AutoCloner

Multiple sequence alignment - TraesCS5B01G294300

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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	TraesCS5B01G294300	chr5B	100.000	3346	0	0	496	3841	478736867	478740212	0.000000e+00	6180.0
1	TraesCS5B01G294300	chr5B	80.250	1119	157	40	1018	2098	478674208	478675300	0.000000e+00	784.0
2	TraesCS5B01G294300	chr5B	78.759	1064	169	37	1066	2097	478681144	478682182	0.000000e+00	660.0
3	TraesCS5B01G294300	chr5B	100.000	211	0	0	1	211	478736372	478736582	1.290000e-104	390.0
4	TraesCS5B01G294300	chr5B	89.091	275	22	8	551	823	522947848	522948116	6.150000e-88	335.0
5	TraesCS5B01G294300	chr5B	91.429	245	18	3	577	821	657403811	657404052	2.210000e-87	333.0
6	TraesCS5B01G294300	chr5B	98.990	99	1	0	1	99	657403003	657403101	1.100000e-40	178.0
7	TraesCS5B01G294300	chr5B	72.834	427	90	21	1049	1460	70805830	70805415	5.210000e-24	122.0
8	TraesCS5B01G294300	chr5A	92.923	3052	136	32	822	3841	503771768	503774771	0.000000e+00	4366.0
9	TraesCS5B01G294300	chr5A	88.346	266	21	10	565	824	433516676	433516937	1.040000e-80	311.0
10	TraesCS5B01G294300	chr5A	100.000	28	0	0	72	99	502231170	502231143	7.000000e-03	52.8
11	TraesCS5B01G294300	chr5D	92.037	3039	186	22	822	3836	398764552	398767558	0.000000e+00	4220.0
12	TraesCS5B01G294300	chr5D	84.682	581	83	3	1006	1586	398616461	398617035	3.330000e-160	575.0
13	TraesCS5B01G294300	chr5D	79.400	767	131	19	1066	1820	398755825	398756576	2.050000e-142	516.0
14	TraesCS5B01G294300	chr5D	76.796	362	60	12	1750	2096	398634990	398635342	8.480000e-42	182.0
15	TraesCS5B01G294300	chr5D	73.433	335	78	9	1054	1381	59938803	59939133	8.720000e-22	115.0
16	TraesCS5B01G294300	chr7B	90.299	268	18	6	551	818	253708862	253709121	1.020000e-90	344.0
17	TraesCS5B01G294300	chr7B	92.105	114	8	1	98	211	253708196	253708308	3.970000e-35	159.0
18	TraesCS5B01G294300	chr7B	93.396	106	5	2	3249	3354	169296059	169295956	5.140000e-34	156.0
19	TraesCS5B01G294300	chr4B	86.007	293	30	9	541	824	25391121	25390831	1.730000e-78	303.0
20	TraesCS5B01G294300	chr4B	91.892	74	5	1	26	99	665340981	665341053	6.790000e-18	102.0
21	TraesCS5B01G294300	chr4A	88.710	248	22	3	578	822	246254667	246254423	8.070000e-77	298.0
22	TraesCS5B01G294300	chr4A	83.636	220	25	6	3252	3470	49257484	49257275	3.030000e-46	196.0
23	TraesCS5B01G294300	chr4A	93.590	78	1	3	22	99	24243752	24243679	3.140000e-21	113.0
24	TraesCS5B01G294300	chr3A	89.474	228	17	5	601	824	445850097	445849873	8.120000e-72	281.0
