AutoCloner

Multiple sequence alignment - TraesCS6D01G084900

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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	TraesCS6D01G084900	chr6D	100.000	4006	0	0	1	4006	50177799	50181804	0.000000e+00	7398.0
1	TraesCS6D01G084900	chr6D	86.832	1367	166	10	1997	3362	49182762	49184115	0.000000e+00	1515.0
2	TraesCS6D01G084900	chr6D	86.149	1379	177	9	1988	3362	50605088	50606456	0.000000e+00	1476.0
3	TraesCS6D01G084900	chr6D	81.344	1131	160	32	2751	3845	430751094	430749979	0.000000e+00	872.0
4	TraesCS6D01G084900	chr6D	88.477	486	42	8	3471	3950	50606514	50606991	3.470000e-160	575.0
5	TraesCS6D01G084900	chr6D	88.235	272	25	6	3478	3746	49184181	49184448	6.460000e-83	318.0
6	TraesCS6D01G084900	chr6D	82.769	325	49	6	1484	1803	50604606	50604928	2.360000e-72	283.0
7	TraesCS6D01G084900	chr6D	86.256	211	25	3	321	527	457258144	457257934	4.030000e-55	226.0
8	TraesCS6D01G084900	chr6B	91.051	4023	291	24	1	4006	121434669	121430699	0.000000e+00	5371.0
9	TraesCS6D01G084900	chr6B	85.116	1505	185	18	2010	3481	649832555	649831057	0.000000e+00	1502.0
10	TraesCS6D01G084900	chr6B	81.179	1137	151	43	2751	3845	649739934	649738819	0.000000e+00	856.0
11	TraesCS6D01G084900	chr6B	86.312	263	28	4	3746	4006	121863305	121863049	3.050000e-71	279.0
12	TraesCS6D01G084900	chr6B	92.045	176	12	2	148	322	113783350	113783176	3.090000e-61	246.0
13	TraesCS6D01G084900	chr6A	92.632	2850	183	13	1171	4006	64909290	64906454	0.000000e+00	4074.0
14	TraesCS6D01G084900	chr6A	91.129	1116	96	3	1	1114	64910401	64909287	0.000000e+00	1509.0
15	TraesCS6D01G084900	chr6A	86.148	1350	164	11	2010	3342	577723316	577721973	0.000000e+00	1435.0
16	TraesCS6D01G084900	chr6A	85.307	1368	189	8	1997	3362	64679633	64678276	0.000000e+00	1402.0
17	TraesCS6D01G084900	chr6A	87.029	478	48	8	3478	3950	64678211	64677743	9.860000e-146	527.0
18	TraesCS6D01G084900	chr6A	75.855	468	78	26	1488	1947	577723885	577723445	5.250000e-49	206.0
19	TraesCS6D01G084900	chr6A	93.878	49	3	0	321	369	577477283	577477235	1.540000e-09	75.0
20	TraesCS6D01G084900	chr6A	91.837	49	4	0	321	369	577688496	577688448	7.180000e-08	69.4
21	TraesCS6D01G084900	chrUn	85.380	1368	188	8	1997	3362	277361311	277362668	0.000000e+00	1408.0
22	TraesCS6D01G084900	chrUn	86.820	478	49	8	3478	3950	277362733	277363201	4.590000e-144	521.0
23	TraesCS6D01G084900	chr7A	85.328	1370	179	14	1997	3362	591024217	591025568	0.000000e+00	1397.0
24	TraesCS6D01G084900	chr7A	84.393	519	63	9	3478	3991	591025635	591026140	1.000000e-135	494.0
