AutoCloner

Multiple sequence alignment - TraesCS7B01G090400

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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	TraesCS7B01G090400	chr7B	100.000	3447	0	0	1	3447	104568795	104565349	0.000000e+00	6366
1	TraesCS7B01G090400	chr7B	90.946	1226	72	14	1313	2531	105506591	105507784	0.000000e+00	1613
2	TraesCS7B01G090400	chr7B	80.592	912	126	29	2541	3427	105507846	105508731	0.000000e+00	656
3	TraesCS7B01G090400	chr7B	92.208	154	12	0	992	1145	105506143	105506296	5.790000e-53	219
4	TraesCS7B01G090400	chr7D	89.622	3488	224	41	1	3447	139311430	139308040	0.000000e+00	4309
5	TraesCS7B01G090400	chr7D	92.049	1132	73	7	1407	2531	140307790	140308911	0.000000e+00	1576
6	TraesCS7B01G090400	chr7D	79.679	935	126	34	2533	3440	140308965	140309862	1.760000e-172	616
7	TraesCS7B01G090400	chr7D	94.706	340	18	0	992	1331	140307057	140307396	2.360000e-146	529
8	TraesCS7B01G090400	chr7D	94.158	291	17	0	1004	1294	554677227	554677517	8.780000e-121	444
9	TraesCS7B01G090400	chr7D	77.316	626	90	23	169	784	175917725	175918308	4.290000e-84	322
10	TraesCS7B01G090400	chr7D	84.874	119	11	4	3316	3434	140312159	140312270	2.810000e-21	113
11	TraesCS7B01G090400	chr7A	88.745	1848	143	29	1587	3420	139425777	139423981	0.000000e+00	2200
12	TraesCS7B01G090400	chr7A	92.126	1524	88	7	1016	2531	140652242	140653741	0.000000e+00	2121
13	TraesCS7B01G090400	chr7A	80.258	932	126	28	2533	3440	140653795	140654692	0.000000e+00	649
14	TraesCS7B01G090400	chr7A	76.705	601	123	12	212	801	568486672	568486078	5.550000e-83	318
15	TraesCS7B01G090400	chr1D	80.609	624	106	11	199	811	293617004	293617623	5.210000e-128	468
16	TraesCS7B01G090400	chr1D	80.905	597	95	15	168	754	100901947	100902534	1.460000e-123	453
17	TraesCS7B01G090400	chrUn	80.480	625	103	14	167	782	223002376	223001762	8.720000e-126	460
18	TraesCS7B01G090400	chrUn	81.481	513	82	9	166	673	17329372	17329876	3.200000e-110	409
19	TraesCS7B01G090400	chr1B	79.756	657	111	17	169	811	394913399	394914047	1.130000e-124	457
20	TraesCS7B01G090400	chr1B	79.263	651	109	21	168	806	644606472	644605836	6.830000e-117	431
21	TraesCS7B01G090400	chr3D	80.320	625	103	14	167	782	29494028	29493415	4.060000e-124	455
22	TraesCS7B01G090400	chr3D	80.160	625	104	14	167	782	29565897	29565284	1.890000e-122	449
23	TraesCS7B01G090400	chr4D	79.148	681	113	18	155	825	419337095	419336434	8.780000e-121	444
24	TraesCS7B01G090400	chr5B	80.168	595	100	15	236	820	535398788	535398202	2.460000e-116	429
25	TraesCS7B01G090400	chr5A	77.335	653	123	17	169	810	54458161	54458799	2.530000e-96	363
