AutoCloner

Multiple sequence alignment - TraesCS3B01G599700

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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	TraesCS3B01G599700	chr3B	100.000	3380	0	0	1	3380	820508521	820505142	0.000000e+00	6242.0
1	TraesCS3B01G599700	chr3B	90.990	1565	114	8	998	2542	820677839	820676282	0.000000e+00	2084.0
2	TraesCS3B01G599700	chr3B	90.267	1613	110	24	856	2452	820773622	820772041	0.000000e+00	2065.0
3	TraesCS3B01G599700	chr3B	91.200	875	66	7	1671	2539	820599776	820598907	0.000000e+00	1179.0
4	TraesCS3B01G599700	chr3B	88.995	945	71	16	1626	2539	820718911	820717969	0.000000e+00	1138.0
5	TraesCS3B01G599700	chr3B	92.422	739	50	4	1801	2538	820762089	820761356	0.000000e+00	1050.0
6	TraesCS3B01G599700	chr3B	93.211	707	41	5	2619	3321	820795475	820794772	0.000000e+00	1033.0
7	TraesCS3B01G599700	chr3B	84.645	1029	133	9	1046	2055	820719534	820718512	0.000000e+00	1002.0
8	TraesCS3B01G599700	chr3B	85.285	999	112	16	998	1971	820775247	820774259	0.000000e+00	998.0
9	TraesCS3B01G599700	chr3B	85.193	986	122	9	994	1959	820797099	820796118	0.000000e+00	990.0
10	TraesCS3B01G599700	chr3B	92.518	695	44	6	2633	3321	820598727	820598035	0.000000e+00	989.0
11	TraesCS3B01G599700	chr3B	85.035	989	124	16	995	1972	820762827	820761852	0.000000e+00	985.0
12	TraesCS3B01G599700	chr3B	92.769	650	39	7	2675	3321	820761150	820760506	0.000000e+00	933.0
13	TraesCS3B01G599700	chr3B	86.408	824	85	9	1491	2290	820555332	820554512	0.000000e+00	876.0
14	TraesCS3B01G599700	chr3B	87.772	736	83	2	1807	2539	820796369	820795638	0.000000e+00	854.0
15	TraesCS3B01G599700	chr3B	90.164	549	39	9	2619	3167	820676120	820675587	0.000000e+00	701.0
16	TraesCS3B01G599700	chr3B	88.985	581	39	5	2666	3245	820717860	820717304	0.000000e+00	695.0
17	TraesCS3B01G599700	chr3B	88.235	493	49	5	993	1483	820561012	820560527	6.290000e-162	580.0
18	TraesCS3B01G599700	chr3B	87.207	469	60	0	1801	2269	820774495	820774027	4.960000e-148	534.0
19	TraesCS3B01G599700	chr3B	83.475	587	82	7	1428	2002	820599992	820599409	1.790000e-147	532.0
20	TraesCS3B01G599700	chr3B	88.409	440	25	8	2396	2815	820554394	820553961	1.080000e-139	507.0
21	TraesCS3B01G599700	chr3B	78.019	414	72	13	1555	1959	820774644	820774241	3.370000e-60	243.0
22	TraesCS3B01G599700	chr3B	80.899	267	33	8	1	252	341231333	341231070	9.570000e-46	195.0
23	TraesCS3B01G599700	chr3B	95.745	47	2	0	3334	3380	820760287	820760241	3.620000e-10	76.8
