AutoCloner

Multiple sequence alignment - TraesCS6B01G030300

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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	TraesCS6B01G030300	chr6B	100.000	3461	0	0	1	3461	18150639	18147179	0.000000e+00	6392.0
1	TraesCS6B01G030300	chr6B	93.802	2049	96	16	468	2516	18300416	18298399	0.000000e+00	3051.0
2	TraesCS6B01G030300	chr6B	91.057	369	19	6	2515	2875	18298285	18297923	1.440000e-133	486.0
3	TraesCS6B01G030300	chr6B	83.636	495	41	14	1	484	18300894	18300429	2.470000e-116	429.0
4	TraesCS6B01G030300	chr6B	90.588	255	17	6	2876	3126	18297287	18297036	7.160000e-87	331.0
5	TraesCS6B01G030300	chr6B	80.290	345	57	7	1010	1344	18150447	18150790	2.060000e-62	250.0
6	TraesCS6B01G030300	chr6B	86.047	215	30	0	1166	1380	18300867	18301081	7.470000e-57	231.0
7	TraesCS6B01G030300	chr6B	83.582	134	20	2	61	193	18299765	18299897	1.300000e-24	124.0
8	TraesCS6B01G030300	chr6B	95.833	72	3	0	3388	3459	18325956	18325885	2.180000e-22	117.0
9	TraesCS6B01G030300	chr6B	81.343	134	23	2	61	193	18149498	18149630	1.310000e-19	108.0
10	TraesCS6B01G030300	chr6B	85.714	70	8	2	277	344	77394605	77394536	4.790000e-09	73.1
11	TraesCS6B01G030300	chrUn	91.493	2927	161	35	1	2872	71218467	71221360	0.000000e+00	3945.0
12	TraesCS6B01G030300	chrUn	94.353	1753	85	6	1129	2872	321359139	321360886	0.000000e+00	2676.0
13	TraesCS6B01G030300	chrUn	88.335	1303	135	7	1551	2839	71181621	71182920	0.000000e+00	1548.0
14	TraesCS6B01G030300	chrUn	94.571	921	46	1	1956	2872	71264542	71263622	0.000000e+00	1421.0
15	TraesCS6B01G030300	chrUn	91.961	933	49	8	476	1388	71265947	71265021	0.000000e+00	1284.0
16	TraesCS6B01G030300	chrUn	94.286	490	23	2	1441	1930	71265024	71264540	0.000000e+00	745.0
17	TraesCS6B01G030300	chrUn	82.054	886	95	35	748	1604	71180729	71181579	0.000000e+00	697.0
18	TraesCS6B01G030300	chrUn	87.846	469	56	1	2399	2866	326990065	326990533	1.820000e-152	549.0
19	TraesCS6B01G030300	chrUn	91.710	386	30	1	7	390	423403553	423403938	5.080000e-148	534.0
20	TraesCS6B01G030300	chrUn	79.148	446	84	5	998	1439	172238041	172237601	2.020000e-77	300.0
21	TraesCS6B01G030300	chrUn	78.654	431	80	9	999	1422	423403753	423403328	3.400000e-70	276.0
22	TraesCS6B01G030300	chrUn	88.068	176	19	2	3284	3459	71262516	71262343	1.260000e-49	207.0
23	TraesCS6B01G030300	chrUn	79.787	188	32	6	20	207	71184131	71183950	7.790000e-27	132.0