26	TraesCS7B01G090400	chr5D	77.425	598	90	27	235	821	87163170	87162607	7.180000e-82	315

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	TraesCS7B01G090400	chr7B	104565349	104568795	3446	True	6366.000000	6366	100.000000	1	3447	1	chr7B.!!$R1	3446
1	TraesCS7B01G090400	chr7B	105506143	105508731	2588	False	829.333333	1613	87.915333	992	3427	3	chr7B.!!$F1	2435
2	TraesCS7B01G090400	chr7D	139308040	139311430	3390	True	4309.000000	4309	89.622000	1	3447	1	chr7D.!!$R1	3446
3	TraesCS7B01G090400	chr7D	140307057	140312270	5213	False	708.500000	1576	87.827000	992	3440	4	chr7D.!!$F3	2448
4	TraesCS7B01G090400	chr7D	175917725	175918308	583	False	322.000000	322	77.316000	169	784	1	chr7D.!!$F1	615
5	TraesCS7B01G090400	chr7A	139423981	139425777	1796	True	2200.000000	2200	88.745000	1587	3420	1	chr7A.!!$R1	1833
6	TraesCS7B01G090400	chr7A	140652242	140654692	2450	False	1385.000000	2121	86.192000	1016	3440	2	chr7A.!!$F1	2424
7	TraesCS7B01G090400	chr7A	568486078	568486672	594	True	318.000000	318	76.705000	212	801	1	chr7A.!!$R2	589
8	TraesCS7B01G090400	chr1D	293617004	293617623	619	False	468.000000	468	80.609000	199	811	1	chr1D.!!$F2	612
9	TraesCS7B01G090400	chr1D	100901947	100902534	587	False	453.000000	453	80.905000	168	754	1	chr1D.!!$F1	586
10	TraesCS7B01G090400	chrUn	223001762	223002376	614	True	460.000000	460	80.480000	167	782	1	chrUn.!!$R1	615
11	TraesCS7B01G090400	chrUn	17329372	17329876	504	False	409.000000	409	81.481000	166	673	1	chrUn.!!$F1	507
12	TraesCS7B01G090400	chr1B	394913399	394914047	648	False	457.000000	457	79.756000	169	811	1	chr1B.!!$F1	642
13	TraesCS7B01G090400	chr1B	644605836	644606472	636	True	431.000000	431	79.263000	168	806	1	chr1B.!!$R1	638
14	TraesCS7B01G090400	chr3D	29493415	29494028	613	True	455.000000	455	80.320000	167	782	1	chr3D.!!$R1	615
15	TraesCS7B01G090400	chr3D	29565284	29565897	613	True	449.000000	449	80.160000	167	782	1	chr3D.!!$R2	615
16	TraesCS7B01G090400	chr4D	419336434	419337095	661	True	444.000000	444	79.148000	155	825	1	chr4D.!!$R1	670
17	TraesCS7B01G090400	chr5B	535398202	535398788	586	True	429.000000	429	80.168000	236	820	1	chr5B.!!$R1	584
18	TraesCS7B01G090400	chr5A	54458161	54458799	638	False	363.000000	363	77.335000	169	810	1	chr5A.!!$F1	641
19	TraesCS7B01G090400	chr5D	87162607	87163170	563	True	315.000000	315	77.425000	235	821	1	chr5D.!!$R1	586

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
945	974	0.108898	CGGCCCAAATGAAAATGCGA	60.109	50.0	0.0	0.0	0.0	5.10	F
1196	1252	0.325671	ATCCTCTCCTTCCTCCGCAA	60.326	55.0	0.0	0.0	0.0	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2212	2744	0.035534	ACACCTCAACATATGCGCCA	60.036	50.0	4.18	0.0	0.00	5.69	R
