AutoCloner

Multiple sequence alignment - TraesCS5A01G412300

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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	TraesCS5A01G412300	chr5A	100.000	2222	0	0	1	2222	601068901	601071122	0.000000e+00	4104.0
1	TraesCS5A01G412300	chr5A	95.352	1549	68	3	1	1545	23905550	23904002	0.000000e+00	2459.0
2	TraesCS5A01G412300	chr5A	89.655	87	8	1	2137	2222	600930319	600930405	2.330000e-20	110.0
3	TraesCS5A01G412300	chr5A	87.209	86	11	0	2137	2222	601334410	601334495	5.050000e-17	99.0
4	TraesCS5A01G412300	chr3A	95.624	1554	62	5	1	1548	11599033	11597480	0.000000e+00	2488.0
5	TraesCS5A01G412300	chr3A	95.624	1554	62	5	1	1548	11605921	11604368	0.000000e+00	2488.0
6	TraesCS5A01G412300	chr3A	95.717	1541	62	3	1	1539	684743940	684745478	0.000000e+00	2477.0
7	TraesCS5A01G412300	chr3A	95.652	1541	62	3	1	1539	459623246	459621709	0.000000e+00	2470.0
8	TraesCS5A01G412300	chr4B	95.655	1542	62	3	1	1540	85985496	85987034	0.000000e+00	2471.0
9	TraesCS5A01G412300	chr4B	95.652	1541	63	3	1	1539	604142984	604144522	0.000000e+00	2471.0
10	TraesCS5A01G412300	chr7A	95.587	1541	65	3	2	1539	71221109	71222649	0.000000e+00	2466.0
11	TraesCS5A01G412300	chr6A	95.457	1541	66	3	1	1539	531392489	531390951	0.000000e+00	2455.0
12	TraesCS5A01G412300	chr4D	92.965	597	38	4	1544	2137	55296496	55295901	0.000000e+00	867.0
13	TraesCS5A01G412300	chr4D	91.511	589	46	4	1544	2131	336509774	336509189	0.000000e+00	808.0
14	TraesCS5A01G412300	chr4D	88.702	593	62	3	1544	2136	484941517	484940930	0.000000e+00	719.0
15	TraesCS5A01G412300	chr7D	90.604	596	51	5	1544	2138	556613873	556613282	0.000000e+00	785.0
16	TraesCS5A01G412300	chr6B	89.865	592	49	11	1544	2131	205233988	205233404	0.000000e+00	750.0
17	TraesCS5A01G412300	chr2D	89.412	595	55	6	1544	2138	609762912	609762326	0.000000e+00	743.0
18	TraesCS5A01G412300	chr6D	89.171	591	58	6	1544	2132	41156346	41156932	0.000000e+00	732.0
19	TraesCS5A01G412300	chr6D	89.171	591	58	5	1544	2132	41161711	41162297	0.000000e+00	732.0
20	TraesCS5A01G412300	chr5B	89.322	590	52	7	1544	2131	615009091	615008511	0.000000e+00	730.0
21	TraesCS5A01G412300	chr5B	90.698	86	7	1	2137	2221	590322139	590322224	1.800000e-21	113.0
22	TraesCS5A01G412300	chr5B	86.207	87	11	1	2137	2222	590447100	590447186	2.350000e-15	93.5

