AutoCloner

Multiple sequence alignment - TraesCS3D01G075300

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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	TraesCS3D01G075300	chr3D	100.000	3864	0	0	1	3864	36355803	36359666	0.000000e+00	7136.0
1	TraesCS3D01G075300	chr3D	82.580	907	132	17	1052	1942	36018565	36019461	0.000000e+00	776.0
2	TraesCS3D01G075300	chr3D	87.258	361	40	5	2	358	83043888	83043530	1.290000e-109	407.0
3	TraesCS3D01G075300	chr3D	86.325	351	41	7	2	349	417024069	417024415	3.640000e-100	375.0
4	TraesCS3D01G075300	chr3A	94.786	3241	108	22	1	3237	46866275	46869458	0.000000e+00	4992.0
5	TraesCS3D01G075300	chr3A	94.799	596	20	8	3273	3864	46869460	46870048	0.000000e+00	918.0
6	TraesCS3D01G075300	chr3A	80.233	1118	206	7	1283	2387	46962328	46963443	0.000000e+00	826.0
7	TraesCS3D01G075300	chr3A	85.132	760	95	6	1634	2388	46838836	46839582	0.000000e+00	761.0
8	TraesCS3D01G075300	chr3A	79.102	713	106	30	2534	3233	46963722	46964404	5.890000e-123	451.0
9	TraesCS3D01G075300	chr3A	90.000	130	11	2	2536	2663	46839813	46839942	2.390000e-37	167.0
10	TraesCS3D01G075300	chr3A	86.620	142	13	4	2387	2525	46839637	46839775	6.690000e-33	152.0
11	TraesCS3D01G075300	chr3A	90.000	70	5	2	3244	3312	558702840	558702772	5.320000e-14	89.8
12	TraesCS3D01G075300	chr3B	93.092	1491	92	4	902	2388	59063583	59065066	0.000000e+00	2172.0
13	TraesCS3D01G075300	chr3B	88.889	1413	115	26	2386	3770	59065119	59066517	0.000000e+00	1701.0
14	TraesCS3D01G075300	chr3B	80.793	1312	228	12	1076	2381	59117997	59119290	0.000000e+00	1005.0
15	TraesCS3D01G075300	chr3B	86.357	711	80	11	2536	3238	59041973	59042674	0.000000e+00	760.0
16	TraesCS3D01G075300	chr3B	87.685	609	68	5	1786	2388	59041136	59041743	0.000000e+00	702.0
17	TraesCS3D01G075300	chr3B	90.769	325	26	3	566	887	59063291	59063614	7.670000e-117	431.0
18	TraesCS3D01G075300	chr3B	85.016	307	37	5	1395	1701	59040829	59041126	1.740000e-78	303.0
19	TraesCS3D01G075300	chr3B	90.698	43	1	2	3254	3295	666685896	666685936	2.000000e-03	54.7
20	TraesCS3D01G075300	chr2D	87.465	359	42	2	1	358	263387789	263388145	9.990000e-111	411.0
21	TraesCS3D01G075300	chr2D	85.154	357	46	7	4	358	514797015	514797366	3.670000e-95	359.0
22	TraesCS3D01G075300	chr4D	85.556	360	43	9	2	357	225958057	225957703	6.100000e-98	368.0
23	TraesCS3D01G075300	chr4D	84.814	349	44	8	12	357	489404090	489403748	3.700000e-90	342.0
24	TraesCS3D01G075300	chr4A	84.722	360	46	9	2	358	357242050	357242403	6.140000e-93	351.0
25	TraesCS3D01G075300	chr6B	84.153	366	46	11	1	358	204261577	204261216	1.030000e-90	344.0
26	TraesCS3D01G075300	chr6B	73.343	724	163	24	1677	2384	653005237	653005946	1.390000e-59	241.0
