AutoCloner

Multiple sequence alignment - TraesCS3A01G454700

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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	TraesCS3A01G454700	chr3A	100.000	2511	0	0	1	2511	692724870	692722360	0.000000e+00	4638.0
1	TraesCS3A01G454700	chr3A	90.164	549	46	8	89	633	692955020	692954476	0.000000e+00	708.0
2	TraesCS3A01G454700	chr3A	78.596	1140	144	65	546	1632	692945711	692944619	0.000000e+00	662.0
3	TraesCS3A01G454700	chr3A	80.625	160	26	5	196	351	8552922	8552764	4.390000e-23	119.0
4	TraesCS3A01G454700	chr3D	92.699	1712	61	13	803	2511	555801562	555799912	0.000000e+00	2410.0
5	TraesCS3A01G454700	chr3D	92.771	830	21	11	2	802	555802539	555801720	0.000000e+00	1164.0
6	TraesCS3A01G454700	chr3D	80.000	1215	128	67	546	1704	555912988	555911833	0.000000e+00	791.0
7	TraesCS3A01G454700	chr3D	83.107	663	107	3	1755	2415	24569049	24569708	1.290000e-167	599.0
8	TraesCS3A01G454700	chr3D	94.318	88	5	0	1	88	38411288	38411201	4.360000e-28	135.0
9	TraesCS3A01G454700	chr3D	94.318	88	5	0	1	88	539307401	539307488	4.360000e-28	135.0
10	TraesCS3A01G454700	chr3D	91.753	97	6	2	1	96	566488690	566488595	1.570000e-27	134.0
11	TraesCS3A01G454700	chr3B	83.215	1406	154	50	89	1457	738993759	738992399	0.000000e+00	1214.0
12	TraesCS3A01G454700	chr3B	94.118	782	34	8	1016	1796	738757564	738756794	0.000000e+00	1179.0
13	TraesCS3A01G454700	chr3B	93.344	601	13	9	89	664	738759701	738759103	0.000000e+00	863.0
14	TraesCS3A01G454700	chr3B	93.680	538	31	2	1976	2511	738756806	738756270	0.000000e+00	802.0
15	TraesCS3A01G454700	chr3B	84.146	820	76	29	610	1411	738911124	738910341	0.000000e+00	745.0
16	TraesCS3A01G454700	chr3B	81.602	674	114	7	1747	2415	733081423	733082091	1.310000e-152	549.0
17	TraesCS3A01G454700	chr3B	95.253	316	5	5	682	992	738758705	738758395	2.240000e-135	492.0
18	TraesCS3A01G454700	chr3B	87.173	382	23	10	2117	2497	738913587	738913231	6.460000e-111	411.0
19	TraesCS3A01G454700	chr3B	96.970	33	0	1	987	1019	738757580	738757549	1.000000e-03	54.7
20	TraesCS3A01G454700	chr1D	83.107	663	106	4	1755	2415	466406465	466407123	1.290000e-167	599.0
21	TraesCS3A01G454700	chr7D	82.956	663	108	3	1755	2415	475154736	475155395	5.980000e-166	593.0
22	TraesCS3A01G454700	chr7D	78.719	531	69	21	1022	1534	175443596	175444100	5.210000e-82	315.0
23	TraesCS3A01G454700	chr7D	92.553	94	6	1	2	94	125081251	125081344	1.570000e-27	134.0
24	TraesCS3A01G454700	chr4D	82.817	646	105	6	1775	2415	19338371	19339015	7.790000e-160	573.0
25	TraesCS3A01G454700	chr4D	94.382	89	5	0	1	89	500618231	500618143	1.210000e-28	137.0