25	TraesCS6D01G084900	chr7A	82.582	488	75	7	1484	1965	551543131	551542648	4.790000e-114	422.0
26	TraesCS6D01G084900	chr7D	80.565	1415	194	49	1484	2851	484072123	484070743	0.000000e+00	1014.0
27	TraesCS6D01G084900	chr7D	85.759	316	42	3	321	635	489312658	489312345	8.300000e-87	331.0
28	TraesCS6D01G084900	chr7D	82.749	371	60	4	324	694	484073354	484072988	1.070000e-85	327.0
29	TraesCS6D01G084900	chr7D	83.333	240	29	7	1732	1961	535510713	535510951	1.130000e-50	211.0
30	TraesCS6D01G084900	chr7D	98.230	113	2	0	1	113	33541077	33541189	8.780000e-47	198.0
31	TraesCS6D01G084900	chr7D	81.818	242	35	5	321	561	535508889	535509122	1.140000e-45	195.0
32	TraesCS6D01G084900	chr7D	81.116	233	36	6	1770	1998	489302131	489301903	3.180000e-41	180.0
33	TraesCS6D01G084900	chr7B	80.614	521	80	14	1484	1999	517933838	517933334	2.260000e-102	383.0
34	TraesCS6D01G084900	chr7B	80.534	524	78	14	1484	1998	509737120	509736612	8.120000e-102	381.0
35	TraesCS6D01G084900	chr7B	83.544	316	50	2	321	635	517935512	517935198	1.090000e-75	294.0
36	TraesCS6D01G084900	chr1A	93.296	179	10	2	148	325	91044688	91044865	3.070000e-66	263.0
37	TraesCS6D01G084900	chr1A	89.444	180	14	3	148	325	271622671	271622495	5.210000e-54	222.0
38	TraesCS6D01G084900	chr5A	91.620	179	13	2	148	325	386169696	386169519	3.090000e-61	246.0
39	TraesCS6D01G084900	chr5A	91.525	177	13	2	148	323	548500824	548500649	4.000000e-60	243.0
40	TraesCS6D01G084900	chr2D	90.608	181	15	2	148	328	316662235	316662413	5.170000e-59	239.0
41	TraesCS6D01G084900	chr2D	97.368	114	3	0	1	114	194473735	194473622	1.140000e-45	195.0
42	TraesCS6D01G084900	chr1D	90.286	175	15	2	148	322	114322449	114322277	1.120000e-55	228.0
43	TraesCS6D01G084900	chr4B	98.230	113	2	0	1	113	452738076	452737964	8.780000e-47	198.0
44	TraesCS6D01G084900	chr4A	98.230	113	2	0	1	113	75432710	75432598	8.780000e-47	198.0
45	TraesCS6D01G084900	chr3B	98.230	113	2	0	1	113	781705888	781706000	8.780000e-47	198.0
46	TraesCS6D01G084900	chr2B	98.230	113	2	0	1	113	9854008	9853896	8.780000e-47	198.0
47	TraesCS6D01G084900	chr2B	98.230	113	2	0	1	113	139848503	139848391	8.780000e-47	198.0
48	TraesCS6D01G084900	chr1B	98.198	111	2	0	1	111	181167414	181167304	1.140000e-45	195.0

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	TraesCS6D01G084900	chr6D	50177799	50181804	4005	False	7398.0	7398	100.000000	1	4006	1	chr6D.!!$F1	4005
1	TraesCS6D01G084900	chr6D	49182762	49184448	1686	False	916.5	1515	87.533500	1997	3746	2	chr6D.!!$F2	1749
2	TraesCS6D01G084900	chr6D	430749979	430751094	1115	True	872.0	872	81.344000	2751	3845	1	chr6D.!!$R1	1094
