AutoCloner

Multiple sequence alignment - TraesCS7B01G124000

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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	TraesCS7B01G124000	chr7B	100.000	4568	0	0	1	4568	145056345	145051778	0.000000e+00	8436
1	TraesCS7B01G124000	chr7B	94.298	1789	90	4	2789	4568	144811936	144810151	0.000000e+00	2728
2	TraesCS7B01G124000	chr7B	86.731	2163	197	46	479	2580	144814092	144811959	0.000000e+00	2322
3	TraesCS7B01G124000	chr7B	91.708	1423	112	4	2690	4106	144735059	144733637	0.000000e+00	1969
4	TraesCS7B01G124000	chr7B	89.575	1554	146	8	1122	2670	144736684	144735142	0.000000e+00	1958
5	TraesCS7B01G124000	chr7B	88.052	1155	79	16	4	1128	144737749	144736624	0.000000e+00	1314
6	TraesCS7B01G124000	chr7B	95.297	489	20	1	4083	4568	144733612	144733124	0.000000e+00	773
7	TraesCS7B01G124000	chr7B	76.239	1473	288	51	3038	4476	145028608	145027164	0.000000e+00	725
8	TraesCS7B01G124000	chr7B	86.256	211	26	2	4	212	144814711	144814502	4.600000e-55	226
9	TraesCS7B01G124000	chr7B	80.738	244	29	10	237	464	144814433	144814192	1.690000e-39	174
10	TraesCS7B01G124000	chr7A	96.022	2187	78	3	2388	4568	183654751	183652568	0.000000e+00	3548
11	TraesCS7B01G124000	chr7A	94.298	1789	90	4	2789	4568	183481789	183480004	0.000000e+00	2728
12	TraesCS7B01G124000	chr7A	87.910	1919	177	29	703	2580	183483716	183481812	0.000000e+00	2207
13	TraesCS7B01G124000	chr7A	97.101	1242	36	0	1126	2367	183655986	183654745	0.000000e+00	2095
14	TraesCS7B01G124000	chr7A	92.723	1443	96	3	2670	4106	183307371	183305932	0.000000e+00	2074
15	TraesCS7B01G124000	chr7A	88.876	1699	144	26	723	2415	182857297	182855638	0.000000e+00	2049
16	TraesCS7B01G124000	chr7A	88.746	1555	156	10	1122	2671	183308979	183307439	0.000000e+00	1884
17	TraesCS7B01G124000	chr7A	89.619	1156	75	18	5	1128	183310061	183308919	0.000000e+00	1428
18	TraesCS7B01G124000	chr7A	97.655	597	10	3	418	1011	183656591	183655996	0.000000e+00	1022
19	TraesCS7B01G124000	chr7A	94.888	489	22	1	4083	4568	183305907	183305419	0.000000e+00	761
20	TraesCS7B01G124000	chr7A	96.970	429	12	1	1	429	183657120	183656693	0.000000e+00	719
21	TraesCS7B01G124000	chr7A	95.367	259	12	0	3033	3291	182855638	182855380	3.290000e-111	412
22	TraesCS7B01G124000	chr7A	95.238	210	10	0	210	419	182858003	182857794	2.630000e-87	333
23	TraesCS7B01G124000	chr7A	91.781	219	17	1	4	222	182858536	182858319	2.070000e-78	303
24	TraesCS7B01G124000	chr7A	88.152	211	20	3	4	212	183484598	183484391	3.530000e-61	246
