AutoCloner

Multiple sequence alignment - TraesCS4B01G033600

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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	TraesCS4B01G033600	chr4B	100.000	2809	0	0	1	2809	24758337	24761145	0.000000e+00	5188.0
1	TraesCS4B01G033600	chr4B	89.182	1858	128	28	627	2449	24745304	24747123	0.000000e+00	2250.0
2	TraesCS4B01G033600	chr4B	86.324	1477	136	25	618	2064	24741171	24742611	0.000000e+00	1548.0
3	TraesCS4B01G033600	chr4B	85.110	544	47	13	4	517	24744760	24745299	2.480000e-145	525.0
4	TraesCS4B01G033600	chr4B	90.674	193	15	1	2452	2641	24748040	24748232	1.290000e-63	254.0
5	TraesCS4B01G033600	chr4B	82.682	179	20	3	75	242	24688307	24688129	6.270000e-32	148.0
6	TraesCS4B01G033600	chr3B	89.039	1852	127	33	634	2449	452717412	452715601	0.000000e+00	2226.0
7	TraesCS4B01G033600	chr3B	83.022	536	45	12	1	517	452717930	452717422	7.140000e-121	444.0
8	TraesCS4B01G033600	chr3B	81.471	367	31	17	634	972	452728447	452728804	1.660000e-67	267.0
9	TraesCS4B01G033600	chr3B	89.005	191	19	1	2453	2641	452714682	452714492	4.680000e-58	235.0
10	TraesCS4B01G033600	chr3B	76.682	223	24	12	166	380	452727928	452728130	6.400000e-17	99.0
11	TraesCS4B01G033600	chr4D	89.462	1803	128	27	682	2449	14914191	14915966	0.000000e+00	2220.0
12	TraesCS4B01G033600	chr4D	88.711	1621	139	26	844	2433	14862547	14864154	0.000000e+00	1940.0
13	TraesCS4B01G033600	chr4D	87.409	1652	159	28	815	2451	14851074	14852691	0.000000e+00	1853.0
14	TraesCS4B01G033600	chr4D	87.457	1467	138	25	627	2064	14908902	14910351	0.000000e+00	1648.0
15	TraesCS4B01G033600	chr4D	86.597	1522	141	41	634	2108	14460225	14458720	0.000000e+00	1622.0
16	TraesCS4B01G033600	chr4D	89.297	626	53	7	1821	2441	14896157	14896773	0.000000e+00	773.0
17	TraesCS4B01G033600	chr4D	88.365	636	53	7	1817	2446	14433501	14432881	0.000000e+00	745.0
18	TraesCS4B01G033600	chr4D	88.065	553	50	5	1	545	14460939	14460395	2.360000e-180	641.0
19	TraesCS4B01G033600	chr4D	84.048	583	54	17	1	545	14908110	14908691	2.480000e-145	525.0
20	TraesCS4B01G033600	chr4D	90.132	304	27	3	2509	2809	14921923	14922226	2.620000e-105	392.0
21	TraesCS4B01G033600	chr4D	85.670	321	31	6	438	749	14437089	14436775	9.700000e-85	324.0
22	TraesCS4B01G033600	chr4D	83.747	363	28	9	1	361	14867157	14867490	5.840000e-82	315.0
23	TraesCS4B01G033600	chr4D	91.892	222	17	1	2589	2809	14430166	14429945	2.720000e-80	309.0
24	TraesCS4B01G033600	chr4D	87.454	271	24	6	134	400	14437353	14437089	1.260000e-78	303.0
25	TraesCS4B01G033600	chr4D	82.578	287	33	7	733	1006	14895880	14896162	1.300000e-58	237.0