27	TraesCS3D01G075300	chr6B	72.244	753	155	38	1653	2384	7823753	7823034	2.370000e-42	183.0
28	TraesCS3D01G075300	chr6A	73.333	750	159	33	1649	2383	2972686	2973409	4.990000e-59	239.0
29	TraesCS3D01G075300	chr6D	78.846	156	31	2	1641	1795	4919136	4919290	1.900000e-18	104.0

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	TraesCS3D01G075300	chr3D	36355803	36359666	3863	False	7136.000000	7136	100.000000	1	3864	1	chr3D.!!$F2	3863
1	TraesCS3D01G075300	chr3D	36018565	36019461	896	False	776.000000	776	82.580000	1052	1942	1	chr3D.!!$F1	890
2	TraesCS3D01G075300	chr3A	46866275	46870048	3773	False	2955.000000	4992	94.792500	1	3864	2	chr3A.!!$F2	3863
3	TraesCS3D01G075300	chr3A	46962328	46964404	2076	False	638.500000	826	79.667500	1283	3233	2	chr3A.!!$F3	1950
4	TraesCS3D01G075300	chr3A	46838836	46839942	1106	False	360.000000	761	87.250667	1634	2663	3	chr3A.!!$F1	1029
5	TraesCS3D01G075300	chr3B	59063291	59066517	3226	False	1434.666667	2172	90.916667	566	3770	3	chr3B.!!$F4	3204
6	TraesCS3D01G075300	chr3B	59117997	59119290	1293	False	1005.000000	1005	80.793000	1076	2381	1	chr3B.!!$F1	1305
7	TraesCS3D01G075300	chr3B	59040829	59042674	1845	False	588.333333	760	86.352667	1395	3238	3	chr3B.!!$F3	1843
8	TraesCS3D01G075300	chr6B	653005237	653005946	709	False	241.000000	241	73.343000	1677	2384	1	chr6B.!!$F1	707
9	TraesCS3D01G075300	chr6A	2972686	2973409	723	False	239.000000	239	73.333000	1649	2383	1	chr6A.!!$F1	734

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
461	463	0.247736	GTCACCTAGGAGGCACACAG	59.752	60.0	17.98	0.0	39.63	3.66	F
1039	1044	0.895559	GAAAAGGTGAGTGCCCCTGG	60.896	60.0	0.00	0.0	0.00	4.45	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1612	1631	1.135315	CATTTGTCACCATTGAGCCCG	60.135	52.381	0.00	0.0	30.1	6.13	R
2954	3170	2.039084	CCCCATATGTGCCTTCTAGGTC	59.961	54.545	1.24	0.0	37.8	3.85	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
34	35	1.471684	CAAATCACTCCAGAGCAAGGC	59.528	52.381	0.00	0.00	0.00	4.35
35	36	0.694771	AATCACTCCAGAGCAAGGCA	59.305	50.000	0.00	0.00	0.00	4.75
39	40	1.123861	ACTCCAGAGCAAGGCAGTCA	61.124	55.000	0.00	0.00	0.00	3.41
61	62	6.599244	GTCAGTCATATGAAATTCAGTGGGAA	59.401	38.462	7.07	0.00	40.46	3.97
122	123	7.549488	AGACGGTTTCCTTAAGTCAGAATATTG	59.451	37.037	0.97	0.00	34.56	1.90
131	132	8.680903	CCTTAAGTCAGAATATTGATGCTTGTT	58.319	33.333	0.97	0.00	0.00	2.83
132	133	9.713740	CTTAAGTCAGAATATTGATGCTTGTTC	57.286	33.333	0.00	0.00	0.00	3.18
134	135	5.591877	AGTCAGAATATTGATGCTTGTTCCC	59.408	40.000	0.00	0.00	0.00	3.97
156	157	3.067106	TGAGCAACAAAATCTCGAGGAC	58.933	45.455	13.56	0.00	0.00	3.85
171	172	5.892160	TCGAGGACGAGATTTCTTTAAGA	57.108	39.130	0.00	0.00	43.81	2.10