25	TraesCS7B01G124000	chr7A	81.148	244	28	10	237	464	183484322	183484081	3.630000e-41	180
26	TraesCS7B01G124000	chr7A	84.483	174	14	6	479	639	183483980	183483807	4.730000e-35	159
27	TraesCS7B01G124000	chr7D	95.950	1827	73	1	1126	2951	179123587	179121761	0.000000e+00	2963
28	TraesCS7B01G124000	chr7D	94.522	1789	86	4	2789	4568	178939232	178937447	0.000000e+00	2750
29	TraesCS7B01G124000	chr7D	86.504	2171	198	41	479	2580	178941399	178939255	0.000000e+00	2298
30	TraesCS7B01G124000	chr7D	89.132	1555	152	9	1122	2671	178861907	178860365	0.000000e+00	1919
31	TraesCS7B01G124000	chr7D	92.812	1266	71	5	2846	4106	178860205	178858955	0.000000e+00	1816
32	TraesCS7B01G124000	chr7D	89.187	1156	80	12	5	1128	178862989	178861847	0.000000e+00	1400
33	TraesCS7B01G124000	chr7D	96.519	632	17	4	356	984	179124241	179123612	0.000000e+00	1040
34	TraesCS7B01G124000	chr7D	95.910	489	17	1	4083	4568	178858930	178858442	0.000000e+00	789
35	TraesCS7B01G124000	chr7D	95.211	355	16	1	1	354	179124656	179124302	1.110000e-155	560
36	TraesCS7B01G124000	chr7D	77.282	964	195	21	3038	3989	178990012	178989061	3.110000e-151	545
37	TraesCS7B01G124000	chr7D	87.678	211	21	3	4	212	178942016	178941809	1.640000e-59	241
38	TraesCS7B01G124000	chr7D	96.907	97	3	0	2670	2766	178860297	178860201	3.660000e-36	163

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	TraesCS7B01G124000	chr7B	145051778	145056345	4567	True	8436.00	8436	100.000000	1	4568	1	chr7B.!!$R2	4567
1	TraesCS7B01G124000	chr7B	144733124	144737749	4625	True	1503.50	1969	91.158000	4	4568	4	chr7B.!!$R3	4564
2	TraesCS7B01G124000	chr7B	144810151	144814711	4560	True	1362.50	2728	87.005750	4	4568	4	chr7B.!!$R4	4564
3	TraesCS7B01G124000	chr7B	145027164	145028608	1444	True	725.00	725	76.239000	3038	4476	1	chr7B.!!$R1	1438
4	TraesCS7B01G124000	chr7A	183652568	183657120	4552	True	1846.00	3548	96.937000	1	4568	4	chr7A.!!$R4	4567
5	TraesCS7B01G124000	chr7A	183305419	183310061	4642	True	1536.75	2074	91.494000	5	4568	4	chr7A.!!$R2	4563
6	TraesCS7B01G124000	chr7A	183480004	183484598	4594	True	1104.00	2728	87.198200	4	4568	5	chr7A.!!$R3	4564
7	TraesCS7B01G124000	chr7A	182855380	182858536	3156	True	774.25	2049	92.815500	4	3291	4	chr7A.!!$R1	3287
8	TraesCS7B01G124000	chr7D	178937447	178942016	4569	True	1763.00	2750	89.568000	4	4568	3	chr7D.!!$R3	4564
9	TraesCS7B01G124000	chr7D	179121761	179124656	2895	True	1521.00	2963	95.893333	1	2951	3	chr7D.!!$R4	2950
10	TraesCS7B01G124000	chr7D	178858442	178862989	4547	True	1217.40	1919	92.789600	5	4568	5	chr7D.!!$R2	4563