26	TraesCS3A01G454700	chr4D	92.632	95	6	1	2	95	344866002	344865908	4.360000e-28	135.0
27	TraesCS3A01G454700	chr4D	93.182	88	6	0	2	89	509554881	509554968	2.030000e-26	130.0
28	TraesCS3A01G454700	chr1A	82.380	664	109	6	1755	2415	556085859	556086517	2.800000e-159	571.0
29	TraesCS3A01G454700	chr1A	81.288	652	72	30	780	1413	510456968	510457587	1.350000e-132	483.0
30	TraesCS3A01G454700	chr1A	91.579	95	6	2	2	96	503425012	503424920	2.030000e-26	130.0
31	TraesCS3A01G454700	chr4A	82.710	642	103	6	1777	2415	575005698	575005062	4.690000e-157	564.0
32	TraesCS3A01G454700	chr2D	83.853	353	38	11	620	971	378165787	378166121	4.030000e-83	318.0
33	TraesCS3A01G454700	chr6A	77.757	535	55	23	1239	1752	14098706	14099197	1.140000e-68	270.0
34	TraesCS3A01G454700	chr6A	94.366	71	4	0	1022	1092	14073657	14073727	2.640000e-20	110.0
35	TraesCS3A01G454700	chr6A	92.537	67	5	0	1075	1141	14077128	14077194	2.060000e-16	97.1
36	TraesCS3A01G454700	chr1B	96.875	32	1	0	350	381	587039366	587039397	1.000000e-03	54.7

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	TraesCS3A01G454700	chr3A	692722360	692724870	2510	True	4638.00	4638	100.0000	1	2511	1	chr3A.!!$R2	2510
1	TraesCS3A01G454700	chr3A	692954476	692955020	544	True	708.00	708	90.1640	89	633	1	chr3A.!!$R4	544
2	TraesCS3A01G454700	chr3A	692944619	692945711	1092	True	662.00	662	78.5960	546	1632	1	chr3A.!!$R3	1086
3	TraesCS3A01G454700	chr3D	555799912	555802539	2627	True	1787.00	2410	92.7350	2	2511	2	chr3D.!!$R4	2509
4	TraesCS3A01G454700	chr3D	555911833	555912988	1155	True	791.00	791	80.0000	546	1704	1	chr3D.!!$R2	1158
5	TraesCS3A01G454700	chr3D	24569049	24569708	659	False	599.00	599	83.1070	1755	2415	1	chr3D.!!$F1	660
6	TraesCS3A01G454700	chr3B	738992399	738993759	1360	True	1214.00	1214	83.2150	89	1457	1	chr3B.!!$R1	1368
7	TraesCS3A01G454700	chr3B	738756270	738759701	3431	True	678.14	1179	94.6730	89	2511	5	chr3B.!!$R2	2422
8	TraesCS3A01G454700	chr3B	738910341	738913587	3246	True	578.00	745	85.6595	610	2497	2	chr3B.!!$R3	1887
9	TraesCS3A01G454700	chr3B	733081423	733082091	668	False	549.00	549	81.6020	1747	2415	1	chr3B.!!$F1	668
10	TraesCS3A01G454700	chr1D	466406465	466407123	658	False	599.00	599	83.1070	1755	2415	1	chr1D.!!$F1	660
11	TraesCS3A01G454700	chr7D	475154736	475155395	659	False	593.00	593	82.9560	1755	2415	1	chr7D.!!$F3	660
12	TraesCS3A01G454700	chr7D	175443596	175444100	504	False	315.00	315	78.7190	1022	1534	1	chr7D.!!$F2	512
13	TraesCS3A01G454700	chr4D	19338371	19339015	644	False	573.00	573	82.8170	1775	2415	1	chr4D.!!$F1	640
14	TraesCS3A01G454700	chr1A	556085859	556086517	658	False	571.00	571	82.3800	1755	2415	1	chr1A.!!$F2	660