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	TraesCS5A01G412300	chr5A	601068901	601071122	2221	False	4104	4104	100.000	1	2222	1	chr5A.!!$F2	2221
1	TraesCS5A01G412300	chr5A	23904002	23905550	1548	True	2459	2459	95.352	1	1545	1	chr5A.!!$R1	1544
2	TraesCS5A01G412300	chr3A	11597480	11599033	1553	True	2488	2488	95.624	1	1548	1	chr3A.!!$R1	1547
3	TraesCS5A01G412300	chr3A	11604368	11605921	1553	True	2488	2488	95.624	1	1548	1	chr3A.!!$R2	1547
4	TraesCS5A01G412300	chr3A	684743940	684745478	1538	False	2477	2477	95.717	1	1539	1	chr3A.!!$F1	1538
5	TraesCS5A01G412300	chr3A	459621709	459623246	1537	True	2470	2470	95.652	1	1539	1	chr3A.!!$R3	1538
6	TraesCS5A01G412300	chr4B	85985496	85987034	1538	False	2471	2471	95.655	1	1540	1	chr4B.!!$F1	1539
7	TraesCS5A01G412300	chr4B	604142984	604144522	1538	False	2471	2471	95.652	1	1539	1	chr4B.!!$F2	1538
8	TraesCS5A01G412300	chr7A	71221109	71222649	1540	False	2466	2466	95.587	2	1539	1	chr7A.!!$F1	1537
9	TraesCS5A01G412300	chr6A	531390951	531392489	1538	True	2455	2455	95.457	1	1539	1	chr6A.!!$R1	1538
10	TraesCS5A01G412300	chr4D	55295901	55296496	595	True	867	867	92.965	1544	2137	1	chr4D.!!$R1	593
11	TraesCS5A01G412300	chr4D	336509189	336509774	585	True	808	808	91.511	1544	2131	1	chr4D.!!$R2	587
12	TraesCS5A01G412300	chr4D	484940930	484941517	587	True	719	719	88.702	1544	2136	1	chr4D.!!$R3	592
13	TraesCS5A01G412300	chr7D	556613282	556613873	591	True	785	785	90.604	1544	2138	1	chr7D.!!$R1	594
14	TraesCS5A01G412300	chr6B	205233404	205233988	584	True	750	750	89.865	1544	2131	1	chr6B.!!$R1	587
15	TraesCS5A01G412300	chr2D	609762326	609762912	586	True	743	743	89.412	1544	2138	1	chr2D.!!$R1	594
16	TraesCS5A01G412300	chr6D	41156346	41156932	586	False	732	732	89.171	1544	2132	1	chr6D.!!$F1	588
17	TraesCS5A01G412300	chr6D	41161711	41162297	586	False	732	732	89.171	1544	2132	1	chr6D.!!$F2	588
18	TraesCS5A01G412300	chr5B	615008511	615009091	580	True	730	730	89.322	1544	2131	1	chr5B.!!$R1	587

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
717	719	1.001393	TAAAGCCCAAGGAAGCCGG	60.001	57.895	0.0	0.0	0.0	6.13	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2182	2196	0.041238	TGGTACTGGTCTGGGAGGAG	59.959	60.0	0.0	0.0	0.0	3.69	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
130	131	5.801380	AGCGAAAGGTATTTGGTTTCTCTA	58.199	37.500	0.00	0.00	41.99	2.43
160	161	9.058174	TGAAACAAAATAAATCCGACTGAGTAA	57.942	29.630	0.00	0.00	0.00	2.24