11	TraesCS7B01G124000	chr7D	178989061	178990012	951	True	545.00	545	77.282000	3038	3989	1	chr7D.!!$R1	951

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
826	2012	1.562008	TGGGACACAGACTTCACCAAA	59.438	47.619	0.00	0.00	3.28	F
1089	2347	0.249955	TCAATGTCGCATCCAGCAGA	59.750	50.000	0.00	46.13	4.26	F
1730	2988	0.321996	GAGAAAGCCGTTCAGGAGGT	59.678	55.000	0.99	45.00	3.85	F
2785	4115	0.532573	TCCCGACATGACTGCTCTTC	59.467	55.000	0.00	0.00	2.87	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2805	4135	0.900421	CTCCATCACTCTGCCTGACA	59.100	55.000	0.00	0.00	0.00	3.58	R
2935	4271	0.035152	GGATGGTCATGACTGCCACA	60.035	55.000	24.50	14.15	33.37	4.17	R
3036	4372	0.035458	AAGTGCGGGTCTTCTTCAGG	59.965	55.000	0.00	0.00	0.00	3.86	R
4074	5419	1.065854	GCTACTGGCCTCATGTGAGTT	60.066	52.381	3.32	0.00	40.48	3.01	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
149	152	3.951563	TTTATGGCTAATGAGGGCAGT	57.048	42.857	0.00	0.00	42.26	4.40
425	1329	8.801299	TCAATCATGTATATGGTGTTGTTGTTT	58.199	29.630	0.00	0.00	34.97	2.83
624	1745	4.040706	TCGTCTTTAACACCAACCCAGTAT	59.959	41.667	0.00	0.00	0.00	2.12
826	2012	1.562008	TGGGACACAGACTTCACCAAA	59.438	47.619	0.00	0.00	0.00	3.28
1080	2338	2.291365	CAAGATCCCATCAATGTCGCA	58.709	47.619	0.00	0.00	0.00	5.10
1081	2339	2.882761	CAAGATCCCATCAATGTCGCAT	59.117	45.455	0.00	0.00	0.00	4.73
1082	2340	2.775890	AGATCCCATCAATGTCGCATC	58.224	47.619	0.00	0.00	0.00	3.91
1083	2341	1.808945	GATCCCATCAATGTCGCATCC	59.191	52.381	0.00	0.00	0.00	3.51
1084	2342	0.545646	TCCCATCAATGTCGCATCCA	59.454	50.000	0.00	0.00	0.00	3.41
1085	2343	0.949397	CCCATCAATGTCGCATCCAG	59.051	55.000	0.00	0.00	0.00	3.86
1086	2344	0.309922	CCATCAATGTCGCATCCAGC	59.690	55.000	0.00	0.00	40.87	4.85
1087	2345	1.018910	CATCAATGTCGCATCCAGCA	58.981	50.000	0.00	0.00	46.13	4.41
1088	2346	1.002792	CATCAATGTCGCATCCAGCAG	60.003	52.381	0.00	0.00	46.13	4.24
1089	2347	0.249955	TCAATGTCGCATCCAGCAGA	59.750	50.000	0.00	0.00	46.13	4.26
1090	2348	1.089112	CAATGTCGCATCCAGCAGAA	58.911	50.000	0.00	0.00	46.13	3.02
1091	2349	1.469703	CAATGTCGCATCCAGCAGAAA	59.530	47.619	0.00	0.00	46.13	2.52
1092	2350	2.048444	ATGTCGCATCCAGCAGAAAT	57.952	45.000	0.00	0.00	46.13	2.17
1093	2351	1.825090	TGTCGCATCCAGCAGAAATT	58.175	45.000	0.00	0.00	46.13	1.82
1094	2352	2.161855	TGTCGCATCCAGCAGAAATTT	58.838	42.857	0.00	0.00	46.13	1.82
1095	2353	2.095110	TGTCGCATCCAGCAGAAATTTG	60.095	45.455	0.00	0.00	46.13	2.32