25	TraesCS5B01G294300	chr6A	85.069	288	26	13	542	821	454185708	454185986	1.050000e-70	278.0
26	TraesCS5B01G294300	chr6A	91.176	102	5	1	3253	3354	73666649	73666746	6.690000e-28	135.0
27	TraesCS5B01G294300	chr1A	89.041	219	16	6	607	821	568905034	568905248	8.180000e-67	265.0
28	TraesCS5B01G294300	chr4D	83.636	220	22	9	3252	3470	414153569	414153775	1.090000e-45	195.0
29	TraesCS5B01G294300	chr6B	81.858	226	29	7	3253	3477	654809409	654809195	3.050000e-41	180.0
30	TraesCS5B01G294300	chr6B	83.523	176	24	4	1042	1215	60593838	60594010	3.970000e-35	159.0
31	TraesCS5B01G294300	chr6B	87.500	96	7	1	3253	3348	131123091	131123181	5.250000e-19	106.0
32	TraesCS5B01G294300	chrUn	82.090	201	27	7	1045	1240	26970951	26970755	3.070000e-36	163.0
33	TraesCS5B01G294300	chr6D	82.474	194	23	9	1064	1250	27313781	27313592	3.970000e-35	159.0
34	TraesCS5B01G294300	chr6D	81.538	195	28	7	1062	1250	27329061	27328869	1.850000e-33	154.0
35	TraesCS5B01G294300	chr7D	92.929	99	6	1	3256	3354	204871320	204871223	4.000000e-30	143.0
36	TraesCS5B01G294300	chr7D	93.151	73	5	0	3394	3466	222520016	222520088	1.460000e-19	108.0
37	TraesCS5B01G294300	chr7A	85.950	121	13	3	705	824	315275251	315275134	4.030000e-25	126.0
38	TraesCS5B01G294300	chr7A	77.619	210	34	8	3252	3460	237505633	237505830	8.720000e-22	115.0
39	TraesCS5B01G294300	chr7A	100.000	28	0	0	3422	3449	726455316	726455343	7.000000e-03	52.8
40	TraesCS5B01G294300	chr2B	80.645	124	24	0	3253	3376	570122146	570122269	3.160000e-16	97.1
41	TraesCS5B01G294300	chr2A	79.839	124	25	0	3253	3376	630246068	630246191	1.470000e-14	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	TraesCS5B01G294300	chr5B	478736372	478740212	3840	False	3285.0	6180	100.0000	1	3841	2	chr5B.!!$F4	3840
1	TraesCS5B01G294300	chr5B	478674208	478675300	1092	False	784.0	784	80.2500	1018	2098	1	chr5B.!!$F1	1080
2	TraesCS5B01G294300	chr5B	478681144	478682182	1038	False	660.0	660	78.7590	1066	2097	1	chr5B.!!$F2	1031
3	TraesCS5B01G294300	chr5B	657403003	657404052	1049	False	255.5	333	95.2095	1	821	2	chr5B.!!$F5	820
4	TraesCS5B01G294300	chr5A	503771768	503774771	3003	False	4366.0	4366	92.9230	822	3841	1	chr5A.!!$F2	3019
5	TraesCS5B01G294300	chr5D	398764552	398767558	3006	False	4220.0	4220	92.0370	822	3836	1	chr5D.!!$F5	3014
6	TraesCS5B01G294300	chr5D	398616461	398617035	574	False	575.0	575	84.6820	1006	1586	1	chr5D.!!$F2	580
