AutoCloner

Multiple sequence alignment - TraesCS6D01G243300

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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	TraesCS6D01G243300	chr6D	100.000	2561	0	0	1	2561	345314801	345317361	0.000000e+00	4730.0
1	TraesCS6D01G243300	chr6D	100.000	782	0	0	103	884	68971479	68970698	0.000000e+00	1445.0
2	TraesCS6D01G243300	chr6D	95.374	562	24	1	2000	2561	303444722	303445281	0.000000e+00	893.0
3	TraesCS6D01G243300	chr6B	95.517	1093	43	3	901	1989	521469741	521470831	0.000000e+00	1742.0
4	TraesCS6D01G243300	chr6B	95.870	799	12	3	104	884	28222534	28223329	0.000000e+00	1273.0
5	TraesCS6D01G243300	chr6B	87.986	591	49	4	1992	2561	201100652	201101241	0.000000e+00	678.0
6	TraesCS6D01G243300	chr6A	95.108	1063	41	5	936	1989	485880970	485882030	0.000000e+00	1664.0
7	TraesCS6D01G243300	chr2B	99.873	786	0	1	98	883	593646555	593647339	0.000000e+00	1445.0
8	TraesCS6D01G243300	chr2B	97.826	782	14	2	103	884	390366178	390366956	0.000000e+00	1347.0
9	TraesCS6D01G243300	chr2B	95.125	800	18	7	102	883	772346901	772347697	0.000000e+00	1242.0
10	TraesCS6D01G243300	chr2B	87.248	596	46	7	1987	2561	558653050	558652464	0.000000e+00	652.0
11	TraesCS6D01G243300	chr2B	75.481	624	96	21	1990	2561	24742196	24742814	4.230000e-63	252.0
12	TraesCS6D01G243300	chr4A	95.375	800	16	3	102	883	607262917	607262121	0.000000e+00	1253.0
13	TraesCS6D01G243300	chr4A	74.482	627	99	23	1993	2561	75209871	75210494	5.550000e-52	215.0
14	TraesCS6D01G243300	chr7B	88.972	798	64	12	101	886	720177283	720176498	0.000000e+00	965.0
15	TraesCS6D01G243300	chr2A	84.682	803	76	26	102	883	74646156	74645380	0.000000e+00	758.0
16	TraesCS6D01G243300	chr2A	80.757	608	88	20	293	884	515289479	515290073	5.030000e-122	448.0
17	TraesCS6D01G243300	chr2A	75.517	629	93	27	1991	2561	65350759	65351384	4.230000e-63	252.0
18	TraesCS6D01G243300	chr2A	91.089	101	8	1	1	100	383873918	383873818	4.440000e-28	135.0
19	TraesCS6D01G243300	chr2D	89.983	599	38	11	295	884	24939221	24939806	0.000000e+00	754.0
20	TraesCS6D01G243300	chr1B	87.817	591	50	9	1992	2561	548017738	548018327	0.000000e+00	673.0
21	TraesCS6D01G243300	chr4D	79.054	592	50	37	1998	2561	204727635	204728180	3.160000e-89	339.0
22	TraesCS6D01G243300	chr1A	75.000	628	97	24	1991	2561	140882057	140882681	4.260000e-58	235.0
23	TraesCS6D01G243300	chr1A	80.374	321	42	9	2261	2561	483241648	483241329	9.220000e-55	224.0
24	TraesCS6D01G243300	chr1D	84.328	134	16	5	1992	2123	465722809	465722939	2.680000e-25	126.0