24	TraesCS3B01G599700	chr3B	97.619	42	1	0	2356	2397	820554512	820554471	4.680000e-09	73.1
25	TraesCS3B01G599700	chr3B	100.000	28	0	0	3294	3321	820717289	820717262	6.000000e-03	52.8
26	TraesCS3B01G599700	chrUn	100.000	1135	0	0	1	1135	310737543	310736409	0.000000e+00	2097.0
27	TraesCS3B01G599700	chr3D	89.726	1567	125	17	995	2539	609628616	609627064	0.000000e+00	1969.0
28	TraesCS3B01G599700	chr3D	92.239	670	40	8	2619	3283	609626898	609626236	0.000000e+00	939.0
29	TraesCS3B01G599700	chr3D	81.325	332	47	4	1	317	606884550	606884219	4.330000e-64	255.0
30	TraesCS3B01G599700	chr3D	84.828	145	22	0	174	318	140789183	140789039	2.720000e-31	147.0
31	TraesCS3B01G599700	chr3A	83.805	1025	126	18	995	1995	743194594	743193586	0.000000e+00	937.0
32	TraesCS3B01G599700	chr3A	91.558	616	43	6	2633	3245	743192923	743192314	0.000000e+00	841.0
33	TraesCS3B01G599700	chr3A	84.064	753	92	12	1742	2485	743193876	743193143	0.000000e+00	701.0
34	TraesCS3B01G599700	chr3A	84.014	294	41	2	1774	2061	743193877	743193584	9.240000e-71	278.0
35	TraesCS3B01G599700	chr3A	85.714	133	19	0	173	305	158692565	158692433	1.260000e-29	141.0
36	TraesCS3B01G599700	chr3A	76.875	160	31	6	365	519	607055131	607055289	6.010000e-13	86.1
37	TraesCS3B01G599700	chr5A	83.688	423	63	4	2760	3180	626249983	626250401	8.790000e-106	394.0
38	TraesCS3B01G599700	chr5A	80.723	332	49	6	1	317	644018757	644018426	9.370000e-61	244.0
39	TraesCS3B01G599700	chr5D	81.346	327	46	3	6	317	395773227	395772901	5.600000e-63	252.0
40	TraesCS3B01G599700	chr5D	77.329	322	58	8	1	307	66580366	66580045	3.470000e-40	176.0
41	TraesCS3B01G599700	chr2D	81.121	339	42	10	1	317	591272528	591272866	5.600000e-63	252.0
42	TraesCS3B01G599700	chr2D	80.224	268	37	10	1	252	20775547	20775814	1.600000e-43	187.0
43	TraesCS3B01G599700	chr2D	84.397	141	21	1	179	319	594574843	594574982	1.640000e-28	137.0
44	TraesCS3B01G599700	chr5B	81.024	332	48	6	1	317	520175074	520175405	2.010000e-62	250.0
45	TraesCS3B01G599700	chr6B	80.422	332	44	13	1	317	661844003	661844328	2.030000e-57	233.0
46	TraesCS3B01G599700	chr6B	78.571	336	56	4	1	321	446305219	446304885	1.230000e-49	207.0
47	TraesCS3B01G599700	chr7D	79.141	326	53	7	7	317	535738982	535738657	9.500000e-51	211.0
48	TraesCS3B01G599700	chr4D	79.114	316	51	9	1	301	282194808	282195123	1.590000e-48	204.0
49	TraesCS3B01G599700	chr4A	84.615	143	22	0	178	320	644256227	644256085	3.520000e-30	143.0