15	TraesCS3A01G454700	chr1A	510456968	510457587	619	False	483.00	483	81.2880	780	1413	1	chr1A.!!$F1	633
16	TraesCS3A01G454700	chr4A	575005062	575005698	636	True	564.00	564	82.7100	1777	2415	1	chr4A.!!$R1	638

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
77	78	0.180406	CCGGTGCTATAGCCTGGTTT	59.82	55.0	21.84	0.0	41.18	3.27	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2034	3527	0.110486	ATCCGCCAGAAACACACCTT	59.89	50.0	0.0	0.0	0.0	3.5	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
20	21	3.444792	GCTTTAGTCCCCACCCTTTAA	57.555	47.619	0.00	0.00	0.00	1.52
28	29	1.319614	CCCACCCTTTAATGCCGGTG	61.320	60.000	1.90	8.81	44.47	4.94
29	30	1.510844	CACCCTTTAATGCCGGTGC	59.489	57.895	1.90	0.00	39.40	5.01
64	65	3.122971	GGCCTTACGAACCGGTGC	61.123	66.667	8.52	4.53	0.00	5.01
77	78	0.180406	CCGGTGCTATAGCCTGGTTT	59.820	55.000	21.84	0.00	41.18	3.27
79	80	1.670811	CGGTGCTATAGCCTGGTTTTG	59.329	52.381	21.84	0.01	41.18	2.44
239	242	7.331440	TCAATACAAATCATGAACATGTTTGCC	59.669	33.333	24.41	0.30	39.95	4.52
489	498	9.659135	ATCAATGATTAGGTTAATTTGGATGGA	57.341	29.630	0.00	0.00	0.00	3.41
607	640	2.092323	CACAGATAGACAGACCGACCA	58.908	52.381	0.00	0.00	0.00	4.02
664	752	7.151976	CCACACTATCCGACAAACATATATCA	58.848	38.462	0.00	0.00	0.00	2.15
665	753	7.819415	CCACACTATCCGACAAACATATATCAT	59.181	37.037	0.00	0.00	0.00	2.45
666	754	9.208022	CACACTATCCGACAAACATATATCATT	57.792	33.333	0.00	0.00	0.00	2.57
889	1524	6.001449	AGCTAATGTTGTAGCCATAAGGAA	57.999	37.500	0.70	0.00	46.46	3.36
890	1525	6.423182	AGCTAATGTTGTAGCCATAAGGAAA	58.577	36.000	0.70	0.00	46.46	3.13
891	1526	6.318900	AGCTAATGTTGTAGCCATAAGGAAAC	59.681	38.462	0.70	0.00	46.46	2.78
892	1527	6.318900	GCTAATGTTGTAGCCATAAGGAAACT	59.681	38.462	0.00	0.00	41.17	2.66
893	1528	7.497909	GCTAATGTTGTAGCCATAAGGAAACTA	59.502	37.037	0.00	0.00	39.55	2.24
894	1529	9.561069	CTAATGTTGTAGCCATAAGGAAACTAT	57.439	33.333	0.00	0.00	42.68	2.12
895	1530	8.823220	AATGTTGTAGCCATAAGGAAACTATT	57.177	30.769	0.00	0.00	42.68	1.73
896	1531	9.914834	AATGTTGTAGCCATAAGGAAACTATTA	57.085	29.630	0.00	0.00	42.68	0.98
897	1532	8.958119	TGTTGTAGCCATAAGGAAACTATTAG	57.042	34.615	0.00	0.00	42.68	1.73
898	1533	8.764558	TGTTGTAGCCATAAGGAAACTATTAGA	58.235	33.333	0.00	0.00	42.68	2.10
899	1534	9.780186	GTTGTAGCCATAAGGAAACTATTAGAT	57.220	33.333	0.00	0.00	42.68	1.98
947	1602	8.629158	GGGATAAATCTAACACATTATTGCACA	58.371	33.333	0.00	0.00	0.00	4.57
1214	2700	9.955208	TTCTTTGGATTGATTGATCATAATTCG	57.045	29.630	0.00	0.00	36.56	3.34
1240	2727	0.324614	ATCGTGGCAACTGGTGATGA	59.675	50.000	0.00	0.00	37.61	2.92
1431	2918	2.429351	GCAAGTCGTCGTCTCTGCG	61.429	63.158	9.41	0.00	0.00	5.18