24	TraesCS6B01G030300	chrUn	84.211	133	21	0	61	193	71181125	71180993	2.800000e-26	130.0
25	TraesCS6B01G030300	chrUn	83.582	134	20	2	61	193	71219626	71219494	1.300000e-24	124.0
26	TraesCS6B01G030300	chrUn	80.405	148	25	3	61	207	71265267	71265411	3.650000e-20	110.0
27	TraesCS6B01G030300	chr6D	91.943	1539	97	9	982	2516	9908031	9906516	0.000000e+00	2130.0
28	TraesCS6B01G030300	chr6D	90.959	365	17	5	2515	2875	9906402	9906050	8.690000e-131	477.0
29	TraesCS6B01G030300	chr6D	90.196	255	17	7	2876	3126	9905426	9905176	3.330000e-85	326.0
30	TraesCS6B01G030300	chr6A	86.993	1307	143	16	1085	2381	11434090	11432801	0.000000e+00	1447.0
31	TraesCS6B01G030300	chr6A	86.653	487	49	8	2371	2842	11417248	11416763	3.060000e-145	525.0
32	TraesCS6B01G030300	chr6A	84.459	148	17	5	63	207	11116221	11116365	1.300000e-29	141.0
33	TraesCS6B01G030300	chr5B	95.745	47	2	0	3407	3453	1162386	1162340	3.700000e-10	76.8
34	TraesCS6B01G030300	chr5B	95.745	47	2	0	3407	3453	6416524	6416478	3.700000e-10	76.8
35	TraesCS6B01G030300	chr2D	84.507	71	8	3	275	343	7329023	7328954	2.230000e-07	67.6

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	TraesCS6B01G030300	chr6B	18147179	18150639	3460	True	6392.000000	6392	100.000000	1	3461	1	chr6B.!!$R1	3460
1	TraesCS6B01G030300	chr6B	18297036	18300894	3858	True	1074.250000	3051	89.770750	1	3126	4	chr6B.!!$R4	3125
2	TraesCS6B01G030300	chrUn	71218467	71221360	2893	False	3945.000000	3945	91.493000	1	2872	1	chrUn.!!$F1	2871
3	TraesCS6B01G030300	chrUn	321359139	321360886	1747	False	2676.000000	2676	94.353000	1129	2872	1	chrUn.!!$F3	1743
4	TraesCS6B01G030300	chrUn	71180729	71182920	2191	False	1122.500000	1548	85.194500	748	2839	2	chrUn.!!$F6	2091
5	TraesCS6B01G030300	chrUn	71262343	71265947	3604	True	914.250000	1421	92.221500	476	3459	4	chrUn.!!$R5	2983
6	TraesCS6B01G030300	chr6D	9905176	9908031	2855	True	977.666667	2130	91.032667	982	3126	3	chr6D.!!$R1	2144
7	TraesCS6B01G030300	chr6A	11432801	11434090	1289	True	1447.000000	1447	86.993000	1085	2381	1	chr6A.!!$R2	1296

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
102	103	1.103803	TAGCCTTCGTGGACTAGCAG	58.896	55.0	0.00	0.00	38.35	4.24	F
1616	1873	0.820482	TCGGCAATCCATCATGCTGG	60.820	55.0	9.41	9.41	46.53	4.85	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1805	2062	1.001048	CTACAACCTCGTTGACGACCA	60.001	52.381	11.29	0.0	45.28	4.02	R