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	TraesCS3B01G599700	chr3B	820505142	820508521	3379	True	6242.000000	6242	100.000000	1	3380	1	chr3B.!!$R2	3379
1	TraesCS3B01G599700	chr3B	820675587	820677839	2252	True	1392.500000	2084	90.577000	998	3167	2	chr3B.!!$R6	2169
2	TraesCS3B01G599700	chr3B	820772041	820775247	3206	True	960.000000	2065	85.194500	856	2452	4	chr3B.!!$R9	1596
3	TraesCS3B01G599700	chr3B	820794772	820797099	2327	True	959.000000	1033	88.725333	994	3321	3	chr3B.!!$R10	2327
4	TraesCS3B01G599700	chr3B	820598035	820599992	1957	True	900.000000	1179	89.064333	1428	3321	3	chr3B.!!$R5	1893
5	TraesCS3B01G599700	chr3B	820760241	820762827	2586	True	761.200000	1050	91.492750	995	3380	4	chr3B.!!$R8	2385
6	TraesCS3B01G599700	chr3B	820717262	820719534	2272	True	721.950000	1138	90.656250	1046	3321	4	chr3B.!!$R7	2275
7	TraesCS3B01G599700	chr3B	820553961	820555332	1371	True	485.366667	876	90.812000	1491	2815	3	chr3B.!!$R4	1324
8	TraesCS3B01G599700	chrUn	310736409	310737543	1134	True	2097.000000	2097	100.000000	1	1135	1	chrUn.!!$R1	1134
9	TraesCS3B01G599700	chr3D	609626236	609628616	2380	True	1454.000000	1969	90.982500	995	3283	2	chr3D.!!$R3	2288
10	TraesCS3B01G599700	chr3A	743192314	743194594	2280	True	689.250000	937	85.860250	995	3245	4	chr3A.!!$R2	2250

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
1219	1221	1.178276	CTGGTACTTCCTCTGCGTCT	58.822	55.0	0.0	0.0	37.07	4.18	F
1395	3159	0.041238	TCATGGAGGAGTTCGGGACT	59.959	55.0	0.0	0.0	42.70	3.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2166	4122	0.316204	CGAACAGTTCCGGGTAGTGT	59.684	55.0	8.19	8.19	0.0	3.55	R
2928	5082	0.453793	CGAGATCCTGAGCACTTCGT	59.546	55.0	0.00	0.00	0.0	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
1219	1221	1.178276	CTGGTACTTCCTCTGCGTCT	58.822	55.000	0.00	0.00	37.07	4.18
1395	3159	0.041238	TCATGGAGGAGTTCGGGACT	59.959	55.000	0.00	0.00	42.70	3.85
1562	3338	1.100510	GCAGATGCAAAGGATGAGCA	58.899	50.000	0.00	0.00	43.14	4.26
1579	3355	0.384669	GCAGAAGCCATTGGAGATGC	59.615	55.000	6.95	6.85	33.58	3.91
1597	3379	0.610232	GCTTGCCATGGAGGACAAGT	60.610	55.000	22.93	0.00	45.42	3.16
1612	3394	0.250234	CAAGTCGGAGCCATTGGAGA	59.750	55.000	6.95	0.00	0.00	3.71
1620	3402	1.734465	GAGCCATTGGAGAACGTCTTG	59.266	52.381	6.95	0.00	0.00	3.02
1633	3415	1.291877	CGTCTTGGCCAAGGACGAAG	61.292	60.000	38.83	24.98	40.70	3.79
1638	3420	2.035442	GGCCAAGGACGAAGCAGAC	61.035	63.158	0.00	0.00	0.00	3.51