26	TraesCS4B01G033600	chr4D	85.484	186	8	4	679	845	14850871	14851056	2.880000e-40	176.0
27	TraesCS4B01G033600	chr4D	89.888	89	5	1	403	487	14895640	14895728	8.230000e-21	111.0
28	TraesCS4B01G033600	chr4D	96.774	62	2	0	2452	2513	14919893	14919954	1.380000e-18	104.0
29	TraesCS4B01G033600	chr4D	97.872	47	1	0	677	723	14895799	14895845	6.450000e-12	82.4
30	TraesCS4B01G033600	chr4A	87.184	1818	158	35	677	2454	586683174	586681392	0.000000e+00	1997.0
31	TraesCS4B01G033600	chr4A	88.235	1581	133	30	815	2375	586700167	586698620	0.000000e+00	1840.0
32	TraesCS4B01G033600	chr4A	86.263	1536	147	31	677	2168	456437581	456436066	0.000000e+00	1609.0
33	TraesCS4B01G033600	chr4A	85.930	398	37	11	4	399	586683708	586683328	9.370000e-110	407.0
34	TraesCS4B01G033600	chr4A	88.854	314	29	5	4	314	456443768	456443458	5.680000e-102	381.0
35	TraesCS4B01G033600	chr4A	87.629	291	18	7	2164	2454	456420488	456420216	3.490000e-84	322.0
36	TraesCS4B01G033600	chr4A	80.749	187	17	7	679	847	586700368	586700183	8.170000e-26	128.0
37	TraesCS4B01G033600	chr4A	94.545	55	2	1	2380	2433	586689764	586689710	1.790000e-12	84.2
38	TraesCS4B01G033600	chr4A	90.196	51	3	2	540	589	498167046	498167095	6.490000e-07	65.8
39	TraesCS4B01G033600	chr1D	95.455	44	1	1	543	586	490119113	490119071	5.020000e-08	69.4
40	TraesCS4B01G033600	chr1D	93.182	44	2	1	543	586	274943972	274943930	2.340000e-06	63.9
41	TraesCS4B01G033600	chr7B	91.667	48	3	1	539	586	366056239	366056285	6.490000e-07	65.8
42	TraesCS4B01G033600	chr7A	91.489	47	3	1	540	586	19069869	19069914	2.340000e-06	63.9
43	TraesCS4B01G033600	chr7A	91.489	47	3	1	540	586	520786224	520786269	2.340000e-06	63.9
44	TraesCS4B01G033600	chr5B	91.489	47	3	1	540	586	237120024	237120069	2.340000e-06	63.9
45	TraesCS4B01G033600	chr2B	88.462	52	3	3	542	592	790751497	790751448	3.020000e-05	60.2

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	TraesCS4B01G033600	chr4B	24758337	24761145	2808	False	5188.000000	5188	100.00000	1	2809	1	chr4B.!!$F1	2808
1	TraesCS4B01G033600	chr4B	24741171	24748232	7061	False	1144.250000	2250	87.82250	4	2641	4	chr4B.!!$F2	2637
2	TraesCS4B01G033600	chr3B	452714492	452717930	3438	True	968.333333	2226	87.02200	1	2641	3	chr3B.!!$R1	2640
3	TraesCS4B01G033600	chr4D	14458720	14460939	2219	True	1131.500000	1622	87.33100	1	2108	2	chr4D.!!$R2	2107
4	TraesCS4B01G033600	chr4D	14862547	14867490	4943	False	1127.500000	1940	86.22900	1	2433	2	chr4D.!!$F2	2432
5	TraesCS4B01G033600	chr4D	14850871	14852691	1820	False	1014.500000	1853	86.44650	679	2451	2	chr4D.!!$F1	1772