1096	2354	2.095059	GTCGCATCCAGCAGAAATTTGT	60.095	45.455	0.00	0.00	46.13	2.83
1097	2355	2.557924	TCGCATCCAGCAGAAATTTGTT	59.442	40.909	0.00	0.00	46.13	2.83
1098	2356	3.755905	TCGCATCCAGCAGAAATTTGTTA	59.244	39.130	0.00	0.00	46.13	2.41
1099	2357	3.853671	CGCATCCAGCAGAAATTTGTTAC	59.146	43.478	0.00	0.00	46.13	2.50
1100	2358	4.176271	GCATCCAGCAGAAATTTGTTACC	58.824	43.478	0.00	0.00	44.79	2.85
1101	2359	4.747810	CATCCAGCAGAAATTTGTTACCC	58.252	43.478	0.00	0.00	0.00	3.69
1102	2360	4.112634	TCCAGCAGAAATTTGTTACCCT	57.887	40.909	0.00	0.00	0.00	4.34
1103	2361	4.079253	TCCAGCAGAAATTTGTTACCCTC	58.921	43.478	0.00	0.00	0.00	4.30
1104	2362	4.082125	CCAGCAGAAATTTGTTACCCTCT	58.918	43.478	0.00	0.00	0.00	3.69
1105	2363	5.013704	TCCAGCAGAAATTTGTTACCCTCTA	59.986	40.000	0.00	0.00	0.00	2.43
1106	2364	5.355350	CCAGCAGAAATTTGTTACCCTCTAG	59.645	44.000	0.00	0.00	0.00	2.43
1107	2365	4.944317	AGCAGAAATTTGTTACCCTCTAGC	59.056	41.667	0.00	0.00	0.00	3.42
1108	2366	4.096532	GCAGAAATTTGTTACCCTCTAGCC	59.903	45.833	0.00	0.00	0.00	3.93
1109	2367	5.253330	CAGAAATTTGTTACCCTCTAGCCA	58.747	41.667	0.00	0.00	0.00	4.75
1110	2368	5.888161	CAGAAATTTGTTACCCTCTAGCCAT	59.112	40.000	0.00	0.00	0.00	4.40
1111	2369	5.888161	AGAAATTTGTTACCCTCTAGCCATG	59.112	40.000	0.00	0.00	0.00	3.66
1112	2370	4.862641	ATTTGTTACCCTCTAGCCATGT	57.137	40.909	0.00	0.00	0.00	3.21
1113	2371	5.968676	ATTTGTTACCCTCTAGCCATGTA	57.031	39.130	0.00	0.00	0.00	2.29
1114	2372	5.968676	TTTGTTACCCTCTAGCCATGTAT	57.031	39.130	0.00	0.00	0.00	2.29
1115	2373	5.968676	TTGTTACCCTCTAGCCATGTATT	57.031	39.130	0.00	0.00	0.00	1.89
1116	2374	5.546621	TGTTACCCTCTAGCCATGTATTC	57.453	43.478	0.00	0.00	0.00	1.75
1117	2375	4.966168	TGTTACCCTCTAGCCATGTATTCA	59.034	41.667	0.00	0.00	0.00	2.57
1118	2376	5.070446	TGTTACCCTCTAGCCATGTATTCAG	59.930	44.000	0.00	0.00	0.00	3.02
1119	2377	2.370189	ACCCTCTAGCCATGTATTCAGC	59.630	50.000	0.00	0.00	0.00	4.26
1120	2378	2.636893	CCCTCTAGCCATGTATTCAGCT	59.363	50.000	0.00	0.00	39.37	4.24
1121	2379	3.306641	CCCTCTAGCCATGTATTCAGCTC	60.307	52.174	0.00	0.00	36.79	4.09
1122	2380	3.306641	CCTCTAGCCATGTATTCAGCTCC	60.307	52.174	0.00	0.00	36.79	4.70
1123	2381	3.308401	TCTAGCCATGTATTCAGCTCCA	58.692	45.455	0.00	0.00	36.79	3.86
1124	2382	2.634815	AGCCATGTATTCAGCTCCAG	57.365	50.000	0.00	0.00	0.00	3.86
1356	2614	2.733227	GCATGATGGCTTTTCTGAACGG	60.733	50.000	0.00	0.00	0.00	4.44
1392	2650	3.462169	TGCAATGCAGCAGCCTTT	58.538	50.000	2.72	0.00	40.11	3.11
1491	2749	0.686789	TGACCATGACACTGGACCTG	59.313	55.000	9.92	0.00	39.73	4.00