3	TraesCS6D01G084900	chr6D	50604606	50606991	2385	False	778.0	1476	85.798333	1484	3950	3	chr6D.!!$F3	2466
4	TraesCS6D01G084900	chr6B	121430699	121434669	3970	True	5371.0	5371	91.051000	1	4006	1	chr6B.!!$R2	4005
5	TraesCS6D01G084900	chr6B	649831057	649832555	1498	True	1502.0	1502	85.116000	2010	3481	1	chr6B.!!$R5	1471
6	TraesCS6D01G084900	chr6B	649738819	649739934	1115	True	856.0	856	81.179000	2751	3845	1	chr6B.!!$R4	1094
7	TraesCS6D01G084900	chr6A	64906454	64910401	3947	True	2791.5	4074	91.880500	1	4006	2	chr6A.!!$R4	4005
8	TraesCS6D01G084900	chr6A	64677743	64679633	1890	True	964.5	1402	86.168000	1997	3950	2	chr6A.!!$R3	1953
9	TraesCS6D01G084900	chr6A	577721973	577723885	1912	True	820.5	1435	81.001500	1488	3342	2	chr6A.!!$R5	1854
10	TraesCS6D01G084900	chrUn	277361311	277363201	1890	False	964.5	1408	86.100000	1997	3950	2	chrUn.!!$F1	1953
11	TraesCS6D01G084900	chr7A	591024217	591026140	1923	False	945.5	1397	84.860500	1997	3991	2	chr7A.!!$F1	1994
12	TraesCS6D01G084900	chr7D	484070743	484073354	2611	True	670.5	1014	81.657000	324	2851	2	chr7D.!!$R3	2527
13	TraesCS6D01G084900	chr7D	535508889	535510951	2062	False	203.0	211	82.575500	321	1961	2	chr7D.!!$F2	1640
14	TraesCS6D01G084900	chr7B	509736612	509737120	508	True	381.0	381	80.534000	1484	1998	1	chr7B.!!$R1	514
15	TraesCS6D01G084900	chr7B	517933334	517935512	2178	True	338.5	383	82.079000	321	1999	2	chr7B.!!$R2	1678

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
736	1119	0.038310	CTTCTCCCAAGGGTCCAACC	59.962	60.0	4.8	0.0	37.6	3.77	F
1304	1753	0.179111	CCCGTCGCTGCTATCAAGAA	60.179	55.0	0.0	0.0	0.0	2.52	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2598	3432	0.85353	AAGGAGTTGCTTCCCTGGTT	59.146	50.000	0.0	0.0	38.02	3.67	R
3206	4049	1.35135	ACAGTCAACTAGGGAAAGGGC	59.649	52.381	0.0	0.0	0.00	5.19	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
132	134	2.912025	CCACTTGCCACCCACACC	60.912	66.667	0.00	0.00	0.00	4.16
135	137	2.195683	CTTGCCACCCACACCTGT	59.804	61.111	0.00	0.00	0.00	4.00
280	282	2.673833	ACTTTACGAGGCTTGACTTCG	58.326	47.619	9.20	0.00	0.00	3.79
283	285	0.809385	TACGAGGCTTGACTTCGGAG	59.191	55.000	9.20	0.00	0.00	4.63
285	287	0.457851	CGAGGCTTGACTTCGGAGAT	59.542	55.000	0.00	0.00	35.04	2.75
433	436	4.810790	AGCACAGTCATACTACAAGTGTC	58.189	43.478	0.00	0.00	33.08	3.67
485	488	7.780633	GCATAACTAGCTATGAGTGATTTGCAC	60.781	40.741	15.80	0.00	37.47	4.57
554	937	3.323243	ACGTTTAGTTGGATGAACTCGG	58.677	45.455	0.00	0.00	41.37	4.63
626	1009	4.684877	ACACGTGTGTAGTACAACATTCA	58.315	39.130	22.71	0.00	42.90	2.57
665	1048	3.181466	GGCTTGCCTCCAAAGAAAGAAAA	60.181	43.478	4.11	0.00	0.00	2.29
