AutoCloner

Multiple sequence alignment - TraesCS7D01G360900

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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	TraesCS7D01G360900	chr7D	100.000	2276	0	0	1	2276	463860182	463857907	0.000000e+00	4204.0
1	TraesCS7D01G360900	chr5B	88.932	1301	137	4	6	1302	602641479	602642776	0.000000e+00	1598.0
2	TraesCS7D01G360900	chr1B	88.240	1301	148	3	6	1303	41751830	41753128	0.000000e+00	1550.0
3	TraesCS7D01G360900	chr1B	76.249	1301	288	21	15	1305	18863233	18861944	0.000000e+00	671.0
4	TraesCS7D01G360900	chr1B	79.197	697	137	8	6	698	74686268	74685576	5.690000e-131	477.0
5	TraesCS7D01G360900	chr3B	82.407	1313	213	16	1	1303	707145289	707146593	0.000000e+00	1129.0
6	TraesCS7D01G360900	chr3B	79.832	119	18	6	1306	1420	399661639	399661523	5.210000e-12	82.4
7	TraesCS7D01G360900	chr2A	82.151	1311	218	15	3	1304	54668738	54670041	0.000000e+00	1110.0
8	TraesCS7D01G360900	chr2A	77.473	364	60	14	1930	2274	238003857	238003497	4.960000e-47	198.0
9	TraesCS7D01G360900	chr5D	89.929	844	84	1	180	1022	553482145	553482988	0.000000e+00	1086.0
10	TraesCS7D01G360900	chr5D	80.272	294	44	10	1991	2274	545282995	545282706	2.290000e-50	209.0
11	TraesCS7D01G360900	chr2B	81.498	1308	233	9	3	1304	643415483	643416787	0.000000e+00	1066.0
12	TraesCS7D01G360900	chr7B	81.360	1309	233	11	3	1304	662933004	662934308	0.000000e+00	1055.0
13	TraesCS7D01G360900	chr7B	81.029	1302	239	8	8	1304	581900074	581901372	0.000000e+00	1029.0
14	TraesCS7D01G360900	chr7B	90.549	656	41	12	1635	2276	487818139	487818787	0.000000e+00	848.0
15	TraesCS7D01G360900	chr7B	91.541	331	22	4	1307	1636	487816321	487816646	3.450000e-123	451.0
16	TraesCS7D01G360900	chr2D	94.238	538	31	0	765	1302	548893949	548893412	0.000000e+00	822.0
17	TraesCS7D01G360900	chr7A	81.407	995	169	13	316	1302	670496879	670497865	0.000000e+00	798.0
18	TraesCS7D01G360900	chr1A	93.137	408	28	0	895	1302	490533907	490533500	1.160000e-167	599.0
19	TraesCS7D01G360900	chr4B	80.396	505	90	8	806	1305	665225313	665224813	2.130000e-100	375.0
20	TraesCS7D01G360900	chr4B	83.516	273	31	11	2016	2276	656978520	656978250	2.260000e-60	243.0
21	TraesCS7D01G360900	chr4A	82.877	292	35	11	1991	2274	539145905	539146189	4.850000e-62	248.0
22	TraesCS7D01G360900	chr3A	82.090	268	40	7	1999	2259	489564616	489564882	2.940000e-54	222.0
23	TraesCS7D01G360900	chr3A	80.351	285	46	9	1996	2274	429459862	429460142	8.240000e-50	207.0
24	TraesCS7D01G360900	chr3A	80.851	94	12	6	1332	1421	405563674	405563583	4.060000e-08	69.4
25	TraesCS7D01G360900	chr1D	77.929	367	62	16	1923	2274	289773027	289773389	6.370000e-51	211.0
