AutoCloner

Multiple sequence alignment - TraesCS3A01G463900

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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	TraesCS3A01G463900	chr3A	100.000	3251	0	0	1	3251	698169859	698166609	0.000000e+00	6004
1	TraesCS3A01G463900	chr3A	84.587	545	76	8	1729	2269	698145776	698145236	4.770000e-148	534
2	TraesCS3A01G463900	chr3A	87.257	463	38	5	852	1313	698146645	698146203	2.890000e-140	508
3	TraesCS3A01G463900	chr3A	88.514	296	34	0	1261	1556	698146207	698145912	3.080000e-95	359
4	TraesCS3A01G463900	chr3A	91.549	213	18	0	1084	1296	698032330	698032118	8.820000e-76	294
5	TraesCS3A01G463900	chr3A	88.312	154	18	0	1149	1302	698696575	698696422	5.540000e-43	185
6	TraesCS3A01G463900	chr3A	83.099	142	19	3	2405	2541	698029859	698029718	1.220000e-24	124
7	TraesCS3A01G463900	chr3D	95.480	2102	74	8	208	2289	563597083	563594983	0.000000e+00	3336
8	TraesCS3A01G463900	chr3D	96.413	669	17	4	2585	3251	563594705	563594042	0.000000e+00	1096
9	TraesCS3A01G463900	chr3D	85.638	564	73	8	1729	2287	563446569	563446009	1.300000e-163	586
10	TraesCS3A01G463900	chr3D	98.940	283	1	2	2368	2649	563594987	563594706	3.740000e-139	505
11	TraesCS3A01G463900	chr3D	82.718	596	61	23	724	1313	563447555	563446996	2.910000e-135	492
12	TraesCS3A01G463900	chr3D	89.189	296	32	0	1261	1556	563447000	563446705	1.420000e-98	370
13	TraesCS3A01G463900	chr3D	82.555	321	49	5	989	1304	563435927	563435609	3.200000e-70	276
14	TraesCS3A01G463900	chr3D	96.364	165	5	1	1	164	563597249	563597085	1.490000e-68	270
15	TraesCS3A01G463900	chr3D	86.331	139	18	1	2404	2541	563433856	563433718	2.020000e-32	150
16	TraesCS3A01G463900	chr3D	76.351	296	60	8	1938	2229	568012516	568012805	2.020000e-32	150
17	TraesCS3A01G463900	chr3D	86.667	105	12	2	2404	2507	563432832	563432729	7.370000e-22	115
18	TraesCS3A01G463900	chr3D	87.500	64	8	0	2164	2227	7596510	7596573	1.250000e-09	75
19	TraesCS3A01G463900	chr3B	92.796	2318	118	18	2	2289	751016110	751013812	0.000000e+00	3310
20	TraesCS3A01G463900	chr3B	94.826	889	35	8	2368	3251	751013816	751012934	0.000000e+00	1376
21	TraesCS3A01G463900	chr3B	82.507	383	48	8	841	1204	751842880	751843262	5.230000e-83	318
22	TraesCS3A01G463900	chr3B	79.148	446	83	9	1843	2284	750901067	750900628	1.900000e-77	300
23	TraesCS3A01G463900	chr3B	78.626	393	67	8	1116	1492	751511284	751510893	9.010000e-61	244
24	TraesCS3A01G463900	chr3B	77.891	294	58	5	1932	2223	751166772	751167060	3.330000e-40	176
25	TraesCS3A01G463900	chr6B	97.727	88	2	0	2285	2372	712627529	712627442	5.620000e-33	152
26	TraesCS3A01G463900	chr6B	94.845	97	4	1	2276	2371	42774563	42774659	2.020000e-32	150
