AutoCloner

Multiple sequence alignment - TraesCS6B01G471300

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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	TraesCS6B01G471300	chr6B	100.000	3608	0	0	1	3608	719421717	719425324	0.000000e+00	6663.0
1	TraesCS6B01G471300	chr6B	88.759	1112	98	17	2505	3600	719309218	719308118	0.000000e+00	1336.0
2	TraesCS6B01G471300	chr6D	94.338	2508	88	22	1142	3600	471114914	471112412	0.000000e+00	3795.0
3	TraesCS6B01G471300	chr6D	88.233	2218	168	47	1453	3600	471274678	471276872	0.000000e+00	2564.0
4	TraesCS6B01G471300	chr6D	90.505	1506	90	23	1451	2937	459549208	459550679	0.000000e+00	1940.0
5	TraesCS6B01G471300	chr6D	95.028	543	10	2	1	526	471116951	471116409	0.000000e+00	837.0
6	TraesCS6B01G471300	chr6D	91.042	480	25	4	629	1107	471115372	471114910	1.830000e-177	632.0
7	TraesCS6B01G471300	chr6D	84.305	669	64	18	2945	3600	459551306	459551946	1.840000e-172	616.0
8	TraesCS6B01G471300	chr6D	87.342	395	25	15	958	1327	471274057	471274451	2.570000e-116	429.0
9	TraesCS6B01G471300	chr6D	79.828	233	29	12	1218	1435	459548545	459548774	1.730000e-33	154.0
10	TraesCS6B01G471300	chr6D	96.104	77	3	0	1	77	471264939	471265015	3.780000e-25	126.0
11	TraesCS6B01G471300	chr6D	93.151	73	3	1	526	596	471115922	471115850	4.930000e-19	106.0
12	TraesCS6B01G471300	chr6A	93.101	1406	85	10	1504	2903	616054305	616055704	0.000000e+00	2049.0
13	TraesCS6B01G471300	chr6A	91.935	248	16	1	3357	3600	616056742	616056989	9.590000e-91	344.0
14	TraesCS6B01G471300	chr6A	83.699	319	31	7	844	1159	616053233	616053533	7.630000e-72	281.0
15	TraesCS6B01G471300	chr6A	85.185	162	16	3	127	286	616053113	616053268	3.730000e-35	159.0
16	TraesCS6B01G471300	chr3A	91.573	1424	99	14	1517	2931	574278797	574280208	0.000000e+00	1945.0
17	TraesCS6B01G471300	chr3A	92.815	1183	74	9	1505	2681	574320677	574319500	0.000000e+00	1703.0
18	TraesCS6B01G471300	chr3A	89.668	271	21	5	3205	3471	574319270	574319003	4.460000e-89	339.0
19	TraesCS6B01G471300	chr3A	86.429	280	38	0	3024	3303	574281309	574281588	1.260000e-79	307.0
20	TraesCS6B01G471300	chr3A	86.310	168	13	5	60	226	574277794	574277952	1.330000e-39	174.0
21	TraesCS6B01G471300	chr3A	81.197	234	27	11	1219	1435	574321868	574321635	4.790000e-39	172.0
22	TraesCS6B01G471300	chr3A	97.403	77	2	0	1	77	574277700	574277776	8.130000e-27	132.0
23	TraesCS6B01G471300	chr2B	89.256	1452	107	24	1508	2951	771418200	771416790	0.000000e+00	1772.0
