AutoCloner

Multiple sequence alignment - TraesCS6D01G173800

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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	TraesCS6D01G173800	chr6D	100.000	3016	0	0	1	3016	162959082	162956067	0.000000e+00	5570.0
1	TraesCS6D01G173800	chr6D	81.306	781	110	29	3	756	54750601	54751372	4.300000e-168	601.0
2	TraesCS6D01G173800	chr6D	85.938	64	5	4	686	746	10968031	10968093	6.980000e-07	65.8
3	TraesCS6D01G173800	chr6D	87.719	57	5	2	691	746	282092796	282092741	6.980000e-07	65.8
4	TraesCS6D01G173800	chr6B	91.929	1871	88	25	763	2599	299600494	299602335	0.000000e+00	2560.0
5	TraesCS6D01G173800	chr6B	88.538	759	81	6	1	755	106981434	106980678	0.000000e+00	915.0
6	TraesCS6D01G173800	chr6B	94.444	558	29	1	2459	3016	299823993	299824548	0.000000e+00	857.0
7	TraesCS6D01G173800	chr6B	96.306	379	14	0	2638	3016	299602333	299602711	9.180000e-175	623.0
8	TraesCS6D01G173800	chr6B	90.826	218	12	4	2258	2475	299821891	299822100	4.920000e-73	285.0
9	TraesCS6D01G173800	chr6A	95.821	1388	44	7	1632	3016	222681828	222680452	0.000000e+00	2230.0
10	TraesCS6D01G173800	chr6A	95.075	670	31	1	2347	3016	222136910	222136243	0.000000e+00	1053.0
11	TraesCS6D01G173800	chr6A	92.693	739	41	7	898	1634	222682679	222681952	0.000000e+00	1053.0
12	TraesCS6D01G173800	chr6A	97.931	145	2	1	763	907	222682972	222682829	1.800000e-62	250.0
13	TraesCS6D01G173800	chr6A	91.228	57	2	1	2258	2314	222136972	222136919	1.160000e-09	75.0
14	TraesCS6D01G173800	chr7A	88.787	544	49	8	2474	3016	438261031	438260499	0.000000e+00	656.0
15	TraesCS6D01G173800	chr7D	88.247	502	44	9	2474	2974	388035950	388035463	1.200000e-163	586.0
16	TraesCS6D01G173800	chr7B	85.688	545	42	16	2473	3016	383515562	383515053	2.640000e-150	542.0
17	TraesCS6D01G173800	chr4B	79.899	791	110	28	1	756	393102601	393101825	4.430000e-148	534.0
18	TraesCS6D01G173800	chr5B	79.615	780	118	25	1	754	699299990	699300754	3.450000e-144	521.0
19	TraesCS6D01G173800	chr3D	79.716	774	114	29	1	746	17277529	17278287	1.240000e-143	520.0
20	TraesCS6D01G173800	chr3D	78.737	776	120	31	1	746	17294862	17295622	7.560000e-131	477.0
21	TraesCS6D01G173800	chr3D	87.654	162	19	1	2	162	17331188	17331349	1.430000e-43	187.0
22	TraesCS6D01G173800	chr3D	81.667	120	21	1	637	756	586537332	586537450	6.880000e-17	99.0
23	TraesCS6D01G173800	chr3D	87.059	85	10	1	5	88	17295631	17295715	8.900000e-16	95.3
