AutoCloner

Multiple sequence alignment - TraesCS4D01G354900

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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	TraesCS4D01G354900	chr4D	100.000	3378	0	0	572	3949	504328418	504331795	0.000000e+00	6239.0
1	TraesCS4D01G354900	chr4D	78.431	255	49	5	2678	2929	477507107	477506856	1.140000e-35	161.0
2	TraesCS4D01G354900	chr4D	100.000	53	0	0	1	53	504327847	504327899	9.030000e-17	99.0
3	TraesCS4D01G354900	chr5A	94.951	1644	40	13	572	2185	688973167	688974797	0.000000e+00	2536.0
4	TraesCS4D01G354900	chr5A	89.644	1236	65	24	2287	3497	688974993	688976190	0.000000e+00	1515.0
5	TraesCS4D01G354900	chr5A	85.437	309	24	9	3493	3784	688976292	688976596	6.410000e-78	302.0
6	TraesCS4D01G354900	chr5A	98.113	53	1	0	1	53	688972992	688973044	4.200000e-15	93.5
7	TraesCS4D01G354900	chr4B	94.951	1624	50	16	574	2177	650960335	650961946	0.000000e+00	2516.0
8	TraesCS4D01G354900	chr4B	90.609	1789	79	39	2220	3949	650962062	650963820	0.000000e+00	2290.0
9	TraesCS4D01G354900	chr4B	79.259	270	46	9	2666	2929	602448976	602448711	3.140000e-41	180.0
10	TraesCS4D01G354900	chr4B	100.000	53	0	0	1	53	650959922	650959974	9.030000e-17	99.0
11	TraesCS4D01G354900	chr1B	83.179	1189	167	19	1000	2158	398005998	398007183	0.000000e+00	1057.0
12	TraesCS4D01G354900	chr1B	81.736	553	93	6	1020	1568	270792751	270793299	4.650000e-124	455.0
13	TraesCS4D01G354900	chr1D	82.955	1191	168	27	1000	2159	296489213	296490399	0.000000e+00	1042.0
14	TraesCS4D01G354900	chr1D	95.556	45	2	0	2557	2601	490538228	490538184	5.470000e-09	73.1
15	TraesCS4D01G354900	chr1A	82.510	1195	166	32	1000	2159	369322660	369323846	0.000000e+00	1009.0
16	TraesCS4D01G354900	chr6D	82.069	580	96	7	1046	1621	463549388	463548813	4.590000e-134	488.0
17	TraesCS4D01G354900	chr6D	82.738	168	25	4	2676	2841	463547473	463547308	3.180000e-31	147.0
18	TraesCS4D01G354900	chr6B	82.056	574	95	7	1043	1612	706910991	706911560	2.130000e-132	483.0
19	TraesCS4D01G354900	chr6A	81.850	573	98	5	1043	1612	610203873	610204442	9.930000e-131	477.0
20	TraesCS4D01G354900	chr6A	79.433	282	51	7	2664	2940	610205963	610206242	4.030000e-45	193.0
21	TraesCS4D01G354900	chr6A	89.474	57	3	3	2548	2603	98239227	98239173	7.080000e-08	69.4
22	TraesCS4D01G354900	chr4A	78.261	253	53	2	2678	2929	684269728	684269477	1.140000e-35	161.0
23	TraesCS4D01G354900	chr3B	97.500	40	0	1	2562	2601	23785823	23785861	2.550000e-07	67.6