24	TraesCS6B01G471300	chr2B	91.565	984	57	6	1922	2905	771488135	771487178	0.000000e+00	1334.0
25	TraesCS6B01G471300	chr2B	87.791	344	38	2	1505	1844	771488499	771488156	2.020000e-107	399.0
26	TraesCS6B01G471300	chr2B	89.200	250	15	4	1087	1327	771489044	771488798	5.850000e-78	302.0
27	TraesCS6B01G471300	chr2B	85.075	268	20	8	1070	1327	771420257	771420000	4.620000e-64	255.0
28	TraesCS6B01G471300	chr2B	88.000	175	14	7	867	1038	771489218	771489048	2.200000e-47	200.0
29	TraesCS6B01G471300	chr2B	85.000	180	15	10	867	1038	771420421	771420246	4.790000e-39	172.0
30	TraesCS6B01G471300	chr2B	88.235	51	0	4	2903	2951	771480868	771480822	5.030000e-04	56.5
31	TraesCS6B01G471300	chr7B	83.914	1722	198	44	1916	3600	680075962	680074283	0.000000e+00	1572.0
32	TraesCS6B01G471300	chr7B	86.200	500	45	7	3118	3600	707880583	707880091	1.480000e-143	520.0
33	TraesCS6B01G471300	chr7B	86.861	274	29	5	1504	1777	680076315	680076049	2.110000e-77	300.0
34	TraesCS6B01G471300	chr7D	89.088	669	55	6	2943	3600	600864977	600864316	0.000000e+00	815.0
35	TraesCS6B01G471300	chr7D	79.781	821	116	35	2090	2903	600865885	600865108	5.270000e-153	551.0
36	TraesCS6B01G471300	chr7D	85.246	305	30	7	1504	1804	600866208	600865915	2.110000e-77	300.0
37	TraesCS6B01G471300	chr7A	89.815	324	25	4	2943	3259	692784891	692784569	3.350000e-110	409.0

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	TraesCS6B01G471300	chr6B	719421717	719425324	3607	False	6663.000000	6663	100.000000	1	3608	1	chr6B.!!$F1	3607
1	TraesCS6B01G471300	chr6B	719308118	719309218	1100	True	1336.000000	1336	88.759000	2505	3600	1	chr6B.!!$R1	1095
2	TraesCS6B01G471300	chr6D	471274057	471276872	2815	False	1496.500000	2564	87.787500	958	3600	2	chr6D.!!$F3	2642
3	TraesCS6B01G471300	chr6D	471112412	471116951	4539	True	1342.500000	3795	93.389750	1	3600	4	chr6D.!!$R1	3599
4	TraesCS6B01G471300	chr6D	459548545	459551946	3401	False	903.333333	1940	84.879333	1218	3600	3	chr6D.!!$F2	2382
5	TraesCS6B01G471300	chr6A	616053113	616056989	3876	False	708.250000	2049	88.480000	127	3600	4	chr6A.!!$F1	3473
6	TraesCS6B01G471300	chr3A	574319003	574321868	2865	True	738.000000	1703	87.893333	1219	3471	3	chr3A.!!$R1	2252
7	TraesCS6B01G471300	chr3A	574277700	574281588	3888	False	639.500000	1945	90.428750	1	3303	4	chr3A.!!$F1	3302
8	TraesCS6B01G471300	chr2B	771416790	771420421	3631	True	733.000000	1772	86.443667	867	2951	3	chr2B.!!$R2	2084