3030	3644	0.033208	TTGCCAGGATGATGTTCCCC	60.033	55.0	0.00	0.0	39.69	4.81	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
78	79	7.589958	AGATAAGACATTCTCGGTCACTATT	57.410	36.000	0.00	0.00	37.74	1.73
79	80	7.429633	AGATAAGACATTCTCGGTCACTATTG	58.570	38.462	0.00	0.00	37.74	1.90
84	85	6.369065	AGACATTCTCGGTCACTATTGTTTTC	59.631	38.462	0.00	0.00	37.74	2.29
85	86	5.995282	ACATTCTCGGTCACTATTGTTTTCA	59.005	36.000	0.00	0.00	0.00	2.69
86	87	6.655003	ACATTCTCGGTCACTATTGTTTTCAT	59.345	34.615	0.00	0.00	0.00	2.57
94	97	6.316390	GGTCACTATTGTTTTCATAGGGAGTG	59.684	42.308	0.00	0.00	31.66	3.51
95	98	6.879458	GTCACTATTGTTTTCATAGGGAGTGT	59.121	38.462	0.00	0.00	31.66	3.55
114	117	7.284716	GGGAGTGTTACTATTTTTATCTTGGGG	59.715	40.741	0.00	0.00	0.00	4.96
118	121	6.540914	TGTTACTATTTTTATCTTGGGGCTCG	59.459	38.462	0.00	0.00	0.00	5.03
127	130	1.203001	TCTTGGGGCTCGGACAATTTT	60.203	47.619	0.00	0.00	0.00	1.82
128	131	1.618343	CTTGGGGCTCGGACAATTTTT	59.382	47.619	0.00	0.00	0.00	1.94
159	162	4.625607	AAAGGAAAGGTGAGTTCGATCT	57.374	40.909	0.00	0.00	0.00	2.75
304	310	8.620416	GCAATAAATTCTTTTGGAAACACCTTT	58.380	29.630	0.00	0.00	42.67	3.11
371	378	5.048507	CGGTAAAGAGGCTACAATTAGACC	58.951	45.833	0.00	0.00	33.02	3.85
379	386	3.267483	GCTACAATTAGACCGGAGCAAA	58.733	45.455	9.46	0.00	0.00	3.68
390	397	2.026262	ACCGGAGCAAAGGTGTTATCAT	60.026	45.455	9.46	0.00	39.66	2.45
455	462	0.804989	CTTGAGCCGTCCATCCAAAC	59.195	55.000	0.00	0.00	0.00	2.93
460	467	1.837439	AGCCGTCCATCCAAACAGATA	59.163	47.619	0.00	0.00	0.00	1.98
461	468	2.238646	AGCCGTCCATCCAAACAGATAA	59.761	45.455	0.00	0.00	0.00	1.75
471	478	6.405176	CCATCCAAACAGATAAAAGAAGCCTC	60.405	42.308	0.00	0.00	0.00	4.70
478	485	4.679197	CAGATAAAAGAAGCCTCGATCGAG	59.321	45.833	33.32	33.32	41.63	4.04
495	502	0.252197	GAGGAACGTACTTGGGCCAT	59.748	55.000	7.26	0.00	0.00	4.40
504	511	3.244561	CGTACTTGGGCCATGGATAATCT	60.245	47.826	18.40	3.40	0.00	2.40
523	530	1.192146	TCCTAGAAGTGCAGGCCGTT	61.192	55.000	0.00	0.00	0.00	4.44
554	561	7.279313	CACAATATCTTCATCATGATGCCGATA	59.721	37.037	28.95	28.95	38.65	2.92
567	574	7.446319	TCATGATGCCGATAAAGAGATTTCAAT	59.554	33.333	0.00	0.00	0.00	2.57
633	642	9.274206	ACATCAACTCATCAGATCTGAATAATG	57.726	33.333	28.40	21.06	43.58	1.90
674	685	2.441750	ACTTTCTAACCTCAAGGCACCA	59.558	45.455	0.00	0.00	39.32	4.17
754	778	7.981789	AGAATATACAACTCTTGAAGATGCGAA	59.018	33.333	0.00	0.00	31.17	4.70
758	782	4.024556	ACAACTCTTGAAGATGCGAAGTTG	60.025	41.667	16.36	16.36	39.66	3.16
764	790	0.323725	AAGATGCGAAGTTGCCCCAT	60.324	50.000	0.00	0.00	0.00	4.00