698	1081	2.777114	TCCATCCATTCATTCCCGAAGA	59.223	45.455	0.00	0.00	0.00	2.87
736	1119	0.038310	CTTCTCCCAAGGGTCCAACC	59.962	60.000	4.80	0.00	37.60	3.77
747	1130	0.249280	GGTCCAACCCGCAAAGTTTG	60.249	55.000	11.41	11.41	30.04	2.93
801	1187	2.334946	GCCTTCCATTCGCAGCACA	61.335	57.895	0.00	0.00	0.00	4.57
904	1291	1.369692	CGACTGCCAACCCACACTA	59.630	57.895	0.00	0.00	0.00	2.74
949	1336	1.006043	TGCCCCATTTACCAATTCCGA	59.994	47.619	0.00	0.00	0.00	4.55
1058	1447	2.737376	GGTGACGCGGAAGGTGAC	60.737	66.667	12.47	0.00	0.00	3.67
1067	1456	1.216710	GGAAGGTGACAGAGGCGAG	59.783	63.158	0.00	0.00	0.00	5.03
1076	1465	0.684479	ACAGAGGCGAGTCTATGGCA	60.684	55.000	4.34	0.00	33.59	4.92
1080	1469	3.056250	CAGAGGCGAGTCTATGGCATAAT	60.056	47.826	8.79	0.00	33.59	1.28
1089	1478	7.547370	GCGAGTCTATGGCATAATAAGAAGAAT	59.453	37.037	8.79	1.23	31.94	2.40
1128	1517	1.302511	GGACATGTGCTTCACGGGT	60.303	57.895	10.51	0.00	37.14	5.28
1158	1547	4.095400	AGGGGACTCGGCCTGGAT	62.095	66.667	0.00	0.00	32.90	3.41
1165	1554	1.296392	CTCGGCCTGGATGACAACA	59.704	57.895	0.00	0.00	0.00	3.33
1224	1673	2.485835	CGACTCTAGGGACTCCGATCTT	60.486	54.545	0.00	0.00	41.75	2.40
1304	1753	0.179111	CCCGTCGCTGCTATCAAGAA	60.179	55.000	0.00	0.00	0.00	2.52
1305	1754	1.539065	CCCGTCGCTGCTATCAAGAAT	60.539	52.381	0.00	0.00	0.00	2.40
1316	1765	4.718774	TGCTATCAAGAATCAGTCCCTCTT	59.281	41.667	0.00	0.00	0.00	2.85
1344	1793	2.201210	AACCCTGGGTTGCTTGGG	59.799	61.111	29.76	0.00	45.07	4.12
1429	2117	2.448453	TGGTTCGGAAACTGTTTGGTT	58.552	42.857	11.03	0.00	35.61	3.67
1433	2121	4.239304	GTTCGGAAACTGTTTGGTTGTTT	58.761	39.130	11.03	0.00	36.73	2.83
1443	2131	5.187967	ACTGTTTGGTTGTTTGATTGGGTAA	59.812	36.000	0.00	0.00	0.00	2.85
1455	2144	9.137459	TGTTTGATTGGGTAAGAAGACAAATTA	57.863	29.630	0.00	0.00	0.00	1.40
1458	2147	8.292444	TGATTGGGTAAGAAGACAAATTATGG	57.708	34.615	0.00	0.00	0.00	2.74
1496	2218	4.524802	AGGCTATGTTTGGATTGGATGA	57.475	40.909	0.00	0.00	0.00	2.92
1503	2225	6.624352	ATGTTTGGATTGGATGAGTTATCG	57.376	37.500	0.00	0.00	36.62	2.92
1543	2267	5.074746	AGGGTTAGGTTCTTCCATTTGTT	57.925	39.130	0.00	0.00	39.02	2.83
1555	2280	7.265647	TCTTCCATTTGTTTGTTGTATTCGA	57.734	32.000	0.00	0.00	0.00	3.71
1588	2313	5.450453	TGTTTCCAACATTGTCCCTTTCTA	58.550	37.500	0.00	0.00	36.25	2.10
1609	2334	6.403049	TCTATCACAGAAGCGATTTTGGTTA	58.597	36.000	8.88	0.00	0.00	2.85
2001	2823	8.818057	TGTGGTTTCATTTTAATTGTTTTACCG	58.182	29.630	0.00	0.00	0.00	4.02
2088	2913	2.429610	GTGCGTATTGGTCCCTCTTAGA	59.570	50.000	0.00	0.00	0.00	2.10
2107	2932	8.728337	TCTTAGAATTGACATTGATCTTCCAG	57.272	34.615	0.00	0.00	0.00	3.86