3390	4529	0.610174	TCTTCTCAGGCAATCGCAGT	59.390	50.000	0.00	0.0	41.24	4.40	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
43	44	1.891919	GTCGCTGGTGGCTGTTTGA	60.892	57.895	0.00	0.00	39.13	2.69
102	103	1.103803	TAGCCTTCGTGGACTAGCAG	58.896	55.000	0.00	0.00	38.35	4.24
108	109	3.490078	CCTTCGTGGACTAGCAGAAGATC	60.490	52.174	12.05	0.00	40.31	2.75
116	117	1.103987	TAGCAGAAGATCGAGCGGCT	61.104	55.000	0.00	0.00	0.00	5.52
163	164	3.424859	GCGGCCGGCGTTAGAAAA	61.425	61.111	29.38	0.00	0.00	2.29
200	201	2.283966	CCTCCTCCTCCACACCGT	60.284	66.667	0.00	0.00	0.00	4.83
238	239	2.472029	CTCTCCCCTGCCTTCTCTAAA	58.528	52.381	0.00	0.00	0.00	1.85
319	345	6.976349	TGTCTCGCTAAATAAATCGTGTACAT	59.024	34.615	0.00	0.00	0.00	2.29
325	351	8.061857	CGCTAAATAAATCGTGTACATTGACAT	58.938	33.333	0.00	0.00	0.00	3.06
353	379	7.966157	AATAGCACGCTATAACACGATATAC	57.034	36.000	11.80	0.00	38.20	1.47
411	456	2.555664	TCATTGCTTCTCTTCCTCCCT	58.444	47.619	0.00	0.00	0.00	4.20
412	457	2.503356	TCATTGCTTCTCTTCCTCCCTC	59.497	50.000	0.00	0.00	0.00	4.30
413	458	2.334006	TTGCTTCTCTTCCTCCCTCT	57.666	50.000	0.00	0.00	0.00	3.69
414	459	1.859302	TGCTTCTCTTCCTCCCTCTC	58.141	55.000	0.00	0.00	0.00	3.20
415	460	1.360852	TGCTTCTCTTCCTCCCTCTCT	59.639	52.381	0.00	0.00	0.00	3.10
416	461	2.031870	GCTTCTCTTCCTCCCTCTCTC	58.968	57.143	0.00	0.00	0.00	3.20
417	462	2.358195	GCTTCTCTTCCTCCCTCTCTCT	60.358	54.545	0.00	0.00	0.00	3.10
453	504	4.628333	GCGTTAGCTACTGTGTTGGAAATA	59.372	41.667	0.00	0.00	41.01	1.40
457	508	3.587506	AGCTACTGTGTTGGAAATAGGGT	59.412	43.478	0.00	0.00	0.00	4.34
573	656	3.735208	CGTCTGTGTGTCTGTCTGTCTTT	60.735	47.826	0.00	0.00	0.00	2.52
588	671	4.901849	TCTGTCTTTTCTCCTCTTCTTCCA	59.098	41.667	0.00	0.00	0.00	3.53
595	678	1.134175	CTCCTCTTCTTCCAGCGTCTC	59.866	57.143	0.00	0.00	0.00	3.36
637	720	2.107141	GGGCCCGACAGAGAATCG	59.893	66.667	5.69	0.00	42.67	3.34
781	873	7.447238	AGGGAAAGAAAACAACGAGATTTGATA	59.553	33.333	0.00	0.00	0.00	2.15
782	874	8.244113	GGGAAAGAAAACAACGAGATTTGATAT	58.756	33.333	0.00	0.00	0.00	1.63
968	1109	3.878160	AGTAGCTAGAGCAACAAGGAC	57.122	47.619	4.01	0.00	45.16	3.85
969	1110	2.164624	AGTAGCTAGAGCAACAAGGACG	59.835	50.000	4.01	0.00	45.16	4.79
970	1111	1.257743	AGCTAGAGCAACAAGGACGA	58.742	50.000	4.01	0.00	45.16	4.20
971	1112	1.618837	AGCTAGAGCAACAAGGACGAA	59.381	47.619	4.01	0.00	45.16	3.85