1660	3442	1.526315	ATGGGAGATCCTTGCCATGA	58.474	50.000	7.14	0.00	46.13	3.07
1699	3520	2.368548	TGGGAGATGATTACCATGGACG	59.631	50.000	21.47	0.00	35.17	4.79
1741	3562	4.036262	TGCTTACCAACAACTTGACATGTC	59.964	41.667	19.27	19.27	0.00	3.06
1742	3563	4.556699	GCTTACCAACAACTTGACATGTCC	60.557	45.833	22.85	5.91	0.00	4.02
1743	3564	3.011566	ACCAACAACTTGACATGTCCA	57.988	42.857	22.85	11.48	0.00	4.02
1744	3565	2.687935	ACCAACAACTTGACATGTCCAC	59.312	45.455	22.85	0.00	0.00	4.02
1745	3566	2.687425	CCAACAACTTGACATGTCCACA	59.313	45.455	22.85	2.21	0.00	4.17
1746	3567	3.243168	CCAACAACTTGACATGTCCACAG	60.243	47.826	22.85	17.14	0.00	3.66
1747	3568	2.575532	ACAACTTGACATGTCCACAGG	58.424	47.619	22.85	12.01	0.00	4.00
1748	3569	2.172505	ACAACTTGACATGTCCACAGGA	59.827	45.455	22.85	0.00	0.00	3.86
1749	3570	2.810274	CAACTTGACATGTCCACAGGAG	59.190	50.000	22.85	12.55	29.39	3.69
1750	3571	2.329267	ACTTGACATGTCCACAGGAGA	58.671	47.619	22.85	0.00	29.39	3.71
1751	3572	2.909006	ACTTGACATGTCCACAGGAGAT	59.091	45.455	22.85	0.00	36.04	2.75
1756	3577	3.548745	CATGTCCACAGGAGATGCTAA	57.451	47.619	9.82	0.00	44.41	3.09
1757	3578	3.201290	CATGTCCACAGGAGATGCTAAC	58.799	50.000	9.82	0.00	44.41	2.34
1758	3579	1.555075	TGTCCACAGGAGATGCTAACC	59.445	52.381	0.00	0.00	29.39	2.85
1759	3580	1.555075	GTCCACAGGAGATGCTAACCA	59.445	52.381	0.00	0.00	29.39	3.67
1760	3581	2.027192	GTCCACAGGAGATGCTAACCAA	60.027	50.000	0.00	0.00	29.39	3.67
1761	3582	2.027192	TCCACAGGAGATGCTAACCAAC	60.027	50.000	0.00	0.00	0.00	3.77
1762	3583	2.290260	CCACAGGAGATGCTAACCAACA	60.290	50.000	0.00	0.00	0.00	3.33
1763	3584	3.411446	CACAGGAGATGCTAACCAACAA	58.589	45.455	0.00	0.00	0.00	2.83
1764	3585	3.189287	CACAGGAGATGCTAACCAACAAC	59.811	47.826	0.00	0.00	0.00	3.32
1765	3586	3.073062	ACAGGAGATGCTAACCAACAACT	59.927	43.478	0.00	0.00	0.00	3.16
1766	3587	4.074970	CAGGAGATGCTAACCAACAACTT	58.925	43.478	0.00	0.00	0.00	2.66
1767	3588	4.074970	AGGAGATGCTAACCAACAACTTG	58.925	43.478	0.00	0.00	0.00	3.16
1768	3589	4.072131	GGAGATGCTAACCAACAACTTGA	58.928	43.478	0.00	0.00	0.00	3.02
1769	3590	4.083271	GGAGATGCTAACCAACAACTTGAC	60.083	45.833	0.00	0.00	0.00	3.18
1770	3591	4.460263	AGATGCTAACCAACAACTTGACA	58.540	39.130	0.00	0.00	0.00	3.58
1771	3592	5.072741	AGATGCTAACCAACAACTTGACAT	58.927	37.500	0.00	0.00	0.00	3.06
1772	3593	5.536161	AGATGCTAACCAACAACTTGACATT	59.464	36.000	0.00	0.00	0.00	2.71
1833	3720	2.619074	GGAGATGCTAACCAACAGCCTT	60.619	50.000	0.00	0.00	38.29	4.35