27	TraesCS3A01G463900	chr4A	97.727	88	2	0	2285	2372	518197129	518197042	5.620000e-33	152
28	TraesCS3A01G463900	chr4D	95.699	93	4	0	2282	2374	102387090	102386998	2.020000e-32	150
29	TraesCS3A01G463900	chr4D	90.741	108	7	3	2286	2393	436376716	436376820	1.220000e-29	141
30	TraesCS3A01G463900	chr2B	72.433	526	125	17	12	522	391963434	391963954	2.020000e-32	150
31	TraesCS3A01G463900	chr1D	81.481	189	30	5	1116	1302	39996369	39996184	2.020000e-32	150
32	TraesCS3A01G463900	chr1D	92.079	101	6	2	2272	2372	296531996	296532094	1.220000e-29	141
33	TraesCS3A01G463900	chr1D	90.566	106	8	2	2283	2388	482926961	482927064	4.370000e-29	139
34	TraesCS3A01G463900	chr6D	94.737	95	5	0	2277	2371	248004096	248004002	7.270000e-32	148
35	TraesCS3A01G463900	chr2D	91.509	106	7	2	2284	2389	37535492	37535595	9.400000e-31	145
36	TraesCS3A01G463900	chr2D	71.617	532	120	21	9	520	323842794	323843314	2.050000e-22	117
37	TraesCS3A01G463900	chr6A	73.067	401	84	13	1112	1497	115504994	115504603	1.580000e-23	121

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	TraesCS3A01G463900	chr3A	698166609	698169859	3250	True	6004.000000	6004	100.000000	1	3251	1	chr3A.!!$R1	3250
1	TraesCS3A01G463900	chr3A	698145236	698146645	1409	True	467.000000	534	86.786000	852	2269	3	chr3A.!!$R4	1417
2	TraesCS3A01G463900	chr3A	698029718	698032330	2612	True	209.000000	294	87.324000	1084	2541	2	chr3A.!!$R3	1457
3	TraesCS3A01G463900	chr3D	563594042	563597249	3207	True	1301.750000	3336	96.799250	1	3251	4	chr3D.!!$R3	3250
4	TraesCS3A01G463900	chr3D	563446009	563447555	1546	True	482.666667	586	85.848333	724	2287	3	chr3D.!!$R2	1563
5	TraesCS3A01G463900	chr3B	751012934	751016110	3176	True	2343.000000	3310	93.811000	2	3251	2	chr3B.!!$R3	3249

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	End Stability	Orientation
60	62	0.249826	CACATGGCGCAAAACCCTTT	60.250	50.0	10.83	3.11	F
590	605	0.251916	TTCATCTCGCCGGAAACCAT	59.748	50.0	5.05	3.55	F
640	656	0.465705	GCCAACCGATCCATCAGAGA	59.534	55.0	0.00	3.10	F
1602	1723	0.879090	CCAAAAGTTACTCGGCCACC	59.121	55.0	2.24	4.61	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Hairpin	End Stability	Orientation
1921	2834	0.692476	TCCACAGGCACAATGCTACT	59.308	50.000	0.13	44.28	2.57	R
2094	3007	0.307453	CAGCTGAGATCCTCTCGTCG	59.693	60.000	8.42	46.25	5.12	R
2172	3085	2.968574	GGAGAGAAGCTGGATGATGGTA	59.031	50.000	0.00	0.00	3.25	R
3162	4184	3.270027	TGCATGATTAAAGTCGGTCCAG	58.730	45.455	0.00	0.00	3.86	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
58	60	2.573083	CCACATGGCGCAAAACCCT	61.573	57.895	10.83	0.00	0.00	4.34
60	62	0.249826	CACATGGCGCAAAACCCTTT	60.250	50.000	10.83	0.00	0.00	3.11