1500	2987	3.032459	TGTATGGATGCATGCATGGTTT	58.968	40.909	35.62	19.80	39.29	3.27
1534	3021	0.438445	ATTTCGATCGCGTGTGTGTG	59.562	50.000	11.09	0.00	38.98	3.82
1535	3022	0.872451	TTTCGATCGCGTGTGTGTGT	60.872	50.000	11.09	0.00	38.98	3.72
1536	3023	1.544777	TTCGATCGCGTGTGTGTGTG	61.545	55.000	11.09	0.00	38.98	3.82
1538	3025	1.201578	GATCGCGTGTGTGTGTGTG	59.798	57.895	5.77	0.00	0.00	3.82
1539	3026	1.487452	GATCGCGTGTGTGTGTGTGT	61.487	55.000	5.77	0.00	0.00	3.72
1540	3027	1.761244	ATCGCGTGTGTGTGTGTGTG	61.761	55.000	5.77	0.00	0.00	3.82
1542	3029	1.225991	GCGTGTGTGTGTGTGTGTG	60.226	57.895	0.00	0.00	0.00	3.82
1543	3030	1.225991	CGTGTGTGTGTGTGTGTGC	60.226	57.895	0.00	0.00	0.00	4.57
1544	3031	1.136565	GTGTGTGTGTGTGTGTGCC	59.863	57.895	0.00	0.00	0.00	5.01
1545	3032	1.002746	TGTGTGTGTGTGTGTGCCT	60.003	52.632	0.00	0.00	0.00	4.75
1546	3033	0.250513	TGTGTGTGTGTGTGTGCCTA	59.749	50.000	0.00	0.00	0.00	3.93
1547	3034	0.655733	GTGTGTGTGTGTGTGCCTAC	59.344	55.000	0.00	0.00	0.00	3.18
1548	3035	0.539518	TGTGTGTGTGTGTGCCTACT	59.460	50.000	0.00	0.00	0.00	2.57
1549	3036	1.757699	TGTGTGTGTGTGTGCCTACTA	59.242	47.619	0.00	0.00	0.00	1.82
1550	3037	2.132762	GTGTGTGTGTGTGCCTACTAC	58.867	52.381	0.00	0.00	0.00	2.73
1563	3050	3.873910	GCCTACTACAGATGGCAAAAGA	58.126	45.455	0.00	0.00	44.34	2.52
1589	3076	4.334481	CCGTTCTTGTAACTTGTTGGAACT	59.666	41.667	0.00	0.00	32.27	3.01
1619	3106	5.359194	TTTCTCAGTGACCAAGAAGAACT	57.641	39.130	0.00	0.00	31.16	3.01
1780	3267	2.233922	TCCCTCGTGAAAACTCTCATCC	59.766	50.000	0.00	0.00	0.00	3.51
1793	3280	3.331889	ACTCTCATCCAGGGTTTTCATGT	59.668	43.478	0.00	0.00	27.09	3.21
1873	3363	1.677552	GGTGGATCCCGACACTTGT	59.322	57.895	9.90	0.00	37.72	3.16
1878	3368	0.037326	GATCCCGACACTTGTCAGCA	60.037	55.000	9.94	0.00	44.99	4.41
1905	3395	4.037803	GGGCTCCGTTTTTAGGTGTTTTTA	59.962	41.667	0.00	0.00	0.00	1.52
1968	3461	0.450184	GCGGCGGCTTTTTGAAGATA	59.550	50.000	9.78	0.00	35.83	1.98
1979	3472	7.281100	CGGCTTTTTGAAGATAGAATAAGGTCT	59.719	37.037	0.00	0.00	0.00	3.85
2002	3495	3.081409	GCCTAGCCCCCGTTCTGA	61.081	66.667	0.00	0.00	0.00	3.27
2034	3527	1.379443	ATAGTCGGAGGGCGTGTGA	60.379	57.895	0.00	0.00	0.00	3.58
2039	3532	2.358737	GGAGGGCGTGTGAAGGTG	60.359	66.667	0.00	0.00	0.00	4.00
2043	3536	1.822186	GGGCGTGTGAAGGTGTGTT	60.822	57.895	0.00	0.00	0.00	3.32
2046	3539	1.014352	GCGTGTGAAGGTGTGTTTCT	58.986	50.000	0.00	0.00	0.00	2.52
2057	3550	0.684535	TGTGTTTCTGGCGGATCTCA	59.315	50.000	0.00	0.00	0.00	3.27
2058	3551	1.079503	GTGTTTCTGGCGGATCTCAC	58.920	55.000	0.00	3.73	0.00	3.51
2082	3575	6.693315	GGGATCCGATCAAAATTTGTCTTA	57.307	37.500	5.45	0.00	0.00	2.10