6	TraesCS4B01G033600	chr4D	14908110	14922226	14116	False	977.800000	2220	89.57460	1	2809	5	chr4D.!!$F4	2808
7	TraesCS4B01G033600	chr4D	14429945	14437353	7408	True	420.250000	745	88.34525	134	2809	4	chr4D.!!$R1	2675
8	TraesCS4B01G033600	chr4D	14895640	14896773	1133	False	300.850000	773	89.90875	403	2441	4	chr4D.!!$F3	2038
9	TraesCS4B01G033600	chr4A	456436066	456437581	1515	True	1609.000000	1609	86.26300	677	2168	1	chr4A.!!$R2	1491
10	TraesCS4B01G033600	chr4A	586681392	586683708	2316	True	1202.000000	1997	86.55700	4	2454	2	chr4A.!!$R5	2450
11	TraesCS4B01G033600	chr4A	586698620	586700368	1748	True	984.000000	1840	84.49200	679	2375	2	chr4A.!!$R6	1696

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
380	426	0.031314	CCATCGATCGTGCTACTGCT	59.969	55.0	15.94	0.0	40.48	4.24	F
823	1383	0.037046	GGCCTTGCACCCATTTTCAG	60.037	55.0	0.00	0.0	0.00	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1597	10348	1.144936	CATGGAGGCCTCGGTCTTC	59.855	63.158	26.36	11.9	0.0	2.87	R
2635	21239	1.062488	ACCAAACACTGCTCCTCCCT	61.062	55.000	0.00	0.0	0.0	4.20	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
65	68	2.525629	TGACTCGGAACAGCCCCA	60.526	61.111	0.00	0.00	0.00	4.96
67	70	2.847234	ACTCGGAACAGCCCCACA	60.847	61.111	0.00	0.00	0.00	4.17
73	76	1.106285	GGAACAGCCCCACATTGATC	58.894	55.000	0.00	0.00	0.00	2.92
177	186	1.133668	AGGGCCCAATATCTGCACTTC	60.134	52.381	27.56	0.00	34.41	3.01
187	196	6.461092	CCAATATCTGCACTTCATTTGCTCAT	60.461	38.462	0.00	0.00	40.86	2.90
209	220	4.277239	CGATCAGTCGTGGCCAAA	57.723	55.556	7.24	0.00	42.78	3.28
247	263	2.774439	CCAACGTGCTATTATTGGCC	57.226	50.000	0.00	0.00	35.52	5.36
257	273	4.338964	TGCTATTATTGGCCACAAGTCATG	59.661	41.667	3.88	0.00	40.49	3.07
259	275	2.897271	TATTGGCCACAAGTCATGGT	57.103	45.000	3.88	0.00	40.49	3.55
288	305	8.744568	AGAAGAGAAACAAAACAAGAAGAGAT	57.255	30.769	0.00	0.00	0.00	2.75
362	408	2.751806	CAGAAGCTTCCCATTTCTGACC	59.248	50.000	22.81	0.00	46.71	4.02
370	416	2.138320	CCCATTTCTGACCATCGATCG	58.862	52.381	9.36	9.36	0.00	3.69
377	423	1.335182	CTGACCATCGATCGTGCTACT	59.665	52.381	15.94	0.00	0.00	2.57
378	424	1.065551	TGACCATCGATCGTGCTACTG	59.934	52.381	15.94	4.60	0.00	2.74
379	425	0.249073	ACCATCGATCGTGCTACTGC	60.249	55.000	15.94	0.00	40.20	4.40
380	426	0.031314	CCATCGATCGTGCTACTGCT	59.969	55.000	15.94	0.00	40.48	4.24
381	427	1.266989	CCATCGATCGTGCTACTGCTA	59.733	52.381	15.94	0.00	40.48	3.49
382	428	2.095008	CCATCGATCGTGCTACTGCTAT	60.095	50.000	15.94	0.00	40.48	2.97
518	1041	2.899838	TGGCAACACAGGTCGCAC	60.900	61.111	0.00	0.00	46.17	5.34
521	1044	1.595382	GCAACACAGGTCGCACTCT	60.595	57.895	0.00	0.00	0.00	3.24