24	TraesCS6D01G173800	chr4A	78.312	770	107	23	1	737	638443029	638442287	2.760000e-120	442.0
25	TraesCS6D01G173800	chr2D	84.874	119	17	1	637	755	635076117	635076000	5.280000e-23	119.0
26	TraesCS6D01G173800	chr2D	89.091	55	4	2	693	746	647660951	647661004	1.940000e-07	67.6
27	TraesCS6D01G173800	chrUn	81.667	120	21	1	637	756	289037003	289036885	6.880000e-17	99.0
28	TraesCS6D01G173800	chr2A	89.091	55	4	2	693	746	772753149	772753096	1.940000e-07	67.6
29	TraesCS6D01G173800	chr5D	84.058	69	6	5	681	746	320062405	320062339	9.030000e-06	62.1

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	TraesCS6D01G173800	chr6D	162956067	162959082	3015	True	5570.000000	5570	100.000000	1	3016	1	chr6D.!!$R1	3015
1	TraesCS6D01G173800	chr6D	54750601	54751372	771	False	601.000000	601	81.306000	3	756	1	chr6D.!!$F2	753
2	TraesCS6D01G173800	chr6B	299600494	299602711	2217	False	1591.500000	2560	94.117500	763	3016	2	chr6B.!!$F1	2253
3	TraesCS6D01G173800	chr6B	106980678	106981434	756	True	915.000000	915	88.538000	1	755	1	chr6B.!!$R1	754
4	TraesCS6D01G173800	chr6B	299821891	299824548	2657	False	571.000000	857	92.635000	2258	3016	2	chr6B.!!$F2	758
5	TraesCS6D01G173800	chr6A	222680452	222682972	2520	True	1177.666667	2230	95.481667	763	3016	3	chr6A.!!$R2	2253
6	TraesCS6D01G173800	chr6A	222136243	222136972	729	True	564.000000	1053	93.151500	2258	3016	2	chr6A.!!$R1	758
7	TraesCS6D01G173800	chr7A	438260499	438261031	532	True	656.000000	656	88.787000	2474	3016	1	chr7A.!!$R1	542
8	TraesCS6D01G173800	chr7B	383515053	383515562	509	True	542.000000	542	85.688000	2473	3016	1	chr7B.!!$R1	543
9	TraesCS6D01G173800	chr4B	393101825	393102601	776	True	534.000000	534	79.899000	1	756	1	chr4B.!!$R1	755
10	TraesCS6D01G173800	chr5B	699299990	699300754	764	False	521.000000	521	79.615000	1	754	1	chr5B.!!$F1	753
11	TraesCS6D01G173800	chr3D	17277529	17278287	758	False	520.000000	520	79.716000	1	746	1	chr3D.!!$F1	745
12	TraesCS6D01G173800	chr3D	17294862	17295715	853	False	286.150000	477	82.898000	1	746	2	chr3D.!!$F4	745
13	TraesCS6D01G173800	chr4A	638442287	638443029	742	True	442.000000	442	78.312000	1	737	1	chr4A.!!$R1	736

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
647	690	0.393132	GAGCGGGGGAAGGAAGAAAG	60.393	60.0	0.0	0.0	0.0	2.62	F