7	TraesCS5B01G294300	chr5D	398755825	398756576	751	False	516.0	516	79.4000	1066	1820	1	chr5D.!!$F4	754
8	TraesCS5B01G294300	chr7B	253708196	253709121	925	False	251.5	344	91.2020	98	818	2	chr7B.!!$F1	720

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	Hairpin	End Stability	Orientation
672	1116	0.179137	CGTCCGCTGATCACTAGCAA	60.179	55.000	6.28	41.18	3.91	F
1714	2187	0.603569	GAGAAAGTCCAGCGTCCTGA	59.396	55.000	0.00	41.77	3.86	F
1828	2310	1.005867	GTAGACGGCGGTTGTTCCA	60.006	57.895	13.24	35.57	3.53	F

Position	MSA Position	Penalty	Sequence	TM	GC	Hairpin	End Stability	Orientation
2160	2660	0.179468	GCAAGGGTCGGCTATTACCA	59.821	55.000	37.51	3.25	R
2807	3311	1.764723	CCATCATCTCTACCACCAGCA	59.235	52.381	0.00	4.41	R
3287	3796	2.270352	TGCTCCAACCACAGTTTAGG	57.730	50.000	32.45	2.69	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
23	24	1.541672	CCTCTCCCTCCCCTCTCTC	59.458	68.421	0.00	0.00	0.00	3.20
144	236	1.454111	CCCTCTCCGTCGTCTCCAT	60.454	63.158	0.00	0.00	0.00	3.41
531	623	2.571757	CTTACAGCGGTCAGGCGA	59.428	61.111	0.00	0.00	38.18	5.54
533	625	2.890847	CTTACAGCGGTCAGGCGAGG	62.891	65.000	0.00	0.00	38.18	4.63
667	1111	2.418910	CCCTCGTCCGCTGATCACT	61.419	63.158	0.00	0.00	0.00	3.41
672	1116	0.179137	CGTCCGCTGATCACTAGCAA	60.179	55.000	6.28	0.00	41.18	3.91
709	1153	1.758514	CCCAGCTTCTCGCCTCCTA	60.759	63.158	0.00	0.00	40.39	2.94
743	1187	1.382557	GGAAAATTCCCGCCCCCAT	60.383	57.895	0.43	0.00	41.62	4.00
829	1273	3.118811	GCTGGAGATGCTCTTAGAGTTGT	60.119	47.826	11.18	0.00	31.39	3.32
838	1283	8.757877	AGATGCTCTTAGAGTTGTTCTAAAGAT	58.242	33.333	11.18	0.00	45.37	2.40
909	1357	8.934825	GCAAAATTTACAATGATAGCAAAAGGA	58.065	29.630	0.00	0.00	0.00	3.36
981	1441	3.361977	CAAGTCGCCCCCAAACGG	61.362	66.667	0.00	0.00	0.00	4.44
1122	1582	3.393970	CTCCTTCCTCCGCAGCCA	61.394	66.667	0.00	0.00	0.00	4.75
1183	1643	2.900838	GCCTCGTCTCCGATCCGA	60.901	66.667	0.00	0.00	43.27	4.55
1244	1704	0.753479	CTCCTCGGCTGCTTCTCCTA	60.753	60.000	0.00	0.00	0.00	2.94
1392	1858	0.681243	GCCTCGCCCTTTTCCTCAAT	60.681	55.000	0.00	0.00	0.00	2.57
1602	2068	2.671070	CGAGGTGGCCAAGACCAT	59.329	61.111	7.24	0.00	43.01	3.55
1613	2086	3.019564	GCCAAGACCATGCAAGTCTATT	58.980	45.455	19.69	6.04	43.77	1.73
1691	2164	8.967664	ACTAAAGACTGGTACACATTGTTTTA	57.032	30.769	0.00	0.00	29.91	1.52
1714	2187	0.603569	GAGAAAGTCCAGCGTCCTGA	59.396	55.000	0.00	0.00	41.77	3.86
1828	2310	1.005867	GTAGACGGCGGTTGTTCCA	60.006	57.895	13.24	0.00	35.57	3.53