527	1050	2.282958	AGGTCGCACTCTCCCGAA	60.283	61.111	0.00	0.00	35.00	4.30
529	1052	2.649034	GTCGCACTCTCCCGAACA	59.351	61.111	0.00	0.00	35.00	3.18
533	1056	0.670546	CGCACTCTCCCGAACACAAT	60.671	55.000	0.00	0.00	0.00	2.71
534	1057	0.798776	GCACTCTCCCGAACACAATG	59.201	55.000	0.00	0.00	0.00	2.82
536	1059	2.766313	CACTCTCCCGAACACAATGAA	58.234	47.619	0.00	0.00	0.00	2.57
538	1061	2.632996	ACTCTCCCGAACACAATGAAGA	59.367	45.455	0.00	0.00	0.00	2.87
539	1062	3.071023	ACTCTCCCGAACACAATGAAGAA	59.929	43.478	0.00	0.00	0.00	2.52
540	1063	3.399330	TCTCCCGAACACAATGAAGAAC	58.601	45.455	0.00	0.00	0.00	3.01
541	1064	2.139917	TCCCGAACACAATGAAGAACG	58.860	47.619	0.00	0.00	0.00	3.95
542	1065	2.139917	CCCGAACACAATGAAGAACGA	58.860	47.619	0.00	0.00	0.00	3.85
543	1066	2.546368	CCCGAACACAATGAAGAACGAA	59.454	45.455	0.00	0.00	0.00	3.85
544	1067	3.002862	CCCGAACACAATGAAGAACGAAA	59.997	43.478	0.00	0.00	0.00	3.46
563	1086	6.868622	ACGAAAGTAGTGATCTAAATGCTCT	58.131	36.000	0.00	0.00	46.88	4.09
583	1114	6.477688	TGCTCTTATATTTTTCTTACGACGGG	59.522	38.462	0.00	0.00	0.00	5.28
591	1122	3.515330	TTCTTACGACGGGAGAAATCC	57.485	47.619	11.28	0.00	0.00	3.01
602	1133	1.661341	GAGAAATCCTCGCATGCACT	58.339	50.000	19.57	3.22	31.32	4.40
607	1138	3.807538	CCTCGCATGCACTGTGGC	61.808	66.667	19.57	3.73	35.98	5.01
611	1142	3.673484	GCATGCACTGTGGCGGTT	61.673	61.111	14.21	0.00	36.28	4.44
654	1185	1.922447	AGACCCTGGCATTTCACCATA	59.078	47.619	0.00	0.00	36.36	2.74
655	1186	2.515429	AGACCCTGGCATTTCACCATAT	59.485	45.455	0.00	0.00	36.36	1.78
656	1187	2.887152	GACCCTGGCATTTCACCATATC	59.113	50.000	0.00	0.00	36.36	1.63
657	1188	2.244510	ACCCTGGCATTTCACCATATCA	59.755	45.455	0.00	0.00	36.36	2.15
658	1189	2.889045	CCCTGGCATTTCACCATATCAG	59.111	50.000	0.00	0.00	36.36	2.90
659	1190	2.295349	CCTGGCATTTCACCATATCAGC	59.705	50.000	0.00	0.00	36.36	4.26
660	1191	3.220110	CTGGCATTTCACCATATCAGCT	58.780	45.455	0.00	0.00	36.36	4.24
663	1194	3.755378	GGCATTTCACCATATCAGCTAGG	59.245	47.826	0.00	0.00	0.00	3.02
674	1209	2.443016	AGCTAGGACGCCCCTCAG	60.443	66.667	0.00	0.00	43.31	3.35
734	1288	1.663643	TGAACGCGCAATACTCCATTC	59.336	47.619	5.73	0.00	0.00	2.67
805	1359	2.785868	GCAGTGGCCTTGACTATGG	58.214	57.895	3.32	0.00	0.00	2.74
812	1366	0.680921	GCCTTGACTATGGCCTTGCA	60.681	55.000	3.32	0.00	40.34	4.08
823	1383	0.037046	GGCCTTGCACCCATTTTCAG	60.037	55.000	0.00	0.00	0.00	3.02
830	1390	1.069049	GCACCCATTTTCAGCACAAGT	59.931	47.619	0.00	0.00	0.00	3.16
835	1395	3.578688	CCATTTTCAGCACAAGTTAGCC	58.421	45.455	0.00	0.00	0.00	3.93
840	1400	1.550524	TCAGCACAAGTTAGCCGATCT	59.449	47.619	0.00	0.00	0.00	2.75
