AutoCloner

Multiple sequence alignment - TraesCS7B01G417100

Loading Multiple Alignment...

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	TraesCS7B01G417100	chr7B	100.000	3622	0	0	1	3622	685074014	685070393	0.000000e+00	6689
1	TraesCS7B01G417100	chr7B	89.147	1078	102	7	1104	2167	695372768	695371692	0.000000e+00	1328
2	TraesCS7B01G417100	chr7B	92.085	796	41	16	2838	3622	695370285	695369501	0.000000e+00	1101
3	TraesCS7B01G417100	chr7B	84.837	1075	149	9	1104	2167	685209589	685210660	0.000000e+00	1070
4	TraesCS7B01G417100	chr7B	83.164	1081	143	28	1104	2167	697429261	697428203	0.000000e+00	952
5	TraesCS7B01G417100	chr7B	82.820	1071	152	18	1104	2167	695915387	695914342	0.000000e+00	929
6	TraesCS7B01G417100	chr7B	82.380	1084	160	25	1100	2167	684943514	684942446	0.000000e+00	915
7	TraesCS7B01G417100	chr7B	81.994	1083	166	18	1104	2167	697115601	697116673	0.000000e+00	893
8	TraesCS7B01G417100	chr7B	81.382	1085	178	17	1104	2167	697606267	697605186	0.000000e+00	863
9	TraesCS7B01G417100	chr7B	89.443	682	68	2	2162	2842	695370998	695370320	0.000000e+00	857
10	TraesCS7B01G417100	chr7B	87.097	682	79	5	2162	2841	693319754	693319080	0.000000e+00	763
11	TraesCS7B01G417100	chr7B	80.522	996	172	16	1191	2167	698881906	698880914	0.000000e+00	745
12	TraesCS7B01G417100	chr7B	82.379	681	80	12	2184	2841	695913485	695912822	1.140000e-154	556
13	TraesCS7B01G417100	chr7B	95.758	330	14	0	3075	3404	697604635	697604306	1.910000e-147	532
14	TraesCS7B01G417100	chr7B	80.677	709	91	16	2162	2841	697427500	697426809	3.230000e-140	508
15	TraesCS7B01G417100	chr7B	79.340	697	115	20	2184	2865	697521325	697522007	2.550000e-126	462
16	TraesCS7B01G417100	chr7B	91.640	311	25	1	2331	2640	697604977	697604667	2.580000e-116	429
17	TraesCS7B01G417100	chr7B	82.686	283	44	4	2162	2444	695913639	695913362	2.790000e-61	246
18	TraesCS7B01G417100	chr7B	81.522	276	44	6	2185	2458	697427609	697427339	1.690000e-53	220
19	TraesCS7B01G417100	chr7B	88.542	192	6	7	3447	3622	697604299	697604108	6.090000e-53	219
20	TraesCS7B01G417100	chr4A	98.643	1105	15	0	1	1105	16196488	16197592	0.000000e+00	1958
21	TraesCS7B01G417100	chr4A	97.195	1105	30	1	1	1104	741600454	741601558	0.000000e+00	1868
22	TraesCS7B01G417100	chr6B	98.551	1104	15	1	1	1103	146163565	146164668	0.000000e+00	1949
23	TraesCS7B01G417100	chr6B	98.096	1103	21	0	1	1103	222867655	222866553	0.000000e+00	1921