9	TraesCS6B01G471300	chr2B	771487178	771489218	2040	True	558.750000	1334	89.139000	867	2905	4	chr2B.!!$R3	2038
10	TraesCS6B01G471300	chr7B	680074283	680076315	2032	True	936.000000	1572	85.387500	1504	3600	2	chr7B.!!$R2	2096
11	TraesCS6B01G471300	chr7D	600864316	600866208	1892	True	555.333333	815	84.705000	1504	3600	3	chr7D.!!$R1	2096

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
787	1782	0.734597	TGTACGCGTATGCACAGGTG	60.735	55.0	23.56	42.97	4.00	F
1567	5376	0.545646	TCCCATGCGATTCACATCCA	59.454	50.0	0.00	0.00	3.41	F
1584	5393	0.833834	CCAGACCCATCCCGAGCTAT	60.834	60.0	0.00	0.00	2.97	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2177	6035	0.676184	ACCATCGATGATCCGGACAG	59.324	55.000	26.86	8.82	0.00	3.51	R
2489	6350	1.274167	CAAGATTGCAGGTGCCATTGT	59.726	47.619	0.00	0.00	41.18	2.71	R
3445	9614	1.428869	CCGGGGAGAAGGAGATTGAT	58.571	55.000	0.00	0.00	0.00	2.57	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
120	156	2.289320	ACGAGCTTGAAGAGATGCAACT	60.289	45.455	8.31	0.00	0.00	3.16
135	171	5.752472	AGATGCAACTATCTTTGTGAGATCG	59.248	40.000	0.00	0.00	44.04	3.69
326	386	1.593006	CGTGCCGTCTGATTACCATTC	59.407	52.381	0.00	0.00	0.00	2.67
338	398	7.380065	GTCTGATTACCATTCGACACTATCTTC	59.620	40.741	0.00	0.00	0.00	2.87
414	475	7.619964	TTGTATCCCTTTATTTTTCCTCGTC	57.380	36.000	0.00	0.00	0.00	4.20
455	516	4.152647	GTTCTCTTCCCTTTGTCCCAATT	58.847	43.478	0.00	0.00	0.00	2.32
518	579	7.284919	TCGATAGCATGTAAGTGATTCCTTA	57.715	36.000	0.00	0.00	0.00	2.69
519	580	7.145985	TCGATAGCATGTAAGTGATTCCTTAC	58.854	38.462	13.69	13.69	44.55	2.34
528	1078	7.118422	GTAAGTGATTCCTTACAGTGAACAC	57.882	40.000	14.84	0.00	44.00	3.32
531	1081	4.055360	TGATTCCTTACAGTGAACACGTG	58.945	43.478	15.48	15.48	36.20	4.49
533	1083	4.652421	TTCCTTACAGTGAACACGTGTA	57.348	40.909	23.69	3.90	36.20	2.90
548	1098	3.433274	CACGTGTATCTTGTGTGATGCTT	59.567	43.478	7.58	0.00	32.39	3.91
593	1143	4.317488	GGTGTTTCATACCCGTTCTTGTA	58.683	43.478	0.00	0.00	31.89	2.41
596	1146	4.938832	TGTTTCATACCCGTTCTTGTATGG	59.061	41.667	9.13	0.00	42.83	2.74
598	1148	5.936187	TTCATACCCGTTCTTGTATGGTA	57.064	39.130	9.13	0.00	42.83	3.25
599	1149	5.266733	TCATACCCGTTCTTGTATGGTAC	57.733	43.478	9.13	0.00	42.83	3.34
600	1150	4.957954	TCATACCCGTTCTTGTATGGTACT	59.042	41.667	9.13	0.00	42.83	2.73
603	1153	2.093658	CCCGTTCTTGTATGGTACTGCT	60.094	50.000	0.00	0.00	0.00	4.24