849	1409	0.524816	TTAGCCGATCTCGACGCAAC	60.525	55.000	0.22	0.00	43.02	4.17
855	1415	3.822996	CCGATCTCGACGCAACTAATAT	58.177	45.455	0.22	0.00	43.02	1.28
856	1416	4.670992	GCCGATCTCGACGCAACTAATATA	60.671	45.833	0.22	0.00	43.02	0.86
857	1417	4.787083	CCGATCTCGACGCAACTAATATAC	59.213	45.833	0.22	0.00	43.02	1.47
882	1442	5.401531	TGTTTAATAAGTCTCTGCCTCGT	57.598	39.130	0.00	0.00	0.00	4.18
917	9605	0.096454	CATGCATGCAGTGACGACAG	59.904	55.000	26.69	3.36	0.00	3.51
946	9657	0.605083	TAGCTAGCTCCATGCATCCG	59.395	55.000	23.26	0.00	45.94	4.18
947	9658	1.070445	GCTAGCTCCATGCATCCGT	59.930	57.895	7.70	0.00	45.94	4.69
948	9659	0.533755	GCTAGCTCCATGCATCCGTT	60.534	55.000	7.70	0.00	45.94	4.44
949	9660	1.224075	CTAGCTCCATGCATCCGTTG	58.776	55.000	0.00	0.00	45.94	4.10
981	9692	5.127356	CGATCCCCTATATAAAGGACTCCAC	59.873	48.000	0.00	0.00	39.15	4.02
987	9698	5.013079	CCTATATAAAGGACTCCACATGCCA	59.987	44.000	0.00	0.00	39.15	4.92
1042	9769	2.094182	ACAACTACCAGTGCCATAGACG	60.094	50.000	2.36	0.00	0.00	4.18
1088	9830	4.098654	TGATCAGTCCTAGCTAAGCTTGTC	59.901	45.833	9.86	0.00	40.44	3.18
1119	9862	2.723273	CATGGGGTACTCCAAAACTCC	58.277	52.381	20.86	0.00	40.62	3.85
1125	9871	2.224548	GGTACTCCAAAACTCCAGCAGT	60.225	50.000	0.00	0.00	36.64	4.40
1327	10077	1.302192	CACATCGACCCCAAACGGT	60.302	57.895	0.00	0.00	39.49	4.83
1510	10261	2.654079	CCTCGGCAGCCTTGACTCT	61.654	63.158	10.54	0.00	0.00	3.24
1597	10348	1.806542	CACTTCCAGTTCAATGTCGGG	59.193	52.381	0.00	0.00	0.00	5.14
1997	10944	5.031578	CCGTCTTTGTTTTTCATTGAACGA	58.968	37.500	0.00	0.00	0.00	3.85
2066	11016	5.344207	AGTCGAACATGTTCTAAAGTTGC	57.656	39.130	30.45	11.34	37.44	4.17
2130	11083	6.793492	AAAAAGCTCTCAGACTTATGTGAC	57.207	37.500	0.00	0.00	0.00	3.67
2176	11133	7.056006	TGTTCCATGTATTGTAGCAATCTCAT	58.944	34.615	0.00	3.07	0.00	2.90
2239	11201	2.368875	GGAACATCCCGTACATGGATCT	59.631	50.000	10.28	2.62	40.68	2.75
2240	11202	3.555168	GGAACATCCCGTACATGGATCTC	60.555	52.174	10.28	9.85	40.68	2.75
2241	11203	1.971357	ACATCCCGTACATGGATCTCC	59.029	52.381	10.28	0.00	40.68	3.71
2242	11204	1.276421	CATCCCGTACATGGATCTCCC	59.724	57.143	10.28	0.00	40.68	4.30
2243	11205	0.826256	TCCCGTACATGGATCTCCCG	60.826	60.000	0.00	0.00	37.93	5.14
2244	11206	1.666011	CCGTACATGGATCTCCCGG	59.334	63.158	0.00	0.00	37.93	5.73
2491	19119	3.081804	GACATGGAAAGGAAATCGTGGT	58.918	45.455	0.00	0.00	0.00	4.16
2504	19132	5.353123	GGAAATCGTGGTAGTTTCTATTGCA	59.647	40.000	0.00	0.00	33.51	4.08
2515	21116	5.999044	AGTTTCTATTGCAGTCATGAGGAT	58.001	37.500	0.00	0.00	0.00	3.24
2520	21121	2.924757	TGCAGTCATGAGGATGATCC	57.075	50.000	2.46	2.46	40.78	3.36