176	177	4.161754	GGACGAGATTTCTTTAAGAGGGGA	59.838	45.833	0.00	0.00	0.00	4.81
203	204	1.548719	GTAACACCCTGGATTTTGGCC	59.451	52.381	0.00	0.00	0.00	5.36
237	238	9.447157	TTTCTTTTGATTTTCTGTGGATTTTGT	57.553	25.926	0.00	0.00	0.00	2.83
261	262	6.723298	TTTGGATTTCTTTTTCTGTGGCTA	57.277	33.333	0.00	0.00	0.00	3.93
271	272	4.471904	TTTCTGTGGCTATGTAGTCTGG	57.528	45.455	0.00	0.00	0.00	3.86
277	278	3.197983	GTGGCTATGTAGTCTGGAAACCT	59.802	47.826	0.00	0.00	0.00	3.50
319	320	3.503748	CCTTTCCAGAGTGGTTTGTCATC	59.496	47.826	0.00	0.00	39.03	2.92
323	324	2.038952	CCAGAGTGGTTTGTCATCCTCA	59.961	50.000	0.00	0.00	31.35	3.86
358	359	4.583489	AGATCATGTCATTTCCCATCTTGC	59.417	41.667	0.00	0.00	0.00	4.01
359	360	2.684374	TCATGTCATTTCCCATCTTGCG	59.316	45.455	0.00	0.00	0.00	4.85
365	366	0.331278	TTTCCCATCTTGCGGGTCAT	59.669	50.000	0.00	0.00	44.81	3.06
369	370	1.097547	CCATCTTGCGGGTCATCACC	61.098	60.000	0.00	0.00	42.90	4.02
382	383	3.006756	ATCACCAGGCCAGTCGACG	62.007	63.158	10.46	5.16	0.00	5.12
384	385	3.681835	ACCAGGCCAGTCGACGAC	61.682	66.667	20.25	20.25	0.00	4.34
444	446	3.181367	CACCATTGCAGCCGAGTC	58.819	61.111	0.00	0.00	0.00	3.36
445	447	1.672030	CACCATTGCAGCCGAGTCA	60.672	57.895	0.00	0.00	0.00	3.41
461	463	0.247736	GTCACCTAGGAGGCACACAG	59.752	60.000	17.98	0.00	39.63	3.66
560	562	3.771577	ACTCTCGTTCCAACCAGATTT	57.228	42.857	0.00	0.00	0.00	2.17
570	572	1.667724	CAACCAGATTTAGCCAGAGCG	59.332	52.381	0.00	0.00	46.67	5.03
680	684	4.934356	TGGATAAGAAAGGAAGGCATTGT	58.066	39.130	0.00	0.00	0.00	2.71
720	725	3.804786	TTAATGCACATGCTTCATGGG	57.195	42.857	11.01	8.06	46.89	4.00
865	870	9.104965	CGATATTTCGGTATTATCTCTCTCTCT	57.895	37.037	0.00	0.00	41.74	3.10
868	873	7.972832	TTTCGGTATTATCTCTCTCTCTCTC	57.027	40.000	0.00	0.00	0.00	3.20
869	874	6.673839	TCGGTATTATCTCTCTCTCTCTCA	57.326	41.667	0.00	0.00	0.00	3.27
870	875	6.460781	TCGGTATTATCTCTCTCTCTCTCAC	58.539	44.000	0.00	0.00	0.00	3.51
871	876	5.642063	CGGTATTATCTCTCTCTCTCTCACC	59.358	48.000	0.00	0.00	0.00	4.02
872	877	5.944007	GGTATTATCTCTCTCTCTCTCACCC	59.056	48.000	0.00	0.00	0.00	4.61
913	918	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
914	919	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
915	920	5.103728	TCTCTCTCTCTCTCTCTCTCTCTCT	60.104	48.000	0.00	0.00	0.00	3.10
916	921	5.136828	TCTCTCTCTCTCTCTCTCTCTCTC	58.863	50.000	0.00	0.00	0.00	3.20
917	922	3.885901	TCTCTCTCTCTCTCTCTCTCTCG	59.114	52.174	0.00	0.00	0.00	4.04
928	933	3.684628	TCTCTCGCCCTCCCCCTT	61.685	66.667	0.00	0.00	0.00	3.95
1039	1044	0.895559	GAAAAGGTGAGTGCCCCTGG	60.896	60.000	0.00	0.00	0.00	4.45
1434	1444	2.230994	GACTCGCCTGACTGCATCCA	62.231	60.000	0.00	0.00	0.00	3.41
1612	1631	0.975887	ACCATTTGACAATGCCACCC	59.024	50.000	0.00	0.00	38.88	4.61