853	882	1.852895	GCGACAAGTTAGGTATGCTCG	59.147	52.381	0.00	0.00	0.00	5.03
908	937	1.359848	AGACAAATGACGCGACCATC	58.640	50.000	15.93	0.00	0.00	3.51
913	942	3.740128	ATGACGCGACCATCCAGCC	62.740	63.158	15.93	0.00	0.00	4.85
925	954	2.689983	CCATCCAGCCCACTAAATGTTC	59.310	50.000	0.00	0.00	0.00	3.18
935	964	2.495669	CACTAAATGTTCCGGCCCAAAT	59.504	45.455	0.00	0.00	0.00	2.32
936	965	2.495669	ACTAAATGTTCCGGCCCAAATG	59.504	45.455	0.00	0.00	0.00	2.32
941	970	1.974236	TGTTCCGGCCCAAATGAAAAT	59.026	42.857	0.00	0.00	0.00	1.82
942	971	2.289320	TGTTCCGGCCCAAATGAAAATG	60.289	45.455	0.00	0.00	0.00	2.32
943	972	0.248843	TCCGGCCCAAATGAAAATGC	59.751	50.000	0.00	0.00	0.00	3.56
944	973	1.083242	CCGGCCCAAATGAAAATGCG	61.083	55.000	0.00	0.00	0.00	4.73
945	974	0.108898	CGGCCCAAATGAAAATGCGA	60.109	50.000	0.00	0.00	0.00	5.10
946	975	1.643880	GGCCCAAATGAAAATGCGAG	58.356	50.000	0.00	0.00	0.00	5.03
947	976	1.066929	GGCCCAAATGAAAATGCGAGT	60.067	47.619	0.00	0.00	0.00	4.18
948	977	2.165437	GGCCCAAATGAAAATGCGAGTA	59.835	45.455	0.00	0.00	0.00	2.59
949	978	3.438360	GCCCAAATGAAAATGCGAGTAG	58.562	45.455	0.00	0.00	0.00	2.57
950	979	3.128589	GCCCAAATGAAAATGCGAGTAGA	59.871	43.478	0.00	0.00	0.00	2.59
954	1010	6.813152	CCCAAATGAAAATGCGAGTAGAAAAT	59.187	34.615	0.00	0.00	0.00	1.82
978	1034	0.597637	CAGTCGAAGTCAACACCGCT	60.598	55.000	0.00	0.00	0.00	5.52
980	1036	1.300620	TCGAAGTCAACACCGCTGG	60.301	57.895	0.00	0.00	0.00	4.85
1069	1125	1.536073	CGAGCTCTTCCAGACCACCA	61.536	60.000	12.85	0.00	0.00	4.17
1074	1130	1.669115	CTTCCAGACCACCACAGCG	60.669	63.158	0.00	0.00	0.00	5.18
1107	1163	4.168291	GGCGCTTCCTCCCCTCTG	62.168	72.222	7.64	0.00	0.00	3.35
1196	1252	0.325671	ATCCTCTCCTTCCTCCGCAA	60.326	55.000	0.00	0.00	0.00	4.85
1276	1332	3.707640	CTCGACGGCCTCCTCCTCT	62.708	68.421	0.00	0.00	0.00	3.69
1311	1494	3.003173	TCCGCCTTCTCCCCACTG	61.003	66.667	0.00	0.00	0.00	3.66
1612	2135	4.666253	GCCCCTGCCACAGCTTCA	62.666	66.667	0.00	0.00	40.80	3.02
1666	2189	2.125147	GTGCTGTCTATGGCCGCA	60.125	61.111	0.00	0.00	0.00	5.69
1667	2190	1.745115	GTGCTGTCTATGGCCGCAA	60.745	57.895	0.00	0.00	31.77	4.85
1668	2191	1.745115	TGCTGTCTATGGCCGCAAC	60.745	57.895	0.00	0.00	0.00	4.17
1669	2192	1.745115	GCTGTCTATGGCCGCAACA	60.745	57.895	0.00	0.00	0.00	3.33
1670	2193	1.709147	GCTGTCTATGGCCGCAACAG	61.709	60.000	18.09	18.09	40.19	3.16
1671	2194	1.709147	CTGTCTATGGCCGCAACAGC	61.709	60.000	12.58	0.00	31.87	4.40
2059	2591	1.595093	CCGGTGAGGTTTTCATGGCC	61.595	60.000	0.00	0.00	38.29	5.36
2212	2744	1.040339	ATTGGGTGTTTGTGGCACGT	61.040	50.000	13.77	0.00	37.70	4.49
2309	2841	3.158648	TAGGGAACGGGCCATCGG	61.159	66.667	4.39	0.00	0.00	4.18