604	1154	3.131577	CCCGTTCTTGTATGGTACTGCTA	59.868	47.826	0.00	0.00	0.00	3.49
606	1156	4.982916	CCGTTCTTGTATGGTACTGCTATC	59.017	45.833	0.00	0.00	0.00	2.08
607	1157	5.451381	CCGTTCTTGTATGGTACTGCTATCA	60.451	44.000	0.00	0.00	0.00	2.15
609	1159	7.368059	CGTTCTTGTATGGTACTGCTATCATA	58.632	38.462	0.00	0.00	0.00	2.15
610	1160	8.029522	CGTTCTTGTATGGTACTGCTATCATAT	58.970	37.037	0.00	0.00	30.18	1.78
611	1161	9.360093	GTTCTTGTATGGTACTGCTATCATATC	57.640	37.037	0.00	0.00	30.18	1.63
613	1163	8.961634	TCTTGTATGGTACTGCTATCATATCTC	58.038	37.037	0.00	0.00	30.18	2.75
614	1164	8.885693	TTGTATGGTACTGCTATCATATCTCT	57.114	34.615	0.00	0.00	30.18	3.10
616	1166	8.743714	TGTATGGTACTGCTATCATATCTCTTG	58.256	37.037	0.00	0.00	30.18	3.02
617	1167	7.789202	ATGGTACTGCTATCATATCTCTTGT	57.211	36.000	0.00	0.00	0.00	3.16
618	1168	8.885693	ATGGTACTGCTATCATATCTCTTGTA	57.114	34.615	0.00	0.00	0.00	2.41
619	1169	8.341892	TGGTACTGCTATCATATCTCTTGTAG	57.658	38.462	0.00	0.00	0.00	2.74
620	1170	7.945109	TGGTACTGCTATCATATCTCTTGTAGT	59.055	37.037	0.00	0.00	0.00	2.73
621	1171	8.240682	GGTACTGCTATCATATCTCTTGTAGTG	58.759	40.741	0.00	0.00	0.00	2.74
622	1172	7.831691	ACTGCTATCATATCTCTTGTAGTGT	57.168	36.000	0.00	0.00	0.00	3.55
623	1173	7.656412	ACTGCTATCATATCTCTTGTAGTGTG	58.344	38.462	0.00	0.00	0.00	3.82
624	1174	6.450545	TGCTATCATATCTCTTGTAGTGTGC	58.549	40.000	0.00	0.00	0.00	4.57
625	1175	5.866633	GCTATCATATCTCTTGTAGTGTGCC	59.133	44.000	0.00	0.00	0.00	5.01
626	1176	4.672587	TCATATCTCTTGTAGTGTGCCC	57.327	45.455	0.00	0.00	0.00	5.36
655	1650	7.069331	GCTATGGTACTGCTATCATATCTCCTT	59.931	40.741	0.00	0.00	27.54	3.36
681	1676	4.157105	AGTTTTACTTGTGTTTGCTCGGTT	59.843	37.500	0.00	0.00	0.00	4.44
682	1677	3.684103	TTACTTGTGTTTGCTCGGTTG	57.316	42.857	0.00	0.00	0.00	3.77
683	1678	1.459450	ACTTGTGTTTGCTCGGTTGT	58.541	45.000	0.00	0.00	0.00	3.32
684	1679	2.634600	ACTTGTGTTTGCTCGGTTGTA	58.365	42.857	0.00	0.00	0.00	2.41
685	1680	3.011119	ACTTGTGTTTGCTCGGTTGTAA	58.989	40.909	0.00	0.00	0.00	2.41
686	1681	3.440872	ACTTGTGTTTGCTCGGTTGTAAA	59.559	39.130	0.00	0.00	0.00	2.01
701	1696	1.003118	TGTAAACCTGTGCTGGCCTAG	59.997	52.381	3.32	0.34	0.00	3.02
715	1710	3.746940	TGGCCTAGTTTTGACTGTTACC	58.253	45.455	3.32	0.00	0.00	2.85
773	1768	2.060284	TCAAAAACGTCCCGATGTACG	58.940	47.619	0.00	0.00	44.47	3.67
787	1782	0.734597	TGTACGCGTATGCACAGGTG	60.735	55.000	23.56	0.00	42.97	4.00
848	1843	4.993584	TCTGAAAACATGCAGAGAAGAGAC	59.006	41.667	0.00	0.00	36.31	3.36