24	TraesCS4D01G354900	chr7B	93.478	46	0	3	2561	2605	34327088	34327045	9.160000e-07	65.8
25	TraesCS4D01G354900	chr3A	90.196	51	3	2	2554	2603	576657858	576657809	9.160000e-07	65.8
26	TraesCS4D01G354900	chr2D	88.235	51	5	1	2545	2594	545037156	545037206	4.260000e-05	60.2
27	TraesCS4D01G354900	chr2D	87.037	54	5	2	2565	2617	628013120	628013172	4.260000e-05	60.2
28	TraesCS4D01G354900	chr5D	87.273	55	2	5	2549	2601	565059342	565059393	1.530000e-04	58.4

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	TraesCS4D01G354900	chr4D	504327847	504331795	3948	False	3169.000	6239	100.000000	1	3949	2	chr4D.!!$F1	3948
1	TraesCS4D01G354900	chr5A	688972992	688976596	3604	False	1111.625	2536	92.036250	1	3784	4	chr5A.!!$F1	3783
2	TraesCS4D01G354900	chr4B	650959922	650963820	3898	False	1635.000	2516	95.186667	1	3949	3	chr4B.!!$F1	3948
3	TraesCS4D01G354900	chr1B	398005998	398007183	1185	False	1057.000	1057	83.179000	1000	2158	1	chr1B.!!$F2	1158
4	TraesCS4D01G354900	chr1B	270792751	270793299	548	False	455.000	455	81.736000	1020	1568	1	chr1B.!!$F1	548
5	TraesCS4D01G354900	chr1D	296489213	296490399	1186	False	1042.000	1042	82.955000	1000	2159	1	chr1D.!!$F1	1159
6	TraesCS4D01G354900	chr1A	369322660	369323846	1186	False	1009.000	1009	82.510000	1000	2159	1	chr1A.!!$F1	1159
7	TraesCS4D01G354900	chr6D	463547308	463549388	2080	True	317.500	488	82.403500	1046	2841	2	chr6D.!!$R1	1795
8	TraesCS4D01G354900	chr6B	706910991	706911560	569	False	483.000	483	82.056000	1043	1612	1	chr6B.!!$F1	569
9	TraesCS4D01G354900	chr6A	610203873	610206242	2369	False	335.000	477	80.641500	1043	2940	2	chr6A.!!$F1	1897

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
980	994	1.271054	CCAAGCAGAGCACTAACCAGT	60.271	52.381	0.00	0.0	34.42	4.00	F
2493	3714	0.961019	GTGGCCAGCATCAAAAGACA	59.039	50.000	5.11	0.0	0.00	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2631	3853	0.165944	CTTACACCGCCGAAGCTTTG	59.834	55.0	6.73	6.73	36.6	2.77	R
3406	4638	0.874390	CCTGCCACATACACACACAC	59.126	55.0	0.00	0.00	0.0	3.82	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
623	626	3.054878	ACGTACGTTGTCCAAGTTCATC	58.945	45.455	16.72	0.00	0.00	2.92
624	627	3.054166	CGTACGTTGTCCAAGTTCATCA	58.946	45.455	7.22	0.00	0.00	3.07
625	628	3.678072	CGTACGTTGTCCAAGTTCATCAT	59.322	43.478	7.22	0.00	0.00	2.45
633	636	6.866010	TGTCCAAGTTCATCATATGTATGC	57.134	37.500	1.90	0.00	33.76	3.14
749	755	7.025365	CGCCTTTAGTTTACATTACCCTTTTC	58.975	38.462	0.00	0.00	0.00	2.29
866	876	1.623811	CCGCCAAGCCCTACATATACT	59.376	52.381	0.00	0.00	0.00	2.12