1630	2888	6.369629	TCCACAAGGTTTATTCCAAGAGAAA	58.630	36.000	0.00	0.00	35.43	2.52
1632	2890	7.508977	TCCACAAGGTTTATTCCAAGAGAAATT	59.491	33.333	0.00	0.00	35.43	1.82
1678	2936	5.366829	AAATAGTGTTCTAAACCAACGGC	57.633	39.130	0.00	0.00	0.00	5.68
1701	2959	1.377994	CCTTGGCAGGCAAGAGAGT	59.622	57.895	32.92	0.00	31.53	3.24
1723	2981	2.100989	TCCCTCTAGAGAAAGCCGTTC	58.899	52.381	21.76	0.00	36.38	3.95
1730	2988	0.321996	GAGAAAGCCGTTCAGGAGGT	59.678	55.000	0.99	0.00	45.00	3.85
1947	3205	6.950041	TCATCATCTCCAATTCAACTTCCTTT	59.050	34.615	0.00	0.00	0.00	3.11
2160	3418	3.938963	CCTTCGCAGTTTTAGCTGGATTA	59.061	43.478	0.00	0.00	37.00	1.75
2316	3574	3.025978	TGTGGCAAGGAATCATCAATCC	58.974	45.455	0.00	0.00	35.88	3.01
2370	3628	3.356529	AATACCCCTGAGCAACAAGAG	57.643	47.619	0.00	0.00	0.00	2.85
2394	3652	1.610038	CCTGCAGACAATCAGCAACAA	59.390	47.619	17.39	0.00	38.42	2.83
2709	4039	5.458041	AGCAAACTGAAAATAGCATGTGT	57.542	34.783	0.00	0.00	0.00	3.72
2785	4115	0.532573	TCCCGACATGACTGCTCTTC	59.467	55.000	0.00	0.00	0.00	2.87
2876	4206	1.529010	CTGCACCTGTGGAAGCCAA	60.529	57.895	0.00	0.00	34.18	4.52
2928	4258	7.410174	ACAATCTGGTTGAAGATAATAACCCA	58.590	34.615	7.81	0.00	42.44	4.51
2935	4271	8.336235	TGGTTGAAGATAATAACCCAGAGATTT	58.664	33.333	0.00	0.00	42.44	2.17
2972	4308	4.514441	CCATCCTACACATTCTGAGAATGC	59.486	45.833	29.52	0.00	0.00	3.56
2973	4309	4.142609	TCCTACACATTCTGAGAATGCC	57.857	45.455	29.52	0.00	0.00	4.40
2993	4329	3.243636	GCCCATATTGACAGCAATCAAGG	60.244	47.826	8.42	5.54	43.43	3.61
3021	4357	3.855379	CCAATCAAAATGCTGACGACATG	59.145	43.478	0.00	0.00	0.00	3.21
3023	4359	1.878734	TCAAAATGCTGACGACATGCA	59.121	42.857	12.33	12.33	41.13	3.96
3036	4372	2.663879	CGACATGCAAACTGAGAAGCAC	60.664	50.000	0.00	0.00	40.14	4.40
3054	4390	1.122019	ACCTGAAGAAGACCCGCACT	61.122	55.000	0.00	0.00	0.00	4.40
3216	4552	7.192232	GGTTCATTGCATTCTTCTATCTCAAC	58.808	38.462	0.00	0.00	0.00	3.18
3249	4585	3.367321	TGTGGCATCCATTGTCATGATT	58.633	40.909	0.00	0.00	43.08	2.57
3339	4675	4.143406	AGTGGTCCTACTTTCCCTAACT	57.857	45.455	0.00	0.00	0.00	2.24
3565	4904	3.432378	CAGACTGGGAGTGGTACTAGTT	58.568	50.000	0.00	0.00	0.00	2.24
3894	5233	2.422519	CCTCCTCATTGCCTATGTTGCT	60.423	50.000	0.00	0.00	35.64	3.91
4029	5371	4.081420	AGACCATTGGCTAAGTGTCTAGTG	60.081	45.833	13.20	0.00	32.20	2.74
4074	5419	1.406539	GCGGAGGGTGAACGAGTAATA	59.593	52.381	0.00	0.00	0.00	0.98
4302	5695	4.389374	TCTTCTGGTTCAATTCTTTCGCT	58.611	39.130	0.00	0.00	0.00	4.93

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