2565	21169	3.845781	TTGATGGCATTACCTCCTCTC	57.154	47.619	0.00	0.00	40.22	3.20
2619	21223	4.533311	AGATGAAATTGTGGGAAATGCCTT	59.467	37.500	0.00	0.00	36.66	4.35
2658	21262	1.071699	GAGGAGCAGTGTTTGGTGGTA	59.928	52.381	0.00	0.00	37.72	3.25
2674	21279	8.303876	GTTTGGTGGTATGTATTGAGTTCATTT	58.696	33.333	0.00	0.00	0.00	2.32
2747	21352	2.595386	GCATTTTAGGTTGCCTGTTCG	58.405	47.619	0.00	0.00	34.61	3.95
2757	21362	3.794564	GGTTGCCTGTTCGTAAAAACAAG	59.205	43.478	0.00	0.00	38.60	3.16

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
24	25	2.268796	TTCTGACCCTGATCCATCCA	57.731	50.000	0.00	0.00	0.00	3.41
55	56	0.734889	CGATCAATGTGGGGCTGTTC	59.265	55.000	0.00	0.00	0.00	3.18
65	68	0.608856	TTGGCAGTGGCGATCAATGT	60.609	50.000	12.58	0.00	42.79	2.71
67	70	1.027357	GATTGGCAGTGGCGATCAAT	58.973	50.000	32.03	18.07	45.00	2.57
73	76	0.244450	AAACATGATTGGCAGTGGCG	59.756	50.000	12.58	0.00	42.47	5.69
177	186	5.419760	ACTGATCGATCAATGAGCAAATG	57.580	39.130	27.09	14.46	36.18	2.32
203	214	2.649190	GAGAAGGGATTCTCTTTGGCC	58.351	52.381	10.09	0.00	43.06	5.36
247	263	3.653344	TCTTCTCGAACCATGACTTGTG	58.347	45.455	0.00	0.00	0.00	3.33
257	273	5.479716	TGTTTTGTTTCTCTTCTCGAACC	57.520	39.130	0.00	0.00	0.00	3.62
259	275	6.978343	TCTTGTTTTGTTTCTCTTCTCGAA	57.022	33.333	0.00	0.00	0.00	3.71
288	305	3.380637	GGCTACGGTCTCTGTCAAATAGA	59.619	47.826	0.00	0.00	0.00	1.98
297	314	1.810532	GACCTGGCTACGGTCTCTG	59.189	63.158	12.01	0.00	45.87	3.35
362	408	2.688364	TAGCAGTAGCACGATCGATG	57.312	50.000	24.34	16.75	45.49	3.84
378	424	1.278238	ACTCACGTTTAGCGCATAGC	58.722	50.000	11.47	0.00	46.11	2.97
379	425	3.239941	GTGTACTCACGTTTAGCGCATAG	59.760	47.826	11.47	0.00	46.11	2.23
380	426	3.173599	GTGTACTCACGTTTAGCGCATA	58.826	45.455	11.47	0.00	46.11	3.14
381	427	1.990563	GTGTACTCACGTTTAGCGCAT	59.009	47.619	11.47	0.00	46.11	4.73
382	428	1.269154	TGTGTACTCACGTTTAGCGCA	60.269	47.619	11.47	0.00	46.49	6.09
445	516	1.630148	ACGTGCAAGCTATTCTCGAC	58.370	50.000	0.00	0.00	0.00	4.20
511	612	2.126031	GTTCGGGAGAGTGCGACC	60.126	66.667	0.00	0.00	41.75	4.79
518	1041	3.319137	TCTTCATTGTGTTCGGGAGAG	57.681	47.619	0.00	0.00	41.75	3.20
521	1044	2.139917	CGTTCTTCATTGTGTTCGGGA	58.860	47.619	0.00	0.00	0.00	5.14
527	1050	6.046593	TCACTACTTTCGTTCTTCATTGTGT	58.953	36.000	0.00	0.00	0.00	3.72
529	1052	7.155328	AGATCACTACTTTCGTTCTTCATTGT	58.845	34.615	0.00	0.00	0.00	2.71
533	1056	9.140286	CATTTAGATCACTACTTTCGTTCTTCA	57.860	33.333	0.00	0.00	0.00	3.02
534	1057	8.111224	GCATTTAGATCACTACTTTCGTTCTTC	58.889	37.037	0.00	0.00	0.00	2.87
536	1059	7.324178	AGCATTTAGATCACTACTTTCGTTCT	58.676	34.615	0.00	0.00	0.00	3.01