1413	1630	0.396811	ACAGGGGCACTAGTCACAAC	59.603	55.0	0.0	0.0	0.0	3.32	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1558	1776	0.464452	CGGGGTTAGAACTAGCCAGG	59.536	60.0	14.66	4.22	38.06	4.45	R
2947	5224	0.113385	ATCTCCGGTCGGGATCATCT	59.887	55.0	9.68	0.00	46.04	2.90	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
70	71	1.025812	CAGAAGTAGCGATCGGGAGT	58.974	55.000	18.30	0.00	0.00	3.85
97	99	3.363341	TCCAGCAAAACGATTTGTTCC	57.637	42.857	17.92	3.56	46.19	3.62
101	103	1.933052	GCAAAACGATTTGTTCCGGGG	60.933	52.381	17.92	0.00	46.19	5.73
141	143	1.811176	GCATTTGGGTTTGCTGCAACT	60.811	47.619	15.72	0.00	35.95	3.16
177	179	4.067896	CTGGAACTAGCATGTGAGTTTGT	58.932	43.478	13.48	0.00	36.04	2.83
237	240	6.183360	GGCGGACATCCTCATTTAATTTGTTA	60.183	38.462	0.00	0.00	0.00	2.41
248	251	9.405587	CTCATTTAATTTGTTACAACCGACAAT	57.594	29.630	0.00	0.00	35.85	2.71
266	269	4.575885	ACAATGCTAAAAGCTTCTACCGA	58.424	39.130	0.00	0.00	42.97	4.69
301	304	3.060020	GATGGAACGACGCCCGAGA	62.060	63.158	4.79	0.00	41.76	4.04
447	463	2.591429	CACAAGGTGCTGCGACCA	60.591	61.111	18.81	0.00	38.63	4.02
547	585	2.363018	CGCTGGGAGAGAGGGACA	60.363	66.667	0.00	0.00	0.00	4.02
550	588	0.907230	GCTGGGAGAGAGGGACAACT	60.907	60.000	0.00	0.00	0.00	3.16
561	599	1.609794	GGACAACTCCGAGGACCCT	60.610	63.158	0.00	0.00	0.00	4.34
563	601	0.898789	GACAACTCCGAGGACCCTCA	60.899	60.000	15.62	0.00	42.86	3.86
564	602	0.471211	ACAACTCCGAGGACCCTCAA	60.471	55.000	15.62	2.96	42.86	3.02
566	604	0.471211	AACTCCGAGGACCCTCAACA	60.471	55.000	15.62	0.00	42.86	3.33
567	605	1.186267	ACTCCGAGGACCCTCAACAC	61.186	60.000	15.62	0.00	42.86	3.32
647	690	0.393132	GAGCGGGGGAAGGAAGAAAG	60.393	60.000	0.00	0.00	0.00	2.62
677	722	5.664665	TGGATAGATGAGGATCCAATGGTA	58.335	41.667	15.82	0.00	46.86	3.25
681	727	1.874129	TGAGGATCCAATGGTACGGT	58.126	50.000	15.82	0.00	0.00	4.83
684	730	2.696707	GAGGATCCAATGGTACGGTGTA	59.303	50.000	15.82	0.00	0.00	2.90
710	756	3.537874	GGACGGCTAGGGTGCGAT	61.538	66.667	0.00	0.00	0.00	4.58
756	802	2.354773	CGCCTATCGGTCGCCTTC	60.355	66.667	0.00	0.00	33.78	3.46
757	803	2.846652	CGCCTATCGGTCGCCTTCT	61.847	63.158	0.00	0.00	33.78	2.85
759	805	1.283181	CCTATCGGTCGCCTTCTCG	59.717	63.158	0.00	0.00	0.00	4.04
761	807	0.875728	CTATCGGTCGCCTTCTCGAT	59.124	55.000	0.00	0.00	43.48	3.59
930	1139	2.669569	CCGGCCACTCCAAGTGTG	60.670	66.667	2.24	0.00	44.50	3.82
1035	1244	2.804933	CGCCTCAAATCTCTTCTAGGGC	60.805	54.545	0.00	0.00	0.00	5.19