26	TraesCS7D01G360900	chr5A	80.345	290	44	11	1993	2274	456167502	456167786	8.240000e-50	207.0

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	TraesCS7D01G360900	chr7D	463857907	463860182	2275	True	4204.0	4204	100.000	1	2276	1	chr7D.!!$R1	2275
1	TraesCS7D01G360900	chr5B	602641479	602642776	1297	False	1598.0	1598	88.932	6	1302	1	chr5B.!!$F1	1296
2	TraesCS7D01G360900	chr1B	41751830	41753128	1298	False	1550.0	1550	88.240	6	1303	1	chr1B.!!$F1	1297
3	TraesCS7D01G360900	chr1B	18861944	18863233	1289	True	671.0	671	76.249	15	1305	1	chr1B.!!$R1	1290
4	TraesCS7D01G360900	chr1B	74685576	74686268	692	True	477.0	477	79.197	6	698	1	chr1B.!!$R2	692
5	TraesCS7D01G360900	chr3B	707145289	707146593	1304	False	1129.0	1129	82.407	1	1303	1	chr3B.!!$F1	1302
6	TraesCS7D01G360900	chr2A	54668738	54670041	1303	False	1110.0	1110	82.151	3	1304	1	chr2A.!!$F1	1301
7	TraesCS7D01G360900	chr5D	553482145	553482988	843	False	1086.0	1086	89.929	180	1022	1	chr5D.!!$F1	842
8	TraesCS7D01G360900	chr2B	643415483	643416787	1304	False	1066.0	1066	81.498	3	1304	1	chr2B.!!$F1	1301
9	TraesCS7D01G360900	chr7B	662933004	662934308	1304	False	1055.0	1055	81.360	3	1304	1	chr7B.!!$F2	1301
10	TraesCS7D01G360900	chr7B	581900074	581901372	1298	False	1029.0	1029	81.029	8	1304	1	chr7B.!!$F1	1296
11	TraesCS7D01G360900	chr7B	487816321	487818787	2466	False	649.5	848	91.045	1307	2276	2	chr7B.!!$F3	969
12	TraesCS7D01G360900	chr2D	548893412	548893949	537	True	822.0	822	94.238	765	1302	1	chr2D.!!$R1	537
13	TraesCS7D01G360900	chr7A	670496879	670497865	986	False	798.0	798	81.407	316	1302	1	chr7A.!!$F1	986
14	TraesCS7D01G360900	chr4B	665224813	665225313	500	True	375.0	375	80.396	806	1305	1	chr4B.!!$R2	499

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
711	718	0.465097	CAGCCAGCTCCATTCGGAAT	60.465	55.0	0.0	0.0	42.21	3.01	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2233	3755	0.519519	CTCACGCGGCAAACCAAATA	59.48	50.0	12.47	0.0	34.57	1.4	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
127	128	3.006003	TGGTTCGGGAAACTTTTATTGCC	59.994	43.478	0.00	0.00	38.02	4.52
130	131	1.206132	CGGGAAACTTTTATTGCCCCC	59.794	52.381	0.00	0.00	35.06	5.40
148	149	4.162690	GACGCCGAGGCCATCCTT	62.163	66.667	5.01	0.00	44.46	3.36
178	179	3.827898	CGGCGAGGTGGAGGAGAC	61.828	72.222	0.00	0.00	0.00	3.36
285	286	2.680352	TCTGGACGAGGGGCAGAC	60.680	66.667	0.00	0.00	0.00	3.51
346	347	6.006449	AGATGTTTGGAAGCTCAATGTAGTT	58.994	36.000	0.00	0.00	0.00	2.24
349	350	3.350219	TGGAAGCTCAATGTAGTTCCC	57.650	47.619	0.00	0.00	36.60	3.97
385	387	1.826487	GTGGCGTGTTTTGAGGGGT	60.826	57.895	0.00	0.00	0.00	4.95
394	396	1.743394	GTTTTGAGGGGTATCTTGCCG	59.257	52.381	0.00	0.00	0.00	5.69