1959	2453	3.507622	GGGTCCTTCAGAAAACCATTGAG	59.492	47.826	13.83	0.00	33.27	3.02
1960	2454	4.145052	GGTCCTTCAGAAAACCATTGAGT	58.855	43.478	8.82	0.00	0.00	3.41
2160	2660	3.441572	CCTACACAAGCTTTTATGCTGCT	59.558	43.478	0.00	0.00	43.24	4.24
2265	2765	8.620116	TCATGCATAAGTTATATGCTTGCTTA	57.380	30.769	21.83	9.92	46.62	3.09
2310	2810	8.567948	GGTGATGTTTGTATATATTTCACTGGG	58.432	37.037	0.00	0.00	34.23	4.45
2407	2911	6.436843	AGGTATTCAAATTTAAGCAGTCGG	57.563	37.500	0.00	0.00	0.00	4.79
2409	2913	5.124936	GGTATTCAAATTTAAGCAGTCGGGT	59.875	40.000	0.00	0.00	0.00	5.28
2420	2924	4.015872	AGCAGTCGGGTTATTTTTCTCA	57.984	40.909	0.00	0.00	0.00	3.27
2431	2935	6.868339	GGGTTATTTTTCTCAACCAGAATGTG	59.132	38.462	5.20	0.00	42.92	3.21
2454	2958	8.233868	TGTGTTCGTTCAAGAATATTACCATTG	58.766	33.333	0.00	0.00	32.25	2.82
2480	2984	5.761726	TGCATCTGACTTAGCATGGAATAAG	59.238	40.000	0.00	0.00	35.54	1.73
2487	2991	6.595326	TGACTTAGCATGGAATAAGTTCACTG	59.405	38.462	0.00	0.00	41.20	3.66
2493	2997	3.942829	TGGAATAAGTTCACTGCAGAGG	58.057	45.455	23.35	12.34	36.01	3.69
2494	2998	3.327757	TGGAATAAGTTCACTGCAGAGGT	59.672	43.478	23.35	0.00	36.01	3.85
2495	2999	3.935828	GGAATAAGTTCACTGCAGAGGTC	59.064	47.826	23.35	9.37	36.01	3.85
2579	3083	7.504403	AGGTAGATGATCATTACTGTTTGGAG	58.496	38.462	10.14	0.00	0.00	3.86
2673	3177	5.936956	CCTTGAGTCAAAAGCTAGTGATCTT	59.063	40.000	7.06	0.00	0.00	2.40
2749	3253	3.556004	CCTTCACCCTCTCTTTCTGTGTC	60.556	52.174	0.00	0.00	0.00	3.67
2751	3255	3.242867	TCACCCTCTCTTTCTGTGTCAT	58.757	45.455	0.00	0.00	0.00	3.06
2807	3311	2.106511	TCTTTTGCTTGTAGACTGGGCT	59.893	45.455	0.00	0.00	0.00	5.19
2839	3343	6.259608	GGTAGAGATGATGGAACTGAAATGTG	59.740	42.308	0.00	0.00	0.00	3.21
2861	3365	4.635765	TGAAGCAGTACATCACCTAATTGC	59.364	41.667	0.00	0.00	0.00	3.56
3117	3626	4.394729	TCTTCTTGCCCGTTTTGTATTCT	58.605	39.130	0.00	0.00	0.00	2.40
3155	3664	6.538209	AAGTCCCAGAGAGAATCCTATAGA	57.462	41.667	0.00	0.00	33.66	1.98
3164	3673	9.690913	CAGAGAGAATCCTATAGATCTCTCATT	57.309	37.037	33.28	23.20	46.09	2.57
3177	3686	7.370905	AGATCTCTCATTCACATATGTTCCA	57.629	36.000	5.37	0.00	0.00	3.53
3199	3708	2.097825	AGATGTCACCACCTACGGTAC	58.902	52.381	0.00	0.00	37.07	3.34
3219	3728	5.359576	GGTACATCATATTTTGAGGGCAACA	59.640	40.000	0.00	0.00	40.46	3.33
3287	3796	5.193679	CAATAGGTGCCCTATAATAAGGCC	58.806	45.833	12.50	0.00	45.14	5.19
3365	3875	5.193679	CCAAAAACCTCCCACTCTAATAGG	58.806	45.833	0.00	0.00	0.00	2.57
3380	3890	4.786454	TCTAATAGGTGCCCTAAAACAGGT	59.214	41.667	5.22	0.00	43.80	4.00