1045	1254	1.985159	TCTTCTAGGGCTTTGCTTCCA	59.015	47.619	0.00	0.00	0.00	3.53
1047	1256	1.362224	TCTAGGGCTTTGCTTCCACT	58.638	50.000	0.00	0.00	0.00	4.00
1163	1372	2.581354	GTCGGCCTCATGCTCACT	59.419	61.111	0.00	0.00	40.92	3.41
1189	1398	2.926200	CCTTCTTCATGTACGTGAGCAG	59.074	50.000	16.95	12.99	0.00	4.24
1279	1493	6.458131	TGAATTGTTCAGTGACCCAGTGGT	62.458	45.833	8.74	0.00	40.69	4.16
1332	1549	0.457337	GCTTATTGGCTGTGTGCTGC	60.457	55.000	0.00	0.00	42.39	5.25
1352	1569	3.005472	TGCGATAACCTGTAGGATGTAGC	59.995	47.826	4.64	4.17	38.94	3.58
1353	1570	3.005472	GCGATAACCTGTAGGATGTAGCA	59.995	47.826	4.64	0.00	38.94	3.49
1354	1571	4.547532	CGATAACCTGTAGGATGTAGCAC	58.452	47.826	4.64	0.00	38.94	4.40
1355	1572	4.037565	CGATAACCTGTAGGATGTAGCACA	59.962	45.833	4.64	0.00	38.94	4.57
1356	1573	3.611766	AACCTGTAGGATGTAGCACAC	57.388	47.619	4.64	0.00	38.94	3.82
1372	1589	4.975631	AGCACACTACTATCGGATCTACT	58.024	43.478	0.00	0.00	0.00	2.57
1373	1590	4.998672	AGCACACTACTATCGGATCTACTC	59.001	45.833	0.00	0.00	0.00	2.59
1374	1591	4.154556	GCACACTACTATCGGATCTACTCC	59.845	50.000	0.00	0.00	41.07	3.85
1408	1625	4.957684	ACATATTACAGGGGCACTAGTC	57.042	45.455	0.00	0.00	0.00	2.59
1412	1629	2.018355	TACAGGGGCACTAGTCACAA	57.982	50.000	0.00	0.00	0.00	3.33
1413	1630	0.396811	ACAGGGGCACTAGTCACAAC	59.603	55.000	0.00	0.00	0.00	3.32
1414	1631	0.687354	CAGGGGCACTAGTCACAACT	59.313	55.000	0.00	0.00	39.66	3.16
1415	1632	1.899814	CAGGGGCACTAGTCACAACTA	59.100	52.381	0.00	0.00	36.92	2.24
1416	1633	1.900486	AGGGGCACTAGTCACAACTAC	59.100	52.381	0.00	0.00	36.92	2.73
1420	1637	3.306780	GGGCACTAGTCACAACTACACAT	60.307	47.826	0.00	0.00	36.92	3.21
1424	1642	5.465390	GCACTAGTCACAACTACACATTTGA	59.535	40.000	0.00	0.00	36.92	2.69
1503	1721	3.706802	TGTTTGGTACATGTGCTTGTG	57.293	42.857	13.86	0.00	39.30	3.33
1537	1755	6.591935	CCTACTAGGGACAATTTGCTATTGA	58.408	40.000	15.87	0.00	33.51	2.57
1554	1772	6.951198	TGCTATTGAACCTCAGGGAAAATTTA	59.049	34.615	0.00	0.00	36.25	1.40
1558	1776	6.834168	TGAACCTCAGGGAAAATTTATGTC	57.166	37.500	0.00	0.00	36.25	3.06
1567	1785	5.044105	AGGGAAAATTTATGTCCTGGCTAGT	60.044	40.000	7.22	0.00	0.00	2.57
1579	1814	0.979187	TGGCTAGTTCTAACCCCGGG	60.979	60.000	15.80	15.80	0.00	5.73
1593	1828	2.917600	ACCCCGGGTTCTCTCTTTTTAT	59.082	45.455	21.85	0.00	27.29	1.40
1594	1829	3.054582	ACCCCGGGTTCTCTCTTTTTATC	60.055	47.826	21.85	0.00	27.29	1.75