25	TraesCS6D01G243300	chr3A	87.342	79	10	0	99	177	30557956	30557878	9.760000e-15	91.6

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	TraesCS6D01G243300	chr6D	345314801	345317361	2560	False	4730	4730	100.000	1	2561	1	chr6D.!!$F2	2560
1	TraesCS6D01G243300	chr6D	68970698	68971479	781	True	1445	1445	100.000	103	884	1	chr6D.!!$R1	781
2	TraesCS6D01G243300	chr6D	303444722	303445281	559	False	893	893	95.374	2000	2561	1	chr6D.!!$F1	561
3	TraesCS6D01G243300	chr6B	521469741	521470831	1090	False	1742	1742	95.517	901	1989	1	chr6B.!!$F3	1088
4	TraesCS6D01G243300	chr6B	28222534	28223329	795	False	1273	1273	95.870	104	884	1	chr6B.!!$F1	780
5	TraesCS6D01G243300	chr6B	201100652	201101241	589	False	678	678	87.986	1992	2561	1	chr6B.!!$F2	569
6	TraesCS6D01G243300	chr6A	485880970	485882030	1060	False	1664	1664	95.108	936	1989	1	chr6A.!!$F1	1053
7	TraesCS6D01G243300	chr2B	593646555	593647339	784	False	1445	1445	99.873	98	883	1	chr2B.!!$F3	785
8	TraesCS6D01G243300	chr2B	390366178	390366956	778	False	1347	1347	97.826	103	884	1	chr2B.!!$F2	781
9	TraesCS6D01G243300	chr2B	772346901	772347697	796	False	1242	1242	95.125	102	883	1	chr2B.!!$F4	781
10	TraesCS6D01G243300	chr2B	558652464	558653050	586	True	652	652	87.248	1987	2561	1	chr2B.!!$R1	574
11	TraesCS6D01G243300	chr2B	24742196	24742814	618	False	252	252	75.481	1990	2561	1	chr2B.!!$F1	571
12	TraesCS6D01G243300	chr4A	607262121	607262917	796	True	1253	1253	95.375	102	883	1	chr4A.!!$R1	781
13	TraesCS6D01G243300	chr4A	75209871	75210494	623	False	215	215	74.482	1993	2561	1	chr4A.!!$F1	568
14	TraesCS6D01G243300	chr7B	720176498	720177283	785	True	965	965	88.972	101	886	1	chr7B.!!$R1	785
15	TraesCS6D01G243300	chr2A	74645380	74646156	776	True	758	758	84.682	102	883	1	chr2A.!!$R1	781
16	TraesCS6D01G243300	chr2A	515289479	515290073	594	False	448	448	80.757	293	884	1	chr2A.!!$F2	591
17	TraesCS6D01G243300	chr2A	65350759	65351384	625	False	252	252	75.517	1991	2561	1	chr2A.!!$F1	570
18	TraesCS6D01G243300	chr2D	24939221	24939806	585	False	754	754	89.983	295	884	1	chr2D.!!$F1	589
19	TraesCS6D01G243300	chr1B	548017738	548018327	589	False	673	673	87.817	1992	2561	1	chr1B.!!$F1	569
20	TraesCS6D01G243300	chr4D	204727635	204728180	545	False	339	339	79.054	1998	2561	1	chr4D.!!$F1	563
21	TraesCS6D01G243300	chr1A	140882057	140882681	624	False	235	235	75.000	1991	2561	1	chr1A.!!$F1	570

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