3381	3891	2.871096	TAGGTGCCCTAAAACAGGTG	57.129	50.000	0.00	0.00	43.80	4.00
3382	3892	0.850784	AGGTGCCCTAAAACAGGTGT	59.149	50.000	0.00	0.00	43.80	4.16
3383	3893	1.216930	AGGTGCCCTAAAACAGGTGTT	59.783	47.619	0.00	0.00	43.80	3.32
3384	3894	1.339929	GGTGCCCTAAAACAGGTGTTG	59.660	52.381	0.00	0.00	43.80	3.33
3385	3895	1.339929	GTGCCCTAAAACAGGTGTTGG	59.660	52.381	0.00	0.00	43.80	3.77
3386	3896	0.317160	GCCCTAAAACAGGTGTTGGC	59.683	55.000	6.26	6.26	43.80	4.52
3615	4136	4.428570	TGTCCTCATATGCCATGATAGGA	58.571	43.478	0.00	0.24	0.00	2.94
3622	4143	2.804986	TGCCATGATAGGAAACTGCA	57.195	45.000	0.00	0.00	43.88	4.41
3642	4163	0.250338	GCTCGATAATTCGGGGGCTT	60.250	55.000	0.00	0.00	46.25	4.35
3644	4165	1.070134	CTCGATAATTCGGGGGCTTGA	59.930	52.381	0.00	0.00	45.53	3.02
3664	4185	2.584835	TGTTTGATTCTGGTGGAGGG	57.415	50.000	0.00	0.00	0.00	4.30
3755	4279	4.346418	AGTTTGTCAGAGACTGGATGTTCT	59.654	41.667	0.00	0.00	33.15	3.01
3836	4360	3.055094	CCTACTACCTGTTTGCATCACCT	60.055	47.826	0.00	0.00	0.00	4.00

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
23	24	3.203040	AGAGAAAGGAGAGGAGAGAGGAG	59.797	52.174	0.00	0.00	0.00	3.69
135	227	1.475403	GGAGGAGAACATGGAGACGA	58.525	55.000	0.00	0.00	0.00	4.20
163	255	2.124736	CCATGGATGACGGCGGTT	60.125	61.111	13.24	0.00	0.00	4.44
173	265	2.605299	GGCCTTGCCTCCATGGAT	59.395	61.111	16.63	0.00	46.69	3.41
515	607	2.571757	CTCGCCTGACCGCTGTAA	59.428	61.111	0.00	0.00	0.00	2.41
516	608	3.449227	CCTCGCCTGACCGCTGTA	61.449	66.667	0.00	0.00	0.00	2.74
672	1116	3.432588	CCGACGAGGACGAGCTGT	61.433	66.667	0.00	0.00	45.00	4.40
743	1187	2.668212	CCGGCGAGAACTTTGGCA	60.668	61.111	9.30	0.00	35.48	4.92
770	1214	4.907879	GAGGCATTATTTTCACCTCCTG	57.092	45.455	0.00	0.00	40.91	3.86
773	1217	3.633986	CCAGGAGGCATTATTTTCACCTC	59.366	47.826	0.00	0.00	45.10	3.85
774	1218	3.628257	CCCAGGAGGCATTATTTTCACCT	60.628	47.826	0.00	0.00	0.00	4.00
776	1220	2.695147	CCCCAGGAGGCATTATTTTCAC	59.305	50.000	0.00	0.00	0.00	3.18
777	1221	2.359143	CCCCCAGGAGGCATTATTTTCA	60.359	50.000	0.00	0.00	33.47	2.69
882	1330	8.719648	CCTTTTGCTATCATTGTAAATTTTGCA	58.280	29.630	0.00	0.00	0.00	4.08
888	1336	7.564660	TGGGATCCTTTTGCTATCATTGTAAAT	59.435	33.333	12.58	0.00	0.00	1.40
897	1345	6.530019	TTCTTTTGGGATCCTTTTGCTATC	57.470	37.500	12.58	0.00	0.00	2.08
931	1379	6.170506	CCCTTTGCAAATCTGTACTAGTACA	58.829	40.000	29.21	29.21	43.14	2.90
932	1380	5.585047	CCCCTTTGCAAATCTGTACTAGTAC	59.415	44.000	23.58	23.58	36.63	2.73