972	1113	2.234908	AGCTAGAGCAACAAGGACGAAT	59.765	45.455	4.01	0.00	45.16	3.34
973	1114	3.003480	GCTAGAGCAACAAGGACGAATT	58.997	45.455	0.00	0.00	41.59	2.17
1145	1287	2.183555	CGTCCACTTCTACCGCCC	59.816	66.667	0.00	0.00	0.00	6.13
1157	1299	4.636435	CCGCCCACCAGAAACCGT	62.636	66.667	0.00	0.00	0.00	4.83
1158	1300	3.353836	CGCCCACCAGAAACCGTG	61.354	66.667	0.00	0.00	0.00	4.94
1383	1525	1.707427	AGGAGGCTGTTTGTTCCTCAT	59.293	47.619	9.40	0.00	46.24	2.90
1512	1670	9.804758	AACTAACATGTAGTACTATTCAGAAGC	57.195	33.333	5.75	0.00	0.00	3.86
1513	1671	8.414778	ACTAACATGTAGTACTATTCAGAAGCC	58.585	37.037	5.75	0.00	0.00	4.35
1518	1676	3.786635	AGTACTATTCAGAAGCCAAGCG	58.213	45.455	0.00	0.00	0.00	4.68
1532	1690	6.425114	AGAAGCCAAGCGATTAGTAATATGTG	59.575	38.462	0.00	0.00	0.00	3.21
1616	1873	0.820482	TCGGCAATCCATCATGCTGG	60.820	55.000	9.41	9.41	46.53	4.85
1710	1967	0.920763	TGAACCTCCCCTGCCATGAT	60.921	55.000	0.00	0.00	0.00	2.45
1753	2010	1.444933	TCCACCTGTTGTTCATCCCT	58.555	50.000	0.00	0.00	0.00	4.20
1755	2012	3.189606	TCCACCTGTTGTTCATCCCTAT	58.810	45.455	0.00	0.00	0.00	2.57
1758	2015	2.578021	ACCTGTTGTTCATCCCTATGCT	59.422	45.455	0.00	0.00	32.76	3.79
1828	2085	1.012486	CGTCAACGAGGTTGTAGCCC	61.012	60.000	8.21	0.00	43.23	5.19
1903	2160	3.630013	TGAGCACCTTCAGCGCCT	61.630	61.111	2.29	0.00	37.01	5.52
2100	2388	4.409342	CGCGAGCTGAGCTACATT	57.591	55.556	7.08	0.00	39.88	2.71
2112	2400	1.827315	GCTACATTGCGCGGCGAATA	61.827	55.000	28.54	10.33	0.00	1.75
2131	2419	0.759436	AAGAGACACCCACAGACGGT	60.759	55.000	0.00	0.00	0.00	4.83
2154	2442	0.526211	ACGACGAGCTAGTGCATTCA	59.474	50.000	3.45	0.00	42.74	2.57
2554	2957	9.482627	CCGAGAAATAATCTTAATCAGCTTACT	57.517	33.333	0.00	0.00	38.96	2.24
2619	3022	4.097135	TCAGAGTAGAGTAGTTGCTCATGC	59.903	45.833	0.19	0.00	37.94	4.06
2839	3260	2.159028	AGCTCAGCGAGGGAGTAATTTC	60.159	50.000	0.00	0.00	34.83	2.17
2924	3999	6.487668	CCAATCAAGACCATAATGTAGATGCA	59.512	38.462	0.00	0.00	0.00	3.96
3024	4104	7.568349	TGCCACATCATATAAGAAGAGAGTTT	58.432	34.615	0.00	0.00	0.00	2.66
3069	4149	1.414378	CGAAAATGGGTGAAAACCGC	58.586	50.000	0.00	0.00	0.00	5.68
3127	4207	1.368374	TGGGGGAAGGGTTTAGACAG	58.632	55.000	0.00	0.00	0.00	3.51
3128	4208	1.132332	TGGGGGAAGGGTTTAGACAGA	60.132	52.381	0.00	0.00	0.00	3.41
3135	4215	4.448210	GAAGGGTTTAGACAGACACACAA	58.552	43.478	0.00	0.00	0.00	3.33