931	1010	0.392193	CACCAGTCAGCCAGTCATCC	60.392	60.0	0.0	0.0	0.0	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1805	1893	0.179059	TTCCACGACACACATGCACT	60.179	50.0	0.0	0.0	0.0	4.4	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
31	32	6.795098	TGTGTATCACAATGTAACCTTGAC	57.205	37.500	0.00	0.00	41.69	3.18
32	33	5.407084	TGTGTATCACAATGTAACCTTGACG	59.593	40.000	0.00	0.00	41.69	4.35
33	34	5.636121	GTGTATCACAATGTAACCTTGACGA	59.364	40.000	0.00	0.00	34.08	4.20
34	35	6.312918	GTGTATCACAATGTAACCTTGACGAT	59.687	38.462	0.00	0.00	34.08	3.73
35	36	6.533723	TGTATCACAATGTAACCTTGACGATC	59.466	38.462	0.00	0.00	0.00	3.69
36	37	4.888917	TCACAATGTAACCTTGACGATCA	58.111	39.130	0.00	0.00	0.00	2.92
37	38	5.301555	TCACAATGTAACCTTGACGATCAA	58.698	37.500	0.00	0.00	34.79	2.57
46	47	3.874400	CTTGACGATCAAGCATCATCC	57.126	47.619	12.60	0.00	46.03	3.51
47	48	2.985957	TGACGATCAAGCATCATCCA	57.014	45.000	0.00	0.00	0.00	3.41
48	49	2.830104	TGACGATCAAGCATCATCCAG	58.170	47.619	0.00	0.00	0.00	3.86
49	50	2.169144	TGACGATCAAGCATCATCCAGT	59.831	45.455	0.00	0.00	0.00	4.00
50	51	3.384467	TGACGATCAAGCATCATCCAGTA	59.616	43.478	0.00	0.00	0.00	2.74
51	52	4.039609	TGACGATCAAGCATCATCCAGTAT	59.960	41.667	0.00	0.00	0.00	2.12
52	53	5.243730	TGACGATCAAGCATCATCCAGTATA	59.756	40.000	0.00	0.00	0.00	1.47
53	54	6.071165	TGACGATCAAGCATCATCCAGTATAT	60.071	38.462	0.00	0.00	0.00	0.86
54	55	7.122650	TGACGATCAAGCATCATCCAGTATATA	59.877	37.037	0.00	0.00	0.00	0.86
55	56	8.016301	ACGATCAAGCATCATCCAGTATATAT	57.984	34.615	0.00	0.00	0.00	0.86
56	57	9.136323	ACGATCAAGCATCATCCAGTATATATA	57.864	33.333	0.00	0.00	0.00	0.86
57	58	9.404348	CGATCAAGCATCATCCAGTATATATAC	57.596	37.037	14.05	14.05	0.00	1.47
61	62	9.269453	CAAGCATCATCCAGTATATATACATGG	57.731	37.037	22.00	22.39	35.74	3.66
62	63	7.448420	AGCATCATCCAGTATATATACATGGC	58.552	38.462	22.00	15.57	35.74	4.40
63	64	7.071572	AGCATCATCCAGTATATATACATGGCA	59.928	37.037	22.00	15.42	35.74	4.92
64	65	7.716560	GCATCATCCAGTATATATACATGGCAA	59.283	37.037	22.00	12.60	35.74	4.52
65	66	9.788889	CATCATCCAGTATATATACATGGCAAT	57.211	33.333	22.00	13.85	35.74	3.56
66	67	9.788889	ATCATCCAGTATATATACATGGCAATG	57.211	33.333	22.00	21.02	39.89	2.82
67	68	7.716560	TCATCCAGTATATATACATGGCAATGC	59.283	37.037	22.00	0.00	37.29	3.56
68	69	6.356556	TCCAGTATATATACATGGCAATGCC	58.643	40.000	18.95	18.95	41.41	4.40
83	84	2.573340	GCCAAGGGCCAAATCACG	59.427	61.111	6.18	0.00	44.06	4.35
84	85	1.976474	GCCAAGGGCCAAATCACGA	60.976	57.895	6.18	0.00	44.06	4.35
85	86	1.883021	CCAAGGGCCAAATCACGAC	59.117	57.895	6.18	0.00	0.00	4.34