870	1865	1.664874	CCTTTAGCCGCGTTTGGTTTC	60.665	52.381	4.92	0.00	0.00	2.78
890	1885	1.592131	TTGGTGACCACGTACGTGC	60.592	57.895	36.76	26.10	44.16	5.34
1129	2183	4.421911	AGAGGGAGGAGAAGATGAAGGATA	59.578	45.833	0.00	0.00	0.00	2.59
1132	2186	4.224818	GGGAGGAGAAGATGAAGGATATGG	59.775	50.000	0.00	0.00	0.00	2.74
1139	2193	2.185474	AGATGAAGGATATGGGGAGGGT	59.815	50.000	0.00	0.00	0.00	4.34
1260	2637	1.062886	AGGGAGGAAGATCGGATCACA	60.063	52.381	19.47	0.00	0.00	3.58
1375	2776	6.662414	TGCATTACTTCCTAAGTTCATTCG	57.338	37.500	0.00	0.00	42.81	3.34
1416	2826	8.479689	AGGATGAACATTGCAATTTCATTCATA	58.520	29.630	31.18	16.73	39.53	2.15
1417	2827	8.761497	GGATGAACATTGCAATTTCATTCATAG	58.239	33.333	29.58	14.12	39.53	2.23
1488	4888	9.448438	TCTGTATGTTGCTTTACTGATAACAAT	57.552	29.630	0.00	0.00	35.23	2.71
1494	4894	8.572185	TGTTGCTTTACTGATAACAATAGCAAA	58.428	29.630	0.00	0.00	39.67	3.68
1557	5365	0.824109	CTAGTCTTGGTCCCATGCGA	59.176	55.000	0.00	0.00	0.00	5.10
1567	5376	0.545646	TCCCATGCGATTCACATCCA	59.454	50.000	0.00	0.00	0.00	3.41
1584	5393	0.833834	CCAGACCCATCCCGAGCTAT	60.834	60.000	0.00	0.00	0.00	2.97
1589	5398	1.367471	CCATCCCGAGCTATGCGAA	59.633	57.895	0.00	0.00	0.00	4.70
1591	5400	1.609061	CCATCCCGAGCTATGCGAAAT	60.609	52.381	0.00	0.00	0.00	2.17
1832	5649	8.874744	TTCCTTTGATTCTTCATCTTCATCTT	57.125	30.769	0.00	0.00	32.34	2.40
1907	5765	3.742369	GTCTGCCAACCATTTTGTTGATG	59.258	43.478	5.53	0.00	46.77	3.07
1919	5777	6.257411	CCATTTTGTTGATGTGTGTTGCTTTA	59.743	34.615	0.00	0.00	0.00	1.85
2100	5958	4.941609	ACACATGTGATCCGCTCC	57.058	55.556	31.94	0.00	0.00	4.70
2355	6213	2.697761	CGTGTCGGTGGACCTCGAT	61.698	63.158	12.27	0.00	42.73	3.59
2449	6310	3.334751	CTGCCGTCGTTGTTGCGA	61.335	61.111	0.00	0.00	38.68	5.10
2503	6364	1.528076	ACGAACAATGGCACCTGCA	60.528	52.632	0.00	0.00	44.36	4.41
2592	6462	2.737376	GCCCTCGCGAAACTCGTT	60.737	61.111	11.33	0.00	42.81	3.85
2688	6563	4.111375	TCTTCGATGTCTGTTTAGCCTC	57.889	45.455	0.00	0.00	0.00	4.70
2703	6578	5.654603	TTAGCCTCGTTTGAGAGTTGATA	57.345	39.130	0.00	0.00	45.57	2.15
2941	7086	5.916883	GCACATACAGGTAATTTGATCATGC	59.083	40.000	0.00	0.00	0.00	4.06
3151	8841	5.347342	CCGCCATCAAGTATTTGCATTTTA	58.653	37.500	0.00	0.00	34.21	1.52
3348	9060	1.005630	AGCTGCTCGTGTTGAGGTC	60.006	57.895	0.00	0.00	45.38	3.85
3484	9653	3.508840	GGGAAATGCAGGCGGTCG	61.509	66.667	0.00	0.00	0.00	4.79