2152	2977	1.801309	AATGCCGGTTTTGGTGGTCG	61.801	55.000	1.90	0.00	0.00	4.79
2164	2998	2.028130	TGGTGGTCGTTCAGCAAAAAT	58.972	42.857	9.39	0.00	41.42	1.82
2165	2999	3.215151	TGGTGGTCGTTCAGCAAAAATA	58.785	40.909	9.39	0.00	41.42	1.40
2471	3305	0.829990	ACAACCTTGCCAACCCAAAG	59.170	50.000	0.00	0.00	0.00	2.77
2503	3337	1.542492	CCATCTGCTGACTTTGCCTT	58.458	50.000	0.00	0.00	0.00	4.35
2511	3345	2.623416	GCTGACTTTGCCTTAAACCAGT	59.377	45.455	0.00	0.00	31.56	4.00
2598	3432	5.452496	GCCTCTGTTATGAATCTGCACTCTA	60.452	44.000	0.00	0.00	0.00	2.43
2630	3464	3.807209	GCAACTCCTTTGGCTACTCTGAA	60.807	47.826	0.00	0.00	35.51	3.02
2631	3465	4.389374	CAACTCCTTTGGCTACTCTGAAA	58.611	43.478	0.00	0.00	0.00	2.69
2714	3548	2.035704	CGCTGATGGAGTAGAATCTGCT	59.964	50.000	0.00	0.00	42.39	4.24
2749	3583	1.002087	CCCCTACAACTCAGTGGTGAC	59.998	57.143	0.00	0.00	36.72	3.67
3010	3850	6.043938	GGATCCAAACCTTGTATATAGGGACA	59.956	42.308	6.95	0.00	37.09	4.02
3123	3964	5.769835	AGATTATGGAAGATTGGGAAGCAA	58.230	37.500	0.00	0.00	0.00	3.91
3206	4049	3.056821	TCCTGAGTCTGTTGTGTAATCGG	60.057	47.826	0.00	0.00	0.00	4.18
3264	4116	6.258160	CCATTTATGATGAACCGTTGTCTTC	58.742	40.000	0.00	0.00	0.00	2.87
3353	4205	7.414319	CCAATTTGCTTTAATTTATGCACCTGG	60.414	37.037	4.69	7.85	35.01	4.45
3461	4328	3.552684	GGCTGCTTGCACAATTTCTGTTA	60.553	43.478	0.00	0.00	45.15	2.41
3472	4339	6.546395	CACAATTTCTGTTATAGAGGTGTGC	58.454	40.000	6.08	0.00	36.92	4.57
3507	4381	2.290197	TGCGCATATCCTATGGATGCAA	60.290	45.455	5.66	0.00	43.06	4.08
3788	4672	2.063378	CCTCAGTCCCTCTCCAGGC	61.063	68.421	0.00	0.00	38.72	4.85
3789	4673	2.039624	TCAGTCCCTCTCCAGGCC	59.960	66.667	0.00	0.00	38.72	5.19
3790	4674	3.465403	CAGTCCCTCTCCAGGCCG	61.465	72.222	0.00	0.00	38.72	6.13
3791	4675	4.787280	AGTCCCTCTCCAGGCCGG	62.787	72.222	0.00	0.00	38.72	6.13
3873	4760	1.209128	GTGGTCTTGTGTCACTGTCG	58.791	55.000	4.27	0.00	0.00	4.35
3881	4768	0.501435	GTGTCACTGTCGTGTTACGC	59.499	55.000	0.00	0.00	42.21	4.42
3910	4797	3.558931	TGATTGGACATCGGCATAAGT	57.441	42.857	0.00	0.00	0.00	2.24
3911	4798	4.681074	TGATTGGACATCGGCATAAGTA	57.319	40.909	0.00	0.00	0.00	2.24
3920	4807	6.255887	GGACATCGGCATAAGTATATGTTAGC	59.744	42.308	0.00	0.00	40.90	3.09
4000	4887	5.416013	TGTGAAGTCTGAGTCCATAGTACAG	59.584	44.000	0.00	0.00	0.00	2.74

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
255	257	4.058817	AGTCAAGCCTCGTAAAGTTTGAG	58.941	43.478	0.00	0.00	31.29	3.02
285	287	8.971321	GGTCGTTTTTAGTTCGCATATAAGATA	58.029	33.333	0.00	0.00	0.00	1.98
307	309	0.950116	GTATGTACTCCCTCCGGTCG	59.050	60.000	0.00	0.00	0.00	4.79