86	87	0.893270	CCAAGGGCCAAATCACGACA	60.893	55.000	6.18	0.00	0.00	4.35
87	88	0.958091	CAAGGGCCAAATCACGACAA	59.042	50.000	6.18	0.00	0.00	3.18
88	89	1.339610	CAAGGGCCAAATCACGACAAA	59.660	47.619	6.18	0.00	0.00	2.83
89	90	1.698506	AGGGCCAAATCACGACAAAA	58.301	45.000	6.18	0.00	0.00	2.44
90	91	1.339929	AGGGCCAAATCACGACAAAAC	59.660	47.619	6.18	0.00	0.00	2.43
91	92	1.604438	GGGCCAAATCACGACAAAACC	60.604	52.381	4.39	0.00	0.00	3.27
92	93	1.339929	GGCCAAATCACGACAAAACCT	59.660	47.619	0.00	0.00	0.00	3.50
93	94	2.223947	GGCCAAATCACGACAAAACCTT	60.224	45.455	0.00	0.00	0.00	3.50
94	95	3.049912	GCCAAATCACGACAAAACCTTC	58.950	45.455	0.00	0.00	0.00	3.46
95	96	3.243401	GCCAAATCACGACAAAACCTTCT	60.243	43.478	0.00	0.00	0.00	2.85
96	97	4.736464	GCCAAATCACGACAAAACCTTCTT	60.736	41.667	0.00	0.00	0.00	2.52
97	98	5.348164	CCAAATCACGACAAAACCTTCTTT	58.652	37.500	0.00	0.00	0.00	2.52
98	99	5.458779	CCAAATCACGACAAAACCTTCTTTC	59.541	40.000	0.00	0.00	0.00	2.62
99	100	6.265577	CAAATCACGACAAAACCTTCTTTCT	58.734	36.000	0.00	0.00	0.00	2.52
886	965	3.490249	GCTCAAACCAAACACACCCTAAC	60.490	47.826	0.00	0.00	0.00	2.34
887	966	3.951680	CTCAAACCAAACACACCCTAACT	59.048	43.478	0.00	0.00	0.00	2.24
888	967	3.949113	TCAAACCAAACACACCCTAACTC	59.051	43.478	0.00	0.00	0.00	3.01
889	968	3.945640	AACCAAACACACCCTAACTCT	57.054	42.857	0.00	0.00	0.00	3.24
890	969	3.487120	ACCAAACACACCCTAACTCTC	57.513	47.619	0.00	0.00	0.00	3.20
891	970	2.775384	ACCAAACACACCCTAACTCTCA	59.225	45.455	0.00	0.00	0.00	3.27
892	971	3.139077	CCAAACACACCCTAACTCTCAC	58.861	50.000	0.00	0.00	0.00	3.51
893	972	3.139077	CAAACACACCCTAACTCTCACC	58.861	50.000	0.00	0.00	0.00	4.02
894	973	2.097110	ACACACCCTAACTCTCACCA	57.903	50.000	0.00	0.00	0.00	4.17
895	974	1.971357	ACACACCCTAACTCTCACCAG	59.029	52.381	0.00	0.00	0.00	4.00
896	975	1.971357	CACACCCTAACTCTCACCAGT	59.029	52.381	0.00	0.00	0.00	4.00
897	976	3.162666	CACACCCTAACTCTCACCAGTA	58.837	50.000	0.00	0.00	0.00	2.74
898	977	3.769844	CACACCCTAACTCTCACCAGTAT	59.230	47.826	0.00	0.00	0.00	2.12
899	978	4.954202	CACACCCTAACTCTCACCAGTATA	59.046	45.833	0.00	0.00	0.00	1.47
902	981	7.451877	CACACCCTAACTCTCACCAGTATATAT	59.548	40.741	0.00	0.00	0.00	0.86
931	1010	0.392193	CACCAGTCAGCCAGTCATCC	60.392	60.000	0.00	0.00	0.00	3.51
1012	1091	3.197790	CAACCATGAGGCCGCTCG	61.198	66.667	8.34	0.00	39.06	5.03
1041	1120	2.539432	TCTTCCTCCTGCTCATCTCA	57.461	50.000	0.00	0.00	0.00	3.27
1083	1165	6.974932	ACTACATTAGAAGACACATGCAAG	57.025	37.500	0.00	0.00	0.00	4.01