3522	9697	2.360726	TCGTCCTCGCTGCCAGTA	60.361	61.111	0.00	0.00	36.96	2.74
3600	9775	3.168759	TTCCTCCACCGGGTCCTCA	62.169	63.158	6.32	0.00	34.93	3.86
3601	9776	2.606519	CCTCCACCGGGTCCTCAA	60.607	66.667	6.32	0.00	34.93	3.02
3602	9777	1.995626	CCTCCACCGGGTCCTCAAT	60.996	63.158	6.32	0.00	34.93	2.57
3603	9778	1.522569	CTCCACCGGGTCCTCAATC	59.477	63.158	6.32	0.00	34.93	2.67
3604	9779	1.229368	TCCACCGGGTCCTCAATCA	60.229	57.895	6.32	0.00	34.93	2.57
3605	9780	0.838554	TCCACCGGGTCCTCAATCAA	60.839	55.000	6.32	0.00	34.93	2.57
3606	9781	0.255890	CCACCGGGTCCTCAATCAAT	59.744	55.000	6.32	0.00	0.00	2.57
3607	9782	1.488812	CCACCGGGTCCTCAATCAATA	59.511	52.381	6.32	0.00	0.00	1.90

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
120	156	1.754803	ACGCCCGATCTCACAAAGATA	59.245	47.619	0.00	0.00	45.06	1.98
326	386	7.044249	CGTAACATTTGGTAGAAGATAGTGTCG	60.044	40.741	0.00	0.00	0.00	4.35
338	398	8.025243	AGATGTTACAACGTAACATTTGGTAG	57.975	34.615	25.32	0.00	45.10	3.18
414	475	3.629142	ACAGGAAACTAGAATTCCCCG	57.371	47.619	20.97	16.72	46.17	5.73
455	516	6.053005	AGGTGATGTTAACGAAGAAGAAACA	58.947	36.000	0.26	0.00	34.81	2.83
518	579	3.802139	CACAAGATACACGTGTTCACTGT	59.198	43.478	28.55	22.79	39.00	3.55
519	580	3.802139	ACACAAGATACACGTGTTCACTG	59.198	43.478	28.55	22.27	40.91	3.66
528	1078	5.348724	AGTTAAGCATCACACAAGATACACG	59.651	40.000	0.00	0.00	0.00	4.49
531	1081	6.968131	TGAGTTAAGCATCACACAAGATAC	57.032	37.500	0.00	0.00	0.00	2.24
533	1083	6.656270	TGATTGAGTTAAGCATCACACAAGAT	59.344	34.615	0.00	0.00	27.92	2.40
548	1098	7.279981	CACCGATTCCAATACTTGATTGAGTTA	59.720	37.037	0.00	0.00	46.94	2.24
593	1143	7.789202	ACAAGAGATATGATAGCAGTACCAT	57.211	36.000	0.00	0.00	0.00	3.55
596	1146	8.788806	ACACTACAAGAGATATGATAGCAGTAC	58.211	37.037	0.00	0.00	0.00	2.73
598	1148	7.656412	CACACTACAAGAGATATGATAGCAGT	58.344	38.462	0.00	0.00	0.00	4.40
599	1149	6.585702	GCACACTACAAGAGATATGATAGCAG	59.414	42.308	0.00	0.00	0.00	4.24
600	1150	6.450545	GCACACTACAAGAGATATGATAGCA	58.549	40.000	0.00	0.00	0.00	3.49
603	1153	5.838521	TGGGCACACTACAAGAGATATGATA	59.161	40.000	0.00	0.00	0.00	2.15
604	1154	4.655649	TGGGCACACTACAAGAGATATGAT	59.344	41.667	0.00	0.00	0.00	2.45
606	1156	4.406648	TGGGCACACTACAAGAGATATG	57.593	45.455	0.00	0.00	0.00	1.78
607	1157	4.744867	GCATGGGCACACTACAAGAGATAT	60.745	45.833	0.00	0.00	40.72	1.63
609	1159	2.681976	GCATGGGCACACTACAAGAGAT	60.682	50.000	0.00	0.00	40.72	2.75