867	877	2.829720	CCGCCAAGCCCTACATATACTA	59.170	50.000	0.00	0.00	0.00	1.82
868	878	3.368116	CCGCCAAGCCCTACATATACTAC	60.368	52.174	0.00	0.00	0.00	2.73
931	941	4.111016	CACCACCGCTGCATGCAG	62.111	66.667	37.81	37.81	46.15	4.41
980	994	1.271054	CCAAGCAGAGCACTAACCAGT	60.271	52.381	0.00	0.00	34.42	4.00
982	996	1.638529	AGCAGAGCACTAACCAGTCT	58.361	50.000	0.00	0.00	30.46	3.24
2159	2906	1.871039	CTCCAACGTACCAACAGGTTG	59.129	52.381	5.19	5.19	41.62	3.77
2160	2907	1.209990	TCCAACGTACCAACAGGTTGT	59.790	47.619	10.91	2.77	40.81	3.32
2165	2912	3.197265	ACGTACCAACAGGTTGTTACAC	58.803	45.455	16.59	6.63	38.77	2.90
2205	3307	6.875948	TGTGCAGTACAACACTATGAAAAT	57.124	33.333	16.35	0.00	36.06	1.82
2207	3309	8.560355	TGTGCAGTACAACACTATGAAAATAT	57.440	30.769	16.35	0.00	36.06	1.28
2208	3310	9.660180	TGTGCAGTACAACACTATGAAAATATA	57.340	29.630	16.35	0.00	36.06	0.86
2237	3401	2.799126	AAAGGGTGACACTGTGACAA	57.201	45.000	15.86	0.00	0.00	3.18
2253	3417	4.217334	TGTGACAAGACAAAGCACTCAAAA	59.783	37.500	0.00	0.00	0.00	2.44
2254	3418	4.558860	GTGACAAGACAAAGCACTCAAAAC	59.441	41.667	0.00	0.00	0.00	2.43
2256	3420	4.737054	ACAAGACAAAGCACTCAAAACAG	58.263	39.130	0.00	0.00	0.00	3.16
2258	3422	4.361451	AGACAAAGCACTCAAAACAGTG	57.639	40.909	0.00	0.00	45.82	3.66
2267	3431	6.681777	AGCACTCAAAACAGTGGAAAATATC	58.318	36.000	2.93	0.00	43.61	1.63
2268	3432	5.569059	GCACTCAAAACAGTGGAAAATATCG	59.431	40.000	2.93	0.00	43.61	2.92
2282	3471	7.166473	GTGGAAAATATCGATCAATTTCTGCAC	59.834	37.037	20.54	17.89	32.14	4.57
2296	3493	7.814107	TCAATTTCTGCACATTCCAAACTAATC	59.186	33.333	0.00	0.00	0.00	1.75
2303	3500	7.946207	TGCACATTCCAAACTAATCAAAGTAA	58.054	30.769	0.00	0.00	0.00	2.24
2493	3714	0.961019	GTGGCCAGCATCAAAAGACA	59.039	50.000	5.11	0.00	0.00	3.41
2582	3804	7.166851	TCACTACTAATCTTATACTCCCTCCG	58.833	42.308	0.00	0.00	0.00	4.63
2583	3805	6.941436	CACTACTAATCTTATACTCCCTCCGT	59.059	42.308	0.00	0.00	0.00	4.69
2584	3806	7.119553	CACTACTAATCTTATACTCCCTCCGTC	59.880	44.444	0.00	0.00	0.00	4.79
2585	3807	5.323581	ACTAATCTTATACTCCCTCCGTCC	58.676	45.833	0.00	0.00	0.00	4.79
2586	3808	2.671896	TCTTATACTCCCTCCGTCCC	57.328	55.000	0.00	0.00	0.00	4.46
2588	3810	2.245546	TCTTATACTCCCTCCGTCCCAA	59.754	50.000	0.00	0.00	0.00	4.12
2589	3811	2.852714	TATACTCCCTCCGTCCCAAA	57.147	50.000	0.00	0.00	0.00	3.28
2590	3812	1.961133	ATACTCCCTCCGTCCCAAAA	58.039	50.000	0.00	0.00	0.00	2.44
2591	3813	1.961133	TACTCCCTCCGTCCCAAAAT	58.039	50.000	0.00	0.00	0.00	1.82