1717	1737	3.259064	CTTCTCGAGCCCGTTCAAATTA	58.741	45.455	7.81	0.00	37.05	1.40
2243	2273	8.749026	ACTTGATTCTATGCAAATCAGAGATT	57.251	30.769	18.39	0.00	42.07	2.40
2439	2584	8.276325	GTGATGTAATTTCTTATACTCGGCAAG	58.724	37.037	0.00	0.00	0.00	4.01
2587	2780	5.349543	GCATTTGGAAGTTTAAAGCCTGATG	59.650	40.000	0.00	1.99	0.00	3.07
2902	3103	2.363925	GGTACCCAGGCGAGGACT	60.364	66.667	0.00	0.00	0.00	3.85
2903	3104	1.076485	GGTACCCAGGCGAGGACTA	60.076	63.158	0.00	0.00	0.00	2.59
2940	3156	6.003326	ACATATGGTGAATTGCGGAATATGA	58.997	36.000	1.39	0.00	33.06	2.15
2941	3157	6.149973	ACATATGGTGAATTGCGGAATATGAG	59.850	38.462	1.39	0.00	33.06	2.90
2942	3158	4.149511	TGGTGAATTGCGGAATATGAGA	57.850	40.909	1.39	0.00	0.00	3.27
2943	3159	4.522114	TGGTGAATTGCGGAATATGAGAA	58.478	39.130	1.39	0.00	0.00	2.87
2944	3160	5.132502	TGGTGAATTGCGGAATATGAGAAT	58.867	37.500	1.39	0.00	0.00	2.40
2945	3161	5.008911	TGGTGAATTGCGGAATATGAGAATG	59.991	40.000	1.39	0.00	0.00	2.67
2946	3162	5.239306	GGTGAATTGCGGAATATGAGAATGA	59.761	40.000	1.39	0.00	0.00	2.57
2947	3163	6.072286	GGTGAATTGCGGAATATGAGAATGAT	60.072	38.462	1.39	0.00	0.00	2.45
2948	3164	7.119699	GGTGAATTGCGGAATATGAGAATGATA	59.880	37.037	1.39	0.00	0.00	2.15
2949	3165	8.671921	GTGAATTGCGGAATATGAGAATGATAT	58.328	33.333	1.39	0.00	0.00	1.63
2950	3166	9.889128	TGAATTGCGGAATATGAGAATGATATA	57.111	29.630	1.39	0.00	0.00	0.86
3123	3340	7.616150	TGTGAATCCTACTTAAGACTTCTAGCT	59.384	37.037	10.09	0.00	0.00	3.32
3238	3457	1.949525	CAAGCCATAATCCAAGGGTCG	59.050	52.381	0.00	0.00	31.73	4.79
3243	3462	2.643551	CATAATCCAAGGGTCGCTGTT	58.356	47.619	0.00	0.00	0.00	3.16
3248	3467	3.149005	TCCAAGGGTCGCTGTTATTTT	57.851	42.857	0.00	0.00	0.00	1.82
3352	3572	1.070105	AACGCAAGCGGAACCACTA	59.930	52.632	19.30	0.00	44.69	2.74
3366	3594	4.514066	GGAACCACTAAACACCTACAACTG	59.486	45.833	0.00	0.00	0.00	3.16
3475	3703	8.929260	AAATCATACCATAGAGCATGAATTCA	57.071	30.769	11.26	11.26	36.69	2.57
3579	3807	4.615223	GCCCTCAACACTAAAATTTCCGTC	60.615	45.833	0.00	0.00	0.00	4.79
3794	4026	2.504244	GTTCGACGAGCTCCCACG	60.504	66.667	8.47	11.42	0.00	4.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
22	23	1.123861	ACTGACTGCCTTGCTCTGGA	61.124	55.000	0.00	0.00	0.00	3.86
34	35	6.037940	CCCACTGAATTTCATATGACTGACTG	59.962	42.308	4.48	5.02	0.00	3.51
35	36	6.070021	TCCCACTGAATTTCATATGACTGACT	60.070	38.462	4.48	0.00	0.00	3.41
39	40	6.484288	TGTTCCCACTGAATTTCATATGACT	58.516	36.000	4.48	0.00	34.90	3.41
89	90	2.545537	AAGGAAACCGTCTCCAACTC	57.454	50.000	0.00	0.00	35.20	3.01
122	123	1.200948	GTTGCTCAGGGAACAAGCATC	59.799	52.381	0.00	0.00	46.47	3.91
131	132	2.038426	TCGAGATTTTGTTGCTCAGGGA	59.962	45.455	0.00	0.00	0.00	4.20