149	152	1.112916	TGCTCAGTCACACGGGAAGA	61.113	55.000	0.00	0.00	0.00	2.87
327	706	5.020132	TCCCTTTGTTTTTCTTCCAACTGA	58.980	37.500	0.00	0.00	0.00	3.41
414	864	5.861251	TGTGTTTCTCATCAAACAACAACAC	59.139	36.000	0.00	0.00	45.57	3.32
425	1329	9.474920	GTTGGAAATTAATTGTGTTTCTCATCA	57.525	29.630	0.39	0.00	33.51	3.07
624	1745	3.391296	GGCCCCAATCAACTATCAGAGTA	59.609	47.826	0.00	0.00	37.44	2.59
826	2012	3.011032	AGAAGGTTGCAAGGAAGATGGAT	59.989	43.478	0.00	0.00	0.00	3.41
1080	2338	4.677182	AGGGTAACAAATTTCTGCTGGAT	58.323	39.130	0.00	0.00	39.74	3.41
1081	2339	4.079253	GAGGGTAACAAATTTCTGCTGGA	58.921	43.478	0.00	0.00	39.74	3.86
1082	2340	4.082125	AGAGGGTAACAAATTTCTGCTGG	58.918	43.478	0.00	0.00	39.74	4.85
1083	2341	5.163713	GCTAGAGGGTAACAAATTTCTGCTG	60.164	44.000	0.00	0.00	39.74	4.41
1084	2342	4.944317	GCTAGAGGGTAACAAATTTCTGCT	59.056	41.667	0.00	0.00	39.74	4.24
1085	2343	4.096532	GGCTAGAGGGTAACAAATTTCTGC	59.903	45.833	0.00	0.00	39.74	4.26
1086	2344	5.253330	TGGCTAGAGGGTAACAAATTTCTG	58.747	41.667	0.00	0.00	39.74	3.02
1087	2345	5.514500	TGGCTAGAGGGTAACAAATTTCT	57.486	39.130	0.00	0.00	39.74	2.52
1088	2346	5.652452	ACATGGCTAGAGGGTAACAAATTTC	59.348	40.000	0.00	0.00	39.74	2.17
1089	2347	5.580022	ACATGGCTAGAGGGTAACAAATTT	58.420	37.500	0.00	0.00	39.74	1.82
1090	2348	5.193099	ACATGGCTAGAGGGTAACAAATT	57.807	39.130	0.00	0.00	39.74	1.82
1091	2349	4.862641	ACATGGCTAGAGGGTAACAAAT	57.137	40.909	0.00	0.00	39.74	2.32
1092	2350	5.968676	ATACATGGCTAGAGGGTAACAAA	57.031	39.130	0.00	0.00	39.74	2.83
1093	2351	5.427157	TGAATACATGGCTAGAGGGTAACAA	59.573	40.000	0.00	0.00	39.74	2.83
1094	2352	4.966168	TGAATACATGGCTAGAGGGTAACA	59.034	41.667	0.00	0.00	39.74	2.41
1095	2353	5.542779	CTGAATACATGGCTAGAGGGTAAC	58.457	45.833	0.00	0.00	0.00	2.50
1096	2354	4.040461	GCTGAATACATGGCTAGAGGGTAA	59.960	45.833	0.00	0.00	0.00	2.85
1097	2355	3.578716	GCTGAATACATGGCTAGAGGGTA	59.421	47.826	0.00	0.00	0.00	3.69
1098	2356	2.370189	GCTGAATACATGGCTAGAGGGT	59.630	50.000	0.00	0.00	0.00	4.34
1099	2357	2.636893	AGCTGAATACATGGCTAGAGGG	59.363	50.000	0.00	0.00	32.94	4.30
1100	2358	3.306641	GGAGCTGAATACATGGCTAGAGG	60.307	52.174	0.00	0.00	35.01	3.69
1101	2359	3.323115	TGGAGCTGAATACATGGCTAGAG	59.677	47.826	0.00	0.00	35.01	2.43
1102	2360	3.308401	TGGAGCTGAATACATGGCTAGA	58.692	45.455	0.00	0.00	35.01	2.43
1103	2361	3.661944	CTGGAGCTGAATACATGGCTAG	58.338	50.000	0.00	0.00	35.01	3.42
1104	2362	2.224378	GCTGGAGCTGAATACATGGCTA	60.224	50.000	0.00	0.00	38.21	3.93
1105	2363	1.476471	GCTGGAGCTGAATACATGGCT	60.476	52.381	0.00	0.00	38.21	4.75