2592	3814	1.961133	ACTCCCTCCGTCCCAAAATA	58.039	50.000	0.00	0.00	0.00	1.40
2593	3815	2.271777	ACTCCCTCCGTCCCAAAATAA	58.728	47.619	0.00	0.00	0.00	1.40
2595	3817	2.238898	CTCCCTCCGTCCCAAAATAAGT	59.761	50.000	0.00	0.00	0.00	2.24
2597	3819	2.290705	CCCTCCGTCCCAAAATAAGTGT	60.291	50.000	0.00	0.00	0.00	3.55
2599	3821	3.307480	CCTCCGTCCCAAAATAAGTGTCT	60.307	47.826	0.00	0.00	0.00	3.41
2601	3823	2.671396	CCGTCCCAAAATAAGTGTCTCG	59.329	50.000	0.00	0.00	0.00	4.04
2602	3824	3.581755	CGTCCCAAAATAAGTGTCTCGA	58.418	45.455	0.00	0.00	0.00	4.04
2603	3825	3.991773	CGTCCCAAAATAAGTGTCTCGAA	59.008	43.478	0.00	0.00	0.00	3.71
2604	3826	4.091509	CGTCCCAAAATAAGTGTCTCGAAG	59.908	45.833	0.00	0.00	0.00	3.79
2605	3827	4.995487	GTCCCAAAATAAGTGTCTCGAAGT	59.005	41.667	0.00	0.00	0.00	3.01
2606	3828	6.161381	GTCCCAAAATAAGTGTCTCGAAGTA	58.839	40.000	0.00	0.00	0.00	2.24
2607	3829	6.310711	GTCCCAAAATAAGTGTCTCGAAGTAG	59.689	42.308	0.00	0.00	0.00	2.57
2608	3830	6.209986	TCCCAAAATAAGTGTCTCGAAGTAGA	59.790	38.462	0.00	0.00	0.00	2.59
2609	3831	7.042335	CCCAAAATAAGTGTCTCGAAGTAGAT	58.958	38.462	0.00	0.00	0.00	1.98
2610	3832	8.195436	CCCAAAATAAGTGTCTCGAAGTAGATA	58.805	37.037	0.00	0.00	0.00	1.98
2611	3833	9.751542	CCAAAATAAGTGTCTCGAAGTAGATAT	57.248	33.333	0.00	0.00	0.00	1.63
2620	3842	9.517609	GTGTCTCGAAGTAGATATGTAAATTGT	57.482	33.333	0.00	0.00	0.00	2.71
2627	3849	7.707467	AGTAGATATGTAAATTGTCCCCCTT	57.293	36.000	0.00	0.00	0.00	3.95
2631	3853	1.359818	TGTAAATTGTCCCCCTTCCCC	59.640	52.381	0.00	0.00	0.00	4.81
2659	3881	1.735559	GCGGTGTAAGTGACGGTCC	60.736	63.158	5.55	0.00	0.00	4.46
2684	3906	3.885901	TGTTTTTGGTATGTGCAGTGCTA	59.114	39.130	17.60	5.86	0.00	3.49
2728	3950	2.841988	GGCGGCTCTGATCTCCCT	60.842	66.667	0.00	0.00	0.00	4.20
2757	3979	4.363990	CTCGGTCGTGGCTGCTGT	62.364	66.667	0.00	0.00	0.00	4.40
3260	4487	4.021456	CACTGTGGACTGTACTGGTGATTA	60.021	45.833	0.00	0.00	0.00	1.75
3273	4500	4.825634	ACTGGTGATTAATCTGCATGGATG	59.174	41.667	16.24	0.00	0.00	3.51
3284	4511	5.270893	TCTGCATGGATGAATGAATTTGG	57.729	39.130	0.00	0.00	0.00	3.28
3412	4644	6.544038	TGTTATCTTGTCATCTTGTGTGTG	57.456	37.500	0.00	0.00	0.00	3.82
3478	4710	5.560724	TCTTGTTGGTTCCTCTCCTAATTG	58.439	41.667	0.00	0.00	0.00	2.32
3671	5016	6.507023	CAAATCTCACTGCCTTTAGTTTTGT	58.493	36.000	0.00	0.00	0.00	2.83
3672	5017	7.648142	CAAATCTCACTGCCTTTAGTTTTGTA	58.352	34.615	0.00	0.00	0.00	2.41
3673	5018	6.803154	ATCTCACTGCCTTTAGTTTTGTAC	57.197	37.500	0.00	0.00	0.00	2.90