3144	4224	9.730420	GTTTAGACAGACACACAAATAAACATT	57.270	29.630	0.00	0.00	33.94	2.71
3154	4234	8.303876	ACACACAAATAAACATTAGGGAACATC	58.696	33.333	0.00	0.00	0.00	3.06
3165	4251	1.202879	AGGGAACATCGTTTGAGCCAA	60.203	47.619	0.00	0.00	0.00	4.52
3201	4287	0.108851	GCCCAAAACCATAAGGCACG	60.109	55.000	0.00	0.00	43.32	5.34
3205	4291	3.056179	CCCAAAACCATAAGGCACGATTT	60.056	43.478	0.00	0.00	39.06	2.17
3233	4319	1.170290	CCAAAACGACCACCACCCTC	61.170	60.000	0.00	0.00	0.00	4.30
3234	4320	1.149854	AAAACGACCACCACCCTCC	59.850	57.895	0.00	0.00	0.00	4.30
3250	4336	3.334881	ACCCTCCAAAAAGATGTCATCCT	59.665	43.478	9.29	0.00	0.00	3.24
3254	4340	3.026694	CCAAAAAGATGTCATCCTCCCC	58.973	50.000	9.29	0.00	0.00	4.81
3265	4351	2.611964	ATCCTCCCCGAGACATGGCT	62.612	60.000	0.00	0.00	0.00	4.75
3287	4373	2.484417	CGGCCTGTCTATGCAAGAATCT	60.484	50.000	0.00	0.00	35.47	2.40
3296	4382	7.568349	TGTCTATGCAAGAATCTTGGACTAAT	58.432	34.615	22.73	9.01	35.47	1.73
3332	4471	0.251165	AACCAGGGGTGTTGGAATCG	60.251	55.000	0.00	0.00	39.08	3.34
3339	4478	1.134220	GGGTGTTGGAATCGCCTATCA	60.134	52.381	0.00	0.00	37.63	2.15
3342	4481	2.549754	GTGTTGGAATCGCCTATCATGG	59.450	50.000	0.00	0.00	37.63	3.66
3344	4483	3.389656	TGTTGGAATCGCCTATCATGGTA	59.610	43.478	0.00	0.00	37.63	3.25
3346	4485	4.271696	TGGAATCGCCTATCATGGTAAG	57.728	45.455	0.00	0.00	37.63	2.34
3356	4495	3.515602	ATCATGGTAAGGCCCATCTTC	57.484	47.619	0.00	0.00	43.46	2.87
3357	4496	2.204463	TCATGGTAAGGCCCATCTTCA	58.796	47.619	0.00	0.00	43.46	3.02
3382	4521	1.516169	CGTTAATGCCCGCCAAAGC	60.516	57.895	0.00	0.00	0.00	3.51
3383	4522	1.589113	GTTAATGCCCGCCAAAGCA	59.411	52.632	0.00	0.00	44.45	3.91
3384	4523	0.735978	GTTAATGCCCGCCAAAGCAC	60.736	55.000	0.00	0.00	42.84	4.40
3392	4531	2.034879	CGCCAAAGCACGGATCACT	61.035	57.895	0.00	0.00	39.83	3.41
3405	4544	0.935898	GATCACTGCGATTGCCTGAG	59.064	55.000	1.50	0.00	41.78	3.35
3438	4577	7.328737	GTGGCTTATTGTACATATCGAGGTAAG	59.671	40.741	0.00	0.00	0.00	2.34
3442	4581	8.812147	TTATTGTACATATCGAGGTAAGCTTG	57.188	34.615	9.86	0.00	0.00	4.01
3452	4591	3.181516	CGAGGTAAGCTTGCATCTTGTTC	60.182	47.826	23.41	1.07	0.00	3.18
3455	4594	4.457257	AGGTAAGCTTGCATCTTGTTCTTC	59.543	41.667	16.70	0.00	0.00	2.87
3456	4595	3.549299	AAGCTTGCATCTTGTTCTTCG	57.451	42.857	0.00	0.00	0.00	3.79
3457	4596	1.198637	AGCTTGCATCTTGTTCTTCGC	59.801	47.619	0.00	0.00	0.00	4.70