397	399	1.335132	TGAGGGGTATCTTGCCGGAC	61.335	60.000	5.05	0.00	0.00	4.79
409	413	3.382832	CCGGACGAGAGCACCCTT	61.383	66.667	0.00	0.00	0.00	3.95
433	439	0.465705	ATCGCCACATCCGACAGATT	59.534	50.000	0.00	0.00	37.56	2.40
446	452	2.738846	CGACAGATTAGCACTTGCAAGT	59.261	45.455	26.36	26.36	45.16	3.16
598	604	6.049149	CAGGGATATTTCATGTGACTAACGT	58.951	40.000	0.00	0.00	0.00	3.99
687	694	2.425592	CACGACAGACAAGGGGCA	59.574	61.111	0.00	0.00	0.00	5.36
711	718	0.465097	CAGCCAGCTCCATTCGGAAT	60.465	55.000	0.00	0.00	42.21	3.01
738	745	3.416156	AGAAGACCTTGCCATTCTTGAC	58.584	45.455	0.00	0.00	29.54	3.18
741	748	2.108952	AGACCTTGCCATTCTTGACCTT	59.891	45.455	0.00	0.00	0.00	3.50
796	803	3.289797	TGGCAACCACCAGAAAACA	57.710	47.368	0.00	0.00	33.75	2.83
847	854	2.002586	CACATCTTGATGACGGTCACC	58.997	52.381	13.92	3.76	0.00	4.02
957	964	1.069978	GAGGCCATAGCTCTCAAGGAC	59.930	57.143	5.01	0.00	39.73	3.85
981	989	5.346822	CGGAGTGTTATTTGCTACTTTACGT	59.653	40.000	0.00	0.00	0.00	3.57
1026	1034	0.811915	CCGACTGTCTAGAGGTGGTG	59.188	60.000	6.21	0.00	0.00	4.17
1096	1104	5.290493	TCTGGCAGAAGTTGAAGAGTTAA	57.710	39.130	16.28	0.00	0.00	2.01
1322	1335	0.247736	AACTCGGTCCTGATCACTGC	59.752	55.000	0.00	0.00	0.00	4.40
1324	1337	1.938657	CTCGGTCCTGATCACTGCGT	61.939	60.000	0.00	0.00	0.00	5.24
1340	1353	0.317020	GCGTGGTCTTGCTTGTGTTC	60.317	55.000	0.00	0.00	0.00	3.18
1381	1394	5.452077	GCTTCGGCCTCTTTCTCTTTCTATA	60.452	44.000	0.00	0.00	34.32	1.31
1399	1412	5.615289	TCTATAAAGATTTGGCAGAGCTCC	58.385	41.667	10.93	0.00	0.00	4.70
1461	1474	6.424176	TGTAACTTGTCACGTTCAAATTCA	57.576	33.333	0.00	0.00	0.00	2.57
1463	1476	6.743627	TGTAACTTGTCACGTTCAAATTCAAC	59.256	34.615	0.00	0.00	0.00	3.18
1464	1477	5.303747	ACTTGTCACGTTCAAATTCAACA	57.696	34.783	4.81	0.00	0.00	3.33
1465	1478	5.704888	ACTTGTCACGTTCAAATTCAACAA	58.295	33.333	4.81	0.00	0.00	2.83
1466	1479	6.329496	ACTTGTCACGTTCAAATTCAACAAT	58.671	32.000	4.81	0.00	0.00	2.71
1494	1507	6.698008	TCTGTCATTGTTTTGTCTGATTGT	57.302	33.333	0.00	0.00	0.00	2.71
1537	1551	1.480954	CAGGCTGGGTTACGTGTCTAT	59.519	52.381	6.61	0.00	0.00	1.98
1539	1553	1.202498	GGCTGGGTTACGTGTCTATCC	60.202	57.143	0.00	0.00	0.00	2.59
1584	1598	6.974622	AGATGTTTGGCGATTCATATTGTTTC	59.025	34.615	0.00	0.00	0.00	2.78
1591	1605	3.489416	CGATTCATATTGTTTCGCGGAGA	59.511	43.478	6.13	0.00	0.00	3.71
1598	1612	1.800713	GTTTCGCGGAGAGTCGACC	60.801	63.158	13.01	3.77	34.16	4.79
1600	1614	2.196382	TTTCGCGGAGAGTCGACCTG	62.196	60.000	13.01	3.17	34.16	4.00
1607	1621	1.531423	GAGAGTCGACCTGTACCACA	58.469	55.000	13.01	0.00	0.00	4.17
1631	1645	3.901797	AACTAGTGCAGTGCGGGGC	62.902	63.158	11.20	0.61	37.63	5.80