24	TraesCS7B01G417100	chr6B	97.733	1103	24	1	1	1103	222862639	222861538	0.000000e+00	1897
25	TraesCS7B01G417100	chr2B	98.368	1103	18	0	1	1103	14429915	14431017	0.000000e+00	1938
26	TraesCS7B01G417100	chr5A	98.279	1104	19	0	1	1104	554827806	554826703	0.000000e+00	1934
27	TraesCS7B01G417100	chr5B	98.277	1103	18	1	1	1103	52340988	52342089	0.000000e+00	1930
28	TraesCS7B01G417100	chr6A	98.192	1106	16	2	1	1103	230655440	230654336	0.000000e+00	1929
29	TraesCS7B01G417100	chr7A	89.322	1077	97	10	1104	2167	700062705	700063776	0.000000e+00	1336
30	TraesCS7B01G417100	chr7A	81.716	1072	178	14	1104	2167	700085616	700086677	0.000000e+00	878
31	TraesCS7B01G417100	chr7A	87.160	662	79	4	1508	2167	700109304	700108647	0.000000e+00	747
32	TraesCS7B01G417100	chr7A	88.652	423	36	8	1104	1523	700110267	700109854	4.170000e-139	505
33	TraesCS7B01G417100	chr7A	84.977	426	57	4	2162	2584	700108076	700107655	3.340000e-115	425
34	TraesCS7B01G417100	chr7A	86.434	258	33	2	2586	2841	700107593	700107336	7.660000e-72	281
35	TraesCS7B01G417100	chr7A	78.919	370	62	13	2331	2693	700086886	700087246	1.680000e-58	237
36	TraesCS7B01G417100	chr7A	80.709	254	46	2	2186	2439	700063975	700064225	1.030000e-45	195
37	TraesCS7B01G417100	chr7A	78.151	238	38	8	1690	1926	700129473	700129697	4.880000e-29	139
38	TraesCS7B01G417100	chrUn	81.810	1083	175	16	1104	2167	312469677	312468598	0.000000e+00	889
39	TraesCS7B01G417100	chrUn	82.536	481	79	5	1690	2167	289851471	289850993	5.590000e-113	418
40	TraesCS7B01G417100	chr7D	79.715	843	124	23	1104	1931	608086424	608087234	1.890000e-157	566
41	TraesCS7B01G417100	chr7D	83.431	513	51	9	2351	2841	608736902	608736402	2.570000e-121	446
42	TraesCS7B01G417100	chr7D	79.705	542	91	12	2177	2713	608097129	608097656	1.230000e-99	374

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	TraesCS7B01G417100	chr7B	685070393	685074014	3621	True	6689.000000	6689	100.000000	1	3622	1	chr7B.!!$R2	3621
1	TraesCS7B01G417100	chr7B	695369501	695372768	3267	True	1095.333333	1328	90.225000	1104	3622	3	chr7B.!!$R5	2518
2	TraesCS7B01G417100	chr7B	685209589	685210660	1071	False	1070.000000	1070	84.837000	1104	2167	1	chr7B.!!$F1	1063
3	TraesCS7B01G417100	chr7B	684942446	684943514	1068	True	915.000000	915	82.380000	1100	2167	1	chr7B.!!$R1	1067
4	TraesCS7B01G417100	chr7B	697115601	697116673	1072	False	893.000000	893	81.994000	1104	2167	1	chr7B.!!$F2	1063