2320	2852	4.218722	CCATCGGTGGTTACTGCC	57.781	61.111	6.53	0.00	40.83	4.85
2437	2969	3.185246	AGTGCTTCTGGGACAATATCG	57.815	47.619	0.00	0.00	38.70	2.92
2458	2997	3.056107	CGGGTGAATAGAGGAACAAGACA	60.056	47.826	0.00	0.00	0.00	3.41
2482	3021	9.467258	ACAACACATGTAAGAAATCTCAAATTG	57.533	29.630	0.00	0.00	41.63	2.32
2618	3211	8.450578	AAAAGATCAACAGTAACACAGATCAA	57.549	30.769	0.00	0.00	35.52	2.57
2653	3247	9.768662	AAGCAAAAGTGAAATAGAATTGATTGT	57.231	25.926	0.00	0.00	0.00	2.71
2684	3278	5.806654	ATTGCTTGGTTCCTTTGTGTAAT	57.193	34.783	0.00	0.00	0.00	1.89
2694	3288	7.163441	GGTTCCTTTGTGTAATTGAGGTAGTA	58.837	38.462	0.00	0.00	0.00	1.82
2818	3412	6.732154	TCATGTTTGAGAGAAAAAGCTTCTG	58.268	36.000	0.00	0.00	0.00	3.02
3112	3744	7.916450	GTGTAACTCATATCTTCCACTACAGTC	59.084	40.741	0.00	0.00	0.00	3.51
3216	3851	5.998363	AGGTTAGGAATCTCAAACTCAACAC	59.002	40.000	0.00	0.00	0.00	3.32
3291	3926	0.389817	GGAATTTCAAACTGGCCGCC	60.390	55.000	1.04	1.04	0.00	6.13
3427	4069	5.481122	GCCCATTAAGTAAAACCCCACTAAA	59.519	40.000	0.00	0.00	0.00	1.85

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
46	47	9.099454	GACCGAGAATGTCTTATCTTTGTTTAT	57.901	33.333	0.00	0.00	0.00	1.40
47	48	8.092068	TGACCGAGAATGTCTTATCTTTGTTTA	58.908	33.333	0.00	0.00	33.83	2.01
48	49	6.934645	TGACCGAGAATGTCTTATCTTTGTTT	59.065	34.615	0.00	0.00	33.83	2.83
49	50	6.369065	GTGACCGAGAATGTCTTATCTTTGTT	59.631	38.462	0.00	0.00	33.83	2.83
50	51	5.869888	GTGACCGAGAATGTCTTATCTTTGT	59.130	40.000	0.00	0.00	33.83	2.83
51	52	6.102663	AGTGACCGAGAATGTCTTATCTTTG	58.897	40.000	0.00	0.00	33.83	2.77
52	53	6.287589	AGTGACCGAGAATGTCTTATCTTT	57.712	37.500	0.00	0.00	33.83	2.52
53	54	5.923733	AGTGACCGAGAATGTCTTATCTT	57.076	39.130	0.00	0.00	33.83	2.40
54	55	7.068839	ACAATAGTGACCGAGAATGTCTTATCT	59.931	37.037	0.00	0.00	33.83	1.98
62	63	6.480524	TGAAAACAATAGTGACCGAGAATG	57.519	37.500	0.00	0.00	0.00	2.67
63	64	7.495934	CCTATGAAAACAATAGTGACCGAGAAT	59.504	37.037	0.00	0.00	0.00	2.40
66	67	5.523916	CCCTATGAAAACAATAGTGACCGAG	59.476	44.000	0.00	0.00	0.00	4.63
68	69	5.424757	TCCCTATGAAAACAATAGTGACCG	58.575	41.667	0.00	0.00	0.00	4.79
78	79	9.802039	AAAATAGTAACACTCCCTATGAAAACA	57.198	29.630	0.00	0.00	0.00	2.83
94	97	6.017357	CCGAGCCCCAAGATAAAAATAGTAAC	60.017	42.308	0.00	0.00	0.00	2.50
95	98	6.059484	CCGAGCCCCAAGATAAAAATAGTAA	58.941	40.000	0.00	0.00	0.00	2.24
128	131	5.650703	ACTCACCTTTCCTTTTCTCGAAAAA	59.349	36.000	6.33	0.00	39.49	1.94
147	150	5.659048	AAACTTGTTGAGATCGAACTCAC	57.341	39.130	23.31	17.91	44.94	3.51
278	284	7.728847	AGGTGTTTCCAAAAGAATTTATTGC	57.271	32.000	0.00	0.00	37.28	3.56
304	310	6.747125	TCTAGCTGAAATTGATGCAACAAAA	58.253	32.000	13.75	0.00	33.44	2.44