1899	3786	4.005650	TGGAGATGCTTAGCAAGAACTTG	58.994	43.478	12.08	9.82	43.62	3.16
1900	3787	4.256920	GGAGATGCTTAGCAAGAACTTGA	58.743	43.478	12.08	0.00	43.62	3.02
1903	3790	5.251764	AGATGCTTAGCAAGAACTTGACAT	58.748	37.500	12.08	11.16	43.62	3.06
1977	3867	2.282745	AACTTGCCAGAGCCAGCC	60.283	61.111	0.00	0.00	35.14	4.85
2319	4278	3.264845	GCTTGGGGTTGGGGAGGA	61.265	66.667	0.00	0.00	0.00	3.71
2349	4308	1.099879	GCTGCTTGGTGAGGCCTATG	61.100	60.000	4.42	0.00	38.35	2.23
2419	4468	8.460428	TCTAGCAGTTACTTTCTCTTTACTAGC	58.540	37.037	0.00	0.00	0.00	3.42
2420	4469	7.234661	AGCAGTTACTTTCTCTTTACTAGCT	57.765	36.000	0.00	0.00	0.00	3.32
2421	4470	8.350852	AGCAGTTACTTTCTCTTTACTAGCTA	57.649	34.615	0.00	0.00	0.00	3.32
2422	4471	8.463607	AGCAGTTACTTTCTCTTTACTAGCTAG	58.536	37.037	19.44	19.44	0.00	3.42
2539	4595	5.351233	TTGTCAATTGTACAACGTCATCC	57.649	39.130	11.22	0.00	32.07	3.51
2701	4853	5.482908	AGATGTACAACAATCTGTCAGGTC	58.517	41.667	0.00	0.00	0.00	3.85
2709	4861	6.169094	CAACAATCTGTCAGGTCACTCTAAT	58.831	40.000	0.00	0.00	0.00	1.73
2723	4877	3.034635	ACTCTAATCCTCGGCATTCACT	58.965	45.455	0.00	0.00	0.00	3.41
2815	4969	2.101415	CCTTCACTCTATGATCGCCACA	59.899	50.000	0.00	0.00	37.11	4.17
2926	5080	1.332195	CGATAGTGATCAGGCAGGGA	58.668	55.000	0.00	0.00	31.78	4.20
2928	5082	3.092301	CGATAGTGATCAGGCAGGGATA	58.908	50.000	0.00	0.00	31.78	2.59
3076	5230	5.339477	AGAGTTTGGGCTACTAGAAGGTTA	58.661	41.667	0.00	0.00	0.00	2.85
3109	5266	2.557490	GTGGTCTGTACTCTCTTCGGTT	59.443	50.000	0.00	0.00	0.00	4.44
3114	5271	3.321111	TCTGTACTCTCTTCGGTTTGCTT	59.679	43.478	0.00	0.00	0.00	3.91
3176	5333	7.450014	TGCAATTCCTAACAGATTTAGTTCCAA	59.550	33.333	0.00	0.00	0.00	3.53
3180	5337	7.921786	TCCTAACAGATTTAGTTCCAACATG	57.078	36.000	0.00	0.00	0.00	3.21
3201	5358	7.108194	ACATGTAGTCAACAGATCATCACAAT	58.892	34.615	0.00	0.00	42.70	2.71
3246	5403	8.927411	AGGCTCAGGTTATGCAATAAAATTATT	58.073	29.630	0.00	0.00	41.12	1.40
3253	5410	9.581099	GGTTATGCAATAAAATTATTATCGGGG	57.419	33.333	0.00	0.00	41.12	5.73
3273	5430	5.008217	CGGGGCGAACAATCAGATAATTTAA	59.992	40.000	0.00	0.00	0.00	1.52
3321	5478	7.114866	TGGATTTGCATTCATACACATGATT	57.885	32.000	0.00	0.00	40.85	2.57
3322	5479	7.557724	TGGATTTGCATTCATACACATGATTT	58.442	30.769	0.00	0.00	40.85	2.17
3323	5480	7.492994	TGGATTTGCATTCATACACATGATTTG	59.507	33.333	0.00	0.00	40.85	2.32
3324	5481	6.650239	TTTGCATTCATACACATGATTTGC	57.350	33.333	0.00	12.53	43.84	3.68