5	TraesCS7B01G417100	chr7B	693319080	693319754	674	True	763.000000	763	87.097000	2162	2841	1	chr7B.!!$R3	679
6	TraesCS7B01G417100	chr7B	698880914	698881906	992	True	745.000000	745	80.522000	1191	2167	1	chr7B.!!$R4	976
7	TraesCS7B01G417100	chr7B	695912822	695915387	2565	True	577.000000	929	82.628333	1104	2841	3	chr7B.!!$R6	1737
8	TraesCS7B01G417100	chr7B	697426809	697429261	2452	True	560.000000	952	81.787667	1104	2841	3	chr7B.!!$R7	1737
9	TraesCS7B01G417100	chr7B	697604108	697606267	2159	True	510.750000	863	89.330500	1104	3622	4	chr7B.!!$R8	2518
10	TraesCS7B01G417100	chr7B	697521325	697522007	682	False	462.000000	462	79.340000	2184	2865	1	chr7B.!!$F3	681
11	TraesCS7B01G417100	chr4A	16196488	16197592	1104	False	1958.000000	1958	98.643000	1	1105	1	chr4A.!!$F1	1104
12	TraesCS7B01G417100	chr4A	741600454	741601558	1104	False	1868.000000	1868	97.195000	1	1104	1	chr4A.!!$F2	1103
13	TraesCS7B01G417100	chr6B	146163565	146164668	1103	False	1949.000000	1949	98.551000	1	1103	1	chr6B.!!$F1	1102
14	TraesCS7B01G417100	chr6B	222861538	222867655	6117	True	1909.000000	1921	97.914500	1	1103	2	chr6B.!!$R1	1102
15	TraesCS7B01G417100	chr2B	14429915	14431017	1102	False	1938.000000	1938	98.368000	1	1103	1	chr2B.!!$F1	1102
16	TraesCS7B01G417100	chr5A	554826703	554827806	1103	True	1934.000000	1934	98.279000	1	1104	1	chr5A.!!$R1	1103
17	TraesCS7B01G417100	chr5B	52340988	52342089	1101	False	1930.000000	1930	98.277000	1	1103	1	chr5B.!!$F1	1102
18	TraesCS7B01G417100	chr6A	230654336	230655440	1104	True	1929.000000	1929	98.192000	1	1103	1	chr6A.!!$R1	1102
19	TraesCS7B01G417100	chr7A	700062705	700064225	1520	False	765.500000	1336	85.015500	1104	2439	2	chr7A.!!$F2	1335
20	TraesCS7B01G417100	chr7A	700085616	700087246	1630	False	557.500000	878	80.317500	1104	2693	2	chr7A.!!$F3	1589
21	TraesCS7B01G417100	chr7A	700107336	700110267	2931	True	489.500000	747	86.805750	1104	2841	4	chr7A.!!$R1	1737
22	TraesCS7B01G417100	chrUn	312468598	312469677	1079	True	889.000000	889	81.810000	1104	2167	1	chrUn.!!$R2	1063
23	TraesCS7B01G417100	chr7D	608086424	608087234	810	False	566.000000	566	79.715000	1104	1931	1	chr7D.!!$F1	827
24	TraesCS7B01G417100	chr7D	608736402	608736902	500	True	446.000000	446	83.431000	2351	2841	1	chr7D.!!$R1	490
25	TraesCS7B01G417100	chr7D	608097129	608097656	527	False	374.000000	374	79.705000	2177	2713	1	chr7D.!!$F2	536

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