240	241	8.662781	TTGAAGGATCTATTTATTGGAACTCG	57.337	34.615	0.00	0.00	0.00	4.18
286	287	8.336235	TGGATCCTTCTGTATGGTAAAATTCTT	58.664	33.333	14.23	0.00	0.00	2.52
301	302	8.766151	GGTAAAATTCTTTTTATTGGAACGCAA	58.234	29.630	0.00	0.00	39.00	4.85
442	443	5.707066	ATCTTGCCTCCTACTGAATCTTT	57.293	39.130	0.00	0.00	0.00	2.52
595	597	4.481368	TCCAGGTAAAGCAACGTCATAT	57.519	40.909	0.00	0.00	0.00	1.78
613	615	7.815549	ACGTCATATGTAAAACACACACTGATA	59.184	33.333	1.90	0.00	40.86	2.15
682	684	5.424757	TCTTGATACGGTCCAGTTTAATGG	58.575	41.667	0.00	0.00	42.11	3.16
697	699	6.202188	CAGTTTAATGGATATGGTGGTACGAC	59.798	42.308	0.00	0.00	0.00	4.34
717	719	1.001393	TAAAGCCCAAGGAAGCCGG	60.001	57.895	0.00	0.00	0.00	6.13
778	781	5.649831	GCATCTTGACTTTTCAGTATCCCTT	59.350	40.000	0.00	0.00	31.22	3.95
817	820	8.506437	TGTAAGACAAGATTGTTGCATTCTTAG	58.494	33.333	0.00	4.81	42.43	2.18
1091	1095	1.433534	GCCTCCAAACAGAAGACGAG	58.566	55.000	0.00	0.00	0.00	4.18
1097	1101	0.396811	AAACAGAAGACGAGGGTGGG	59.603	55.000	0.00	0.00	0.00	4.61
1116	1120	0.036765	GGATAGCACGTGTGTTCCCA	60.037	55.000	18.38	0.00	0.00	4.37
1121	1125	1.445942	CACGTGTGTTCCCAGAGGT	59.554	57.895	7.58	0.00	33.74	3.85
1162	1166	2.184322	CCATCGTGGCTAGCGTGT	59.816	61.111	9.00	0.00	0.00	4.49
1173	1177	0.313987	CTAGCGTGTATGATGGCGGA	59.686	55.000	0.00	0.00	0.00	5.54
1299	1304	9.771534	GCACTCTGATTTAGTTTCCTAGAATAT	57.228	33.333	0.00	0.00	0.00	1.28
1305	1310	9.208022	TGATTTAGTTTCCTAGAATATGATGCG	57.792	33.333	0.00	0.00	0.00	4.73
1417	1422	4.887071	AGTGCACACAGAAAATGGTTTAGA	59.113	37.500	21.04	0.00	0.00	2.10
1481	1486	3.494398	GCGGTGGTATTGGATCTGTGTAT	60.494	47.826	0.00	0.00	0.00	2.29
1512	1517	5.067954	GGGGTGTGCTTAAAGAAGTTCTTA	58.932	41.667	18.31	3.34	35.27	2.10
1607	1614	3.754323	CCAAACTTTTATGGCGGTCTGTA	59.246	43.478	0.00	0.00	0.00	2.74
1653	1660	3.379372	TCCTACTAGCATCCACACGTTAC	59.621	47.826	0.00	0.00	0.00	2.50
1657	1664	2.831685	AGCATCCACACGTTACTTGA	57.168	45.000	0.00	0.00	0.00	3.02
1679	1686	1.005450	ACGTGGCTAAATGGGGTTGAT	59.995	47.619	0.00	0.00	0.00	2.57
1700	1707	8.656849	GTTGATATAGAAACAACGAGACACATT	58.343	33.333	0.00	0.00	35.42	2.71
1762	1770	5.010617	ACTGCAGGAACGATTTGGTTTTTAT	59.989	36.000	19.93	0.00	0.00	1.40
1871	1882	1.117150	GGGAGCGTATGGTTACTGGA	58.883	55.000	0.00	0.00	0.00	3.86
1978	1989	4.893424	TCTATTTTTATGCTGCCGGTTC	57.107	40.909	1.90	0.00	0.00	3.62