2083	3576	7.277174	GGGATCCGATCAAAATTTGTCTTAT	57.723	36.000	5.45	0.00	0.00	1.73
2089	3582	6.968904	CCGATCAAAATTTGTCTTATGTGGAG	59.031	38.462	5.56	0.00	0.00	3.86
2093	3586	2.851263	TTTGTCTTATGTGGAGCCGT	57.149	45.000	0.00	0.00	0.00	5.68
2096	3589	1.899814	TGTCTTATGTGGAGCCGTCTT	59.100	47.619	0.00	0.00	0.00	3.01
2112	3605	2.685100	GTCTTGATCCGGTCTTCGTTT	58.315	47.619	0.00	0.00	37.11	3.60
2119	3612	1.270550	TCCGGTCTTCGTTTGTCTACC	59.729	52.381	0.00	0.00	37.11	3.18
2121	3616	2.489329	CCGGTCTTCGTTTGTCTACCTA	59.511	50.000	0.00	0.00	37.11	3.08
2127	3622	5.345202	GTCTTCGTTTGTCTACCTATGTGTG	59.655	44.000	0.00	0.00	0.00	3.82
2128	3623	4.859304	TCGTTTGTCTACCTATGTGTGT	57.141	40.909	0.00	0.00	0.00	3.72
2129	3624	5.204409	TCGTTTGTCTACCTATGTGTGTT	57.796	39.130	0.00	0.00	0.00	3.32
2171	3666	2.949644	TCTACGATTCTCTTCATCGGCA	59.050	45.455	7.20	0.00	46.44	5.69
2190	3685	0.756903	AGCGGTTGTTGTCCTAGTGT	59.243	50.000	0.00	0.00	0.00	3.55
2192	3687	1.508632	CGGTTGTTGTCCTAGTGTGG	58.491	55.000	0.00	0.00	0.00	4.17
2210	3706	2.367894	GTGGTGGTCCTATAGGCCTTAC	59.632	54.545	24.15	17.57	34.06	2.34
2234	3730	1.808945	GACGACTTCCCGACTGTCTAA	59.191	52.381	6.21	0.00	0.00	2.10
2272	3769	2.689813	TCCGATGAGGGAGGAGCA	59.310	61.111	0.00	0.00	41.52	4.26
2327	3824	1.063811	GTAGTCGTCGCTAGGTGGC	59.936	63.158	0.00	0.00	0.00	5.01

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
29	30	0.676782	CCCTTTAGTGCCGGTTCTGG	60.677	60.000	1.90	0.00	0.00	3.86
43	44	1.002990	CCGGTTCGTAAGGCCCTTT	60.003	57.895	0.00	0.00	38.47	3.11
46	47	2.435410	CACCGGTTCGTAAGGCCC	60.435	66.667	2.97	0.00	38.47	5.80
64	65	4.572389	CACTAGTGCAAAACCAGGCTATAG	59.428	45.833	10.54	0.00	0.00	1.31
79	80	6.288084	CAGGGTCTGATAGAGCACTAGTGC	62.288	54.167	35.56	35.56	44.10	4.40
225	228	1.851304	ATCGGGGCAAACATGTTCAT	58.149	45.000	12.39	0.00	0.00	2.57
239	242	9.790389	GATTATTAGTCATCTAACTGTATCGGG	57.210	37.037	0.00	0.00	38.71	5.14
303	307	7.338800	AGCCACATCATCCAAATTAACTTAG	57.661	36.000	0.00	0.00	0.00	2.18
489	498	8.768501	TCATAGAGGTATCACATTAAGTCACT	57.231	34.615	0.00	0.00	0.00	3.41
589	622	2.031595	CGATGGTCGGTCTGTCTATCTG	60.032	54.545	1.91	0.00	36.00	2.90
607	640	2.235650	TCTATCTATCCGTCCGTCCGAT	59.764	50.000	0.00	0.00	0.00	4.18
667	755	9.415008	AGCATTCATCTTATAGGTACGAGATAT	57.585	33.333	0.00	0.00	0.00	1.63
668	756	8.678199	CAGCATTCATCTTATAGGTACGAGATA	58.322	37.037	0.00	0.00	0.00	1.98
669	757	7.363355	CCAGCATTCATCTTATAGGTACGAGAT	60.363	40.741	0.00	0.00	0.00	2.75
670	758	6.071896	CCAGCATTCATCTTATAGGTACGAGA	60.072	42.308	0.00	0.00	0.00	4.04
671	759	6.096036	CCAGCATTCATCTTATAGGTACGAG	58.904	44.000	0.00	0.00	0.00	4.18