3708	5053	5.872070	GGCAATCATAGTATCTAAGACCTGC	59.128	44.000	8.25	8.25	0.00	4.85
3851	5207	7.156673	ACAAAAGCAATTATTCAGCATCAAGT	58.843	30.769	0.00	0.00	0.00	3.16
3854	5210	8.611654	AAAGCAATTATTCAGCATCAAGTTTT	57.388	26.923	0.00	0.00	0.00	2.43
3904	5260	0.401738	ACACAGAGGGGTGGTGAATG	59.598	55.000	0.00	0.00	43.08	2.67

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
582	583	5.250200	ACGTATCACCAACCAATGTATGTT	58.750	37.500	0.00	0.00	0.00	2.71
624	627	9.003658	GCTAGGTGTAAGAAAATGCATACATAT	57.996	33.333	0.00	0.00	34.62	1.78
625	628	7.444183	GGCTAGGTGTAAGAAAATGCATACATA	59.556	37.037	0.00	0.00	34.62	2.29
633	636	4.843728	TCCTGGCTAGGTGTAAGAAAATG	58.156	43.478	16.69	0.00	44.88	2.32
749	755	2.625737	AGAGTCAAATGGCGTGAGATG	58.374	47.619	0.00	0.00	0.00	2.90
866	876	2.836360	GCTCGTGGATCGGGGGTA	60.836	66.667	0.00	0.00	40.86	3.69
932	942	1.880186	CTAGCTAGCTAGGCCTCGC	59.120	63.158	34.95	21.30	41.58	5.03
1014	1053	3.260100	AGCACCACCTTGGGGAGG	61.260	66.667	0.00	0.00	46.22	4.30
1836	2082	1.153842	CAGCGTCACGATGTAGGCA	60.154	57.895	7.44	0.00	38.50	4.75
2205	3307	9.613428	CAGTGTCACCCTTTTTAGATCAATATA	57.387	33.333	0.00	0.00	0.00	0.86
2207	3309	7.390440	CACAGTGTCACCCTTTTTAGATCAATA	59.610	37.037	0.00	0.00	0.00	1.90
2208	3310	6.207417	CACAGTGTCACCCTTTTTAGATCAAT	59.793	38.462	0.00	0.00	0.00	2.57
2209	3311	5.530915	CACAGTGTCACCCTTTTTAGATCAA	59.469	40.000	0.00	0.00	0.00	2.57
2210	3312	5.063204	CACAGTGTCACCCTTTTTAGATCA	58.937	41.667	0.00	0.00	0.00	2.92
2211	3313	5.179555	GTCACAGTGTCACCCTTTTTAGATC	59.820	44.000	0.00	0.00	0.00	2.75
2214	3316	4.196193	TGTCACAGTGTCACCCTTTTTAG	58.804	43.478	0.00	0.00	0.00	1.85
2216	3318	3.080300	TGTCACAGTGTCACCCTTTTT	57.920	42.857	0.00	0.00	0.00	1.94
2217	3319	2.799126	TGTCACAGTGTCACCCTTTT	57.201	45.000	0.00	0.00	0.00	2.27
2237	3401	3.129287	CCACTGTTTTGAGTGCTTTGTCT	59.871	43.478	0.00	0.00	41.85	3.41
2253	3417	8.400947	CAGAAATTGATCGATATTTTCCACTGT	58.599	33.333	17.12	3.48	0.00	3.55
2254	3418	7.377928	GCAGAAATTGATCGATATTTTCCACTG	59.622	37.037	17.12	14.39	0.00	3.66
2256	3420	7.166473	GTGCAGAAATTGATCGATATTTTCCAC	59.834	37.037	17.12	15.37	0.00	4.02
2258	3422	7.195646	TGTGCAGAAATTGATCGATATTTTCC	58.804	34.615	17.12	8.70	0.00	3.13
2267	3431	4.359971	TGGAATGTGCAGAAATTGATCG	57.640	40.909	0.00	0.00	0.00	3.69
2268	3432	6.161381	AGTTTGGAATGTGCAGAAATTGATC	58.839	36.000	0.00	0.00	0.00	2.92
2303	3500	5.008613	CAGCCGCACCAACATAATTAACTAT	59.991	40.000	0.00	0.00	0.00	2.12
2306	3503	3.434637	CAGCCGCACCAACATAATTAAC	58.565	45.455	0.00	0.00	0.00	2.01