1106	2364	0.950116	GCTGGAGCTGAATACATGGC	59.050	55.000	0.00	0.00	38.21	4.40
1107	2365	2.336945	TGCTGGAGCTGAATACATGG	57.663	50.000	0.00	0.00	42.66	3.66
1108	2366	3.630769	ACATTGCTGGAGCTGAATACATG	59.369	43.478	0.00	0.00	42.66	3.21
1109	2367	3.881688	GACATTGCTGGAGCTGAATACAT	59.118	43.478	0.00	0.00	42.66	2.29
1110	2368	3.273434	GACATTGCTGGAGCTGAATACA	58.727	45.455	0.00	0.00	42.66	2.29
1111	2369	2.286294	CGACATTGCTGGAGCTGAATAC	59.714	50.000	0.00	0.00	42.66	1.89
1112	2370	2.554142	CGACATTGCTGGAGCTGAATA	58.446	47.619	0.00	0.00	42.66	1.75
1113	2371	1.376543	CGACATTGCTGGAGCTGAAT	58.623	50.000	0.00	0.00	42.66	2.57
1114	2372	1.300971	GCGACATTGCTGGAGCTGAA	61.301	55.000	0.00	0.00	42.66	3.02
1115	2373	1.742880	GCGACATTGCTGGAGCTGA	60.743	57.895	0.00	0.00	42.66	4.26
1116	2374	1.374343	ATGCGACATTGCTGGAGCTG	61.374	55.000	0.00	0.00	42.66	4.24
1117	2375	1.077930	ATGCGACATTGCTGGAGCT	60.078	52.632	0.00	0.00	42.66	4.09
1118	2376	1.354506	GATGCGACATTGCTGGAGC	59.645	57.895	0.00	0.00	42.50	4.70
1119	2377	0.745486	TGGATGCGACATTGCTGGAG	60.745	55.000	0.00	0.00	35.36	3.86
1120	2378	0.745486	CTGGATGCGACATTGCTGGA	60.745	55.000	0.00	0.00	35.36	3.86
1121	2379	1.725665	CTGGATGCGACATTGCTGG	59.274	57.895	0.00	0.00	35.36	4.85
1122	2380	1.063649	GCTGGATGCGACATTGCTG	59.936	57.895	0.00	0.00	35.36	4.41
1123	2381	3.506108	GCTGGATGCGACATTGCT	58.494	55.556	0.00	0.00	35.36	3.91
1356	2614	6.554334	TTGCAGTAAAAGAACACCTCATAC	57.446	37.500	0.00	0.00	0.00	2.39
1392	2650	4.835678	TGATTAAGACAAGAGATGCAGCA	58.164	39.130	4.07	0.00	0.00	4.41
1599	2857	7.743116	TGGAATAAACCTTGTGGATACTAGA	57.257	36.000	0.00	0.00	37.04	2.43
1630	2888	7.692460	TCATTGTCTGCAGATTCTGTTTAAT	57.308	32.000	21.47	7.88	33.43	1.40
1632	2890	8.791327	TTATCATTGTCTGCAGATTCTGTTTA	57.209	30.769	21.47	10.43	33.43	2.01
1678	2936	2.597217	TTGCCTGCCAAGGGAACG	60.597	61.111	0.00	0.00	46.02	3.95
1701	2959	3.596940	ACGGCTTTCTCTAGAGGGATA	57.403	47.619	19.67	0.00	0.00	2.59
1723	2981	1.813513	ATGAACTTGCGAACCTCCTG	58.186	50.000	0.00	0.00	0.00	3.86
1730	2988	2.032799	AGCGTCAAAATGAACTTGCGAA	59.967	40.909	0.00	0.00	0.00	4.70
1929	3187	4.797275	GCCACAAAGGAAGTTGAATTGGAG	60.797	45.833	0.00	0.00	41.22	3.86
1947	3205	4.598022	TGATTATGACCAAAGATGCCACA	58.402	39.130	0.00	0.00	0.00	4.17
2050	3308	1.676006	AGCATACGCAACAATTAGGCC	59.324	47.619	0.00	0.00	42.27	5.19
2136	3394	2.151202	CCAGCTAAAACTGCGAAGGAA	58.849	47.619	0.00	0.00	36.29	3.36
2160	3418	2.375174	TGCTACAGGTCCCTGAACAAAT	59.625	45.455	19.95	0.00	46.30	2.32