132	133	2.417933	CTCGAGATTTTGTTGCTCAGGG	59.582	50.000	6.58	0.00	0.00	4.45
134	135	3.124297	GTCCTCGAGATTTTGTTGCTCAG	59.876	47.826	15.71	0.00	0.00	3.35
156	157	5.119694	CCTTCCCCTCTTAAAGAAATCTCG	58.880	45.833	0.00	0.00	0.00	4.04
171	172	1.146359	GGGTGTTACAAACCTTCCCCT	59.854	52.381	0.80	0.00	37.85	4.79
176	177	3.895704	ATCCAGGGTGTTACAAACCTT	57.104	42.857	7.06	0.00	37.85	3.50
203	204	9.977762	CACAGAAAATCAAAAGAAAAAGAAAGG	57.022	29.630	0.00	0.00	0.00	3.11
237	238	5.988287	AGCCACAGAAAAAGAAATCCAAAA	58.012	33.333	0.00	0.00	0.00	2.44
261	262	5.087323	TCTTCTCAGGTTTCCAGACTACAT	58.913	41.667	0.00	0.00	0.00	2.29
271	272	4.817318	AGAGGTCATCTTCTCAGGTTTC	57.183	45.455	0.00	0.00	32.99	2.78
319	320	3.700538	TGATCTTGGGATGGTTTTGAGG	58.299	45.455	0.00	0.00	31.46	3.86
323	324	4.676109	TGACATGATCTTGGGATGGTTTT	58.324	39.130	12.76	0.00	31.46	2.43
358	359	3.687321	CTGGCCTGGTGATGACCCG	62.687	68.421	3.32	0.00	42.34	5.28
359	360	2.273449	CTGGCCTGGTGATGACCC	59.727	66.667	3.32	0.00	42.34	4.46
365	366	3.680786	CGTCGACTGGCCTGGTGA	61.681	66.667	14.70	8.19	0.00	4.02
369	370	4.778415	CCGTCGTCGACTGGCCTG	62.778	72.222	22.18	8.29	39.71	4.85
416	417	2.522923	AATGGTGCACCGCCCAAA	60.523	55.556	30.07	12.73	39.43	3.28
436	437	1.076632	CCTCCTAGGTGACTCGGCT	60.077	63.158	12.54	0.00	42.91	5.52
437	438	2.787567	GCCTCCTAGGTGACTCGGC	61.788	68.421	12.54	10.06	42.91	5.54
444	446	0.904865	TCCTGTGTGCCTCCTAGGTG	60.905	60.000	9.08	6.22	37.80	4.00
445	447	0.905337	GTCCTGTGTGCCTCCTAGGT	60.905	60.000	9.08	0.00	37.80	3.08
461	463	7.320443	TGATGCACATAAACTGATTTAGTCC	57.680	36.000	0.00	0.00	39.18	3.85
570	572	7.716799	ATGTGGTAGATAATGGAGAGAGATC	57.283	40.000	0.00	0.00	0.00	2.75
720	725	0.874607	CGACTATACGCCCTGTTGCC	60.875	60.000	0.00	0.00	0.00	4.52
853	858	4.566837	AGAGGGTGAGAGAGAGAGAGATA	58.433	47.826	0.00	0.00	0.00	1.98
863	868	2.771943	GAGAGAGAGAGAGGGTGAGAGA	59.228	54.545	0.00	0.00	0.00	3.10
864	869	2.774234	AGAGAGAGAGAGAGGGTGAGAG	59.226	54.545	0.00	0.00	0.00	3.20
865	870	2.771943	GAGAGAGAGAGAGAGGGTGAGA	59.228	54.545	0.00	0.00	0.00	3.27
866	871	2.774234	AGAGAGAGAGAGAGAGGGTGAG	59.226	54.545	0.00	0.00	0.00	3.51
867	872	2.771943	GAGAGAGAGAGAGAGAGGGTGA	59.228	54.545	0.00	0.00	0.00	4.02
868	873	2.774234	AGAGAGAGAGAGAGAGAGGGTG	59.226	54.545	0.00	0.00	0.00	4.61
869	874	3.041946	GAGAGAGAGAGAGAGAGAGGGT	58.958	54.545	0.00	0.00	0.00	4.34
870	875	3.312890	AGAGAGAGAGAGAGAGAGAGGG	58.687	54.545	0.00	0.00	0.00	4.30
871	876	4.222336	AGAGAGAGAGAGAGAGAGAGAGG	58.778	52.174	0.00	0.00	0.00	3.69
872	877	5.139727	AGAGAGAGAGAGAGAGAGAGAGAG	58.860	50.000	0.00	0.00	0.00	3.20
913	918	4.798682	GGAAGGGGGAGGGCGAGA	62.799	72.222	0.00	0.00	0.00	4.04