2353	3551	5.905480	ATTCGAAAAGAAAAACCATGCAC	57.095	34.783	0.00	0.00	42.91	4.57
2556	3777	7.830201	CGGAGGGAGTATAAGATTAGTAGTGAT	59.170	40.741	0.00	0.00	0.00	3.06
2557	3778	7.166851	CGGAGGGAGTATAAGATTAGTAGTGA	58.833	42.308	0.00	0.00	0.00	3.41
2574	3796	2.238898	ACTTATTTTGGGACGGAGGGAG	59.761	50.000	0.00	0.00	0.00	4.30
2575	3797	2.026636	CACTTATTTTGGGACGGAGGGA	60.027	50.000	0.00	0.00	0.00	4.20
2576	3798	2.290705	ACACTTATTTTGGGACGGAGGG	60.291	50.000	0.00	0.00	0.00	4.30
2577	3799	3.007635	GACACTTATTTTGGGACGGAGG	58.992	50.000	0.00	0.00	0.00	4.30
2578	3800	3.933332	GAGACACTTATTTTGGGACGGAG	59.067	47.826	0.00	0.00	0.00	4.63
2579	3801	3.615592	CGAGACACTTATTTTGGGACGGA	60.616	47.826	0.00	0.00	0.00	4.69
2581	3803	3.581755	TCGAGACACTTATTTTGGGACG	58.418	45.455	0.00	0.00	0.00	4.79
2582	3804	4.995487	ACTTCGAGACACTTATTTTGGGAC	59.005	41.667	0.00	0.00	0.00	4.46
2583	3805	5.223449	ACTTCGAGACACTTATTTTGGGA	57.777	39.130	0.00	0.00	0.00	4.37
2584	3806	6.395629	TCTACTTCGAGACACTTATTTTGGG	58.604	40.000	0.00	0.00	0.00	4.12
2585	3807	9.751542	ATATCTACTTCGAGACACTTATTTTGG	57.248	33.333	0.00	0.00	0.00	3.28
2593	3815	9.737427	CAATTTACATATCTACTTCGAGACACT	57.263	33.333	0.00	0.00	0.00	3.55
2595	3817	9.731819	GACAATTTACATATCTACTTCGAGACA	57.268	33.333	0.00	0.00	0.00	3.41
2597	3819	8.358148	GGGACAATTTACATATCTACTTCGAGA	58.642	37.037	0.00	0.00	0.00	4.04
2599	3821	7.439381	GGGGACAATTTACATATCTACTTCGA	58.561	38.462	0.00	0.00	0.00	3.71
2601	3823	7.746703	AGGGGGACAATTTACATATCTACTTC	58.253	38.462	0.00	0.00	0.00	3.01
2602	3824	7.707467	AGGGGGACAATTTACATATCTACTT	57.293	36.000	0.00	0.00	0.00	2.24
2603	3825	7.202195	GGAAGGGGGACAATTTACATATCTACT	60.202	40.741	0.00	0.00	0.00	2.57
2604	3826	6.940867	GGAAGGGGGACAATTTACATATCTAC	59.059	42.308	0.00	0.00	0.00	2.59
2605	3827	6.045106	GGGAAGGGGGACAATTTACATATCTA	59.955	42.308	0.00	0.00	0.00	1.98
2606	3828	5.162980	GGGAAGGGGGACAATTTACATATCT	60.163	44.000	0.00	0.00	0.00	1.98
2607	3829	5.077564	GGGAAGGGGGACAATTTACATATC	58.922	45.833	0.00	0.00	0.00	1.63
2608	3830	4.140782	GGGGAAGGGGGACAATTTACATAT	60.141	45.833	0.00	0.00	0.00	1.78
2609	3831	3.205733	GGGGAAGGGGGACAATTTACATA	59.794	47.826	0.00	0.00	0.00	2.29
2610	3832	2.023404	GGGGAAGGGGGACAATTTACAT	60.023	50.000	0.00	0.00	0.00	2.29
2611	3833	1.359818	GGGGAAGGGGGACAATTTACA	59.640	52.381	0.00	0.00	0.00	2.41
2612	3834	1.359818	TGGGGAAGGGGGACAATTTAC	59.640	52.381	0.00	0.00	0.00	2.01
2613	3835	1.774864	TGGGGAAGGGGGACAATTTA	58.225	50.000	0.00	0.00	0.00	1.40