538	1061	7.324178	AGAGCATTTAGATCACTACTTTCGTT	58.676	34.615	0.00	0.00	34.30	3.85
539	1062	6.868622	AGAGCATTTAGATCACTACTTTCGT	58.131	36.000	0.00	0.00	34.30	3.85
540	1063	7.763172	AAGAGCATTTAGATCACTACTTTCG	57.237	36.000	0.00	0.00	34.30	3.46
571	1094	3.094572	AGGATTTCTCCCGTCGTAAGAA	58.905	45.455	3.23	3.23	46.47	2.52
573	1096	2.541178	CGAGGATTTCTCCCGTCGTAAG	60.541	54.545	0.00	0.00	43.21	2.34
575	1098	1.019673	CGAGGATTTCTCCCGTCGTA	58.980	55.000	0.00	0.00	43.21	3.43
576	1099	1.807886	CGAGGATTTCTCCCGTCGT	59.192	57.895	0.00	0.00	43.21	4.34
577	1100	1.589196	GCGAGGATTTCTCCCGTCG	60.589	63.158	0.00	0.00	43.21	5.12
580	1103	1.502163	GCATGCGAGGATTTCTCCCG	61.502	60.000	0.00	0.00	43.21	5.14
583	1114	1.329906	CAGTGCATGCGAGGATTTCTC	59.670	52.381	14.09	0.00	39.10	2.87
595	1126	0.955428	AGTAACCGCCACAGTGCATG	60.955	55.000	0.00	0.00	0.00	4.06
599	1130	1.305201	AACAAGTAACCGCCACAGTG	58.695	50.000	0.00	0.00	0.00	3.66
602	1133	2.039818	TCAAACAAGTAACCGCCACA	57.960	45.000	0.00	0.00	0.00	4.17
607	1138	5.181245	ACATTCCTCATCAAACAAGTAACCG	59.819	40.000	0.00	0.00	0.00	4.44
608	1139	6.206634	TGACATTCCTCATCAAACAAGTAACC	59.793	38.462	0.00	0.00	0.00	2.85
609	1140	7.202016	TGACATTCCTCATCAAACAAGTAAC	57.798	36.000	0.00	0.00	0.00	2.50
610	1141	7.719193	TCTTGACATTCCTCATCAAACAAGTAA	59.281	33.333	0.00	0.00	35.34	2.24
611	1142	7.173218	GTCTTGACATTCCTCATCAAACAAGTA	59.827	37.037	0.00	0.00	35.34	2.24
654	1185	2.283809	AGGGGCGTCCTAGCTGAT	59.716	61.111	5.77	0.00	45.98	2.90
663	1194	2.158957	TCATATGAAACTGAGGGGCGTC	60.159	50.000	1.98	0.00	0.00	5.19
674	1209	7.168302	CACCTCTACTCGTCAATCATATGAAAC	59.832	40.741	9.99	7.71	0.00	2.78
734	1288	3.370104	AGACAAGGAGGAGGTGTATCTG	58.630	50.000	0.00	0.00	0.00	2.90
802	1356	0.614812	GAAAATGGGTGCAAGGCCAT	59.385	50.000	5.01	0.00	0.00	4.40
805	1359	0.671472	GCTGAAAATGGGTGCAAGGC	60.671	55.000	0.00	0.00	0.00	4.35
812	1366	3.005791	GCTAACTTGTGCTGAAAATGGGT	59.994	43.478	0.00	0.00	0.00	4.51
823	1383	0.924090	CGAGATCGGCTAACTTGTGC	59.076	55.000	0.00	0.00	35.37	4.57
830	1390	0.524816	GTTGCGTCGAGATCGGCTAA	60.525	55.000	5.21	0.00	42.59	3.09
835	1395	5.619513	AGTATATTAGTTGCGTCGAGATCG	58.380	41.667	0.00	0.00	41.45	3.69
840	1400	9.949174	TTAAACATAGTATATTAGTTGCGTCGA	57.051	29.630	0.00	0.00	0.00	4.20
855	1415	8.350722	CGAGGCAGAGACTTATTAAACATAGTA	58.649	37.037	0.00	0.00	0.00	1.82
856	1416	7.147880	ACGAGGCAGAGACTTATTAAACATAGT	60.148	37.037	0.00	0.00	0.00	2.12
857	1417	7.168302	CACGAGGCAGAGACTTATTAAACATAG	59.832	40.741	0.00	0.00	0.00	2.23
870	1430	0.664767	GACACACACGAGGCAGAGAC	60.665	60.000	0.00	0.00	0.00	3.36