1990	2001	2.280186	CGGTTCTGGCTATCCCGC	60.280	66.667	0.00	0.00	35.87	6.13
2159	2173	6.926630	AAAAATGCCCTACACCATCTTAAA	57.073	33.333	0.00	0.00	0.00	1.52
2160	2174	6.926630	AAAATGCCCTACACCATCTTAAAA	57.073	33.333	0.00	0.00	0.00	1.52
2161	2175	7.494922	AAAATGCCCTACACCATCTTAAAAT	57.505	32.000	0.00	0.00	0.00	1.82
2162	2176	8.602472	AAAATGCCCTACACCATCTTAAAATA	57.398	30.769	0.00	0.00	0.00	1.40
2163	2177	8.602472	AAATGCCCTACACCATCTTAAAATAA	57.398	30.769	0.00	0.00	0.00	1.40
2164	2178	8.782137	AATGCCCTACACCATCTTAAAATAAT	57.218	30.769	0.00	0.00	0.00	1.28
2165	2179	7.817418	TGCCCTACACCATCTTAAAATAATC	57.183	36.000	0.00	0.00	0.00	1.75
2166	2180	6.485313	TGCCCTACACCATCTTAAAATAATCG	59.515	38.462	0.00	0.00	0.00	3.34
2167	2181	6.708949	GCCCTACACCATCTTAAAATAATCGA	59.291	38.462	0.00	0.00	0.00	3.59
2168	2182	7.390718	GCCCTACACCATCTTAAAATAATCGAT	59.609	37.037	0.00	0.00	0.00	3.59
2169	2183	9.284968	CCCTACACCATCTTAAAATAATCGATT	57.715	33.333	16.15	16.15	0.00	3.34
2172	2186	8.166422	ACACCATCTTAAAATAATCGATTCCC	57.834	34.615	15.25	0.00	0.00	3.97
2173	2187	7.230712	ACACCATCTTAAAATAATCGATTCCCC	59.769	37.037	15.25	0.00	0.00	4.81
2174	2188	7.230510	CACCATCTTAAAATAATCGATTCCCCA	59.769	37.037	15.25	0.00	0.00	4.96
2175	2189	7.950124	ACCATCTTAAAATAATCGATTCCCCAT	59.050	33.333	15.25	0.00	0.00	4.00
2176	2190	8.246180	CCATCTTAAAATAATCGATTCCCCATG	58.754	37.037	15.25	7.25	0.00	3.66
2177	2191	9.013229	CATCTTAAAATAATCGATTCCCCATGA	57.987	33.333	15.25	6.93	0.00	3.07
2178	2192	9.759473	ATCTTAAAATAATCGATTCCCCATGAT	57.241	29.630	15.25	8.81	0.00	2.45
2179	2193	9.586732	TCTTAAAATAATCGATTCCCCATGATT	57.413	29.630	15.25	4.09	35.40	2.57
2180	2194	9.630098	CTTAAAATAATCGATTCCCCATGATTG	57.370	33.333	15.25	0.00	33.42	2.67
2181	2195	7.601705	AAAATAATCGATTCCCCATGATTGT	57.398	32.000	15.25	0.00	33.42	2.71
2182	2196	6.824305	AATAATCGATTCCCCATGATTGTC	57.176	37.500	15.25	0.00	33.42	3.18
2183	2197	4.443978	AATCGATTCCCCATGATTGTCT	57.556	40.909	4.39	0.00	30.31	3.41
2184	2198	3.475566	TCGATTCCCCATGATTGTCTC	57.524	47.619	0.00	0.00	0.00	3.36
2185	2199	2.104792	TCGATTCCCCATGATTGTCTCC	59.895	50.000	0.00	0.00	0.00	3.71
2186	2200	2.105477	CGATTCCCCATGATTGTCTCCT	59.895	50.000	0.00	0.00	0.00	3.69
2187	2201	3.749226	GATTCCCCATGATTGTCTCCTC	58.251	50.000	0.00	0.00	0.00	3.71
2188	2202	1.511613	TCCCCATGATTGTCTCCTCC	58.488	55.000	0.00	0.00	0.00	4.30
2189	2203	0.475906	CCCCATGATTGTCTCCTCCC	59.524	60.000	0.00	0.00	0.00	4.30