1610	1845	4.618338	TTTATCGACGTTTCACAACTCG	57.382	40.909	0.00	0.00	36.08	4.18
1625	1860	4.590487	TCGATTTGCGAGTGGGTC	57.410	55.556	0.00	0.00	45.59	4.46
1628	1863	1.086696	CGATTTGCGAGTGGGTCATT	58.913	50.000	0.00	0.00	44.57	2.57
1644	2005	4.588528	GGGTCATTGGGTATATGTTTGCAT	59.411	41.667	0.00	0.00	39.03	3.96
1652	2013	5.954752	TGGGTATATGTTTGCATTTCCTTGA	59.045	36.000	0.00	0.00	36.58	3.02
1691	2052	6.382869	ACTTCCTTCTTTGTTCATGTTGAG	57.617	37.500	0.00	0.00	0.00	3.02
1701	2062	4.641396	TGTTCATGTTGAGTTACAGAGGG	58.359	43.478	0.00	0.00	0.00	4.30
1704	2065	0.320374	TGTTGAGTTACAGAGGGCCG	59.680	55.000	0.00	0.00	0.00	6.13
1725	2086	8.594550	GGGCCGTTCATAGATATGGTTATATAT	58.405	37.037	0.00	0.00	34.50	0.86
1776	2137	5.213891	ACCCACCATTTTGTTGATTCTTC	57.786	39.130	0.00	0.00	0.00	2.87
1777	2138	4.040339	ACCCACCATTTTGTTGATTCTTCC	59.960	41.667	0.00	0.00	0.00	3.46
1782	2143	7.156673	CACCATTTTGTTGATTCTTCCATCTT	58.843	34.615	0.00	0.00	0.00	2.40
1786	2147	8.922676	CATTTTGTTGATTCTTCCATCTTTCTG	58.077	33.333	0.00	0.00	0.00	3.02
1807	2168	2.698855	ATGCCAGTTATGAAGCGACT	57.301	45.000	0.00	0.00	0.00	4.18
2109	2470	7.577979	TGAAAATTCGTGTTTACATGTAGTCC	58.422	34.615	5.56	0.00	34.59	3.85
2117	2478	6.238266	CGTGTTTACATGTAGTCCTGTGTTTT	60.238	38.462	5.56	0.00	0.00	2.43
2120	2481	7.011950	TGTTTACATGTAGTCCTGTGTTTTGAG	59.988	37.037	5.56	0.00	0.00	3.02
2345	2707	5.013287	TCACACCCAAACCTTACTTGCTATA	59.987	40.000	0.00	0.00	0.00	1.31
2389	2751	1.565759	TCCAAGCCTGACCTGCATTAT	59.434	47.619	0.00	0.00	0.00	1.28
2680	4957	3.068732	GTCTAGATAGCCATCTGTGCACA	59.931	47.826	20.37	20.37	41.75	4.57
2947	5224	2.558286	GGTGGTGACGAGGACACGA	61.558	63.158	0.00	0.00	38.90	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
43	44	2.182030	GCTACTTCTGCGGTCGCT	59.818	61.111	16.36	0.00	42.51	4.93
136	138	1.271656	AGCTCTGAATTTGCCAGTTGC	59.728	47.619	0.00	0.00	41.77	4.17
141	143	1.888512	GTTCCAGCTCTGAATTTGCCA	59.111	47.619	0.00	0.00	0.00	4.92
177	179	5.350914	CAGAAAACACTCCAAACAAATGCAA	59.649	36.000	0.00	0.00	0.00	4.08
237	240	2.884639	AGCTTTTAGCATTGTCGGTTGT	59.115	40.909	1.09	0.00	45.56	3.32
248	251	2.029649	ACGTCGGTAGAAGCTTTTAGCA	60.030	45.455	21.72	9.58	45.56	3.49
301	304	4.522405	TCAAAATTCGTCATGGTCACCATT	59.478	37.500	6.58	0.00	42.23	3.16
411	415	1.969862	CTCGTCCCCCGTTACAGTT	59.030	57.895	0.00	0.00	37.94	3.16
434	449	4.335647	CCCTTGGTCGCAGCACCT	62.336	66.667	13.25	0.00	37.34	4.00