896	1531	8.538701	CCACCATATAGCTCTTCTCAATTATCT	58.461	37.037	0.00	0.00	0.00	1.98
897	1532	7.768120	CCCACCATATAGCTCTTCTCAATTATC	59.232	40.741	0.00	0.00	0.00	1.75
898	1533	7.459125	TCCCACCATATAGCTCTTCTCAATTAT	59.541	37.037	0.00	0.00	0.00	1.28
899	1534	6.787458	TCCCACCATATAGCTCTTCTCAATTA	59.213	38.462	0.00	0.00	0.00	1.40
900	1535	5.608437	TCCCACCATATAGCTCTTCTCAATT	59.392	40.000	0.00	0.00	0.00	2.32
901	1536	5.158141	TCCCACCATATAGCTCTTCTCAAT	58.842	41.667	0.00	0.00	0.00	2.57
902	1537	4.556697	TCCCACCATATAGCTCTTCTCAA	58.443	43.478	0.00	0.00	0.00	3.02
903	1538	4.199002	TCCCACCATATAGCTCTTCTCA	57.801	45.455	0.00	0.00	0.00	3.27
904	1539	6.859112	TTATCCCACCATATAGCTCTTCTC	57.141	41.667	0.00	0.00	0.00	2.87
905	1540	7.682028	AGATTTATCCCACCATATAGCTCTTCT	59.318	37.037	0.00	0.00	0.00	2.85
906	1541	7.856415	AGATTTATCCCACCATATAGCTCTTC	58.144	38.462	0.00	0.00	0.00	2.87
947	1602	6.547880	CGCATATATAGTCTAGGGGTTCAGAT	59.452	42.308	0.00	0.00	0.00	2.90
995	1857	3.117701	TGCCTATGCCTATGCTTTGGTTA	60.118	43.478	7.79	0.00	38.95	2.85
1188	2674	9.955208	CGAATTATGATCAATCAATCCAAAGAA	57.045	29.630	0.00	0.00	40.69	2.52
1189	2675	9.123902	ACGAATTATGATCAATCAATCCAAAGA	57.876	29.630	0.00	0.00	40.69	2.52
1190	2676	9.177304	CACGAATTATGATCAATCAATCCAAAG	57.823	33.333	0.00	0.00	40.69	2.77
1194	2680	6.072286	AGCCACGAATTATGATCAATCAATCC	60.072	38.462	0.00	0.00	40.69	3.01
1214	2700	0.447801	CAGTTGCCACGATTAGCCAC	59.552	55.000	0.00	0.00	0.00	5.01
1240	2727	4.511246	CCGGCTGCACCCCATCAT	62.511	66.667	0.50	0.00	33.26	2.45
1431	2918	0.607489	AATGCTGCTCCTGTGTGGTC	60.607	55.000	0.00	0.00	37.07	4.02
1500	2987	7.125755	GCGATCGAAATGAGATTTATTTCACA	58.874	34.615	21.57	0.00	42.06	3.58
1534	3021	3.254060	CATCTGTAGTAGGCACACACAC	58.746	50.000	0.00	0.00	0.00	3.82
1535	3022	2.233676	CCATCTGTAGTAGGCACACACA	59.766	50.000	0.00	0.00	0.00	3.72
1536	3023	2.893637	CCATCTGTAGTAGGCACACAC	58.106	52.381	0.00	0.00	0.00	3.82
1538	3025	1.941325	GCCATCTGTAGTAGGCACAC	58.059	55.000	10.79	0.00	46.26	3.82
1543	3030	5.123979	GGTTTCTTTTGCCATCTGTAGTAGG	59.876	44.000	0.00	0.00	0.00	3.18
1544	3031	5.163854	CGGTTTCTTTTGCCATCTGTAGTAG	60.164	44.000	0.00	0.00	0.00	2.57
1545	3032	4.693566	CGGTTTCTTTTGCCATCTGTAGTA	59.306	41.667	0.00	0.00	0.00	1.82
1546	3033	3.502211	CGGTTTCTTTTGCCATCTGTAGT	59.498	43.478	0.00	0.00	0.00	2.73
1547	3034	3.502211	ACGGTTTCTTTTGCCATCTGTAG	59.498	43.478	0.00	0.00	0.00	2.74
1548	3035	3.482436	ACGGTTTCTTTTGCCATCTGTA	58.518	40.909	0.00	0.00	0.00	2.74
1549	3036	2.306847	ACGGTTTCTTTTGCCATCTGT	58.693	42.857	0.00	0.00	0.00	3.41
1550	3037	3.004734	AGAACGGTTTCTTTTGCCATCTG	59.995	43.478	0.00	0.00	39.17	2.90