1662	3170	2.776312	TCGGATGAGCATAGACGAAC	57.224	50.000	0.00	0.00	0.00	3.95
1670	3178	4.659088	TGAGCATAGACGAACGAGTAAAG	58.341	43.478	0.14	0.00	0.00	1.85
1682	3190	6.422701	ACGAACGAGTAAAGATCAAACATGAA	59.577	34.615	0.00	0.00	0.00	2.57
1686	3194	8.378172	ACGAGTAAAGATCAAACATGAAGAAA	57.622	30.769	0.00	0.00	0.00	2.52
1711	3219	8.599624	ACAAAATGAATGAAATGGATAGAGGT	57.400	30.769	0.00	0.00	0.00	3.85
1718	3226	4.009675	TGAAATGGATAGAGGTGCACAAC	58.990	43.478	20.43	11.67	0.00	3.32
1752	3260	2.102252	GGTTGAACATGGCAAGGAACAA	59.898	45.455	0.00	0.00	0.00	2.83
1755	3263	2.361757	TGAACATGGCAAGGAACAACTG	59.638	45.455	0.00	0.00	0.00	3.16
1758	3269	4.032960	ACATGGCAAGGAACAACTGATA	57.967	40.909	0.00	0.00	0.00	2.15
1776	3287	4.377021	TGATATGCTAAAGCCAACTACCG	58.623	43.478	0.00	0.00	41.18	4.02
1787	3298	2.223618	GCCAACTACCGTTTTTCTTGCA	60.224	45.455	0.00	0.00	0.00	4.08
1812	3323	5.535753	AACATAAATTCCATTGCTAGGCC	57.464	39.130	0.00	0.00	0.00	5.19
1818	3329	0.978667	TCCATTGCTAGGCCCGTACA	60.979	55.000	0.00	0.00	0.00	2.90
1911	3422	9.771534	AGCTAGAAGAAAAATAGATACATCACC	57.228	33.333	0.00	0.00	0.00	4.02
1920	3431	3.992943	AGATACATCACCGTCCCAAAA	57.007	42.857	0.00	0.00	0.00	2.44
1952	3465	2.746277	AAGGGTTAGGCGCGCTTG	60.746	61.111	32.29	0.00	37.65	4.01
1955	3468	4.166011	GGTTAGGCGCGCTTGCTG	62.166	66.667	32.29	0.00	36.08	4.41
1956	3469	4.818835	GTTAGGCGCGCTTGCTGC	62.819	66.667	32.29	13.29	37.39	5.25
2055	3571	7.169158	TCTCTTTGAGTTTGACCAAATTTGT	57.831	32.000	16.73	5.32	32.60	2.83
2056	3572	8.287439	TCTCTTTGAGTTTGACCAAATTTGTA	57.713	30.769	16.73	0.60	32.60	2.41
2057	3573	8.405531	TCTCTTTGAGTTTGACCAAATTTGTAG	58.594	33.333	16.73	5.27	32.60	2.74
2058	3574	8.287439	TCTTTGAGTTTGACCAAATTTGTAGA	57.713	30.769	16.73	0.00	32.60	2.59
2059	3575	8.405531	TCTTTGAGTTTGACCAAATTTGTAGAG	58.594	33.333	16.73	4.22	32.60	2.43
2060	3576	6.633500	TGAGTTTGACCAAATTTGTAGAGG	57.367	37.500	16.73	3.80	32.36	3.69
2112	3628	8.937634	TCCGTATCATCATATTCATCATGAAG	57.062	34.615	6.19	0.00	40.05	3.02
2233	3755	9.927668	CACCTTATATTTTGAAACTGTGGAAAT	57.072	29.630	0.00	0.00	0.00	2.17
2251	3773	1.169577	ATATTTGGTTTGCCGCGTGA	58.830	45.000	4.92	0.00	37.67	4.35

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
4	5	2.093447	GGGAGTCATAGTGTTGGTGGAG	60.093	54.545	0.00	0.00	0.00	3.86
178	179	0.815615	GTGCCCAGGCTAGGAAATCG	60.816	60.000	10.58	0.00	42.51	3.34
271	272	2.424733	GGTAGTCTGCCCCTCGTCC	61.425	68.421	0.00	0.00	0.00	4.79
274	275	3.528370	CCGGTAGTCTGCCCCTCG	61.528	72.222	0.79	0.00	0.00	4.63
285	286	1.429463	GTTCACTGAAGTGCCGGTAG	58.571	55.000	1.90	0.00	45.25	3.18
313	314	4.590222	AGCTTCCAAACATCTTTCCACATT	59.410	37.500	0.00	0.00	0.00	2.71
346	347	3.135167	ACCAAAAGACTCGTACTTTGGGA	59.865	43.478	21.87	0.00	45.96	4.37