2190	2204	1.216064	CCCATGATTGTCTCCTCCCA	58.784	55.000	0.00	0.00	0.00	4.37
2191	2205	1.142465	CCCATGATTGTCTCCTCCCAG	59.858	57.143	0.00	0.00	0.00	4.45
2192	2206	2.121948	CCATGATTGTCTCCTCCCAGA	58.878	52.381	0.00	0.00	0.00	3.86
2193	2207	2.158842	CCATGATTGTCTCCTCCCAGAC	60.159	54.545	0.00	0.00	42.90	3.51
2194	2208	1.573108	TGATTGTCTCCTCCCAGACC	58.427	55.000	0.00	0.00	42.04	3.85
2195	2209	1.203300	TGATTGTCTCCTCCCAGACCA	60.203	52.381	0.00	0.00	42.04	4.02
2196	2210	1.484240	GATTGTCTCCTCCCAGACCAG	59.516	57.143	0.00	0.00	42.04	4.00
2197	2211	0.191064	TTGTCTCCTCCCAGACCAGT	59.809	55.000	0.00	0.00	42.04	4.00
2198	2212	1.081481	TGTCTCCTCCCAGACCAGTA	58.919	55.000	0.00	0.00	42.04	2.74
2199	2213	1.272536	TGTCTCCTCCCAGACCAGTAC	60.273	57.143	0.00	0.00	42.04	2.73
2200	2214	0.335361	TCTCCTCCCAGACCAGTACC	59.665	60.000	0.00	0.00	0.00	3.34
2201	2215	0.041238	CTCCTCCCAGACCAGTACCA	59.959	60.000	0.00	0.00	0.00	3.25
2202	2216	0.252103	TCCTCCCAGACCAGTACCAC	60.252	60.000	0.00	0.00	0.00	4.16
2203	2217	0.544357	CCTCCCAGACCAGTACCACA	60.544	60.000	0.00	0.00	0.00	4.17
2204	2218	1.348064	CTCCCAGACCAGTACCACAA	58.652	55.000	0.00	0.00	0.00	3.33
2205	2219	1.276421	CTCCCAGACCAGTACCACAAG	59.724	57.143	0.00	0.00	0.00	3.16
2206	2220	1.056660	CCCAGACCAGTACCACAAGT	58.943	55.000	0.00	0.00	0.00	3.16
2207	2221	1.420138	CCCAGACCAGTACCACAAGTT	59.580	52.381	0.00	0.00	0.00	2.66
2208	2222	2.158667	CCCAGACCAGTACCACAAGTTT	60.159	50.000	0.00	0.00	0.00	2.66
2209	2223	2.878406	CCAGACCAGTACCACAAGTTTG	59.122	50.000	0.00	0.00	0.00	2.93
2210	2224	3.433031	CCAGACCAGTACCACAAGTTTGA	60.433	47.826	0.00	0.00	0.00	2.69
2211	2225	4.389374	CAGACCAGTACCACAAGTTTGAT	58.611	43.478	0.00	0.00	0.00	2.57
2212	2226	4.821805	CAGACCAGTACCACAAGTTTGATT	59.178	41.667	0.00	0.00	0.00	2.57
2213	2227	4.821805	AGACCAGTACCACAAGTTTGATTG	59.178	41.667	0.00	0.00	36.22	2.67
2214	2228	4.787551	ACCAGTACCACAAGTTTGATTGA	58.212	39.130	0.00	0.00	34.20	2.57
2215	2229	4.821805	ACCAGTACCACAAGTTTGATTGAG	59.178	41.667	0.00	0.00	34.20	3.02
2216	2230	5.063204	CCAGTACCACAAGTTTGATTGAGA	58.937	41.667	0.00	0.00	34.20	3.27
2217	2231	5.707298	CCAGTACCACAAGTTTGATTGAGAT	59.293	40.000	0.00	0.00	34.20	2.75
2218	2232	6.878923	CCAGTACCACAAGTTTGATTGAGATA	59.121	38.462	0.00	0.00	34.20	1.98
2219	2233	7.148407	CCAGTACCACAAGTTTGATTGAGATAC	60.148	40.741	0.00	0.00	34.20	2.24