3326	5483	5.908341	TGCATTCATACACATGATTTGCAT	58.092	33.333	15.86	0.00	45.81	3.96
3328	5485	7.490000	TGCATTCATACACATGATTTGCATTA	58.510	30.769	15.86	2.05	45.81	1.90
3329	5486	7.980099	TGCATTCATACACATGATTTGCATTAA	59.020	29.630	15.86	0.00	45.81	1.40
3330	5487	8.984764	GCATTCATACACATGATTTGCATTAAT	58.015	29.630	0.00	0.00	43.45	1.40
3334	5491	9.949174	TCATACACATGATTTGCATTAATACAC	57.051	29.630	0.00	0.00	36.22	2.90
3348	5711	7.488792	TGCATTAATACACATGATGTTTCTTGC	59.511	33.333	0.00	2.58	43.19	4.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
1219	1221	2.658422	GTTACCCTTCCACCGCGA	59.342	61.111	8.23	0.00	0.00	5.87
1562	3338	2.376109	CAAGCATCTCCAATGGCTTCT	58.624	47.619	0.00	0.00	44.17	2.85
1579	3355	1.457346	GACTTGTCCTCCATGGCAAG	58.543	55.000	21.54	21.54	46.11	4.01
1597	3379	1.218047	CGTTCTCCAATGGCTCCGA	59.782	57.895	0.00	0.00	0.00	4.55
1612	3394	1.597027	CGTCCTTGGCCAAGACGTT	60.597	57.895	41.10	0.00	40.79	3.99
1620	3402	2.035442	GTCTGCTTCGTCCTTGGCC	61.035	63.158	0.00	0.00	0.00	5.36
1633	3415	1.422531	AGGATCTCCCATGAGTCTGC	58.577	55.000	0.00	0.00	39.75	4.26
1638	3420	0.841961	TGGCAAGGATCTCCCATGAG	59.158	55.000	0.00	0.00	40.17	2.90
1699	3520	1.404391	CATTTGCAGTGGAGATGGCTC	59.596	52.381	7.21	0.00	40.54	4.70
1741	3562	2.290260	TGTTGGTTAGCATCTCCTGTGG	60.290	50.000	0.00	0.00	0.00	4.17
1742	3563	3.057969	TGTTGGTTAGCATCTCCTGTG	57.942	47.619	0.00	0.00	0.00	3.66
1743	3564	3.073062	AGTTGTTGGTTAGCATCTCCTGT	59.927	43.478	0.00	0.00	0.00	4.00
1744	3565	3.679389	AGTTGTTGGTTAGCATCTCCTG	58.321	45.455	0.00	0.00	0.00	3.86
1745	3566	4.074970	CAAGTTGTTGGTTAGCATCTCCT	58.925	43.478	0.00	0.00	0.00	3.69
1746	3567	4.072131	TCAAGTTGTTGGTTAGCATCTCC	58.928	43.478	2.11	0.00	34.09	3.71
1747	3568	4.515191	TGTCAAGTTGTTGGTTAGCATCTC	59.485	41.667	2.11	0.00	34.09	2.75
1748	3569	4.460263	TGTCAAGTTGTTGGTTAGCATCT	58.540	39.130	2.11	0.00	34.09	2.90
1749	3570	4.829064	TGTCAAGTTGTTGGTTAGCATC	57.171	40.909	2.11	0.00	34.09	3.91
1750	3571	5.531634	CAATGTCAAGTTGTTGGTTAGCAT	58.468	37.500	2.11	0.00	34.09	3.79
1751	3572	4.736168	GCAATGTCAAGTTGTTGGTTAGCA	60.736	41.667	2.11	0.00	34.09	3.49
1752	3573	3.735746	GCAATGTCAAGTTGTTGGTTAGC	59.264	43.478	2.11	0.00	34.09	3.09
1753	3574	4.202101	TGGCAATGTCAAGTTGTTGGTTAG	60.202	41.667	2.11	0.00	34.09	2.34
1754	3575	3.701542	TGGCAATGTCAAGTTGTTGGTTA	59.298	39.130	2.11	0.00	34.09	2.85
1755	3576	2.499289	TGGCAATGTCAAGTTGTTGGTT	59.501	40.909	2.11	0.00	34.09	3.67