551	934	0.693622	TGTCCAGGTTTATTGGCCGA	59.306	50.000	0.00	0.00	35.62	5.54
607	990	5.444613	GCTCATGAATGTTGTACTACACACG	60.445	44.000	12.38	0.54	36.69	4.49
626	1009	5.452356	GGCAAGCCAACAAATATTAGCTCAT	60.452	40.000	6.14	0.00	35.81	2.90
665	1048	8.486942	AATGAATGGATGGATGTATGTTTGAT	57.513	30.769	0.00	0.00	0.00	2.57
698	1081	6.067217	AGAAGTGGTATTTCTGGTATTGCT	57.933	37.500	0.00	0.00	33.79	3.91
743	1126	0.165295	GCGTTTCTACTCGGGCAAAC	59.835	55.000	0.00	0.00	0.00	2.93
747	1130	4.089983	GAGCGTTTCTACTCGGGC	57.910	61.111	0.00	0.00	0.00	6.13
964	1353	4.450122	GTCGTAGTCGTCGCCGCA	62.450	66.667	0.00	0.00	38.33	5.69
1058	1447	0.678395	ATGCCATAGACTCGCCTCTG	59.322	55.000	0.00	0.00	0.00	3.35
1067	1456	7.554476	GGGGATTCTTCTTATTATGCCATAGAC	59.446	40.741	0.00	0.00	30.86	2.59
1076	1465	7.483580	CCTAGTCGGGGATTCTTCTTATTAT	57.516	40.000	0.00	0.00	0.00	1.28
1112	1501	0.320771	GAGACCCGTGAAGCACATGT	60.321	55.000	0.00	0.00	33.40	3.21
1113	1502	1.354337	CGAGACCCGTGAAGCACATG	61.354	60.000	0.00	0.00	33.40	3.21
1114	1503	1.079819	CGAGACCCGTGAAGCACAT	60.080	57.895	0.00	0.00	33.40	3.21
1115	1504	2.338620	CGAGACCCGTGAAGCACA	59.661	61.111	0.00	0.00	33.40	4.57
1117	1506	2.915659	ACCGAGACCCGTGAAGCA	60.916	61.111	0.00	0.00	36.31	3.91
1152	1541	1.630369	TCCTCCTTGTTGTCATCCAGG	59.370	52.381	0.00	0.00	0.00	4.45
1158	1547	3.433598	CCTCAAAGTCCTCCTTGTTGTCA	60.434	47.826	0.00	0.00	32.32	3.58
1165	1554	0.836400	TCGGCCTCAAAGTCCTCCTT	60.836	55.000	0.00	0.00	33.79	3.36
1224	1673	1.006758	ACCCCACTAAGACCGAGATCA	59.993	52.381	0.00	0.00	0.00	2.92
1235	1684	2.196595	CCTTCTCATCCACCCCACTAA	58.803	52.381	0.00	0.00	0.00	2.24
1304	1753	2.350863	ACCTTGGAAGAGGGACTGAT	57.649	50.000	0.00	0.00	41.55	2.90
1305	1754	3.245984	TGATACCTTGGAAGAGGGACTGA	60.246	47.826	0.00	0.00	41.55	3.41
1429	2117	7.595819	ATTTGTCTTCTTACCCAATCAAACA	57.404	32.000	0.00	0.00	0.00	2.83
1433	2121	7.893302	ACCATAATTTGTCTTCTTACCCAATCA	59.107	33.333	0.00	0.00	0.00	2.57
1443	2131	4.675063	ACCCCACCATAATTTGTCTTCT	57.325	40.909	0.00	0.00	0.00	2.85
1455	2144	1.071314	TCCAACAGGAACCCCACCAT	61.071	55.000	0.00	0.00	33.88	3.55
1458	2147	0.539669	CCTTCCAACAGGAACCCCAC	60.540	60.000	0.00	0.00	36.52	4.61
1479	2179	7.226523	CACGATAACTCATCCAATCCAAACATA	59.773	37.037	0.00	0.00	0.00	2.29
1496	2218	6.406370	TCATCCAAATCACTTCACGATAACT	58.594	36.000	0.00	0.00	0.00	2.24
1503	2225	4.082125	ACCCTTCATCCAAATCACTTCAC	58.918	43.478	0.00	0.00	0.00	3.18
1543	2267	6.411376	ACATCCTACCAATCGAATACAACAA	58.589	36.000	0.00	0.00	0.00	2.83
1588	2313	6.515272	AATAACCAAAATCGCTTCTGTGAT	57.485	33.333	0.00	0.00	44.42	3.06