917	9605	1.155042	GAGCTAGCTATGCATGTGCC	58.845	55.000	19.38	0.00	41.18	5.01
946	9657	3.799755	GGGATCGGTGCACGCAAC	61.800	66.667	11.45	0.00	43.86	4.17
949	9660	1.812686	TATAGGGGATCGGTGCACGC	61.813	60.000	11.45	2.85	43.86	5.34
950	9661	0.895530	ATATAGGGGATCGGTGCACG	59.104	55.000	11.45	6.55	46.11	5.34
951	9662	4.504858	CTTTATATAGGGGATCGGTGCAC	58.495	47.826	8.80	8.80	0.00	4.57
952	9663	3.517901	CCTTTATATAGGGGATCGGTGCA	59.482	47.826	1.41	0.00	0.00	4.57
953	9664	3.773119	TCCTTTATATAGGGGATCGGTGC	59.227	47.826	9.12	0.00	35.90	5.01
954	9665	5.024118	AGTCCTTTATATAGGGGATCGGTG	58.976	45.833	9.12	0.00	35.90	4.94
981	9692	0.250424	TGAGTGAGTGGTGTGGCATG	60.250	55.000	0.00	0.00	0.00	4.06
987	9698	0.687354	GGTGGATGAGTGAGTGGTGT	59.313	55.000	0.00	0.00	0.00	4.16
1021	9748	2.094182	CGTCTATGGCACTGGTAGTTGT	60.094	50.000	0.00	0.00	0.00	3.32
1026	9753	0.744874	GAGCGTCTATGGCACTGGTA	59.255	55.000	0.00	0.00	0.00	3.25
1042	9769	3.620821	GCTAGAGTTTGTTGATGGAGAGC	59.379	47.826	0.00	0.00	0.00	4.09
1088	9830	0.534877	TACCCCATGCTTGCTATGCG	60.535	55.000	0.00	0.00	0.00	4.73
1327	10077	3.282745	GAGCTCCGTCACAGCCGAA	62.283	63.158	0.87	0.00	37.63	4.30
1510	10261	1.902508	CTGGAGTAGAGCTTGTTCCCA	59.097	52.381	0.00	0.00	0.00	4.37
1597	10348	1.144936	CATGGAGGCCTCGGTCTTC	59.855	63.158	26.36	11.90	0.00	2.87
1727	10478	2.845795	AAGTTCCACGACCCCGGT	60.846	61.111	0.00	0.00	40.78	5.28
1811	10562	9.767228	AATTTTGCTAGCATGCATATATCAAAA	57.233	25.926	20.13	20.83	42.96	2.44
2006	10953	7.699566	TGGGACAAATATACGAAAATGCTAAC	58.300	34.615	0.00	0.00	31.92	2.34
2066	11016	2.125147	ACCATGCCATCGTGACGG	60.125	61.111	4.70	0.00	0.00	4.79
2202	11164	3.153919	TGTTCCCTGCATGGTAGAAAAC	58.846	45.455	7.98	5.40	0.00	2.43
2243	11205	4.322385	GCAACAACGGACGGTGCC	62.322	66.667	9.99	0.00	36.00	5.01
2244	11206	2.331019	AAAGCAACAACGGACGGTGC	62.331	55.000	9.99	6.74	36.00	5.01
2491	19119	6.544928	TCCTCATGACTGCAATAGAAACTA	57.455	37.500	0.00	0.00	0.00	2.24
2504	19132	2.956132	AGTCGGATCATCCTCATGACT	58.044	47.619	1.10	4.14	42.05	3.41
2515	21116	2.233922	GACCTCCTTTCAAGTCGGATCA	59.766	50.000	0.00	0.00	0.00	2.92
2520	21121	3.759618	ACTCTAGACCTCCTTTCAAGTCG	59.240	47.826	0.00	0.00	34.41	4.18
2565	21169	3.804873	GCTAGATCGGCAACTCTAAAAGG	59.195	47.826	8.46	0.00	0.00	3.11
2619	21223	3.565890	CCTCCCTTACCTACCTTGAGTCA	60.566	52.174	0.00	0.00	0.00	3.41
2629	21233	1.361543	ACACTGCTCCTCCCTTACCTA	59.638	52.381	0.00	0.00	0.00	3.08
2635	21239	1.062488	ACCAAACACTGCTCCTCCCT	61.062	55.000	0.00	0.00	0.00	4.20
2742	21347	8.913656	CCTTGTTAAAACTTGTTTTTACGAACA	58.086	29.630	15.30	15.28	39.02	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.