1756	3577	2.106566	TGGCAATGTCAAGTTGTTGGT	58.893	42.857	2.11	0.00	34.09	3.67
1757	3578	2.159128	TGTGGCAATGTCAAGTTGTTGG	60.159	45.455	2.11	0.00	34.09	3.77
1758	3579	3.117794	CTGTGGCAATGTCAAGTTGTTG	58.882	45.455	2.11	1.67	34.67	3.33
1759	3580	2.101249	CCTGTGGCAATGTCAAGTTGTT	59.899	45.455	2.11	0.00	0.00	2.83
1760	3581	1.682854	CCTGTGGCAATGTCAAGTTGT	59.317	47.619	2.11	0.00	0.00	3.32
1761	3582	1.955778	TCCTGTGGCAATGTCAAGTTG	59.044	47.619	0.00	0.00	0.00	3.16
1762	3583	2.158623	TCTCCTGTGGCAATGTCAAGTT	60.159	45.455	0.00	0.00	0.00	2.66
1763	3584	1.421268	TCTCCTGTGGCAATGTCAAGT	59.579	47.619	0.00	0.00	0.00	3.16
1764	3585	2.189594	TCTCCTGTGGCAATGTCAAG	57.810	50.000	0.00	0.00	0.00	3.02
1765	3586	2.885135	ATCTCCTGTGGCAATGTCAA	57.115	45.000	0.00	0.00	0.00	3.18
1766	3587	2.840038	AGTATCTCCTGTGGCAATGTCA	59.160	45.455	0.00	0.00	0.00	3.58
1767	3588	3.550437	AGTATCTCCTGTGGCAATGTC	57.450	47.619	0.00	0.00	0.00	3.06
1768	3589	4.384208	GGTAAGTATCTCCTGTGGCAATGT	60.384	45.833	0.00	0.00	0.00	2.71
1769	3590	4.130118	GGTAAGTATCTCCTGTGGCAATG	58.870	47.826	0.00	0.00	0.00	2.82
1770	3591	3.780294	TGGTAAGTATCTCCTGTGGCAAT	59.220	43.478	0.00	0.00	0.00	3.56
1771	3592	3.178046	TGGTAAGTATCTCCTGTGGCAA	58.822	45.455	0.00	0.00	0.00	4.52
1772	3593	2.827755	TGGTAAGTATCTCCTGTGGCA	58.172	47.619	0.00	0.00	0.00	4.92
1833	3720	1.917495	CATCTCCAGTGGCCATGGA	59.083	57.895	25.90	25.90	44.63	3.41
1899	3786	2.029623	AGCATCTCCAATGGCAATGTC	58.970	47.619	12.92	7.40	0.00	3.06
1900	3787	2.154567	AGCATCTCCAATGGCAATGT	57.845	45.000	12.92	1.48	0.00	2.71
1903	3790	3.370840	AGTAAGCATCTCCAATGGCAA	57.629	42.857	0.00	0.00	0.00	4.52
1977	3867	2.719426	AGTTCTTGGTAACGGTCTCG	57.281	50.000	0.00	0.00	43.02	4.04
2166	4122	0.316204	CGAACAGTTCCGGGTAGTGT	59.684	55.000	8.19	8.19	0.00	3.55
2349	4308	4.499357	CCAGGTAGTATCCAAGCTAACGAC	60.499	50.000	0.00	0.00	30.71	4.34
2419	4468	8.579863	ACAATGATTTTCCTTCCAAGAAACTAG	58.420	33.333	0.00	0.00	33.11	2.57
2420	4469	8.359642	CACAATGATTTTCCTTCCAAGAAACTA	58.640	33.333	0.00	0.00	33.11	2.24
2421	4470	7.147672	ACACAATGATTTTCCTTCCAAGAAACT	60.148	33.333	0.00	0.00	33.11	2.66
2422	4471	6.986231	ACACAATGATTTTCCTTCCAAGAAAC	59.014	34.615	0.00	0.00	33.11	2.78
2532	4585	5.376854	AAATTCCAGAGTTTTGGATGACG	57.623	39.130	0.00	0.00	46.22	4.35
2539	4595	6.101997	GGGAGCAATAAATTCCAGAGTTTTG	58.898	40.000	0.00	0.00	32.50	2.44
2701	4853	3.126831	GTGAATGCCGAGGATTAGAGTG	58.873	50.000	0.00	0.00	0.00	3.51