2614	3836	0.871024	TTGGGGAAGGGGGACAATTT	59.129	50.000	0.00	0.00	0.00	1.82
2615	3837	0.871024	TTTGGGGAAGGGGGACAATT	59.129	50.000	0.00	0.00	0.00	2.32
2616	3838	0.413434	CTTTGGGGAAGGGGGACAAT	59.587	55.000	0.00	0.00	0.00	2.71
2617	3839	1.857777	CTTTGGGGAAGGGGGACAA	59.142	57.895	0.00	0.00	0.00	3.18
2620	3842	1.782608	AAGCTTTGGGGAAGGGGGA	60.783	57.895	0.00	0.00	35.82	4.81
2627	3849	4.715523	CCGCCGAAGCTTTGGGGA	62.716	66.667	38.72	0.00	45.06	4.81
2631	3853	0.165944	CTTACACCGCCGAAGCTTTG	59.834	55.000	6.73	6.73	36.60	2.77
2659	3881	4.043750	CACTGCACATACCAAAAACACAG	58.956	43.478	0.00	0.00	0.00	3.66
2684	3906	1.553690	CCACCTCGTTCCCCATCAGT	61.554	60.000	0.00	0.00	0.00	3.41
3260	4487	6.126883	ACCAAATTCATTCATCCATGCAGATT	60.127	34.615	0.00	0.00	0.00	2.40
3284	4511	7.710044	ACATATGTGTTCTCTGATCTGATGAAC	59.290	37.037	22.95	22.95	34.01	3.18
3359	4591	9.082313	CTTAAATTCCCTTACATCTTGGCATAT	57.918	33.333	0.00	0.00	0.00	1.78
3360	4592	8.058847	ACTTAAATTCCCTTACATCTTGGCATA	58.941	33.333	0.00	0.00	0.00	3.14
3361	4593	6.897413	ACTTAAATTCCCTTACATCTTGGCAT	59.103	34.615	0.00	0.00	0.00	4.40
3362	4594	6.252995	ACTTAAATTCCCTTACATCTTGGCA	58.747	36.000	0.00	0.00	0.00	4.92
3405	4637	1.592064	CTGCCACATACACACACACA	58.408	50.000	0.00	0.00	0.00	3.72
3406	4638	0.874390	CCTGCCACATACACACACAC	59.126	55.000	0.00	0.00	0.00	3.82
3412	4644	1.278127	AGTACCACCTGCCACATACAC	59.722	52.381	0.00	0.00	0.00	2.90
3457	4689	5.319043	ACAATTAGGAGAGGAACCAACAA	57.681	39.130	0.00	0.00	0.00	2.83
3499	4731	9.054191	GCAAACAAGCTTATGAAATTTTTATGC	57.946	29.630	0.00	2.58	0.00	3.14
3506	4844	9.014297	AGTAGTAGCAAACAAGCTTATGAAATT	57.986	29.630	0.00	0.00	43.70	1.82
3509	4847	9.496873	TTTAGTAGTAGCAAACAAGCTTATGAA	57.503	29.630	0.00	0.00	43.70	2.57
3542	4883	5.156355	CAACAGCTGCCTAACAATACTTTG	58.844	41.667	15.27	1.90	38.86	2.77
3702	5047	2.035632	ACTATGCCAGTAGAGCAGGTC	58.964	52.381	0.00	0.00	44.90	3.85
3857	5213	8.917088	CCAACCTTTGATCACTGGAATAATAAT	58.083	33.333	17.27	0.00	0.00	1.28
3858	5214	7.341769	CCCAACCTTTGATCACTGGAATAATAA	59.658	37.037	17.27	0.00	0.00	1.40
3859	5215	6.833416	CCCAACCTTTGATCACTGGAATAATA	59.167	38.462	17.27	0.00	0.00	0.98
3860	5216	5.658190	CCCAACCTTTGATCACTGGAATAAT	59.342	40.000	17.27	0.00	0.00	1.28
3871	5227	3.077359	CTCTGTGTCCCAACCTTTGATC	58.923	50.000	0.00	0.00	0.00	2.92
3904	5260	3.181487	TGAAGGCAAAAACTCTTCTGTGC	60.181	43.478	0.00	0.00	38.10	4.57

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.