1564	1646	2.028930	CCCGGGATTAGTGACTGATAGC	60.029	54.545	18.48	0.00	0.00	2.97
1629	1711	7.753132	TCAAATAAGTTTTTCCGATGATTTCCG	59.247	33.333	0.00	0.00	0.00	4.30
1658	1740	5.897050	AGTGCGTGGTTTTTAATCTTTTCA	58.103	33.333	0.00	0.00	0.00	2.69
1801	1889	4.900684	TGATCTTTGAACGTGGGATGTTA	58.099	39.130	0.00	0.00	0.00	2.41
1805	1893	5.856156	TCTTTGAACGTGGGATGTTAGTTA	58.144	37.500	0.00	0.00	0.00	2.24
2037	2129	1.699083	TGGTGATGATGGTGTGTCTGT	59.301	47.619	0.00	0.00	0.00	3.41
2103	2196	0.451783	CAACCCGCTTCACTTATGGC	59.548	55.000	0.00	0.00	0.00	4.40
2168	2276	0.521735	GCGATTTTGGTTCTTCCGCT	59.478	50.000	0.00	0.00	39.52	5.52
2200	2314	1.821936	CTCCTCTTCGATGGCTGCT	59.178	57.895	0.00	0.00	0.00	4.24
2288	2426	2.614481	GCGTCCAATAAAGTGGTCCTCA	60.614	50.000	0.00	0.00	39.88	3.86
2362	2501	4.988598	CGGTGCTGTTGAGGCGGT	62.989	66.667	0.00	0.00	0.00	5.68
2366	2505	2.345991	GCTGTTGAGGCGGTGGTA	59.654	61.111	0.00	0.00	0.00	3.25
2498	2658	3.869272	CGCGACTTGCAGATGCCC	61.869	66.667	0.00	0.00	46.97	5.36

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
8	9	5.407084	CGTCAAGGTTACATTGTGATACACA	59.593	40.000	9.56	0.25	43.02	3.72
10	11	5.785243	TCGTCAAGGTTACATTGTGATACA	58.215	37.500	9.56	0.00	0.00	2.29
11	12	6.533723	TGATCGTCAAGGTTACATTGTGATAC	59.466	38.462	15.48	5.22	30.03	2.24
12	13	6.635755	TGATCGTCAAGGTTACATTGTGATA	58.364	36.000	15.48	6.55	30.03	2.15
13	14	5.487433	TGATCGTCAAGGTTACATTGTGAT	58.513	37.500	15.45	15.45	31.42	3.06
14	15	4.888917	TGATCGTCAAGGTTACATTGTGA	58.111	39.130	9.56	9.24	0.00	3.58
15	16	5.605564	TTGATCGTCAAGGTTACATTGTG	57.394	39.130	9.56	4.37	31.83	3.33
27	28	3.200483	CTGGATGATGCTTGATCGTCAA	58.800	45.455	6.96	1.48	45.68	3.18
28	29	2.169144	ACTGGATGATGCTTGATCGTCA	59.831	45.455	6.96	0.00	45.68	4.35
29	30	2.831333	ACTGGATGATGCTTGATCGTC	58.169	47.619	0.00	0.00	43.86	4.20
30	31	2.996249	ACTGGATGATGCTTGATCGT	57.004	45.000	0.00	0.00	33.17	3.73
31	32	9.404348	GTATATATACTGGATGATGCTTGATCG	57.596	37.037	14.53	0.00	33.17	3.69
35	36	9.269453	CCATGTATATATACTGGATGATGCTTG	57.731	37.037	23.51	7.01	35.45	4.01
36	37	7.935755	GCCATGTATATATACTGGATGATGCTT	59.064	37.037	27.90	1.26	35.45	3.91
37	38	7.071572	TGCCATGTATATATACTGGATGATGCT	59.928	37.037	27.90	4.30	35.45	3.79
38	39	7.219322	TGCCATGTATATATACTGGATGATGC	58.781	38.462	27.90	19.79	35.45	3.91
39	40	9.788889	ATTGCCATGTATATATACTGGATGATG	57.211	33.333	27.90	19.67	35.45	3.07
40	41	9.788889	CATTGCCATGTATATATACTGGATGAT	57.211	33.333	27.90	19.61	35.45	2.45