2709	4861	4.955811	ACATTATAGTGAATGCCGAGGA	57.044	40.909	1.74	0.00	39.94	3.71
2747	4901	4.404073	TGGTTCAAATGCTACTTTTGTGGT	59.596	37.500	6.02	0.00	35.90	4.16
2815	4969	2.370189	CCTGAACCTCCTGAACAGAGTT	59.630	50.000	3.19	4.39	0.00	3.01
2926	5080	2.292016	CGAGATCCTGAGCACTTCGTAT	59.708	50.000	0.00	0.00	0.00	3.06
2928	5082	0.453793	CGAGATCCTGAGCACTTCGT	59.546	55.000	0.00	0.00	0.00	3.85
3076	5230	1.134220	ACAGACCACAACACCGACAAT	60.134	47.619	0.00	0.00	0.00	2.71
3109	5266	4.652421	TCATCTTCAAAAGCACAAGCAA	57.348	36.364	0.00	0.00	45.49	3.91
3114	5271	6.638096	TCAAAGATCATCTTCAAAAGCACA	57.362	33.333	0.00	0.00	35.27	4.57
3176	5333	6.041423	TGTGATGATCTGTTGACTACATGT	57.959	37.500	2.69	2.69	35.85	3.21
3180	5337	8.877808	TCATATTGTGATGATCTGTTGACTAC	57.122	34.615	0.00	0.00	30.75	2.73
3201	5358	5.804639	AGCCTACAACATCACAAACTCATA	58.195	37.500	0.00	0.00	0.00	2.15
3220	5377	6.796785	AATTTTATTGCATAACCTGAGCCT	57.203	33.333	0.00	0.00	0.00	4.58
3246	5403	1.116308	TCTGATTGTTCGCCCCGATA	58.884	50.000	0.00	0.00	35.23	2.92
3249	5406	1.948104	TTATCTGATTGTTCGCCCCG	58.052	50.000	0.00	0.00	0.00	5.73
3253	5410	7.431960	TGTGCATTAAATTATCTGATTGTTCGC	59.568	33.333	0.00	0.00	0.00	4.70
3273	5430	8.199449	CCAAATTAAGGTTATCTTCATGTGCAT	58.801	33.333	0.00	0.00	36.93	3.96
3289	5446	8.819974	GTGTATGAATGCAAATCCAAATTAAGG	58.180	33.333	0.00	0.00	0.00	2.69
3321	5478	9.356433	CAAGAAACATCATGTGTATTAATGCAA	57.644	29.630	7.88	0.05	41.14	4.08
3322	5479	7.488792	GCAAGAAACATCATGTGTATTAATGCA	59.511	33.333	1.68	1.68	41.14	3.96
3323	5480	7.703621	AGCAAGAAACATCATGTGTATTAATGC	59.296	33.333	0.00	0.00	41.14	3.56
3324	5481	9.016623	CAGCAAGAAACATCATGTGTATTAATG	57.983	33.333	0.00	0.00	41.14	1.90
3326	5483	7.537715	CCAGCAAGAAACATCATGTGTATTAA	58.462	34.615	0.00	0.00	41.14	1.40
3328	5485	5.622914	GCCAGCAAGAAACATCATGTGTATT	60.623	40.000	0.00	0.00	41.14	1.89
3329	5486	4.142315	GCCAGCAAGAAACATCATGTGTAT	60.142	41.667	0.00	0.00	41.14	2.29
3330	5487	3.191162	GCCAGCAAGAAACATCATGTGTA	59.809	43.478	0.00	0.00	41.14	2.90
3331	5488	2.029649	GCCAGCAAGAAACATCATGTGT	60.030	45.455	0.00	0.00	44.84	3.72
3332	5489	2.029739	TGCCAGCAAGAAACATCATGTG	60.030	45.455	0.00	0.00	0.00	3.21
3334	5491	2.490509	TCTGCCAGCAAGAAACATCATG	59.509	45.455	0.00	0.00	0.00	3.07
3336	5493	2.275134	TCTGCCAGCAAGAAACATCA	57.725	45.000	0.00	0.00	0.00	3.07
3348	5711	3.119316	AGTCGAGACTTACATTCTGCCAG	60.119	47.826	0.00	0.00	38.83	4.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.