175	177	8.470040	TTTCCTCTTACGTATAACATGTTCAC	57.530	34.615	15.85	13.14	0.00	3.18
202	204	0.383590	TGCAACCAACACATTGTCCG	59.616	50.000	0.00	0.00	33.60	4.79
216	218	3.410631	TTGTCCGTTATGAGCCTTTCA	57.589	42.857	0.00	0.00	40.85	2.69
252	254	0.820871	GTTCCTCCGAGATGAGCACT	59.179	55.000	0.00	0.00	0.00	4.40
288	290	0.623324	ACCTATTGGCCAGCACCCTA	60.623	55.000	5.11	0.00	36.63	3.53
294	296	2.751837	GCCAGCACCCTAGTTGCC	60.752	66.667	9.41	0.00	0.00	4.52
342	344	9.832445	AGACTCATCGGTATAAATTGTAACATT	57.168	29.630	0.00	0.00	0.00	2.71
372	377	4.706476	GGAGTTTGGGATCATCACAATCAA	59.294	41.667	12.35	0.00	39.85	2.57
401	407	1.168714	GAAAGATGCCGGAGTTGCTT	58.831	50.000	5.05	0.00	0.00	3.91
476	483	3.499048	CAGTGACGCTATAGAACAACGT	58.501	45.455	3.21	2.82	40.11	3.99
510	517	1.075536	GACCTGGGATCTTTGGTTGGT	59.924	52.381	0.00	0.00	32.30	3.67
553	568	2.890945	TCAATCTCCTCATCGGCGATAA	59.109	45.455	23.53	7.46	36.21	1.75
587	602	1.000145	GAGTTCATCTCGCCGGAAAC	59.000	55.000	5.05	0.00	33.25	2.78
589	604	0.672401	GTTCATCTCGCCGGAAACCA	60.672	55.000	5.05	0.00	0.00	3.67
590	605	0.251916	TTCATCTCGCCGGAAACCAT	59.748	50.000	5.05	0.00	0.00	3.55
591	606	0.251916	TCATCTCGCCGGAAACCATT	59.748	50.000	5.05	0.00	0.00	3.16
592	607	1.483004	TCATCTCGCCGGAAACCATTA	59.517	47.619	5.05	0.00	0.00	1.90
593	608	1.867233	CATCTCGCCGGAAACCATTAG	59.133	52.381	5.05	0.00	0.00	1.73
594	609	0.899720	TCTCGCCGGAAACCATTAGT	59.100	50.000	5.05	0.00	0.00	2.24
595	610	1.006832	CTCGCCGGAAACCATTAGTG	58.993	55.000	5.05	0.00	0.00	2.74
597	612	1.302383	CGCCGGAAACCATTAGTGCA	61.302	55.000	5.05	0.00	0.00	4.57
640	656	0.465705	GCCAACCGATCCATCAGAGA	59.534	55.000	0.00	0.00	0.00	3.10
659	676	1.404035	GACAAAAGGCTTTCACCGTGT	59.596	47.619	13.76	13.13	33.69	4.49
785	810	2.158784	CCACTACTCTACCTACTCGGCT	60.159	54.545	0.00	0.00	35.61	5.52
788	813	4.039004	CACTACTCTACCTACTCGGCTCTA	59.961	50.000	0.00	0.00	35.61	2.43
790	815	3.040477	ACTCTACCTACTCGGCTCTAGT	58.960	50.000	0.00	0.00	35.61	2.57
810	836	3.140144	AGTGATCCTTGTTCCCCTTTTCA	59.860	43.478	0.00	0.00	0.00	2.69
944	978	2.994387	TTCACGCTGCTCACCCACAG	62.994	60.000	0.00	0.00	36.96	3.66
1096	1142	2.434359	CGGCTCGTCTCCAAACCC	60.434	66.667	0.00	0.00	0.00	4.11
1471	1589	3.064987	AATCCTCTCACCGGCGTCG	62.065	63.158	0.29	0.29	0.00	5.12
1535	1653	1.080705	CCAGTGTCGTCTTCGGTCC	60.081	63.158	0.00	0.00	37.69	4.46
1602	1723	0.879090	CCAAAAGTTACTCGGCCACC	59.121	55.000	2.24	0.00	0.00	4.61
1621	1742	1.812571	CCCCTGACATGGAAAGTTTCG	59.187	52.381	9.46	0.00	0.00	3.46
1633	1754	4.036380	TGGAAAGTTTCGAAGAAAAGGAGC	59.964	41.667	9.46	0.00	45.90	4.70
1689	2602	1.107114	CAGTCAGAGGCGGTGTCTAT	58.893	55.000	0.00	0.00	0.00	1.98
1746	2659	5.054477	CACGGGGTTTCTGTTATATTCGAT	58.946	41.667	0.00	0.00	31.34	3.59