330	336	9.292195	TCTTTACCGAAATCTTTGGAGTATTTT	57.708	29.630	0.00	0.00	0.00	1.82
371	378	4.701956	AAATGATAACACCTTTGCTCCG	57.298	40.909	0.00	0.00	0.00	4.63
455	462	4.611943	TCGATCGAGGCTTCTTTTATCTG	58.388	43.478	15.15	0.00	0.00	2.90
471	478	1.533338	CCCAAGTACGTTCCTCGATCG	60.533	57.143	9.36	9.36	42.86	3.69
478	485	1.029947	CCATGGCCCAAGTACGTTCC	61.030	60.000	0.00	0.00	0.00	3.62
504	511	1.192146	AACGGCCTGCACTTCTAGGA	61.192	55.000	0.00	0.00	36.11	2.94
523	530	7.120726	GCATCATGATGAAGATATTGTGATCCA	59.879	37.037	34.65	0.00	41.20	3.41
656	666	4.919774	TTATGGTGCCTTGAGGTTAGAA	57.080	40.909	0.00	0.00	37.57	2.10
736	760	4.461405	CAACTTCGCATCTTCAAGAGTTG	58.539	43.478	0.00	0.00	0.00	3.16
754	778	1.606531	GCTGAGAGATGGGGCAACT	59.393	57.895	0.00	0.00	0.00	3.16
758	782	4.925861	GGCGCTGAGAGATGGGGC	62.926	72.222	7.64	0.00	38.02	5.80
764	790	1.260538	ACCATCTTGGCGCTGAGAGA	61.261	55.000	7.64	6.19	42.67	3.10
789	815	2.112279	ATATTTGGTCCCCTCGCCTA	57.888	50.000	0.00	0.00	0.00	3.93
825	854	2.877360	CTAACTTGTCGCCGCCGCTA	62.877	60.000	0.00	0.00	0.00	4.26
826	855	4.367023	TAACTTGTCGCCGCCGCT	62.367	61.111	0.00	0.00	0.00	5.52
827	856	3.849953	CTAACTTGTCGCCGCCGC	61.850	66.667	0.00	0.00	0.00	6.53
828	857	2.546645	TACCTAACTTGTCGCCGCCG	62.547	60.000	0.00	0.00	0.00	6.46
829	858	0.179092	ATACCTAACTTGTCGCCGCC	60.179	55.000	0.00	0.00	0.00	6.13
830	859	0.928229	CATACCTAACTTGTCGCCGC	59.072	55.000	0.00	0.00	0.00	6.53
831	860	0.928229	GCATACCTAACTTGTCGCCG	59.072	55.000	0.00	0.00	0.00	6.46
832	861	2.202566	GAGCATACCTAACTTGTCGCC	58.797	52.381	0.00	0.00	0.00	5.54
833	862	1.852895	CGAGCATACCTAACTTGTCGC	59.147	52.381	0.00	0.00	0.00	5.19
834	863	1.852895	GCGAGCATACCTAACTTGTCG	59.147	52.381	0.00	0.00	0.00	4.35
835	864	3.166489	AGCGAGCATACCTAACTTGTC	57.834	47.619	0.00	0.00	0.00	3.18
836	865	4.308899	CTAGCGAGCATACCTAACTTGT	57.691	45.455	0.00	0.00	0.00	3.16
908	937	1.094785	CGGAACATTTAGTGGGCTGG	58.905	55.000	0.00	0.00	0.00	4.85
913	942	0.322997	TGGGCCGGAACATTTAGTGG	60.323	55.000	5.05	0.00	0.00	4.00
925	954	1.083242	CGCATTTTCATTTGGGCCGG	61.083	55.000	0.00	0.00	0.00	6.13
935	964	8.262715	TGACATATTTTCTACTCGCATTTTCA	57.737	30.769	0.00	0.00	0.00	2.69
936	965	8.391106	ACTGACATATTTTCTACTCGCATTTTC	58.609	33.333	0.00	0.00	0.00	2.29
941	970	5.034797	CGACTGACATATTTTCTACTCGCA	58.965	41.667	0.00	0.00	0.00	5.10
942	971	5.271625	TCGACTGACATATTTTCTACTCGC	58.728	41.667	0.00	0.00	0.00	5.03
943	972	6.967767	ACTTCGACTGACATATTTTCTACTCG	59.032	38.462	0.00	0.00	0.00	4.18
944	973	7.968956	TGACTTCGACTGACATATTTTCTACTC	59.031	37.037	0.00	0.00	0.00	2.59
