGTTGTACTGGGCATCT	59.295	47.619	0.00	0.00	0.00	2.90
39	40	1.339929	GGCAAACCTTGTTGTACTGGG	59.660	52.381	0.00	0.00	0.00	4.45
43	44	1.002142	GTCCGGCAAACCTTGTTGTAC	60.002	52.381	0.00	0.00	0.00	2.90
46	47	0.310854	GAGTCCGGCAAACCTTGTTG	59.689	55.000	0.00	0.00	0.00	3.33
66	68	2.516460	ATCGTCCCTCCCTCGTCG	60.516	66.667	0.00	0.00	0.00	5.12
69	71	2.835705	CGTCATCGTCCCTCCCTCG	61.836	68.421	0.00	0.00	0.00	4.63
79	81	3.566261	ACGTACCGTCGTCATCGT	58.434	55.556	0.00	0.00	40.04	3.73
88	90	1.500844	CGAGCTGAAGACGTACCGT	59.499	57.895	0.00	0.00	45.10	4.83
90	92	0.523757	GAGCGAGCTGAAGACGTACC	60.524	60.000	0.84	0.00	0.00	3.34
100	102	0.179065	TGGATGATTGGAGCGAGCTG	60.179	55.000	0.84	0.00	0.00	4.24
101	103	0.543277	TTGGATGATTGGAGCGAGCT	59.457	50.000	0.00	0.00	0.00	4.09
105	107	1.315690	AGCATTGGATGATTGGAGCG	58.684	50.000	0.00	0.00	0.00	5.03
115	117	9.304531	ATCTAGCGAAGACTACAAGCATTGGAT	62.305	40.741	0.00	0.00	44.08	3.41
122	124	5.237779	AGACTATCTAGCGAAGACTACAAGC	59.762	44.000	0.00	0.00	36.93	4.01
132	134	5.407691	CCATGTACGTAGACTATCTAGCGAA	59.592	44.000	0.00	2.58	32.20	4.70
165	167	3.810941	TGCCACTACAAAGAAGTAAACGG	59.189	43.478	0.00	0.00	0.00	4.44
167	169	6.554334	TCATGCCACTACAAAGAAGTAAAC	57.446	37.500	0.00	0.00	0.00	2.01
171	173	4.655963	ACATCATGCCACTACAAAGAAGT	58.344	39.130	0.00	0.00	0.00	3.01
172	174	5.633830	AACATCATGCCACTACAAAGAAG	57.366	39.130	0.00	0.00	0.00	2.85
213	232	9.393249	CGAGAAAAACATTCTATTGTGCTAAAA	57.607	29.630	0.00	0.00	0.00	1.52
215	234	7.174253	ACCGAGAAAAACATTCTATTGTGCTAA	59.826	33.333	0.00	0.00	0.00	3.09
217	236	5.473504	ACCGAGAAAAACATTCTATTGTGCT	59.526	36.000	0.00	0.00	0.00	4.40
218	237	5.699839	ACCGAGAAAAACATTCTATTGTGC	58.300	37.500	0.00	0.00	0.00	4.57
219	238	8.574196	AAAACCGAGAAAAACATTCTATTGTG	57.426	30.769	0.00	0.00	0.00	3.33
245	264	5.700183	ACAAATGGCCCAAAAAGGTTAAAT	58.300	33.333	0.00	0.00	34.66	1.40
341	385	2.496817	CGGGAGGAAAGGCGAGAG	59.503	66.667	0.00	0.00	0.00	3.20
342	386	3.771160	GCGGGAGGAAAGGCGAGA	61.771	66.667	0.00	0.00	0.00	4.04
343	387	4.840005	GGCGGGAGGAAAGGCGAG	62.840	72.222	0.00	0.00	0.00	5.03
449	493	2.893398	CGAGGTGTGGGTAGGAGC	59.107	66.667	0.00	0.00	0.00	4.70
480	524	3.868985	GACGGTGGTGGTGGTGGT	61.869	66.667	0.00	0.00	0.00	4.16
1130	1458	3.670377	GAACCAGGTGGCGTTGGC	61.670	66.667	0.00	0.00	38.03	4.52
1241	1569	1.006805	GCTCGCGCAGATAGTCCAT	60.007	57.895	8.75	0.00	35.78	3.41
1449	1777	1.299648	GCATACACCCTCACAGGCA	59.700	57.895	0.00	0.00	32.73	4.75
1459	1787	0.319297	GATACCGGACGGCATACACC	60.319	60.000	9.46	0.00	39.32	4.16
1531	1859	6.303054	CAACACTGAGAGGATCCTATCTCTA	58.697	44.000	31.18	14.75	42.06	2.43
1882	2210	1.595882	CACTGTCTCCTCTGCCCAG	59.404	63.158	0.00	0.00	0.00	4.45
2000	2328	2.831685	TACGAGTCAACCAATGCTGT	57.168	45.000	0.00	0.00	0.00	4.40
2011	2339	5.190677	TCCTGTAAGTGATCATACGAGTCA	58.809	41.667	0.00	0.00	0.00	3.41
2017	2345	6.313905	CCAGTGTTTCCTGTAAGTGATCATAC	59.686	42.308	0.00	0.00	0.00	2.39
2026	2354	4.451900	ACTTGTCCAGTGTTTCCTGTAAG	58.548	43.478	0.00	0.00	32.83	2.34