447	463	0.536687	CAGCGCATCATCATCCCCTT	60.537	55.000	11.47	0.00	0.00	3.95
547	585	0.471211	TGTTGAGGGTCCTCGGAGTT	60.471	55.000	11.89	0.00	45.48	3.01
550	588	2.273179	CGTGTTGAGGGTCCTCGGA	61.273	63.158	11.89	1.30	45.48	4.55
647	690	4.405358	GGATCCTCATCTATCCAGGTCATC	59.595	50.000	3.84	0.00	41.21	2.92
677	722	1.985662	TCCGATTGGCCTACACCGT	60.986	57.895	3.32	0.00	34.14	4.83
681	727	2.897207	CCGTCCGATTGGCCTACA	59.103	61.111	3.32	0.00	34.14	2.74
756	802	5.755375	ACTTACATTTATGAGCACCATCGAG	59.245	40.000	0.00	0.00	36.71	4.04
757	803	5.670485	ACTTACATTTATGAGCACCATCGA	58.330	37.500	0.00	0.00	36.71	3.59
759	805	8.438676	AGTAACTTACATTTATGAGCACCATC	57.561	34.615	1.79	0.00	36.71	3.51
761	807	7.663905	ACAAGTAACTTACATTTATGAGCACCA	59.336	33.333	1.79	0.00	0.00	4.17
799	845	8.310406	TGAAAGAATACACAGACACTTGTATG	57.690	34.615	2.45	2.45	42.49	2.39
1035	1244	0.401738	TCAGGGGAGTGGAAGCAAAG	59.598	55.000	0.00	0.00	0.00	2.77
1163	1372	1.899814	ACGTACATGAAGAAGGAGGCA	59.100	47.619	0.00	0.00	0.00	4.75
1189	1398	1.307084	AGGAGAGGTAGGGGTTGGC	60.307	63.158	0.00	0.00	0.00	4.52
1279	1493	1.135774	CGACGACTCGAGAACCAATCA	60.136	52.381	21.68	0.00	43.06	2.57
1332	1549	4.037565	TGTGCTACATCCTACAGGTTATCG	59.962	45.833	0.00	0.00	36.34	2.92
1352	1569	5.866335	GGAGTAGATCCGATAGTAGTGTG	57.134	47.826	0.00	0.00	38.67	3.82
1368	1585	8.928270	AATATGTTCGTGTTTTCTAGGAGTAG	57.072	34.615	0.00	0.00	0.00	2.57
1372	1589	7.762615	CCTGTAATATGTTCGTGTTTTCTAGGA	59.237	37.037	0.00	0.00	0.00	2.94
1373	1590	7.011109	CCCTGTAATATGTTCGTGTTTTCTAGG	59.989	40.741	0.00	0.00	0.00	3.02
1374	1591	7.011109	CCCCTGTAATATGTTCGTGTTTTCTAG	59.989	40.741	0.00	0.00	0.00	2.43
1408	1625	4.734854	GCAAGTGTCAAATGTGTAGTTGTG	59.265	41.667	10.22	0.00	33.80	3.33
1412	1629	5.532406	AGAATGCAAGTGTCAAATGTGTAGT	59.468	36.000	0.00	0.00	0.00	2.73
1413	1630	6.005583	AGAATGCAAGTGTCAAATGTGTAG	57.994	37.500	0.00	0.00	0.00	2.74
1414	1631	7.686438	ATAGAATGCAAGTGTCAAATGTGTA	57.314	32.000	0.00	0.00	0.00	2.90
1415	1632	4.924305	AGAATGCAAGTGTCAAATGTGT	57.076	36.364	0.00	0.00	0.00	3.72
1416	1633	8.239314	ACTTATAGAATGCAAGTGTCAAATGTG	58.761	33.333	0.00	0.00	31.47	3.21
1420	1637	7.083858	GCAACTTATAGAATGCAAGTGTCAAA	58.916	34.615	0.00	0.00	38.63	2.69
1478	1696	3.550820	AGCACATGTACCAAACAACAGA	58.449	40.909	0.00	0.00	42.70	3.41
1537	1755	5.716703	CAGGACATAAATTTTCCCTGAGGTT	59.283	40.000	16.37	0.00	42.69	3.50