3458	4597	1.874562	CTTGCATCTTGTTCTTCGCG	58.125	50.000	0.00	0.00	0.00	5.87
3459	4598	1.460743	CTTGCATCTTGTTCTTCGCGA	59.539	47.619	3.71	3.71	0.00	5.87
3460	4599	0.790207	TGCATCTTGTTCTTCGCGAC	59.210	50.000	9.15	0.00	0.00	5.19

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
30	31	0.888736	CGGTGATCAAACAGCCACCA	60.889	55.000	0.00	0.00	46.96	4.17
43	44	0.323629	ACCATTGACGTTCCGGTGAT	59.676	50.000	0.00	0.00	0.00	3.06
102	103	0.937231	GCTGTAGCCGCTCGATCTTC	60.937	60.000	0.00	0.00	34.31	2.87
116	117	1.203994	GAGTAAAGCACTCCGGCTGTA	59.796	52.381	0.00	0.00	46.94	2.74
200	201	0.694771	AGCAGAGCAAGGTGAATGGA	59.305	50.000	0.00	0.00	0.00	3.41
256	257	7.653713	GCTATAGCGTACCATTAATGATGCTAT	59.346	37.037	28.81	28.81	44.16	2.97
257	258	6.978659	GCTATAGCGTACCATTAATGATGCTA	59.021	38.462	23.12	23.12	37.99	3.49
258	259	5.812642	GCTATAGCGTACCATTAATGATGCT	59.187	40.000	21.12	21.12	34.25	3.79
259	260	6.037423	GCTATAGCGTACCATTAATGATGC	57.963	41.667	17.23	13.95	34.25	3.91
319	345	8.354426	TGTTATAGCGTGCTATTAGTATGTCAA	58.646	33.333	18.62	2.37	39.65	3.18
325	351	6.544038	TCGTGTTATAGCGTGCTATTAGTA	57.456	37.500	18.62	0.00	39.65	1.82
353	379	5.036737	CCTTGAAATACGCTTTTAGCATGG	58.963	41.667	0.00	0.00	42.58	3.66
403	448	2.777692	GAGAGAGAGAGAGAGGGAGGAA	59.222	54.545	0.00	0.00	0.00	3.36
407	452	2.039418	CGAGAGAGAGAGAGAGAGGGA	58.961	57.143	0.00	0.00	0.00	4.20
411	456	2.034179	CGCTACGAGAGAGAGAGAGAGA	59.966	54.545	0.00	0.00	0.00	3.10
412	457	2.223735	ACGCTACGAGAGAGAGAGAGAG	60.224	54.545	0.00	0.00	0.00	3.20
413	458	1.752498	ACGCTACGAGAGAGAGAGAGA	59.248	52.381	0.00	0.00	0.00	3.10
414	459	2.218953	ACGCTACGAGAGAGAGAGAG	57.781	55.000	0.00	0.00	0.00	3.20
415	460	2.676632	AACGCTACGAGAGAGAGAGA	57.323	50.000	0.00	0.00	0.00	3.10
416	461	2.220133	GCTAACGCTACGAGAGAGAGAG	59.780	54.545	0.00	0.00	0.00	3.20
417	462	2.159071	AGCTAACGCTACGAGAGAGAGA	60.159	50.000	0.00	0.00	46.79	3.10
474	557	4.613925	TGTGAATATGCCATCTCTCTCC	57.386	45.455	0.00	0.00	0.00	3.71
573	656	1.546476	GACGCTGGAAGAAGAGGAGAA	59.454	52.381	0.00	0.00	34.07	2.87
588	671	1.752694	GCAGGGAGAGAGAGACGCT	60.753	63.158	0.00	0.00	0.00	5.07
595	678	1.381599	AGGCAGAGCAGGGAGAGAG	60.382	63.158	0.00	0.00	0.00	3.20
781	873	2.642311	TGGGGACATACATGGCGATAAT	59.358	45.455	0.00	0.00	36.40	1.28
782	874	2.050918	TGGGGACATACATGGCGATAA	58.949	47.619	0.00	0.00	36.40	1.75