2041	2369	1.734465	CTCGGCATCAAGAACTTGTCC	59.266	52.381	13.15	11.61	41.16	4.02
2046	2374	0.539051	CCTCCTCGGCATCAAGAACT	59.461	55.000	0.00	0.00	0.00	3.01
2077	2405	0.033228	GCATCTCCTCATCCTCGGTG	59.967	60.000	0.00	0.00	0.00	4.94
2080	2408	1.202114	GCTAGCATCTCCTCATCCTCG	59.798	57.143	10.63	0.00	0.00	4.63
2176	2504	4.201960	GCCTTTCTTACAAGCTCTATTGGC	60.202	45.833	0.00	0.00	34.36	4.52
2207	2535	0.243636	GAATTTGTGAACCCCGCCAG	59.756	55.000	0.00	0.00	0.00	4.85
2212	2540	1.554617	CCCATGGAATTTGTGAACCCC	59.445	52.381	15.22	0.00	0.00	4.95
2326	2654	0.179059	TGAAGTTCCGACAGCAGCAA	60.179	50.000	0.00	0.00	0.00	3.91
2360	2688	7.739488	AGAGAACCTCAAGTGATAACTCACAAG	60.739	40.741	8.32	3.14	42.47	3.16
2386	2714	0.597568	CCGCCAATGTCAAGAAGCAA	59.402	50.000	0.00	0.00	0.00	3.91
2833	3164	4.103365	TCACACCACATCAACAAACAAC	57.897	40.909	0.00	0.00	0.00	3.32
2834	3165	4.790765	TTCACACCACATCAACAAACAA	57.209	36.364	0.00	0.00	0.00	2.83
2835	3166	4.790765	TTTCACACCACATCAACAAACA	57.209	36.364	0.00	0.00	0.00	2.83
3034	3385	5.869344	TCAGAACAGTCATAAATGAGGAACG	59.131	40.000	0.00	0.00	37.51	3.95
3322	4033	1.227527	GGCAAACAACACCTTGGCC	60.228	57.895	0.00	0.00	41.05	5.36
3331	4042	5.118510	CGTTTCCAAATCATAGGCAAACAAC	59.881	40.000	0.00	0.00	0.00	3.32
3459	4171	4.387098	GGTACCCAAAACCAGCCCTATAAT	60.387	45.833	0.00	0.00	36.96	1.28
3615	4376	9.621629	TTTCAGACCAACTAATTAAGAGAACAA	57.378	29.630	0.00	0.00	0.00	2.83
3632	4393	5.473504	GCAGAATCCTAAAAGTTTCAGACCA	59.526	40.000	0.00	0.00	0.00	4.02
3697	4458	6.062095	AGCTGGTCAAATTACACAGTAAAGT	58.938	36.000	0.00	0.00	0.00	2.66
3702	4463	6.151144	GGAAATAGCTGGTCAAATTACACAGT	59.849	38.462	0.00	0.00	0.00	3.55
3805	4572	3.785859	CGGCAAGCAGAGGGCCTA	61.786	66.667	5.73	0.00	45.53	3.93
3819	4586	2.665185	AGAAAGTGGACACGCGGC	60.665	61.111	12.47	0.00	36.20	6.53
3821	4588	1.771073	TTGCAGAAAGTGGACACGCG	61.771	55.000	3.53	3.53	36.20	6.01
3824	4591	3.502191	TTTGTTGCAGAAAGTGGACAC	57.498	42.857	0.00	0.00	0.00	3.67
3829	4596	6.908284	CCAAAATCAATTTGTTGCAGAAAGTG	59.092	34.615	12.16	12.16	45.72	3.16
3840	4607	6.976934	ACCAGTCTACCAAAATCAATTTGT	57.023	33.333	0.00	0.00	45.72	2.83
3847	4614	5.467735	ACGTGTAAACCAGTCTACCAAAATC	59.532	40.000	0.00	0.00	0.00	2.17
3848	4615	5.370679	ACGTGTAAACCAGTCTACCAAAAT	58.629	37.500	0.00	0.00	0.00	1.82
3850	4617	4.405116	ACGTGTAAACCAGTCTACCAAA	57.595	40.909	0.00	0.00	0.00	3.28
3853	4620	3.057315	TGCTACGTGTAAACCAGTCTACC	60.057	47.826	0.00	0.00	0.00	3.18
3857	4624	4.741342	ACTATGCTACGTGTAAACCAGTC	58.259	43.478	0.00	0.00	0.00	3.51
3862	4629	6.716898	AAGGAAACTATGCTACGTGTAAAC	57.283	37.500	0.00	0.00	42.68	2.01
3869	4636	5.234329	CACCATGTAAGGAAACTATGCTACG	59.766	44.000	0.00	0.00	42.68	3.51
3870	4637	6.113411	ACACCATGTAAGGAAACTATGCTAC	58.887	40.000	0.00	0.00	42.68	3.58
3878	4645	6.370718	CCTACAGTTACACCATGTAAGGAAAC	59.629	42.308	1.69	0.00	42.78	2.78
3889	4656	3.786553	AGACATCCCTACAGTTACACCA	58.213	45.455	0.00	0.00	0.00	4.17

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.