267	271	1.507140	CCAAGGGCTGGTACTCCATA	58.493	55.0	0.00	0.0	43.43	2.74	F
2203	8163	0.178998	CTGCAGCTGGGATGGCTTAT	60.179	55.0	17.12	0.0	38.03	1.73	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2211	8171	0.517316	GCGTTGTGAGGTGTTCCATC	59.483	55.000	0.0	0.0	35.89	3.51	R
3375	10952	2.699846	TCTGGCAAGGCAATGTTTTTCT	59.300	40.909	0.0	0.0	0.00	2.52	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
21	22	3.339464	CCGCCGCGTGTGTTGTTA	61.339	61.111	12.58	0.00	0.00	2.41
137	141	1.660355	TCGCTGACGACTTGAAGCT	59.340	52.632	0.00	0.00	45.12	3.74
140	144	1.777819	CTGACGACTTGAAGCTGCG	59.222	57.895	0.00	0.00	0.00	5.18
267	271	1.507140	CCAAGGGCTGGTACTCCATA	58.493	55.000	0.00	0.00	43.43	2.74
425	429	2.749865	CGGCGCGGATGTTGTTGAT	61.750	57.895	9.72	0.00	0.00	2.57
1238	6258	5.924254	CGTGATGAGTTAGTAAAGTTGTGGA	59.076	40.000	0.00	0.00	0.00	4.02
1359	6388	7.667219	GCAATTAGGAGGGAAAGAATATGATCA	59.333	37.037	0.00	0.00	0.00	2.92
1379	6408	6.932356	ATCATTTACATGAGCGTGAGATTT	57.068	33.333	0.00	0.00	42.93	2.17
1688	7304	1.260561	GTGCCATGCCTTATAACGACG	59.739	52.381	0.00	0.00	0.00	5.12
1705	7321	2.632377	GACGCATTCTCATTCCCAGAA	58.368	47.619	0.00	0.00	34.37	3.02
1747	7363	4.829064	TCTGCGTTATTTTGCTTTCTGT	57.171	36.364	0.00	0.00	0.00	3.41
1753	7369	4.440758	CGTTATTTTGCTTTCTGTGTGTGG	59.559	41.667	0.00	0.00	0.00	4.17
1833	7450	7.362315	GGTGGTAGATTTTGGTTATTGTGGTAC	60.362	40.741	0.00	0.00	0.00	3.34
1840	7457	5.713792	TTGGTTATTGTGGTACATTGGTG	57.286	39.130	0.00	0.00	44.52	4.17
1841	7458	4.730966	TGGTTATTGTGGTACATTGGTGT	58.269	39.130	0.00	0.00	44.52	4.16
1847	7464	5.554437	TTGTGGTACATTGGTGTCTTCTA	57.446	39.130	0.00	0.00	44.52	2.10
1892	7513	4.640201	AGTCAACTTGCGCCATGTAATAAT	59.360	37.500	4.18	0.00	0.00	1.28
1932	7555	2.104451	TGCAAACATTGGCAGGTTGATT	59.896	40.909	8.55	0.00	34.58	2.57
1935	7558	4.036616	GCAAACATTGGCAGGTTGATTTTT	59.963	37.500	8.55	0.00	0.00	1.94
1944	7567	4.202253	GGCAGGTTGATTTTTCTCCAAACT	60.202	41.667	0.00	0.00	38.26	2.66
1974	7597	4.023980	TCTTCAGAATAAAGAGGGAGCGA	58.976	43.478	0.00	0.00	0.00	4.93
1992	7622	1.345741	CGAGGGTATGAGCCACATCAT	59.654	52.381	0.00	0.00	42.52	2.45
2020	7650	1.880027	ACCTAAACAAGCTTCAAGGCG	59.120	47.619	0.00	0.00	37.29	5.52
2083	7713	4.287067	AGGAGGCTGTTGAAGTCAATCTTA	59.713	41.667	0.00	0.00	38.24	2.10
2084	7714	5.045286	AGGAGGCTGTTGAAGTCAATCTTAT	60.045	40.000	0.00	0.00	38.24	1.73