968	1109	8.120465	AGAGTAGTTGTGTTGTTGTTTAATTCG	58.880	33.333	0.00	0.00	0.00	3.34
969	1110	9.783256	AAGAGTAGTTGTGTTGTTGTTTAATTC	57.217	29.630	0.00	0.00	0.00	2.17
972	1113	8.885722	CCTAAGAGTAGTTGTGTTGTTGTTTAA	58.114	33.333	0.00	0.00	0.00	1.52
973	1114	8.259411	TCCTAAGAGTAGTTGTGTTGTTGTTTA	58.741	33.333	0.00	0.00	0.00	2.01
1145	1287	3.353836	CGCCCACGGTTTCTGGTG	61.354	66.667	0.00	0.00	34.97	4.17
1157	1299	2.257371	CGAAGAAGTCGTCGCCCA	59.743	61.111	3.79	0.00	45.09	5.36
1383	1525	1.216444	GCCATCTGAGTCGCTGACA	59.784	57.895	10.52	0.00	34.60	3.58
1509	1667	5.049405	GCACATATTACTAATCGCTTGGCTT	60.049	40.000	0.00	0.00	0.00	4.35
1510	1668	4.452455	GCACATATTACTAATCGCTTGGCT	59.548	41.667	0.00	0.00	0.00	4.75
1511	1669	4.213270	TGCACATATTACTAATCGCTTGGC	59.787	41.667	0.00	0.00	0.00	4.52
1512	1670	5.922739	TGCACATATTACTAATCGCTTGG	57.077	39.130	0.00	0.00	0.00	3.61
1513	1671	6.714492	TGTTGCACATATTACTAATCGCTTG	58.286	36.000	0.00	0.00	0.00	4.01
1616	1873	4.989168	GGAATACAACAGATCCGTCCATAC	59.011	45.833	0.00	0.00	0.00	2.39
1753	2010	4.649218	GGGGCTAAAAATGGAAAGAGCATA	59.351	41.667	0.00	0.00	0.00	3.14
1755	2012	2.831526	GGGGCTAAAAATGGAAAGAGCA	59.168	45.455	0.00	0.00	0.00	4.26
1758	2015	4.746466	TCTTGGGGCTAAAAATGGAAAGA	58.254	39.130	0.00	0.00	0.00	2.52
1805	2062	1.001048	CTACAACCTCGTTGACGACCA	60.001	52.381	11.29	0.00	45.28	4.02
1806	2063	1.694639	CTACAACCTCGTTGACGACC	58.305	55.000	11.29	0.00	45.28	4.79
1824	2081	3.185203	TTGGCAAGGGTGAGGGCT	61.185	61.111	0.00	0.00	0.00	5.19
1903	2160	4.641645	CCACAGGTGGGCGCTCAA	62.642	66.667	13.97	0.00	46.81	3.02
2100	2388	1.876714	GTCTCTTATTCGCCGCGCA	60.877	57.895	8.75	0.00	0.00	6.09
2112	2400	0.759436	ACCGTCTGTGGGTGTCTCTT	60.759	55.000	0.00	0.00	36.14	2.85
2131	2419	0.312729	TGCACTAGCTCGTCGTTCAA	59.687	50.000	0.00	0.00	42.74	2.69
2545	2948	7.841282	ATTGTATAAGCCTAGAGTAAGCTGA	57.159	36.000	0.00	0.00	36.84	4.26
2619	3022	3.421888	GCAGTAAACAAACTCGTGCATTG	59.578	43.478	0.00	0.00	0.00	2.82
2629	3032	8.895932	AATTATCTTCATCGCAGTAAACAAAC	57.104	30.769	0.00	0.00	0.00	2.93
2823	3244	4.466726	ACAACTAGAAATTACTCCCTCGCT	59.533	41.667	0.00	0.00	0.00	4.93
2916	3991	3.059325	GCAGATCCAACGAATGCATCTAC	60.059	47.826	0.00	0.00	35.74	2.59
2924	3999	2.749621	GGAAACAGCAGATCCAACGAAT	59.250	45.455	0.00	0.00	33.30	3.34
3024	4104	8.361889	GCCAGGTTTTTCTTAAATTAACTGGTA	58.638	33.333	13.96	0.00	0.00	3.25