945	974	7.827701	TGACTTCGACTGACATATTTTCTACT	58.172	34.615	0.00	0.00	0.00	2.57
946	975	8.373992	GTTGACTTCGACTGACATATTTTCTAC	58.626	37.037	0.00	0.00	0.00	2.59
947	976	8.085909	TGTTGACTTCGACTGACATATTTTCTA	58.914	33.333	0.00	0.00	0.00	2.10
948	977	6.929049	TGTTGACTTCGACTGACATATTTTCT	59.071	34.615	0.00	0.00	0.00	2.52
949	978	7.010023	GTGTTGACTTCGACTGACATATTTTC	58.990	38.462	0.00	0.00	0.00	2.29
950	979	6.073222	GGTGTTGACTTCGACTGACATATTTT	60.073	38.462	0.00	0.00	0.00	1.82
954	1010	3.610821	CGGTGTTGACTTCGACTGACATA	60.611	47.826	0.00	0.00	0.00	2.29
978	1034	0.906775	GTGGGGAATTCTCGGTACCA	59.093	55.000	13.54	0.00	0.00	3.25
980	1036	0.179702	GGGTGGGGAATTCTCGGTAC	59.820	60.000	5.23	1.65	0.00	3.34
1308	1364	4.008933	GTGGGGCGCAGAGACAGT	62.009	66.667	10.83	0.00	0.00	3.55
1666	2189	1.961277	CGTTTCTGAGGCCGCTGTT	60.961	57.895	8.34	0.00	0.00	3.16
1667	2190	2.357517	CGTTTCTGAGGCCGCTGT	60.358	61.111	8.34	0.00	0.00	4.40
1668	2191	3.121030	CCGTTTCTGAGGCCGCTG	61.121	66.667	8.34	7.65	0.00	5.18
1674	2197	1.300620	TGTGACGCCGTTTCTGAGG	60.301	57.895	0.00	0.00	0.00	3.86
1855	2387	1.572085	CCGCAAGCAAGAGACTGTGG	61.572	60.000	0.00	0.00	0.00	4.17
1897	2429	1.663695	GTATGTCACCCACCATTCCG	58.336	55.000	0.00	0.00	0.00	4.30
2059	2591	2.820787	ACCACTAAGTCTCCTCAAGTCG	59.179	50.000	0.00	0.00	0.00	4.18
2212	2744	0.035534	ACACCTCAACATATGCGCCA	60.036	50.000	4.18	0.00	0.00	5.69
2309	2841	2.025418	CACCGTCGGCAGTAACCAC	61.025	63.158	12.28	0.00	0.00	4.16
2320	2852	1.313091	TGTCCATCTCCTCACCGTCG	61.313	60.000	0.00	0.00	0.00	5.12
2437	2969	4.553330	TGTCTTGTTCCTCTATTCACCC	57.447	45.455	0.00	0.00	0.00	4.61
2458	2997	8.859090	TCCAATTTGAGATTTCTTACATGTGTT	58.141	29.630	9.11	0.00	0.00	3.32
2482	3021	5.249420	AGAGGTAAACAAGAAGAGCAATCC	58.751	41.667	0.00	0.00	0.00	3.01
2591	3184	8.344831	TGATCTGTGTTACTGTTGATCTTTTTG	58.655	33.333	0.00	0.00	33.57	2.44
2592	3185	8.450578	TGATCTGTGTTACTGTTGATCTTTTT	57.549	30.769	0.00	0.00	33.57	1.94
2635	3228	8.514594	TCTGGTTCACAATCAATTCTATTTCAC	58.485	33.333	0.00	0.00	0.00	3.18
2684	3278	5.129815	ACAGTGACCAAAAGTACTACCTCAA	59.870	40.000	0.00	0.00	0.00	3.02
3030	3644	0.033208	TTGCCAGGATGATGTTCCCC	60.033	55.000	0.00	0.00	39.69	4.81
3036	3650	7.888424	TGTATGATTAAATTGCCAGGATGATG	58.112	34.615	0.00	0.00	39.69	3.07
3037	3651	8.660295	ATGTATGATTAAATTGCCAGGATGAT	57.340	30.769	0.00	0.00	39.69	2.45
3038	3652	8.481492	AATGTATGATTAAATTGCCAGGATGA	57.519	30.769	0.00	0.00	39.69	2.92
3097	3729	6.620877	TTAATGTGGACTGTAGTGGAAGAT	57.379	37.500	0.00	0.00	0.00	2.40
3291	3926	5.696724	ACTTTGATAGTTTCTGTCAGAACCG	59.303	40.000	14.98	0.00	33.26	4.44

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.