914	919	4.806339	AGGAAGGGGGAGGGCGAG	62.806	72.222	0.00	0.00	0.00	5.03
915	920	4.798682	GAGGAAGGGGGAGGGCGA	62.799	72.222	0.00	0.00	0.00	5.54
933	938	3.260483	GAGAGATGCACGCGCTGG	61.260	66.667	5.73	0.00	39.64	4.85
934	939	3.260483	GGAGAGATGCACGCGCTG	61.260	66.667	5.73	5.02	39.64	5.18
1039	1044	4.020128	TCTCAGGGAGAAGCTAGGAAAAAC	60.020	45.833	0.00	0.00	35.59	2.43
1612	1631	1.135315	CATTTGTCACCATTGAGCCCG	60.135	52.381	0.00	0.00	30.10	6.13
1717	1737	5.069648	TGTGTCTCTGTTGAAGATCAAGACT	59.930	40.000	9.87	0.00	37.00	3.24
2439	2584	5.866207	TCTTCCCCTTTTCTAGTTCAAGTC	58.134	41.667	0.00	0.00	0.00	3.01
2685	2882	9.691362	GGCCAAAACATAATACACATATTAAGG	57.309	33.333	0.00	0.00	36.93	2.69
2940	3156	9.720874	TGCCTTCTAGGTCATATATATCATTCT	57.279	33.333	0.00	0.00	37.80	2.40
2941	3157	9.757227	GTGCCTTCTAGGTCATATATATCATTC	57.243	37.037	0.00	0.00	37.80	2.67
2942	3158	9.271921	TGTGCCTTCTAGGTCATATATATCATT	57.728	33.333	0.00	0.00	37.80	2.57
2943	3159	8.844865	TGTGCCTTCTAGGTCATATATATCAT	57.155	34.615	0.00	0.00	37.80	2.45
2944	3160	8.844865	ATGTGCCTTCTAGGTCATATATATCA	57.155	34.615	0.00	0.00	37.80	2.15
2947	3163	9.147732	CCATATGTGCCTTCTAGGTCATATATA	57.852	37.037	16.83	0.00	39.93	0.86
2948	3164	7.071698	CCCATATGTGCCTTCTAGGTCATATAT	59.928	40.741	16.83	13.74	39.93	0.86
2949	3165	6.384015	CCCATATGTGCCTTCTAGGTCATATA	59.616	42.308	16.83	12.67	39.93	0.86
2950	3166	5.190528	CCCATATGTGCCTTCTAGGTCATAT	59.809	44.000	1.24	14.01	41.14	1.78
2951	3167	4.532126	CCCATATGTGCCTTCTAGGTCATA	59.468	45.833	1.24	11.80	38.03	2.15
2952	3168	3.328931	CCCATATGTGCCTTCTAGGTCAT	59.671	47.826	1.24	0.00	37.80	3.06
2953	3169	2.705658	CCCATATGTGCCTTCTAGGTCA	59.294	50.000	1.24	0.00	37.80	4.02
2954	3170	2.039084	CCCCATATGTGCCTTCTAGGTC	59.961	54.545	1.24	0.00	37.80	3.85
3123	3340	7.701539	AAACTAGAATAACATGCCACATTGA	57.298	32.000	0.00	0.00	0.00	2.57
3248	3467	2.355716	CCTTGGGCATACTCTCGGAAAA	60.356	50.000	0.00	0.00	0.00	2.29
3294	3513	7.295201	TCACAAGTTTCTTGTACATTATTCGC	58.705	34.615	13.55	0.00	0.00	4.70
3295	3514	7.478667	GCTCACAAGTTTCTTGTACATTATTCG	59.521	37.037	13.55	1.10	0.00	3.34
3297	3517	7.172532	TCGCTCACAAGTTTCTTGTACATTATT	59.827	33.333	13.55	0.00	0.00	1.40
3352	3572	2.943033	GTGACTGCAGTTGTAGGTGTTT	59.057	45.455	22.65	0.00	31.73	2.83
3366	3594	9.712305	ATTACCTTATATAATGACAGTGACTGC	57.288	33.333	13.37	6.29	34.37	4.40
3579	3807	7.056635	ACAAGTGGTGGAGATGGATATTTAAG	58.943	38.462	0.00	0.00	0.00	1.85
3762	3994	6.569994	GCTCGTCGAACAATAATACTAGGGAT	60.570	42.308	0.00	0.00	0.00	3.85
3794	4026	4.803426	CAGCCTGGAGACGACGGC	62.803	72.222	0.00	0.00	40.01	5.68
3817	4049	1.210885	CCTTTCCTCTCCCCAAGGCT	61.211	60.000	0.00	0.00	33.65	4.58

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.