610	1160	1.339055	GCATGGGCACACTACAAGAGA	60.339	52.381	0.00	0.00	40.72	3.10
611	1161	1.089920	GCATGGGCACACTACAAGAG	58.910	55.000	0.00	0.00	40.72	2.85
613	1163	2.401583	TAGCATGGGCACACTACAAG	57.598	50.000	0.00	0.00	44.61	3.16
614	1164	2.642427	CATAGCATGGGCACACTACAA	58.358	47.619	0.00	0.00	44.61	2.41
616	1166	1.597742	CCATAGCATGGGCACACTAC	58.402	55.000	0.00	0.00	46.86	2.73
618	1168	4.993307	CCATAGCATGGGCACACT	57.007	55.556	0.00	0.00	46.86	3.55
626	1176	7.724287	AGATATGATAGCAGTACCATAGCATG	58.276	38.462	9.40	0.00	32.25	4.06
655	1650	6.127952	ACCGAGCAAACACAAGTAAAACTAAA	60.128	34.615	0.00	0.00	0.00	1.85
681	1676	1.003118	CTAGGCCAGCACAGGTTTACA	59.997	52.381	5.01	0.00	0.00	2.41
682	1677	1.003233	ACTAGGCCAGCACAGGTTTAC	59.997	52.381	5.01	0.00	0.00	2.01
683	1678	1.358152	ACTAGGCCAGCACAGGTTTA	58.642	50.000	5.01	0.00	0.00	2.01
684	1679	0.478507	AACTAGGCCAGCACAGGTTT	59.521	50.000	5.01	0.00	0.00	3.27
685	1680	0.478507	AAACTAGGCCAGCACAGGTT	59.521	50.000	5.01	0.00	0.00	3.50
686	1681	0.478507	AAAACTAGGCCAGCACAGGT	59.521	50.000	5.01	0.00	0.00	4.00
687	1682	0.883833	CAAAACTAGGCCAGCACAGG	59.116	55.000	5.01	0.00	0.00	4.00
688	1683	1.537202	GTCAAAACTAGGCCAGCACAG	59.463	52.381	5.01	0.00	0.00	3.66
689	1684	1.142870	AGTCAAAACTAGGCCAGCACA	59.857	47.619	5.01	0.00	32.59	4.57
690	1685	1.537202	CAGTCAAAACTAGGCCAGCAC	59.463	52.381	5.01	0.00	33.25	4.40
691	1686	1.142870	ACAGTCAAAACTAGGCCAGCA	59.857	47.619	5.01	0.00	33.25	4.41
692	1687	1.897560	ACAGTCAAAACTAGGCCAGC	58.102	50.000	5.01	0.00	33.25	4.85
693	1688	3.751698	GGTAACAGTCAAAACTAGGCCAG	59.248	47.826	5.01	2.64	33.25	4.85
694	1689	3.393278	AGGTAACAGTCAAAACTAGGCCA	59.607	43.478	5.01	0.00	41.41	5.36
701	1696	4.976224	ACCAACAGGTAACAGTCAAAAC	57.024	40.909	0.00	0.00	33.79	2.43
715	1710	3.589988	CAGGCTCTACTTGTACCAACAG	58.410	50.000	0.00	0.00	36.83	3.16
773	1768	1.217882	GTATCCACCTGTGCATACGC	58.782	55.000	0.00	0.00	39.24	4.42
824	1819	4.993584	TCTCTTCTCTGCATGTTTTCAGAC	59.006	41.667	0.00	0.00	35.66	3.51
848	1843	0.953960	ACCAAACGCGGCTAAAGGAG	60.954	55.000	12.47	0.00	0.00	3.69
870	1865	1.299316	ACGTACGTGGTCACCAACG	60.299	57.895	22.14	16.43	39.98	4.10
890	1885	5.465390	TGACAGTTGGATCAAACGTAGAAAG	59.535	40.000	7.34	0.00	35.13	2.62
930	1929	7.577046	GCCGCTTATATAACTCTGTCATTAGGA	60.577	40.741	0.00	0.00	0.00	2.94
946	1945	1.337260	CGCTTCCTCTGCCGCTTATAT	60.337	52.381	0.00	0.00	0.00	0.86
948	1947	1.227380	CGCTTCCTCTGCCGCTTAT	60.227	57.895	0.00	0.00	0.00	1.73