1563	3050	4.701171	TCCAACAAGTTACAAGAACGGTTT	59.299	37.500	0.00	0.00	0.00	3.27
1589	3076	2.302733	TGGTCACTGAGAAATAGCAGCA	59.697	45.455	0.00	0.00	35.57	4.41
1619	3106	2.647683	TGTATGCAACTTGGTGGACA	57.352	45.000	0.00	0.00	0.00	4.02
1737	3224	1.623163	GAGGAGGATTACGAGGGAGG	58.377	60.000	0.00	0.00	0.00	4.30
1780	3267	1.734465	GCGAGAGACATGAAAACCCTG	59.266	52.381	0.00	0.00	0.00	4.45
1788	3275	4.193334	CGCCGGCGAGAGACATGA	62.193	66.667	44.86	0.00	41.50	3.07
1905	3395	4.202212	GCCACAAACCCTAACAAAACTCAT	60.202	41.667	0.00	0.00	0.00	2.90
1979	3472	3.407967	CGGGGGCTAGGCAGGAAA	61.408	66.667	19.14	0.00	0.00	3.13
2018	3511	2.915659	TTCACACGCCCTCCGACT	60.916	61.111	0.00	0.00	41.02	4.18
2025	3518	1.381165	AAACACACCTTCACACGCCC	61.381	55.000	0.00	0.00	0.00	6.13
2034	3527	0.110486	ATCCGCCAGAAACACACCTT	59.890	50.000	0.00	0.00	0.00	3.50
2039	3532	1.079503	GTGAGATCCGCCAGAAACAC	58.920	55.000	0.00	0.00	0.00	3.32
2043	3536	2.721167	CCCGTGAGATCCGCCAGAA	61.721	63.158	0.00	0.00	0.00	3.02
2046	3539	2.443952	ATCCCGTGAGATCCGCCA	60.444	61.111	0.00	0.00	0.00	5.69
2067	3560	6.625740	CGGCTCCACATAAGACAAATTTTGAT	60.626	38.462	15.81	4.51	0.00	2.57
2070	3563	4.522789	ACGGCTCCACATAAGACAAATTTT	59.477	37.500	0.00	0.00	0.00	1.82
2071	3564	4.079253	ACGGCTCCACATAAGACAAATTT	58.921	39.130	0.00	0.00	0.00	1.82
2072	3565	3.686016	ACGGCTCCACATAAGACAAATT	58.314	40.909	0.00	0.00	0.00	1.82
2082	3575	0.179000	GGATCAAGACGGCTCCACAT	59.821	55.000	0.00	0.00	0.00	3.21
2083	3576	1.596934	GGATCAAGACGGCTCCACA	59.403	57.895	0.00	0.00	0.00	4.17
2093	3586	2.036733	ACAAACGAAGACCGGATCAAGA	59.963	45.455	9.46	0.00	43.93	3.02
2096	3589	1.616865	AGACAAACGAAGACCGGATCA	59.383	47.619	9.46	0.00	43.93	2.92
2112	3605	5.541101	ACCTGTAAACACACATAGGTAGACA	59.459	40.000	0.00	0.00	28.17	3.41
2119	3612	5.354234	GGATCCAACCTGTAAACACACATAG	59.646	44.000	6.95	0.00	0.00	2.23
2121	3616	4.079253	GGATCCAACCTGTAAACACACAT	58.921	43.478	6.95	0.00	0.00	3.21
2127	3622	3.007635	CGGAAGGATCCAACCTGTAAAC	58.992	50.000	15.82	0.00	46.97	2.01
2128	3623	2.907696	TCGGAAGGATCCAACCTGTAAA	59.092	45.455	15.82	0.00	46.97	2.01
2129	3624	2.542550	TCGGAAGGATCCAACCTGTAA	58.457	47.619	15.82	0.34	46.97	2.41
2171	3666	0.756903	ACACTAGGACAACAACCGCT	59.243	50.000	0.00	0.00	0.00	5.52
2210	3706	2.126580	GTCGGGAAGTCGTCGTGG	60.127	66.667	0.00	0.00	0.00	4.94
2256	3752	0.250209	CATTGCTCCTCCCTCATCGG	60.250	60.000	0.00	0.00	0.00	4.18
2327	3824	7.998964	AGTAAAAATTACATCCAGGTCCATAGG	59.001	37.037	3.37	0.00	0.00	2.57
2382	7675	9.535270	CAAGAAAACTTTCGATCTATTCTTCAC	57.465	33.333	9.42	0.00	41.92	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.