2105	7735	3.799281	TGGCAAGGAAAAACTCACAAG	57.201	42.857	0.00	0.00	0.00	3.16
2169	7817	4.258702	TCAAGCAGAGGTACTTGAGAAC	57.741	45.455	1.49	0.00	45.48	3.01
2174	7822	5.785243	AGCAGAGGTACTTGAGAACTTTAC	58.215	41.667	0.00	0.00	41.55	2.01
2181	8007	7.387643	AGGTACTTGAGAACTTTACCATCTTC	58.612	38.462	0.00	0.00	35.57	2.87
2198	8158	0.609957	TTCAACTGCAGCTGGGATGG	60.610	55.000	17.12	0.00	0.00	3.51
2203	8163	0.178998	CTGCAGCTGGGATGGCTTAT	60.179	55.000	17.12	0.00	38.03	1.73
2273	9025	1.279840	GCGAGAATATGCGGTTGCC	59.720	57.895	0.00	0.00	41.78	4.52
2295	9047	1.815003	CCAACATTGCCCAAGTCTCTC	59.185	52.381	0.00	0.00	0.00	3.20
2296	9048	2.507484	CAACATTGCCCAAGTCTCTCA	58.493	47.619	0.00	0.00	0.00	3.27
2299	9051	2.089980	CATTGCCCAAGTCTCTCAAGG	58.910	52.381	0.00	0.00	0.00	3.61
2300	9052	1.140312	TTGCCCAAGTCTCTCAAGGT	58.860	50.000	0.00	0.00	0.00	3.50
2306	9058	4.319177	CCCAAGTCTCTCAAGGTGTTTAG	58.681	47.826	0.00	0.00	0.00	1.85
2316	9071	2.128771	AGGTGTTTAGCATTGCGGAT	57.871	45.000	2.38	0.00	0.00	4.18
2337	9092	1.271379	TGCAGCTTGAAGAATGCCTTG	59.729	47.619	16.71	0.00	37.89	3.61
2379	9134	5.034852	TCACATCACTCAAGAAACTGGAA	57.965	39.130	0.00	0.00	0.00	3.53
2385	9140	8.352942	ACATCACTCAAGAAACTGGAAATAAAC	58.647	33.333	0.00	0.00	0.00	2.01
2610	10091	6.374565	TGATGCCTTTGTTTTCCATTTTTG	57.625	33.333	0.00	0.00	0.00	2.44
2656	10160	1.941377	TAGCCGTTAAGGTTCCTGGA	58.059	50.000	0.00	0.00	43.70	3.86
2676	10180	5.540911	TGGAATTTTTCTGATTCAGTTGCC	58.459	37.500	13.23	7.32	35.66	4.52
2717	10221	2.214920	GGTTGAGGACGGGAGGTGT	61.215	63.158	0.00	0.00	0.00	4.16
2726	10235	0.037303	ACGGGAGGTGTAGTCGAAGA	59.963	55.000	0.00	0.00	0.00	2.87
2727	10236	1.340795	ACGGGAGGTGTAGTCGAAGAT	60.341	52.381	0.00	0.00	40.67	2.40
2740	10261	1.751351	TCGAAGATGAAGCCGTCAGAT	59.249	47.619	0.00	0.00	40.43	2.90
2795	10318	1.006832	CTCTTCGTTGGGTTATGCCG	58.993	55.000	0.00	0.00	38.44	5.69
2809	10337	2.279935	ATGCCGACTTGGGTTTGTTA	57.720	45.000	0.00	0.00	38.63	2.41
2845	10420	1.084370	GCGTGAGGTGGTGCTATGTC	61.084	60.000	0.00	0.00	0.00	3.06
2977	10554	9.799106	ATTAATTTGCTTCCTATATACAGTGCT	57.201	29.630	0.00	0.00	0.00	4.40
3047	10624	3.394674	TTCCTGTCGTTTGTAGCATCA	57.605	42.857	0.00	0.00	0.00	3.07
3049	10626	4.729227	TCCTGTCGTTTGTAGCATCATA	57.271	40.909	0.00	0.00	0.00	2.15
3050	10627	4.682787	TCCTGTCGTTTGTAGCATCATAG	58.317	43.478	0.00	0.00	0.00	2.23
3051	10628	3.246226	CCTGTCGTTTGTAGCATCATAGC	59.754	47.826	0.00	0.00	0.00	2.97