2194	3452	1.471684	CAGGCTGCTTGATTTGACCTC	59.528	52.381	5.77	0.00	0.00	3.85
2316	3574	1.002134	ATCAGTTGAACGGGCTGGG	60.002	57.895	0.00	0.00	0.00	4.45
2370	3628	1.801332	CTGATTGTCTGCAGGCTGC	59.199	57.895	31.91	31.91	45.29	5.25
2394	3652	6.774656	GGAATTCACCCTGTCTGATATTTGAT	59.225	38.462	7.93	0.00	0.00	2.57
2709	4039	4.286032	ACTTTCTGGTTAGCTGACATACCA	59.714	41.667	11.15	8.32	38.29	3.25
2758	4088	2.363359	CAGTCATGTCGGGATCATCAGA	59.637	50.000	0.00	0.00	0.00	3.27
2805	4135	0.900421	CTCCATCACTCTGCCTGACA	59.100	55.000	0.00	0.00	0.00	3.58
2876	4206	0.330604	AGCAGAGTCCACATTGCCAT	59.669	50.000	0.00	0.00	37.26	4.40
2885	4215	2.997980	TGTTTTGTTCAGCAGAGTCCA	58.002	42.857	0.00	0.00	0.00	4.02
2928	4258	3.341823	GTCATGACTGCCACAAATCTCT	58.658	45.455	18.83	0.00	0.00	3.10
2935	4271	0.035152	GGATGGTCATGACTGCCACA	60.035	55.000	24.50	14.15	33.37	4.17
2972	4308	4.209538	TCCTTGATTGCTGTCAATATGGG	58.790	43.478	5.09	3.97	42.60	4.00
2973	4309	4.885907	ACTCCTTGATTGCTGTCAATATGG	59.114	41.667	5.09	4.25	42.60	2.74
2993	4329	4.437390	CGTCAGCATTTTGATTGGGTACTC	60.437	45.833	0.00	0.00	0.00	2.59
3021	4357	1.597742	TCAGGTGCTTCTCAGTTTGC	58.402	50.000	0.00	0.00	0.00	3.68
3023	4359	3.845781	TCTTCAGGTGCTTCTCAGTTT	57.154	42.857	0.00	0.00	0.00	2.66
3036	4372	0.035458	AAGTGCGGGTCTTCTTCAGG	59.965	55.000	0.00	0.00	0.00	3.86
3249	4585	4.216257	GCCATCTTGTTCAAGAGCAAAGTA	59.784	41.667	18.03	0.00	31.28	2.24
3339	4675	1.075482	CCCCAGAGCAAAAGCTCCA	59.925	57.895	13.36	0.00	37.53	3.86
3407	4743	4.959596	ATGAGAACATAAGCAAGCACAG	57.040	40.909	0.00	0.00	34.71	3.66
3411	4747	5.888105	ACATGAATGAGAACATAAGCAAGC	58.112	37.500	0.00	0.00	35.50	4.01
3565	4904	0.902531	CGCCTTCCCAACTCCTTCTA	59.097	55.000	0.00	0.00	0.00	2.10
3894	5233	8.177119	ACTGTTTAATATTTCTGCAACTTCCA	57.823	30.769	0.00	0.00	0.00	3.53
4029	5371	7.670916	CATGAAAGAGAAGATCGTGTAGAAAC	58.329	38.462	0.00	0.00	0.00	2.78
4074	5419	1.065854	GCTACTGGCCTCATGTGAGTT	60.066	52.381	3.32	0.00	40.48	3.01
4079	5424	1.209019	CTGAAGCTACTGGCCTCATGT	59.791	52.381	3.32	0.05	40.18	3.21
4080	5425	1.209019	ACTGAAGCTACTGGCCTCATG	59.791	52.381	3.32	0.00	40.18	3.07
4081	5426	1.577736	ACTGAAGCTACTGGCCTCAT	58.422	50.000	3.32	0.00	40.18	2.90
4193	5586	2.187958	CAGACCAGAATCCACCAGGTA	58.812	52.381	0.00	0.00	35.89	3.08
4302	5695	2.164017	CACGACAATGGATGCCATGAAA	59.836	45.455	0.00	0.00	44.40	2.69
4427	5823	1.907807	AATTTGCGGCAGCTTCCCA	60.908	52.632	10.92	0.00	45.42	4.37

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.