933	1381	5.741011	CCCCTTTGCAAATCTGTACTAGTA	58.259	41.667	13.23	0.00	0.00	1.82
934	1382	4.589908	CCCCTTTGCAAATCTGTACTAGT	58.410	43.478	13.23	0.00	0.00	2.57
935	1383	3.378427	GCCCCTTTGCAAATCTGTACTAG	59.622	47.826	13.23	0.00	0.00	2.57
936	1384	3.245087	TGCCCCTTTGCAAATCTGTACTA	60.245	43.478	13.23	0.00	38.56	1.82
937	1385	2.171003	GCCCCTTTGCAAATCTGTACT	58.829	47.619	13.23	0.00	0.00	2.73
948	1396	1.620323	ACTTGAGATTTGCCCCTTTGC	59.380	47.619	0.00	0.00	0.00	3.68
952	1400	0.678048	GCGACTTGAGATTTGCCCCT	60.678	55.000	0.00	0.00	0.00	4.79
1183	1643	2.501610	GAAGCGGCGGAGGAATCT	59.498	61.111	9.78	0.00	0.00	2.40
1185	1645	4.530857	CGGAAGCGGCGGAGGAAT	62.531	66.667	9.78	0.00	0.00	3.01
1244	1704	2.684881	ACGTAACCGATATCTTGGTCGT	59.315	45.455	9.35	9.35	38.29	4.34
1344	1807	1.064825	ATTCCACGAAGTCCAACCCT	58.935	50.000	0.00	0.00	41.61	4.34
1345	1808	1.165270	CATTCCACGAAGTCCAACCC	58.835	55.000	0.00	0.00	41.61	4.11
1346	1809	0.521735	GCATTCCACGAAGTCCAACC	59.478	55.000	0.00	0.00	41.61	3.77
1392	1858	0.320946	CGGCCTCGGGTTGTTTCTTA	60.321	55.000	0.00	0.00	0.00	2.10
1602	2068	2.813754	GAGGCACACAAATAGACTTGCA	59.186	45.455	0.00	0.00	0.00	4.08
1613	2086	3.500448	TGGATTTGTAGAGGCACACAA	57.500	42.857	0.00	0.00	32.98	3.33
1714	2187	3.511146	CACCAGTAAAGTGCATTCCCAAT	59.489	43.478	0.00	0.00	0.00	3.16
1828	2310	3.638627	TCTGTCCGCATGATCTGATAGTT	59.361	43.478	0.00	0.00	0.00	2.24
1959	2453	1.570813	GCCAAAGGTGCTTTGTCAAC	58.429	50.000	0.00	0.00	46.40	3.18
1960	2454	0.463620	GGCCAAAGGTGCTTTGTCAA	59.536	50.000	0.00	0.00	46.40	3.18
2160	2660	0.179468	GCAAGGGTCGGCTATTACCA	59.821	55.000	0.00	0.00	37.51	3.25
2212	2712	1.751924	GGCAACCTTTAACCACACACA	59.248	47.619	0.00	0.00	0.00	3.72
2213	2713	2.028876	AGGCAACCTTTAACCACACAC	58.971	47.619	0.00	0.00	37.17	3.82
2257	2757	4.513318	AGTTCAGAAACTGAGTAAGCAAGC	59.487	41.667	0.00	0.00	44.13	4.01
2265	2765	4.101585	TCACCATGAGTTCAGAAACTGAGT	59.898	41.667	0.00	0.00	45.80	3.41
2306	2806	0.680618	TTTGCTTTCACATGGCCCAG	59.319	50.000	0.00	0.00	0.00	4.45
2407	2911	7.433680	ACACATTCTGGTTGAGAAAAATAACC	58.566	34.615	0.00	0.00	44.11	2.85
2409	2913	7.860373	CGAACACATTCTGGTTGAGAAAAATAA	59.140	33.333	0.00	0.00	44.11	1.40
2420	2924	4.196193	TCTTGAACGAACACATTCTGGTT	58.804	39.130	0.00	0.00	32.12	3.67
2431	2935	7.696453	CACCAATGGTAATATTCTTGAACGAAC	59.304	37.037	3.85	0.00	32.11	3.95
2454	2958	1.945394	CCATGCTAAGTCAGATGCACC	59.055	52.381	0.00	0.00	38.29	5.01