1129	2183	0.552367	TCATGGTTCACCCTCCCCAT	60.552	55.000	0.00	0.00	38.20	4.00
1132	2186	0.918983	TCATCATGGTTCACCCTCCC	59.081	55.000	0.00	0.00	34.29	4.30
1139	2193	6.202762	GCTGTTAATATCGTCATCATGGTTCA	59.797	38.462	0.00	0.00	0.00	3.18
1213	2572	2.837291	CTCCTCCTCCTCCTGCGG	60.837	72.222	0.00	0.00	0.00	5.69
1260	2637	4.388499	CACAGCCCGCGGTACCTT	62.388	66.667	26.12	0.34	0.00	3.50
1375	2776	7.843490	TGTTCATCCTAGCTTACAATACAAC	57.157	36.000	0.00	0.00	0.00	3.32
1416	2826	6.204852	TCCATGTTAATAGCATTCCCATCT	57.795	37.500	0.00	0.00	0.00	2.90
1417	2827	6.660521	TCATCCATGTTAATAGCATTCCCATC	59.339	38.462	0.00	0.00	0.00	3.51
1448	3376	6.489675	CAACATACAGACATGCTAAATGACC	58.510	40.000	0.00	0.00	0.00	4.02
1488	4888	4.646945	AGCTATGTGACTAGAGCTTTGCTA	59.353	41.667	0.00	0.00	42.59	3.49
1557	5365	1.496429	GGGATGGGTCTGGATGTGAAT	59.504	52.381	0.00	0.00	0.00	2.57
1567	5376	1.476007	GCATAGCTCGGGATGGGTCT	61.476	60.000	0.00	0.00	0.00	3.85
1684	5493	1.884075	TTGTGATCCGAGGTGTCCCG	61.884	60.000	0.00	0.00	35.12	5.14
1812	5628	9.081204	TCCAAAAAGATGAAGATGAAGAATCAA	57.919	29.630	0.00	0.00	39.49	2.57
1832	5649	7.175816	TCGAGTAATCCATTCAAATGTCCAAAA	59.824	33.333	2.31	0.00	34.60	2.44
1907	5765	3.976169	TCCTGCAATTAAAGCAACACAC	58.024	40.909	7.28	0.00	42.17	3.82
1919	5777	4.747931	GCAGTAGGTATGGATCCTGCAATT	60.748	45.833	14.23	0.00	43.54	2.32
2177	6035	0.676184	ACCATCGATGATCCGGACAG	59.324	55.000	26.86	8.82	0.00	3.51
2288	6146	1.958205	GAAGGGCTGATCGGCATCG	60.958	63.158	27.26	0.00	40.61	3.84
2489	6350	1.274167	CAAGATTGCAGGTGCCATTGT	59.726	47.619	0.00	0.00	41.18	2.71
2503	6364	1.891150	CACCTTGCAGAAGCCAAGATT	59.109	47.619	2.93	0.00	41.13	2.40
2592	6462	1.767088	CTCATTCATGGCCTCTCCTCA	59.233	52.381	3.32	0.00	35.26	3.86
2688	6563	6.269315	AGCAGACTATATCAACTCTCAAACG	58.731	40.000	0.00	0.00	0.00	3.60
2703	6578	7.069331	AGCAGACTGAATAAACTAGCAGACTAT	59.931	37.037	6.65	0.00	33.05	2.12
2850	6816	4.647424	TCAGGTTTTACTTGTTGCAAGG	57.353	40.909	0.00	0.00	0.00	3.61
2941	7086	4.582701	TGTACTGCAAAACCTGAAATGG	57.417	40.909	0.00	0.00	0.00	3.16
3151	8841	3.100545	CAAGATATGCAGCCCGGTT	57.899	52.632	0.00	0.00	0.00	4.44
3445	9614	1.428869	CCGGGGAGAAGGAGATTGAT	58.571	55.000	0.00	0.00	0.00	2.57
3484	9653	4.612943	GAGAACGATGAAGACATAGGGAC	58.387	47.826	0.00	0.00	36.82	4.46
3522	9697	3.245264	ACAGGACCAAATTCCCTTCGATT	60.245	43.478	0.00	0.00	36.12	3.34

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.