41	42	7.716560	GCATTGCCATGTATATATACTGGATGA	59.283	37.037	27.90	18.82	35.45	2.92
42	43	7.868775	GCATTGCCATGTATATATACTGGATG	58.131	38.462	27.90	24.24	35.45	3.51
67	68	0.893270	TGTCGTGATTTGGCCCTTGG	60.893	55.000	0.00	0.00	0.00	3.61
68	69	0.958091	TTGTCGTGATTTGGCCCTTG	59.042	50.000	0.00	0.00	0.00	3.61
69	70	1.698506	TTTGTCGTGATTTGGCCCTT	58.301	45.000	0.00	0.00	0.00	3.95
70	71	1.339929	GTTTTGTCGTGATTTGGCCCT	59.660	47.619	0.00	0.00	0.00	5.19
71	72	1.604438	GGTTTTGTCGTGATTTGGCCC	60.604	52.381	0.00	0.00	0.00	5.80
72	73	1.339929	AGGTTTTGTCGTGATTTGGCC	59.660	47.619	0.00	0.00	0.00	5.36
73	74	2.793278	AGGTTTTGTCGTGATTTGGC	57.207	45.000	0.00	0.00	0.00	4.52
74	75	4.568152	AGAAGGTTTTGTCGTGATTTGG	57.432	40.909	0.00	0.00	0.00	3.28
75	76	6.265577	AGAAAGAAGGTTTTGTCGTGATTTG	58.734	36.000	0.00	0.00	0.00	2.32
76	77	6.451064	AGAAAGAAGGTTTTGTCGTGATTT	57.549	33.333	0.00	0.00	0.00	2.17
77	78	7.255139	CCTTAGAAAGAAGGTTTTGTCGTGATT	60.255	37.037	0.00	0.00	41.09	2.57
78	79	6.204882	CCTTAGAAAGAAGGTTTTGTCGTGAT	59.795	38.462	0.00	0.00	41.09	3.06
79	80	5.526111	CCTTAGAAAGAAGGTTTTGTCGTGA	59.474	40.000	0.00	0.00	41.09	4.35
80	81	5.277828	CCCTTAGAAAGAAGGTTTTGTCGTG	60.278	44.000	1.74	0.00	44.02	4.35
81	82	4.820173	CCCTTAGAAAGAAGGTTTTGTCGT	59.180	41.667	1.74	0.00	44.02	4.34
82	83	4.820173	ACCCTTAGAAAGAAGGTTTTGTCG	59.180	41.667	1.74	0.00	44.02	4.35
83	84	5.593095	ACACCCTTAGAAAGAAGGTTTTGTC	59.407	40.000	1.74	0.00	44.02	3.18
84	85	5.359860	CACACCCTTAGAAAGAAGGTTTTGT	59.640	40.000	1.74	0.00	44.02	2.83
85	86	5.359860	ACACACCCTTAGAAAGAAGGTTTTG	59.640	40.000	1.74	0.00	44.02	2.44
86	87	5.516044	ACACACCCTTAGAAAGAAGGTTTT	58.484	37.500	1.74	0.00	44.02	2.43
87	88	5.125367	ACACACCCTTAGAAAGAAGGTTT	57.875	39.130	1.74	0.00	44.02	3.27
88	89	4.790718	ACACACCCTTAGAAAGAAGGTT	57.209	40.909	1.74	0.00	44.02	3.50
89	90	4.790718	AACACACCCTTAGAAAGAAGGT	57.209	40.909	1.74	0.00	44.02	3.50
90	91	4.278419	CCAAACACACCCTTAGAAAGAAGG	59.722	45.833	0.00	0.00	44.96	3.46
91	92	4.887655	ACCAAACACACCCTTAGAAAGAAG	59.112	41.667	0.00	0.00	0.00	2.85
92	93	4.862371	ACCAAACACACCCTTAGAAAGAA	58.138	39.130	0.00	0.00	0.00	2.52
93	94	4.513406	ACCAAACACACCCTTAGAAAGA	57.487	40.909	0.00	0.00	0.00	2.52
94	95	4.642885	TGAACCAAACACACCCTTAGAAAG	59.357	41.667	0.00	0.00	0.00	2.62
95	96	4.399934	GTGAACCAAACACACCCTTAGAAA	59.600	41.667	0.00	0.00	38.05	2.52
96	97	3.949113	GTGAACCAAACACACCCTTAGAA	59.051	43.478	0.00	0.00	38.05	2.10
97	98	3.054287	TGTGAACCAAACACACCCTTAGA	60.054	43.478	0.00	0.00	42.20	2.10