2480	2984	1.140816	GAACGACCTCTGCAGTGAAC	58.859	55.000	17.19	9.20	0.00	3.18
2487	2991	1.531578	GTTTTCCAGAACGACCTCTGC	59.468	52.381	7.97	0.00	41.36	4.26
2579	3083	6.851330	CACTTCCTCTAAACAAAACGAATCAC	59.149	38.462	0.00	0.00	0.00	3.06
2807	3311	1.764723	CCATCATCTCTACCACCAGCA	59.235	52.381	0.00	0.00	0.00	4.41
2839	3343	4.035675	GGCAATTAGGTGATGTACTGCTTC	59.964	45.833	0.00	0.00	0.00	3.86
2861	3365	7.984050	CACATTATGGTAGCTTATCTGATAGGG	59.016	40.741	8.62	3.00	0.00	3.53
3155	3664	6.892485	TGTGGAACATATGTGAATGAGAGAT	58.108	36.000	9.63	0.00	45.67	2.75
3199	3708	4.098960	AGCTGTTGCCCTCAAAATATGATG	59.901	41.667	0.00	0.00	40.80	3.07
3287	3796	2.270352	TGCTCCAACCACAGTTTAGG	57.730	50.000	0.00	0.00	32.45	2.69
3380	3890	3.808466	TGTATTTTGCAACAGCCAACA	57.192	38.095	0.00	0.00	0.00	3.33
3381	3891	4.305769	TGATGTATTTTGCAACAGCCAAC	58.694	39.130	0.00	0.00	31.09	3.77
3382	3892	4.597404	TGATGTATTTTGCAACAGCCAA	57.403	36.364	0.00	0.00	31.09	4.52
3383	3893	4.496360	CATGATGTATTTTGCAACAGCCA	58.504	39.130	0.00	0.00	31.09	4.75
3384	3894	3.866910	CCATGATGTATTTTGCAACAGCC	59.133	43.478	0.00	0.00	31.09	4.85
3385	3895	4.497300	ACCATGATGTATTTTGCAACAGC	58.503	39.130	0.00	0.00	32.74	4.40
3386	3896	5.927689	ACAACCATGATGTATTTTGCAACAG	59.072	36.000	0.00	0.00	0.00	3.16
3448	3958	7.133891	AGTGTTGTTTATATCACTCTGTTGC	57.866	36.000	0.00	0.00	36.59	4.17
3449	3959	8.017373	CCAAGTGTTGTTTATATCACTCTGTTG	58.983	37.037	0.00	0.00	39.72	3.33
3450	3960	7.719633	ACCAAGTGTTGTTTATATCACTCTGTT	59.280	33.333	0.00	0.00	39.72	3.16
3451	3961	7.224297	ACCAAGTGTTGTTTATATCACTCTGT	58.776	34.615	0.00	0.00	39.72	3.41
3452	3962	7.387673	TGACCAAGTGTTGTTTATATCACTCTG	59.612	37.037	0.00	0.00	39.72	3.35
3453	3963	7.450074	TGACCAAGTGTTGTTTATATCACTCT	58.550	34.615	0.00	0.00	39.72	3.24
3454	3964	7.667043	TGACCAAGTGTTGTTTATATCACTC	57.333	36.000	0.00	0.00	39.72	3.51
3455	3965	9.905713	ATATGACCAAGTGTTGTTTATATCACT	57.094	29.630	0.00	0.00	41.93	3.41
3463	3973	8.918202	TCTTCTAATATGACCAAGTGTTGTTT	57.082	30.769	0.00	0.00	0.00	2.83
3464	3974	8.918202	TTCTTCTAATATGACCAAGTGTTGTT	57.082	30.769	0.00	0.00	0.00	2.83
3642	4163	3.561960	CCCTCCACCAGAATCAAACATCA	60.562	47.826	0.00	0.00	0.00	3.07
3644	4165	2.379907	ACCCTCCACCAGAATCAAACAT	59.620	45.455	0.00	0.00	0.00	2.71
3664	4185	6.257849	TGATCCTATCGTCTTAAATGCAACAC	59.742	38.462	0.00	0.00	0.00	3.32
3755	4279	8.316214	AGGGAAATCTAATCTACGTAACAAACA	58.684	33.333	0.00	0.00	0.00	2.83

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.