1920	2833	4.036380	GTCAAGGTTTTCAAGATGGACGTT	59.964	41.667	0.00	0.00	0.00	3.99
1921	2834	5.237779	GTCAAGGTTTTCAAGATGGACGTTA	59.762	40.000	0.00	0.00	0.00	3.18
2094	3007	4.806330	TGTACAATCTCAAGGACGAGAAC	58.194	43.478	0.00	0.00	44.92	3.01
2117	3030	3.531283	GAGGATCTCAGCTGGCGA	58.469	61.111	15.13	11.38	0.00	5.54
2291	3204	6.208994	TGGTTTGACTTTCTCTCTAGTACTCC	59.791	42.308	0.00	0.00	0.00	3.85
2292	3205	6.350361	GGTTTGACTTTCTCTCTAGTACTCCC	60.350	46.154	0.00	0.00	0.00	4.30
2298	3211	6.444493	ACTTTCTCTCTAGTACTCCCTCTGTA	59.556	42.308	0.00	0.00	0.00	2.74
2301	3214	6.652053	TCTCTCTAGTACTCCCTCTGTAAAC	58.348	44.000	0.00	0.00	0.00	2.01
2303	3216	7.622878	TCTCTCTAGTACTCCCTCTGTAAACTA	59.377	40.741	0.00	0.00	0.00	2.24
2304	3217	8.155620	TCTCTAGTACTCCCTCTGTAAACTAA	57.844	38.462	0.00	0.00	0.00	2.24
2305	3218	8.780003	TCTCTAGTACTCCCTCTGTAAACTAAT	58.220	37.037	0.00	0.00	0.00	1.73
2313	3226	8.862085	ACTCCCTCTGTAAACTAATATAAGAGC	58.138	37.037	0.00	0.00	0.00	4.09
2314	3227	7.883217	TCCCTCTGTAAACTAATATAAGAGCG	58.117	38.462	0.00	0.00	0.00	5.03
2317	3230	9.530633	CCTCTGTAAACTAATATAAGAGCGTTT	57.469	33.333	0.00	0.00	0.00	3.60
2334	3247	9.570488	AAGAGCGTTTAGATTACTACTTTAGTG	57.430	33.333	0.00	0.00	39.81	2.74
2335	3248	8.954350	AGAGCGTTTAGATTACTACTTTAGTGA	58.046	33.333	0.00	0.00	39.81	3.41
2336	3249	9.733219	GAGCGTTTAGATTACTACTTTAGTGAT	57.267	33.333	0.00	0.00	39.81	3.06
2337	3250	9.733219	AGCGTTTAGATTACTACTTTAGTGATC	57.267	33.333	9.14	9.14	46.38	2.92
2365	3278	9.813446	AAACACTCTTATATTAGTTTACGGAGG	57.187	33.333	0.00	0.00	0.00	4.30
2366	3279	8.757982	ACACTCTTATATTAGTTTACGGAGGA	57.242	34.615	0.00	0.00	0.00	3.71
2367	3280	9.193806	ACACTCTTATATTAGTTTACGGAGGAA	57.806	33.333	0.00	0.00	0.00	3.36
2368	3281	9.680315	CACTCTTATATTAGTTTACGGAGGAAG	57.320	37.037	0.00	0.00	0.00	3.46
2369	3282	9.418839	ACTCTTATATTAGTTTACGGAGGAAGT	57.581	33.333	0.00	0.00	0.00	3.01
2708	3724	2.043411	CTGCAATTGAACCGTTGAACG	58.957	47.619	11.30	11.30	42.11	3.95
2896	3914	6.412362	TTTTCTCTGGGCAGATACTCTATC	57.588	41.667	0.00	0.00	36.76	2.08
2955	3973	5.028549	AGGCGTTCTGATTGAATCATACT	57.971	39.130	8.50	0.00	38.85	2.12
2956	3974	6.161855	AGGCGTTCTGATTGAATCATACTA	57.838	37.500	8.50	0.00	38.85	1.82
3141	4163	4.513442	TGGGTATGCAGACATCAGTTTAC	58.487	43.478	14.36	0.00	37.74	2.01
3210	4232	4.021280	TGAATATTGGCAATGTGCTGTTGT	60.021	37.500	22.57	0.00	44.28	3.32

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
60	62	9.817809	GTCTTCCTTGAGTATATGATGTACAAA	57.182	33.333	0.00	0.00	0.00	2.83
119	121	8.246180	AGAAATATTTATGTGTGGTGAAGCTTG	58.754	33.333	2.10	0.00	0.00	4.01
150	152	8.089597	TGTGAACATGTTATACGTAAGAGGAAA	58.910	33.333	11.95	0.00	43.62	3.13