1554	1772	2.772515	GGGTTAGAACTAGCCAGGACAT	59.227	50.000	14.66	0.00	38.06	3.06
1558	1776	0.464452	CGGGGTTAGAACTAGCCAGG	59.536	60.000	14.66	4.22	38.06	4.45
1567	1785	1.078324	AGAGAGAACCCGGGGTTAGAA	59.922	52.381	30.74	0.00	46.95	2.10
1579	1814	7.002497	GTGAAACGTCGATAAAAAGAGAGAAC	58.998	38.462	0.00	0.00	0.00	3.01
1593	1828	2.410785	ATCGAGTTGTGAAACGTCGA	57.589	45.000	0.00	12.21	42.39	4.20
1594	1829	3.207419	CAAATCGAGTTGTGAAACGTCG	58.793	45.455	17.06	0.00	42.39	5.12
1610	1845	1.133025	CCAATGACCCACTCGCAAATC	59.867	52.381	0.00	0.00	0.00	2.17
1625	1860	6.819284	AGGAAATGCAAACATATACCCAATG	58.181	36.000	0.00	0.00	34.62	2.82
1628	1863	5.954752	TCAAGGAAATGCAAACATATACCCA	59.045	36.000	0.00	0.00	34.62	4.51
1644	2005	2.559698	TCGCCTCACAATCAAGGAAA	57.440	45.000	0.00	0.00	34.35	3.13
1652	2013	1.537202	GAAGTTGCTTCGCCTCACAAT	59.463	47.619	0.00	0.00	30.62	2.71
1673	2034	7.919690	TCTGTAACTCAACATGAACAAAGAAG	58.080	34.615	0.00	0.00	0.00	2.85
1691	2052	2.429610	TCTATGAACGGCCCTCTGTAAC	59.570	50.000	0.00	0.00	0.00	2.50
1725	2086	8.528643	TCTTTTCTCAACGGACTAATCTATGAA	58.471	33.333	0.00	0.00	0.00	2.57
1727	2088	7.976734	AGTCTTTTCTCAACGGACTAATCTATG	59.023	37.037	0.00	0.00	35.79	2.23
1745	2106	5.784578	ACAAAATGGTGGGTAGTCTTTTC	57.215	39.130	0.00	0.00	0.00	2.29
1786	2147	3.246226	CAGTCGCTTCATAACTGGCATAC	59.754	47.826	0.00	0.00	37.38	2.39
2008	2369	1.211703	TGCAAGTCCCTTGTCAGACAA	59.788	47.619	15.39	15.39	42.77	3.18
2109	2470	9.796120	TTAACTGAAATAAACCTCAAAACACAG	57.204	29.630	0.00	0.00	0.00	3.66
2120	2481	4.698780	AGCGAGGGTTAACTGAAATAAACC	59.301	41.667	5.42	0.00	39.88	3.27
2185	2546	4.586001	ACAGGCACATCAATCTTTCTGTTT	59.414	37.500	0.00	0.00	31.17	2.83
2200	2561	2.710377	CAGGCAATAACTACAGGCACA	58.290	47.619	0.00	0.00	0.00	4.57
2345	2707	7.093771	GGATTGAACTTTGGACCAGATTACATT	60.094	37.037	0.00	0.00	0.00	2.71
2389	2751	4.202567	ACAGAATCCTTAAGCCAGGACAAA	60.203	41.667	0.00	0.00	46.22	2.83
2468	2832	9.562408	TGTTGGTTCATCTGTTGTTTACTATTA	57.438	29.630	0.00	0.00	0.00	0.98
2680	4957	5.527582	GTGAGCAATTCCGTAGTTGGATATT	59.472	40.000	0.00	0.00	38.00	1.28
2747	5024	2.486982	CTGACATCCAAAGGTTCTGCAG	59.513	50.000	7.63	7.63	0.00	4.41
2816	5093	2.607750	TGGACAGCCTGGAGGGAC	60.608	66.667	0.00	0.00	37.23	4.46
2947	5224	0.113385	ATCTCCGGTCGGGATCATCT	59.887	55.000	9.68	0.00	46.04	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.