3028	4108	7.279750	TCGCCAGGTTTTTCTTAAATTAACT	57.720	32.000	0.00	0.00	0.00	2.24
3045	4125	0.965439	TTTCACCCATTTTCGCCAGG	59.035	50.000	0.00	0.00	0.00	4.45
3127	4207	7.653647	TGTTCCCTAATGTTTATTTGTGTGTC	58.346	34.615	0.00	0.00	0.00	3.67
3128	4208	7.589958	TGTTCCCTAATGTTTATTTGTGTGT	57.410	32.000	0.00	0.00	0.00	3.72
3135	4215	8.343168	TCAAACGATGTTCCCTAATGTTTATT	57.657	30.769	0.00	0.00	0.00	1.40
3144	4224	1.626321	TGGCTCAAACGATGTTCCCTA	59.374	47.619	0.00	0.00	0.00	3.53
3165	4251	2.972505	CGCCGGCACTCTTGTGTT	60.973	61.111	28.98	0.00	45.44	3.32
3177	4263	2.278182	CTTATGGTTTTGGGCGCCGG	62.278	60.000	22.54	0.00	0.00	6.13
3179	4265	1.515487	CCTTATGGTTTTGGGCGCC	59.485	57.895	21.18	21.18	0.00	6.53
3180	4266	1.153647	GCCTTATGGTTTTGGGCGC	60.154	57.895	0.00	0.00	33.30	6.53
3205	4291	1.272490	TGGTCGTTTTGGTTGCACAAA	59.728	42.857	0.00	0.00	38.48	2.83
3233	4319	3.026694	GGGGAGGATGACATCTTTTTGG	58.973	50.000	14.95	0.00	0.00	3.28
3234	4320	2.684881	CGGGGAGGATGACATCTTTTTG	59.315	50.000	14.95	0.00	0.00	2.44
3265	4351	0.901827	TTCTTGCATAGACAGGCCGA	59.098	50.000	0.00	0.00	30.90	5.54
3287	4373	3.244422	CCCCGCAGCTAATATTAGTCCAA	60.244	47.826	20.89	0.00	33.32	3.53
3296	4382	3.964108	TGCTCCCCGCAGCTAATA	58.036	55.556	0.00	0.00	45.47	0.98
3317	4403	0.912487	TAGGCGATTCCAACACCCCT	60.912	55.000	0.00	0.00	37.29	4.79
3342	4481	4.379499	CGAAAAGTTGAAGATGGGCCTTAC	60.379	45.833	4.53	0.00	0.00	2.34
3344	4483	2.558359	CGAAAAGTTGAAGATGGGCCTT	59.442	45.455	4.53	0.00	0.00	4.35
3346	4485	1.886542	ACGAAAAGTTGAAGATGGGCC	59.113	47.619	0.00	0.00	0.00	5.80
3356	4495	1.982913	GCGGGCATTAACGAAAAGTTG	59.017	47.619	0.00	0.00	44.01	3.16
3357	4496	1.068125	GGCGGGCATTAACGAAAAGTT	60.068	47.619	0.00	0.00	46.36	2.66
3382	4521	1.349627	GCAATCGCAGTGATCCGTG	59.650	57.895	0.00	0.00	35.84	4.94
3383	4522	1.815421	GGCAATCGCAGTGATCCGT	60.815	57.895	0.00	0.00	41.24	4.69
3384	4523	1.522355	AGGCAATCGCAGTGATCCG	60.522	57.895	0.00	0.00	41.24	4.18
3390	4529	0.610174	TCTTCTCAGGCAATCGCAGT	59.390	50.000	0.00	0.00	41.24	4.40
3392	4531	1.676916	CCTTCTTCTCAGGCAATCGCA	60.677	52.381	0.00	0.00	41.24	5.10
3405	4544	7.095607	CGATATGTACAATAAGCCACCTTCTTC	60.096	40.741	0.00	0.00	32.47	2.87
3438	4577	1.611043	GCGAAGAACAAGATGCAAGC	58.389	50.000	0.00	0.00	0.00	4.01
3442	4581	3.569957	GTCGCGAAGAACAAGATGC	57.430	52.632	12.06	0.00	0.00	3.91

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.