172	174	3.501828	GTGTTGGTTGCATATGAGTGTGA	59.498	43.478	6.97	0.00	0.00	3.58
173	175	3.252944	TGTGTTGGTTGCATATGAGTGTG	59.747	43.478	6.97	0.00	0.00	3.82
175	177	4.707030	ATGTGTTGGTTGCATATGAGTG	57.293	40.909	6.97	0.00	0.00	3.51
216	218	1.947456	GAACAAAGTGCTTTCGTCCCT	59.053	47.619	0.00	0.00	0.00	4.20
252	254	8.552610	GCCAATAGGTTGAAGATGATTCTTCCA	61.553	40.741	11.96	0.26	45.63	3.53
288	290	7.093814	TGCAATGTTTTCTATAAGATGGCAACT	60.094	33.333	0.00	0.00	35.49	3.16
342	344	1.120530	GATCCCAAACTCCGGAGCTA	58.879	55.000	31.56	10.66	31.68	3.32
390	396	1.000896	AATGGGGAAGCAACTCCGG	60.001	57.895	0.00	0.00	36.21	5.14
401	407	3.712016	TCGTGATTTCTTGAATGGGGA	57.288	42.857	0.00	0.00	0.00	4.81
476	483	2.764128	GGTCAGATGGGCTCCCGA	60.764	66.667	0.00	0.00	39.42	5.14
510	517	1.780309	ACCTCACTGTTCCAAATGGGA	59.220	47.619	0.00	0.00	46.61	4.37
557	572	1.066573	AGATGAACTCCAAGCTCACGG	60.067	52.381	0.00	0.00	0.00	4.94
587	602	6.822667	TGCTGGATAATATTGCACTAATGG	57.177	37.500	0.00	0.00	0.00	3.16
589	604	6.071728	GCCTTGCTGGATAATATTGCACTAAT	60.072	38.462	0.00	0.00	38.35	1.73
590	605	5.241506	GCCTTGCTGGATAATATTGCACTAA	59.758	40.000	0.00	0.00	38.35	2.24
591	606	4.761739	GCCTTGCTGGATAATATTGCACTA	59.238	41.667	0.00	0.00	38.35	2.74
592	607	3.571401	GCCTTGCTGGATAATATTGCACT	59.429	43.478	0.00	0.00	38.35	4.40
593	608	3.318839	TGCCTTGCTGGATAATATTGCAC	59.681	43.478	0.00	0.00	38.35	4.57
594	609	3.564264	TGCCTTGCTGGATAATATTGCA	58.436	40.909	0.00	0.00	38.35	4.08
595	610	4.796038	ATGCCTTGCTGGATAATATTGC	57.204	40.909	0.00	0.00	38.35	3.56
597	612	5.124457	CGCTAATGCCTTGCTGGATAATATT	59.876	40.000	0.00	0.00	38.35	1.28
640	656	1.470051	ACACGGTGAAAGCCTTTTGT	58.530	45.000	16.29	0.00	0.00	2.83
679	696	8.428063	CCATTTAATTCCCAATGCCATTACTTA	58.572	33.333	0.00	0.00	0.00	2.24
738	756	0.819582	CTGTGAACCATGCCCAATCC	59.180	55.000	0.00	0.00	0.00	3.01
785	810	3.491766	AGGGGAACAAGGATCACTAGA	57.508	47.619	0.00	0.00	0.00	2.43
788	813	3.140144	TGAAAAGGGGAACAAGGATCACT	59.860	43.478	0.00	0.00	0.00	3.41
790	815	3.893753	TGAAAAGGGGAACAAGGATCA	57.106	42.857	0.00	0.00	0.00	2.92
810	836	1.205055	GAGGAACCGAAGAAGGGGAT	58.795	55.000	0.00	0.00	35.02	3.85
944	978	9.327529	CCTAACTAATCGTCGATAGTACAAATC	57.672	37.037	8.43	0.00	37.40	2.17
1040	1074	3.083997	CAGGAGGGAGAACGGGGG	61.084	72.222	0.00	0.00	0.00	5.40
1041	1075	3.787001	GCAGGAGGGAGAACGGGG	61.787	72.222	0.00	0.00	0.00	5.73
1426	1544	4.821589	GGCGGCTCGAGAAGGGTG	62.822	72.222	18.75	0.00	0.00	4.61
1520	1638	1.080705	CTGGGACCGAAGACGACAC	60.081	63.158	0.00	0.00	42.66	3.67
1602	1723	2.778299	TCGAAACTTTCCATGTCAGGG	58.222	47.619	0.00	0.00	0.00	4.45
1621	1742	2.606551	GCAACTGCAGCTCCTTTTCTTC	60.607	50.000	15.27	0.00	41.59	2.87