2220	2234	7.387673	CAGTACCACAAGTTTGATTGAGATACA	59.612	37.037	0.00	0.00	34.20	2.29
2221	2235	7.936847	AGTACCACAAGTTTGATTGAGATACAA	59.063	33.333	0.00	0.00	42.95	2.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
103	104	7.065923	AGAGAAACCAAATACCTTTCGCTATTC	59.934	37.037	0.00	0.00	33.79	1.75
130	131	8.739039	TCAGTCGGATTTATTTTGTTTCATGAT	58.261	29.630	0.00	0.00	0.00	2.45
240	241	5.183228	TCCAATGAAGAAACTAATCCGACC	58.817	41.667	0.00	0.00	0.00	4.79
301	302	8.486210	TGTTCTGTAAAGGTATGCAATCTCTAT	58.514	33.333	0.00	0.00	0.00	1.98
442	443	5.651576	TGCACAGCAATCCAGTAAATTATGA	59.348	36.000	0.00	0.00	34.76	2.15
526	528	4.417437	GCACTATCTCCAGGGATAGGTTA	58.583	47.826	16.95	0.00	45.50	2.85
595	597	8.841300	TGCTATTTTATCAGTGTGTGTTTTACA	58.159	29.630	0.00	0.00	36.82	2.41
682	684	3.732721	GCTTTACGTCGTACCACCATATC	59.267	47.826	4.17	0.00	0.00	1.63
697	699	1.644786	CGGCTTCCTTGGGCTTTACG	61.645	60.000	0.00	0.00	0.00	3.18
717	719	6.436261	CCATGATTACTTCTCATGTTCATGC	58.564	40.000	11.19	0.00	45.52	4.06
778	781	9.793259	AATCTTGTCTTACAAAGTAGGATCAAA	57.207	29.630	0.00	0.00	37.69	2.69
817	820	8.712285	ATGTGTAATTATATATGGCACGTACC	57.288	34.615	0.00	0.00	0.00	3.34
1091	1095	2.189521	CACGTGCTATCCCCACCC	59.810	66.667	0.82	0.00	0.00	4.61
1097	1101	0.036765	TGGGAACACACGTGCTATCC	60.037	55.000	17.22	19.04	33.40	2.59
1116	1120	1.744456	CGAGGAGCTTCGTCTACCTCT	60.744	57.143	12.17	0.00	43.19	3.69
1121	1125	3.099438	CGCGAGGAGCTTCGTCTA	58.901	61.111	0.00	0.00	45.59	2.59
1162	1166	2.425592	CCGCCTTCCGCCATCATA	59.574	61.111	0.00	0.00	35.03	2.15
1299	1304	2.224185	ACTAATAATCACGGGCGCATCA	60.224	45.455	10.83	0.00	0.00	3.07
1373	1378	7.083858	GCACTTAGCAATTTACATTGACTGAA	58.916	34.615	5.78	0.00	42.35	3.02
1417	1422	8.747538	AAATCAATCTAACGGTTAGCCTTAAT	57.252	30.769	20.49	7.87	33.23	1.40
1481	1486	2.889170	TAAGCACACCCCATAAAGCA	57.111	45.000	0.00	0.00	0.00	3.91
1590	1597	6.090898	GCTATATGTACAGACCGCCATAAAAG	59.909	42.308	0.33	0.00	0.00	2.27
1607	1614	6.055588	AGGAGCAATGTTAAACGCTATATGT	58.944	36.000	0.00	0.00	34.12	2.29
1653	1660	2.009774	CCCATTTAGCCACGTCTCAAG	58.990	52.381	0.00	0.00	0.00	3.02
1657	1664	0.696501	AACCCCATTTAGCCACGTCT	59.303	50.000	0.00	0.00	0.00	4.18
1679	1686	6.307077	CACGAATGTGTCTCGTTGTTTCTATA	59.693	38.462	0.00	0.00	46.96	1.31
1700	1707	0.528924	AAGCACATACGCCTACACGA	59.471	50.000	0.00	0.00	36.70	4.35
1871	1882	3.033659	ACCGTCTCCCAACAGATAGAT	57.966	47.619	0.00	0.00	0.00	1.98