3052	10629	3.855858	TGTCGTTTGTAGCATCATAGCA	58.144	40.909	0.00	0.00	36.85	3.49
3054	10631	2.857748	TCGTTTGTAGCATCATAGCACG	59.142	45.455	0.00	0.00	36.85	5.34
3055	10632	2.033747	CGTTTGTAGCATCATAGCACGG	60.034	50.000	0.00	0.00	36.85	4.94
3057	10634	2.509052	TGTAGCATCATAGCACGGAC	57.491	50.000	0.00	0.00	36.85	4.79
3058	10635	1.068588	TGTAGCATCATAGCACGGACC	59.931	52.381	0.00	0.00	36.85	4.46
3059	10636	1.341531	GTAGCATCATAGCACGGACCT	59.658	52.381	0.00	0.00	36.85	3.85
3061	10638	2.251818	AGCATCATAGCACGGACCTAT	58.748	47.619	0.00	0.00	36.85	2.57
3062	10639	3.431415	AGCATCATAGCACGGACCTATA	58.569	45.455	0.00	0.00	36.85	1.31
3063	10640	4.026744	AGCATCATAGCACGGACCTATAT	58.973	43.478	0.00	0.00	36.85	0.86
3064	10641	5.201243	AGCATCATAGCACGGACCTATATA	58.799	41.667	0.00	0.00	36.85	0.86
3066	10643	5.163550	GCATCATAGCACGGACCTATATACA	60.164	44.000	0.00	0.00	0.00	2.29
3068	10645	5.567430	TCATAGCACGGACCTATATACAGT	58.433	41.667	0.00	0.00	0.00	3.55
3069	10646	6.714278	TCATAGCACGGACCTATATACAGTA	58.286	40.000	0.00	0.00	0.00	2.74
3070	10647	6.596888	TCATAGCACGGACCTATATACAGTAC	59.403	42.308	0.00	0.00	0.00	2.73
3071	10648	4.983053	AGCACGGACCTATATACAGTACT	58.017	43.478	0.00	0.00	0.00	2.73
3072	10649	6.119240	AGCACGGACCTATATACAGTACTA	57.881	41.667	0.00	0.00	0.00	1.82
3073	10650	6.719301	AGCACGGACCTATATACAGTACTAT	58.281	40.000	0.00	0.00	0.00	2.12
3191	10768	5.633830	TGAGTCTTCCATTCATTTTCAGC	57.366	39.130	0.00	0.00	0.00	4.26
3237	10814	0.613012	GGCATTCAGGGGAAGTGCTT	60.613	55.000	0.00	0.00	37.53	3.91
3283	10860	0.392461	TGAATACGCTCTGGTTGGCC	60.392	55.000	0.00	0.00	0.00	5.36
3285	10862	0.676782	AATACGCTCTGGTTGGCCAC	60.677	55.000	3.88	0.00	40.46	5.01
3375	10952	9.347240	TGCCATTTCATCAAAAAGGAATAAAAA	57.653	25.926	0.00	0.00	37.83	1.94
3423	11006	2.310233	CGTGAAGTGGACAGTGCCG	61.310	63.158	0.00	0.00	0.00	5.69
3426	11009	1.070786	GAAGTGGACAGTGCCGGAA	59.929	57.895	5.05	0.00	0.00	4.30
3476	11059	7.713073	TGGCTAAAAATGTGTTTAAAAGAAGGG	59.287	33.333	0.00	0.00	0.00	3.95
3527	11114	8.251026	ACATTGATAGACTGAGTCGAAATGTAA	58.749	33.333	23.57	10.63	35.95	2.41
3565	11162	3.506455	TCGTTTTTCCCACAGTTTGAACA	59.494	39.130	0.00	0.00	0.00	3.18

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
267	271	3.425525	CGTATATTCTCAACGCGCTTGAT	59.574	43.478	19.40	10.96	38.26	2.57
425	429	3.740397	CCACGTCGCTGTCCCGTA	61.740	66.667	0.00	0.00	32.81	4.02
576	580	1.000896	CATCCCCAACCCACTCCAC	60.001	63.158	0.00	0.00	0.00	4.02