1633	1754	1.274167	ACAATCAATGGGCAACTGCAG	59.726	47.619	13.48	13.48	44.36	4.41
1746	2659	8.466798	TGAAGTGACTGTATCAAATCGAAGATA	58.533	33.333	0.00	0.00	39.84	1.98
1920	2833	1.905894	TCCACAGGCACAATGCTACTA	59.094	47.619	0.13	0.00	44.28	1.82
1921	2834	0.692476	TCCACAGGCACAATGCTACT	59.308	50.000	0.13	0.00	44.28	2.57
2034	2947	2.047655	CCCAGGCGCTCAACGTAA	60.048	61.111	7.64	0.00	46.11	3.18
2094	3007	0.307453	CAGCTGAGATCCTCTCGTCG	59.693	60.000	8.42	0.00	46.25	5.12
2117	3030	3.372206	GTGCAGCTTCACGAAATCTACAT	59.628	43.478	0.00	0.00	0.00	2.29
2172	3085	2.968574	GGAGAGAAGCTGGATGATGGTA	59.031	50.000	0.00	0.00	0.00	3.25
2291	3204	9.530633	AAACGCTCTTATATTAGTTTACAGAGG	57.469	33.333	0.00	0.00	31.14	3.69
2308	3221	9.570488	CACTAAAGTAGTAATCTAAACGCTCTT	57.430	33.333	0.00	0.00	37.23	2.85
2310	3223	9.733219	ATCACTAAAGTAGTAATCTAAACGCTC	57.267	33.333	0.00	0.00	37.23	5.03
2311	3224	9.733219	GATCACTAAAGTAGTAATCTAAACGCT	57.267	33.333	0.00	0.00	37.23	5.07
2312	3225	9.733219	AGATCACTAAAGTAGTAATCTAAACGC	57.267	33.333	0.03	0.00	41.03	4.84
2339	3252	9.813446	CCTCCGTAAACTAATATAAGAGTGTTT	57.187	33.333	0.00	0.00	0.00	2.83
2340	3253	9.193806	TCCTCCGTAAACTAATATAAGAGTGTT	57.806	33.333	0.00	0.00	0.00	3.32
2341	3254	8.757982	TCCTCCGTAAACTAATATAAGAGTGT	57.242	34.615	0.00	0.00	0.00	3.55
2342	3255	9.680315	CTTCCTCCGTAAACTAATATAAGAGTG	57.320	37.037	0.00	0.00	0.00	3.51
2343	3256	9.418839	ACTTCCTCCGTAAACTAATATAAGAGT	57.581	33.333	0.00	0.00	0.00	3.24
2346	3259	9.905171	GGTACTTCCTCCGTAAACTAATATAAG	57.095	37.037	0.00	0.00	0.00	1.73
2347	3260	9.646522	AGGTACTTCCTCCGTAAACTAATATAA	57.353	33.333	0.00	0.00	44.42	0.98
2368	3281	5.989777	TCAAGTCTGTTTCTTAGCAAGGTAC	59.010	40.000	0.00	0.00	0.00	3.34
2369	3282	5.989777	GTCAAGTCTGTTTCTTAGCAAGGTA	59.010	40.000	0.00	0.00	0.00	3.08
2370	3283	4.816925	GTCAAGTCTGTTTCTTAGCAAGGT	59.183	41.667	0.00	0.00	0.00	3.50
2371	3284	5.059833	AGTCAAGTCTGTTTCTTAGCAAGG	58.940	41.667	0.00	0.00	0.00	3.61
2708	3724	4.204799	GGGAACAACCAGGTATGATAACC	58.795	47.826	0.00	0.00	41.20	2.85
2813	3831	3.635331	CAGCAACCACAAATTGTCAGAG	58.365	45.455	0.00	0.00	0.00	3.35
2923	3941	3.973206	TCAGAACGCCTTTATCCTCAA	57.027	42.857	0.00	0.00	0.00	3.02
2966	3984	6.204882	GCAATATCCCTATACTGAACCAACAC	59.795	42.308	0.00	0.00	0.00	3.32
3126	4146	9.476202	TGTGTATATATGTAAACTGATGTCTGC	57.524	33.333	1.95	0.00	0.00	4.26
3141	4163	7.334421	GTCCAGTTAGGCCAATGTGTATATATG	59.666	40.741	5.01	0.00	37.29	1.78
3162	4184	3.270027	TGCATGATTAAAGTCGGTCCAG	58.730	45.455	0.00	0.00	0.00	3.86
3210	4232	5.530171	ACTGACACGAGTAAGAGTGAAGTTA	59.470	40.000	4.15	0.00	40.56	2.24

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.