98	99	3.283751	TGTGAACCAAACACACCCTTAG	58.716	45.455	0.00	0.00	42.20	2.18
99	100	3.283751	CTGTGAACCAAACACACCCTTA	58.716	45.455	0.00	0.00	42.20	2.69
889	968	9.251440	GGTGAGTGGTATAATATATACTGGTGA	57.749	37.037	7.30	0.00	0.00	4.02
890	969	9.031537	TGGTGAGTGGTATAATATATACTGGTG	57.968	37.037	7.30	0.00	0.00	4.17
891	970	9.256228	CTGGTGAGTGGTATAATATATACTGGT	57.744	37.037	7.30	0.00	0.00	4.00
892	971	9.256228	ACTGGTGAGTGGTATAATATATACTGG	57.744	37.037	7.30	0.00	0.00	4.00
896	975	8.967918	GCTGACTGGTGAGTGGTATAATATATA	58.032	37.037	0.00	0.00	30.16	0.86
897	976	7.093289	GGCTGACTGGTGAGTGGTATAATATAT	60.093	40.741	0.00	0.00	30.16	0.86
898	977	6.210784	GGCTGACTGGTGAGTGGTATAATATA	59.789	42.308	0.00	0.00	30.16	0.86
899	978	5.012148	GGCTGACTGGTGAGTGGTATAATAT	59.988	44.000	0.00	0.00	30.16	1.28
902	981	2.500098	GGCTGACTGGTGAGTGGTATAA	59.500	50.000	0.00	0.00	30.16	0.98
909	988	0.760567	TGACTGGCTGACTGGTGAGT	60.761	55.000	0.00	0.00	33.98	3.41
931	1010	0.040942	TGGTGGTGAATGGGAATGGG	59.959	55.000	0.00	0.00	0.00	4.00
1012	1091	1.135333	CAGGAGGAAGAAGACGTAGGC	59.865	57.143	0.00	0.00	0.00	3.93
1041	1120	1.751924	GTAGAGGACTCGCAGGTTGAT	59.248	52.381	0.00	0.00	34.09	2.57
1229	1311	3.430862	ACAATGCGGCGATGCGTT	61.431	55.556	12.98	0.00	44.60	4.84
1293	1375	2.034532	TCCGAGTACACCTCCGCA	59.965	61.111	0.00	0.00	36.82	5.69
1510	1592	2.030412	TGACAGCAACGCCGTGAT	59.970	55.556	0.00	0.00	0.00	3.06
1542	1624	2.176247	ATCAGTCACTAATCCCGGGT	57.824	50.000	22.86	4.16	0.00	5.28
1545	1627	2.922758	GCGCTATCAGTCACTAATCCCG	60.923	54.545	0.00	0.00	0.00	5.14
1564	1646	3.112075	ATGCTCAACACGGACGCG	61.112	61.111	3.53	3.53	0.00	6.01
1629	1711	1.355005	AAAAACCACGCACTTGCAAC	58.645	45.000	0.00	0.00	42.21	4.17
1796	1884	4.388773	CGACACACATGCACTAACTAACAT	59.611	41.667	0.00	0.00	0.00	2.71
1801	1889	2.135139	CACGACACACATGCACTAACT	58.865	47.619	0.00	0.00	0.00	2.24
1805	1893	0.179059	TTCCACGACACACATGCACT	60.179	50.000	0.00	0.00	0.00	4.40
2022	2114	1.556911	GGAGGACAGACACACCATCAT	59.443	52.381	0.00	0.00	0.00	2.45
2037	2129	3.432186	CGATGGTCTAAAATGCTGGAGGA	60.432	47.826	0.00	0.00	0.00	3.71
2103	2196	4.040952	AGGGGAGAGGATAATGATGTTTCG	59.959	45.833	0.00	0.00	0.00	3.46
2168	2276	2.184322	GGAGCGGCGAGATTGACA	59.816	61.111	12.98	0.00	0.00	3.58
2288	2426	1.377463	AGCGAGACGGAGCAGTAGT	60.377	57.895	0.00	0.00	35.48	2.73
2314	2452	0.757188	CAGACCCATAGGCTCCTCGT	60.757	60.000	0.00	0.00	36.11	4.18
2498	2658	2.125912	CCGGTCTCCAGAACAGCG	60.126	66.667	0.00	0.00	0.00	5.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.