1238	6258	6.079712	AGTCTTTATAAACCCTTCTGCCAT	57.920	37.500	0.00	0.00	0.00	4.40
1359	6388	9.547753	AGTAATAAATCTCACGCTCATGTAAAT	57.452	29.630	0.00	0.00	0.00	1.40
1361	6390	8.942338	AAGTAATAAATCTCACGCTCATGTAA	57.058	30.769	0.00	0.00	0.00	2.41
1379	6408	9.851686	AAGCAGATCATGGATTGTAAAGTAATA	57.148	29.630	0.00	0.00	0.00	0.98
1618	7219	3.485877	GCCTCGTGAACATAGCAAACATC	60.486	47.826	0.00	0.00	0.00	3.06
1688	7304	6.072064	CCAATAGATTCTGGGAATGAGAATGC	60.072	42.308	0.00	0.00	39.72	3.56
1705	7321	6.238953	GCAGATGCTTCAAATCACCAATAGAT	60.239	38.462	2.07	0.00	38.21	1.98
1747	7363	1.133513	AGCTTCACAATTCCCCACACA	60.134	47.619	0.00	0.00	0.00	3.72
1753	7369	5.391629	CGGTAAAGTTAGCTTCACAATTCCC	60.392	44.000	0.00	0.00	33.01	3.97
1833	7450	5.491070	TCTTCACCATAGAAGACACCAATG	58.509	41.667	2.50	0.00	46.62	2.82
1847	7464	7.290948	TGACTAGGTTCATCATATCTTCACCAT	59.709	37.037	0.00	0.00	0.00	3.55
1932	7555	7.287061	TGAAGAATGGTAGAGTTTGGAGAAAA	58.713	34.615	0.00	0.00	0.00	2.29
1935	7558	5.780282	TCTGAAGAATGGTAGAGTTTGGAGA	59.220	40.000	0.00	0.00	0.00	3.71
1944	7567	7.623677	TCCCTCTTTATTCTGAAGAATGGTAGA	59.376	37.037	14.48	12.10	43.90	2.59
1974	7597	2.371179	CAGATGATGTGGCTCATACCCT	59.629	50.000	1.43	0.00	36.01	4.34
1992	7622	5.189928	TGAAGCTTGTTTAGGTGTTTCAGA	58.810	37.500	2.10	0.00	34.09	3.27
2083	7713	4.405358	TCTTGTGAGTTTTTCCTTGCCAAT	59.595	37.500	0.00	0.00	0.00	3.16
2084	7714	3.766591	TCTTGTGAGTTTTTCCTTGCCAA	59.233	39.130	0.00	0.00	0.00	4.52
2105	7735	3.366396	TCTTCCCAGGACAGTATCAGTC	58.634	50.000	0.00	0.00	35.29	3.51
2167	7815	4.022849	GCTGCAGTTGAAGATGGTAAAGTT	60.023	41.667	16.64	0.00	0.00	2.66
2168	7816	3.503748	GCTGCAGTTGAAGATGGTAAAGT	59.496	43.478	16.64	0.00	0.00	2.66
2169	7817	3.755378	AGCTGCAGTTGAAGATGGTAAAG	59.245	43.478	16.64	0.00	0.00	1.85
2181	8007	2.707849	GCCATCCCAGCTGCAGTTG	61.708	63.158	22.44	22.44	0.00	3.16
2198	8158	3.065925	GTGTTCCATCTTGCCTGATAAGC	59.934	47.826	0.00	0.00	0.00	3.09
2203	8163	1.003580	GAGGTGTTCCATCTTGCCTGA	59.996	52.381	0.00	0.00	35.89	3.86
2211	8171	0.517316	GCGTTGTGAGGTGTTCCATC	59.483	55.000	0.00	0.00	35.89	3.51
2257	9009	1.230324	GGAGGCAACCGCATATTCTC	58.770	55.000	0.00	0.00	41.24	2.87
2273	9025	1.815003	GAGACTTGGGCAATGTTGGAG	59.185	52.381	0.00	0.00	0.00	3.86
2281	9033	1.140312	ACCTTGAGAGACTTGGGCAA	58.860	50.000	0.00	0.00	0.00	4.52
2295	9047	1.539388	TCCGCAATGCTAAACACCTTG	59.461	47.619	2.94	0.00	0.00	3.61