1978	1989	0.533755	CAAGGAAGCGGGATAGCCAG	60.534	60.000	0.00	0.00	38.01	4.85
1990	2001	7.672983	TCACATAGAGCTAAAAACAAGGAAG	57.327	36.000	0.00	0.00	0.00	3.46
2032	2045	5.751586	AGTTCAACAAAACCTCCAAGTCTA	58.248	37.500	0.00	0.00	0.00	2.59
2139	2153	8.782137	ATTATTTTAAGATGGTGTAGGGCATT	57.218	30.769	0.00	0.00	0.00	3.56
2140	2154	7.174946	CGATTATTTTAAGATGGTGTAGGGCAT	59.825	37.037	0.00	0.00	0.00	4.40
2141	2155	6.485313	CGATTATTTTAAGATGGTGTAGGGCA	59.515	38.462	0.00	0.00	0.00	5.36
2142	2156	6.708949	TCGATTATTTTAAGATGGTGTAGGGC	59.291	38.462	0.00	0.00	0.00	5.19
2143	2157	8.848474	ATCGATTATTTTAAGATGGTGTAGGG	57.152	34.615	0.00	0.00	0.00	3.53
2146	2160	9.280174	GGGAATCGATTATTTTAAGATGGTGTA	57.720	33.333	11.38	0.00	0.00	2.90
2147	2161	7.230712	GGGGAATCGATTATTTTAAGATGGTGT	59.769	37.037	11.38	0.00	0.00	4.16
2148	2162	7.230510	TGGGGAATCGATTATTTTAAGATGGTG	59.769	37.037	11.38	0.00	0.00	4.17
2149	2163	7.294584	TGGGGAATCGATTATTTTAAGATGGT	58.705	34.615	11.38	0.00	0.00	3.55
2150	2164	7.759489	TGGGGAATCGATTATTTTAAGATGG	57.241	36.000	11.38	0.00	0.00	3.51
2151	2165	9.013229	TCATGGGGAATCGATTATTTTAAGATG	57.987	33.333	11.38	6.00	0.00	2.90
2152	2166	9.759473	ATCATGGGGAATCGATTATTTTAAGAT	57.241	29.630	11.38	7.02	0.00	2.40
2153	2167	9.586732	AATCATGGGGAATCGATTATTTTAAGA	57.413	29.630	11.38	4.98	0.00	2.10
2154	2168	9.630098	CAATCATGGGGAATCGATTATTTTAAG	57.370	33.333	11.38	0.00	0.00	1.85
2155	2169	9.142014	ACAATCATGGGGAATCGATTATTTTAA	57.858	29.630	11.38	0.00	0.00	1.52
2156	2170	8.704849	ACAATCATGGGGAATCGATTATTTTA	57.295	30.769	11.38	0.00	0.00	1.52
2157	2171	7.506938	AGACAATCATGGGGAATCGATTATTTT	59.493	33.333	11.38	0.00	0.00	1.82
2158	2172	7.006509	AGACAATCATGGGGAATCGATTATTT	58.993	34.615	11.38	0.00	0.00	1.40
2159	2173	6.546484	AGACAATCATGGGGAATCGATTATT	58.454	36.000	11.38	2.45	0.00	1.40
2160	2174	6.131972	AGACAATCATGGGGAATCGATTAT	57.868	37.500	11.38	0.00	0.00	1.28
2161	2175	5.513094	GGAGACAATCATGGGGAATCGATTA	60.513	44.000	11.38	0.00	0.00	1.75
2162	2176	4.392940	GAGACAATCATGGGGAATCGATT	58.607	43.478	11.20	11.20	0.00	3.34
2163	2177	3.244700	GGAGACAATCATGGGGAATCGAT	60.245	47.826	0.00	0.00	0.00	3.59
2164	2178	2.104792	GGAGACAATCATGGGGAATCGA	59.895	50.000	0.00	0.00	0.00	3.59
2165	2179	2.105477	AGGAGACAATCATGGGGAATCG	59.895	50.000	0.00	0.00	0.00	3.34
2166	2180	3.497584	GGAGGAGACAATCATGGGGAATC	60.498	52.174	0.00	0.00	0.00	2.52