1668	2394	4.645863	ACCCCTTTTGACTAAACGGTAT	57.354	40.909	0.00	0.00	34.34	2.73
2088	2913	6.944290	TCAGAACTGGAAGATCAATGTCAATT	59.056	34.615	0.00	0.00	38.36	2.32
2107	2932	7.989826	AGTTATGGTGCTTAAATCATCAGAAC	58.010	34.615	15.05	15.05	43.32	3.01
2152	2977	9.301153	TGTTCTTTCTCTTTATTTTTGCTGAAC	57.699	29.630	0.00	0.00	0.00	3.18
2164	2998	7.066781	ACCCCTGAATTTGTTCTTTCTCTTTA	58.933	34.615	0.00	0.00	0.00	1.85
2165	2999	5.899547	ACCCCTGAATTTGTTCTTTCTCTTT	59.100	36.000	0.00	0.00	0.00	2.52
2471	3305	1.941325	CAGATGGGTAGACGAAAGCC	58.059	55.000	0.00	0.00	35.00	4.35
2503	3337	2.158827	TGCAGAGCAAGTGACTGGTTTA	60.159	45.455	0.00	0.00	34.76	2.01
2511	3345	2.224354	TGTTCTCATGCAGAGCAAGTGA	60.224	45.455	8.49	0.00	43.62	3.41
2598	3432	0.853530	AAGGAGTTGCTTCCCTGGTT	59.146	50.000	0.00	0.00	38.02	3.67
2630	3464	4.682563	TGGTGTCATAATTCCAACCCATT	58.317	39.130	0.00	0.00	0.00	3.16
2631	3465	4.329638	TGGTGTCATAATTCCAACCCAT	57.670	40.909	0.00	0.00	0.00	4.00
2714	3548	2.715763	AGGGGTTACTCTGGACAAGA	57.284	50.000	0.00	0.00	0.00	3.02
2888	3725	6.197276	CACATCAAAATTCAGAAGGCTATCG	58.803	40.000	0.00	0.00	0.00	2.92
2975	3812	3.767711	AGGTTTGGATCCCTCAGAAAAC	58.232	45.455	9.90	11.52	0.00	2.43
3206	4049	1.351350	ACAGTCAACTAGGGAAAGGGC	59.649	52.381	0.00	0.00	0.00	5.19
3287	4139	6.770303	TGTTCACATTCAGAAATGGTAGTGAA	59.230	34.615	0.00	0.00	45.48	3.18
3436	4303	0.601841	AAATTGTGCAAGCAGCCAGC	60.602	50.000	0.00	0.00	44.83	4.85
3461	4328	7.283127	CACAACCATAATTTAGCACACCTCTAT	59.717	37.037	0.00	0.00	0.00	1.98
3472	4339	6.072508	AGGATATGCGCACAACCATAATTTAG	60.073	38.462	17.83	0.00	0.00	1.85
3507	4381	3.100671	AGAGATTGAAACGTCTAGCCCT	58.899	45.455	0.00	0.00	0.00	5.19
3539	4414	5.995897	AGGACAGTTTGTCTTAATACACACC	59.004	40.000	8.89	0.00	46.19	4.16
3552	4428	9.884814	AGAGGTATAATATAGAGGACAGTTTGT	57.115	33.333	0.00	0.00	0.00	2.83
3766	4649	1.552792	CTGGAGAGGGACTGAGGAAAC	59.447	57.143	0.00	0.00	41.55	2.78
3788	4672	0.250295	TTCACAAGGCTTCTCACCGG	60.250	55.000	0.00	0.00	0.00	5.28
3789	4673	0.868406	GTTCACAAGGCTTCTCACCG	59.132	55.000	0.00	0.00	0.00	4.94
3790	4674	1.239347	GGTTCACAAGGCTTCTCACC	58.761	55.000	0.00	0.00	0.00	4.02
3791	4675	1.604278	GTGGTTCACAAGGCTTCTCAC	59.396	52.381	0.00	0.00	34.08	3.51
3873	4760	4.165779	CAATCAAATCAAGGGCGTAACAC	58.834	43.478	0.00	0.00	0.00	3.32
3881	4768	3.067180	CCGATGTCCAATCAAATCAAGGG	59.933	47.826	0.00	0.00	0.00	3.95
3911	4798	9.862371	CTCTAATCAAGATTACCGCTAACATAT	57.138	33.333	0.00	0.00	32.41	1.78
3920	4807	5.531122	TGACCCTCTAATCAAGATTACCG	57.469	43.478	0.00	0.00	32.41	4.02

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.