349	350	3.303791	GCCACCAAAAGACTCGTACTTTG	60.304	47.826	0.00	0.00	37.59	2.77
385	387	1.035385	TGCTCTCGTCCGGCAAGATA	61.035	55.000	0.00	0.00	32.79	1.98
394	396	0.460459	GCTTAAGGGTGCTCTCGTCC	60.460	60.000	4.29	0.00	0.00	4.79
397	399	1.576356	GATGCTTAAGGGTGCTCTCG	58.424	55.000	4.29	0.00	0.00	4.04
409	413	0.529773	GTCGGATGTGGCGATGCTTA	60.530	55.000	0.00	0.00	0.00	3.09
433	439	5.611796	CAAGACATAACTTGCAAGTGCTA	57.388	39.130	31.73	21.26	40.24	3.49
446	452	5.114764	TCTTCATCCATGGCAAGACATAA	57.885	39.130	6.96	0.00	0.00	1.90
598	604	5.646692	TCTCCCTTTCTTTCTTGGAGAAA	57.353	39.130	4.15	3.40	46.42	2.52
646	652	2.360852	ACGGTCCGAGACGTCCAT	60.361	61.111	20.51	0.00	39.40	3.41
679	686	2.123982	GGCTGGATCTGCCCCTTG	60.124	66.667	16.06	0.00	41.62	3.61
687	694	0.473326	GAATGGAGCTGGCTGGATCT	59.527	55.000	0.00	0.00	0.00	2.75
711	718	4.718774	AGAATGGCAAGGTCTTCTCTGATA	59.281	41.667	0.00	0.00	0.00	2.15
738	745	0.373716	GTTTATGCTGTCGCGGAAGG	59.626	55.000	6.13	0.00	39.65	3.46
741	748	0.739462	CTGGTTTATGCTGTCGCGGA	60.739	55.000	6.13	0.00	39.65	5.54
792	799	4.096382	GTGTTGATCTTGACAGTGGTGTTT	59.904	41.667	0.00	0.00	36.88	2.83
796	803	3.134623	TCAGTGTTGATCTTGACAGTGGT	59.865	43.478	21.35	0.00	43.85	4.16
847	854	2.928396	AACTCCACCACCTCCCGG	60.928	66.667	0.00	0.00	0.00	5.73
854	861	0.741221	GGATCGAGCAACTCCACCAC	60.741	60.000	1.84	0.00	0.00	4.16
957	964	5.346822	ACGTAAAGTAGCAAATAACACTCCG	59.653	40.000	0.00	0.00	0.00	4.63
981	989	3.316006	CATGATGACATGCGTGTAGCCA	61.316	50.000	12.53	10.08	45.51	4.75
1026	1034	2.095252	GCGCGAGTTCCAGAGGTTC	61.095	63.158	12.10	0.00	0.00	3.62
1305	1318	1.226802	CGCAGTGATCAGGACCGAG	60.227	63.158	0.00	0.00	0.00	4.63
1322	1335	1.003545	CAGAACACAAGCAAGACCACG	60.004	52.381	0.00	0.00	0.00	4.94
1324	1337	2.016318	CACAGAACACAAGCAAGACCA	58.984	47.619	0.00	0.00	0.00	4.02
1340	1353	0.894141	AGCTCCAGAGTACAGCACAG	59.106	55.000	5.10	0.00	35.46	3.66
1381	1394	2.444421	CAGGAGCTCTGCCAAATCTTT	58.556	47.619	14.64	0.00	36.60	2.52
1399	1412	2.212869	TTTTTGACAAGCAGCAGCAG	57.787	45.000	3.17	0.00	45.49	4.24
1422	1435	4.526970	AGTTACAGGGTGCTGGATAAATG	58.473	43.478	0.00	0.00	0.00	2.32
1425	1438	3.329520	ACAAGTTACAGGGTGCTGGATAA	59.670	43.478	0.00	0.00	0.00	1.75
1427	1440	1.705186	ACAAGTTACAGGGTGCTGGAT	59.295	47.619	0.00	0.00	0.00	3.41
1461	1474	8.721019	ACAAAACAATGACAGAATTGATTGTT	57.279	26.923	14.24	0.00	46.14	2.83
1463	1476	8.484799	CAGACAAAACAATGACAGAATTGATTG	58.515	33.333	4.04	9.93	39.46	2.67
1464	1477	8.415553	TCAGACAAAACAATGACAGAATTGATT	58.584	29.630	4.04	0.00	39.46	2.57
1465	1478	7.944061	TCAGACAAAACAATGACAGAATTGAT	58.056	30.769	4.04	0.00	39.46	2.57