2167	2181	2.444766	GGAGGAGACAATCATGGGGAAT	59.555	50.000	0.00	0.00	0.00	3.01
2168	2182	1.846439	GGAGGAGACAATCATGGGGAA	59.154	52.381	0.00	0.00	0.00	3.97
2169	2183	1.511613	GGAGGAGACAATCATGGGGA	58.488	55.000	0.00	0.00	0.00	4.81
2170	2184	0.475906	GGGAGGAGACAATCATGGGG	59.524	60.000	0.00	0.00	0.00	4.96
2171	2185	1.142465	CTGGGAGGAGACAATCATGGG	59.858	57.143	0.00	0.00	0.00	4.00
2172	2186	2.121948	TCTGGGAGGAGACAATCATGG	58.878	52.381	0.00	0.00	0.00	3.66
2173	2187	2.158842	GGTCTGGGAGGAGACAATCATG	60.159	54.545	0.00	0.00	43.70	3.07
2174	2188	2.122768	GGTCTGGGAGGAGACAATCAT	58.877	52.381	0.00	0.00	43.70	2.45
2175	2189	1.203300	TGGTCTGGGAGGAGACAATCA	60.203	52.381	0.00	0.00	43.70	2.57
2176	2190	1.484240	CTGGTCTGGGAGGAGACAATC	59.516	57.143	0.00	0.00	43.70	2.67
2177	2191	1.203364	ACTGGTCTGGGAGGAGACAAT	60.203	52.381	0.00	0.00	43.70	2.71
2178	2192	0.191064	ACTGGTCTGGGAGGAGACAA	59.809	55.000	0.00	0.00	43.70	3.18
2179	2193	1.081481	TACTGGTCTGGGAGGAGACA	58.919	55.000	0.00	0.00	43.70	3.41
2180	2194	1.476477	GTACTGGTCTGGGAGGAGAC	58.524	60.000	0.00	0.00	41.55	3.36
2181	2195	0.335361	GGTACTGGTCTGGGAGGAGA	59.665	60.000	0.00	0.00	0.00	3.71
2182	2196	0.041238	TGGTACTGGTCTGGGAGGAG	59.959	60.000	0.00	0.00	0.00	3.69
2183	2197	0.252103	GTGGTACTGGTCTGGGAGGA	60.252	60.000	0.00	0.00	0.00	3.71
2184	2198	0.544357	TGTGGTACTGGTCTGGGAGG	60.544	60.000	0.00	0.00	0.00	4.30
2185	2199	1.276421	CTTGTGGTACTGGTCTGGGAG	59.724	57.143	0.00	0.00	0.00	4.30
2186	2200	1.348064	CTTGTGGTACTGGTCTGGGA	58.652	55.000	0.00	0.00	0.00	4.37
2187	2201	1.056660	ACTTGTGGTACTGGTCTGGG	58.943	55.000	0.00	0.00	0.00	4.45
2188	2202	2.878406	CAAACTTGTGGTACTGGTCTGG	59.122	50.000	0.00	0.00	0.00	3.86
2189	2203	3.804036	TCAAACTTGTGGTACTGGTCTG	58.196	45.455	0.00	0.00	0.00	3.51
2190	2204	4.706842	ATCAAACTTGTGGTACTGGTCT	57.293	40.909	0.00	0.00	0.00	3.85
2191	2205	4.819630	TCAATCAAACTTGTGGTACTGGTC	59.180	41.667	0.00	0.00	0.00	4.02
2192	2206	4.787551	TCAATCAAACTTGTGGTACTGGT	58.212	39.130	0.00	0.00	0.00	4.00
2193	2207	5.063204	TCTCAATCAAACTTGTGGTACTGG	58.937	41.667	0.00	0.00	0.00	4.00
2194	2208	6.808008	ATCTCAATCAAACTTGTGGTACTG	57.192	37.500	0.00	0.00	0.00	2.74
2195	2209	7.450074	TGTATCTCAATCAAACTTGTGGTACT	58.550	34.615	9.40	0.00	37.23	2.73
2196	2210	7.667043	TGTATCTCAATCAAACTTGTGGTAC	57.333	36.000	0.00	0.00	37.02	3.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.