2296	9048	1.904287	TCCGCAATGCTAAACACCTT	58.096	45.000	2.94	0.00	0.00	3.50
2299	9051	1.919918	GCAATCCGCAATGCTAAACAC	59.080	47.619	2.94	0.00	41.79	3.32
2300	9052	2.276472	GCAATCCGCAATGCTAAACA	57.724	45.000	2.94	0.00	41.79	2.83
2316	9071	1.624336	AGGCATTCTTCAAGCTGCAA	58.376	45.000	12.26	0.00	36.34	4.08
2337	9092	0.386838	GGTGCTCAATATTGCCTGGC	59.613	55.000	12.87	12.87	0.00	4.85
2379	9134	8.757982	ACCTCATATTCTTGCATGAGTTTATT	57.242	30.769	10.89	0.00	44.38	1.40
2385	9140	3.186001	GCGACCTCATATTCTTGCATGAG	59.814	47.826	0.00	5.87	45.11	2.90
2610	10091	5.463061	AGTTGCAGCAACATTTATTGAACAC	59.537	36.000	34.38	8.37	45.66	3.32
2656	10160	6.585416	AGTTGGCAACTGAATCAGAAAAATT	58.415	32.000	30.71	1.89	41.01	1.82
2676	10180	1.355210	GGCACACGGTTGACAGTTG	59.645	57.895	0.00	0.00	0.00	3.16
2717	10221	2.089201	TGACGGCTTCATCTTCGACTA	58.911	47.619	0.00	0.00	0.00	2.59
2726	10235	2.012673	GCAAGAATCTGACGGCTTCAT	58.987	47.619	0.00	0.00	32.17	2.57
2727	10236	1.002430	AGCAAGAATCTGACGGCTTCA	59.998	47.619	0.00	0.00	0.00	3.02
2740	10261	5.423610	AGAGAGCCTGTAGATTTAGCAAGAA	59.576	40.000	0.00	0.00	0.00	2.52
2795	10318	4.097286	TGCAAGACTTAACAAACCCAAGTC	59.903	41.667	5.73	5.73	45.49	3.01
2809	10337	1.871039	ACGCGTAAACATGCAAGACTT	59.129	42.857	11.67	0.00	0.00	3.01
3047	10624	6.719301	AGTACTGTATATAGGTCCGTGCTAT	58.281	40.000	0.00	0.00	0.00	2.97
3049	10626	4.983053	AGTACTGTATATAGGTCCGTGCT	58.017	43.478	0.00	0.00	0.00	4.40
3050	10627	6.998968	ATAGTACTGTATATAGGTCCGTGC	57.001	41.667	5.39	0.00	0.00	5.34
3069	10646	8.105829	CCCTGATTCCTAGCAATCAAATATAGT	58.894	37.037	10.28	0.00	41.28	2.12
3070	10647	7.555554	CCCCTGATTCCTAGCAATCAAATATAG	59.444	40.741	10.28	0.00	41.28	1.31
3071	10648	7.405292	CCCCTGATTCCTAGCAATCAAATATA	58.595	38.462	10.28	0.00	41.28	0.86
3072	10649	6.251471	CCCCTGATTCCTAGCAATCAAATAT	58.749	40.000	10.28	0.00	41.28	1.28
3073	10650	5.634118	CCCCTGATTCCTAGCAATCAAATA	58.366	41.667	10.28	0.00	41.28	1.40
3191	10768	4.201851	CCAGGAGAAATACAAATGCGACTG	60.202	45.833	0.00	0.00	0.00	3.51
3258	10835	3.678056	ACCAGAGCGTATTCAGAACAA	57.322	42.857	0.00	0.00	0.00	2.83
3375	10952	2.699846	TCTGGCAAGGCAATGTTTTTCT	59.300	40.909	0.00	0.00	0.00	2.52
3476	11059	6.435430	TTCATGTACATTTGCAGGTCATAC	57.565	37.500	5.37	0.00	0.00	2.39
3565	11162	6.350445	GGAGCCACAGACAATGAAATTAACAT	60.350	38.462	0.00	0.00	32.46	2.71

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.