1466	1479	7.332213	TCAGACAAAACAATGACAGAATTGA	57.668	32.000	4.04	0.00	39.46	2.57
1494	1507	2.467993	ATCCACGTGGCAGCACATCA	62.468	55.000	30.25	9.65	34.44	3.07
1584	1598	2.104859	TACAGGTCGACTCTCCGCG	61.105	63.158	16.46	0.00	0.00	6.46
1591	1605	0.895530	CCATGTGGTACAGGTCGACT	59.104	55.000	16.46	0.00	41.80	4.18
1598	1612	4.245660	CACTAGTTGTCCATGTGGTACAG	58.754	47.826	0.00	1.32	41.80	2.74
1600	1614	3.000727	GCACTAGTTGTCCATGTGGTAC	58.999	50.000	0.00	0.00	36.34	3.34
1607	1621	1.813513	GCACTGCACTAGTTGTCCAT	58.186	50.000	0.00	0.00	37.60	3.41
1662	3170	8.282592	TGTTTCTTCATGTTTGATCTTTACTCG	58.717	33.333	0.00	0.00	0.00	4.18
1686	3194	8.472413	CACCTCTATCCATTTCATTCATTTTGT	58.528	33.333	0.00	0.00	0.00	2.83
1711	3219	1.336440	CTTTCAATCGTGGGTTGTGCA	59.664	47.619	0.00	0.00	0.00	4.57
1718	3226	2.621055	TGTTCAACCTTTCAATCGTGGG	59.379	45.455	0.00	0.00	0.00	4.61
1719	3227	3.980646	TGTTCAACCTTTCAATCGTGG	57.019	42.857	0.00	0.00	0.00	4.94
1752	3260	5.368989	GGTAGTTGGCTTTAGCATATCAGT	58.631	41.667	3.88	0.00	44.36	3.41
1755	3263	4.377897	ACGGTAGTTGGCTTTAGCATATC	58.622	43.478	3.88	0.00	44.36	1.63
1758	3269	2.781681	ACGGTAGTTGGCTTTAGCAT	57.218	45.000	3.88	0.00	44.36	3.79
1787	3298	6.183360	GGCCTAGCAATGGAATTTATGTTTCT	60.183	38.462	0.00	0.00	31.22	2.52
1874	3385	6.808008	TTTTCTTCTAGCTGAACTGATTGG	57.192	37.500	0.00	0.00	0.00	3.16
1904	3415	5.993748	ATAAATTTTTGGGACGGTGATGT	57.006	34.783	0.00	0.00	0.00	3.06
1920	3431	8.148999	CGCCTAACCCTTCTAGTTCTATAAATT	58.851	37.037	0.00	0.00	0.00	1.82
1938	3451	4.166011	CAGCAAGCGCGCCTAACC	62.166	66.667	30.33	12.13	45.49	2.85
1952	3465	4.059459	CAACACCGACGACGCAGC	62.059	66.667	0.64	0.00	38.29	5.25
1953	3466	2.235016	AACAACACCGACGACGCAG	61.235	57.895	0.64	0.00	38.29	5.18
1955	3468	2.142418	CTCAACAACACCGACGACGC	62.142	60.000	0.64	0.00	38.29	5.19
1956	3469	0.868602	ACTCAACAACACCGACGACG	60.869	55.000	0.00	0.00	39.43	5.12
1957	3470	1.283736	AACTCAACAACACCGACGAC	58.716	50.000	0.00	0.00	0.00	4.34
1958	3471	2.012937	AAACTCAACAACACCGACGA	57.987	45.000	0.00	0.00	0.00	4.20
2028	3544	9.101655	CAAATTTGGTCAAACTCAAAGAGATTT	57.898	29.630	10.49	0.00	36.49	2.17
2144	3663	7.491696	ACCAAGTTAAGAGCAAAGTATCGATAC	59.508	37.037	25.00	25.00	0.00	2.24
2153	3672	6.136541	ACTTTGACCAAGTTAAGAGCAAAG	57.863	37.500	0.00	0.00	43.89	2.77
2205	3727	9.575868	TTCCACAGTTTCAAAATATAAGGTGTA	57.424	29.630	0.00	0.00	0.00	2.90
2227	3749	2.672478	CGCGGCAAACCAAATATTTCCA	60.672	45.455	0.00	0.00	34.57	3.53
2233	3755	0.519519	CTCACGCGGCAAACCAAATA	59.480	50.000	12.47	0.00	34.57	1.40
2251	3773	6.794534	AGAAAACAAACTCCATTATCTCCCT	58.205	36.000	0.00	0.00	0.00	4.20

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.