AutoCloner

Multiple sequence alignment - TraesCS2B01G228400

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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	TraesCS2B01G228400	chr2B	100.000	4126	0	0	1	4126	222140955	222145080	0.000000e+00	7620.0
1	TraesCS2B01G228400	chr2B	97.766	761	13	1	3366	4126	222151165	222151921	0.000000e+00	1308.0
2	TraesCS2B01G228400	chr2B	96.978	761	23	0	3366	4126	234349738	234348978	0.000000e+00	1279.0
3	TraesCS2B01G228400	chr2B	96.978	761	23	0	3366	4126	234356583	234355823	0.000000e+00	1279.0
4	TraesCS2B01G228400	chr2B	96.606	766	26	0	3361	4126	238976809	238977574	0.000000e+00	1271.0
5	TraesCS2B01G228400	chr2B	96.723	763	24	1	3364	4126	800910937	800910176	0.000000e+00	1269.0
6	TraesCS2B01G228400	chr2B	96.719	762	23	1	3366	4125	227889460	227890221	0.000000e+00	1267.0
7	TraesCS2B01G228400	chr2B	90.909	44	2	1	276	317	99276709	99276752	1.600000e-04	58.4
8	TraesCS2B01G228400	chr2D	94.083	1369	47	10	570	1907	174321708	174323073	0.000000e+00	2049.0
9	TraesCS2B01G228400	chr2D	92.721	1154	72	4	2216	3358	174324520	174325672	0.000000e+00	1655.0
10	TraesCS2B01G228400	chr2D	85.928	803	102	10	2178	2970	174383047	174383848	0.000000e+00	846.0
11	TraesCS2B01G228400	chr2D	88.822	501	39	8	1	486	174321197	174321695	2.120000e-167	599.0
12	TraesCS2B01G228400	chr2D	84.437	604	44	19	574	1144	174331017	174331603	2.170000e-152	549.0
13	TraesCS2B01G228400	chr2D	83.541	401	63	3	1138	1537	174382061	174382459	5.040000e-99	372.0
14	TraesCS2B01G228400	chr2D	86.972	284	32	3	1632	1911	174382572	174382854	8.610000e-82	315.0
15	TraesCS2B01G228400	chr2D	80.247	405	52	13	14	396	174330197	174330595	3.140000e-71	279.0
16	TraesCS2B01G228400	chr2D	91.282	195	13	2	1936	2126	174323458	174323652	3.160000e-66	263.0
17	TraesCS2B01G228400	chr2A	92.050	1434	95	8	1941	3358	174027005	174028435	0.000000e+00	1999.0
18	TraesCS2B01G228400	chr2A	90.599	968	79	4	2396	3352	174195615	174196581	0.000000e+00	1273.0
19	TraesCS2B01G228400	chr2A	84.822	1153	141	20	2178	3309	174245624	174246763	0.000000e+00	1129.0
20	TraesCS2B01G228400	chr2A	95.079	630	30	1	681	1309	174025569	174026198	0.000000e+00	990.0
21	TraesCS2B01G228400	chr2A	82.929	990	129	26	574	1545	174244077	174245044	0.000000e+00	856.0
22	TraesCS2B01G228400	chr2A	93.673	569	28	1	1347	1907	174026195	174026763	0.000000e+00	845.0
23	TraesCS2B01G228400	chr2A	85.264	794	100	9	765	1545	174038864	174039653	0.000000e+00	802.0
24	TraesCS2B01G228400	chr2A	85.157	667	40	26	1	651	174023645	174024268	2.710000e-176	628.0
25	TraesCS2B01G228400	chr2A	88.380	284	28	4	1632	1911	174245147	174245429	1.840000e-88	337.0
26	TraesCS2B01G228400	chr2A	80.861	418	54	13	1	396	174030642	174031055	5.180000e-79	305.0
27	TraesCS2B01G228400	chr2A	85.866	283	35	5	1632	1911	174039757	174040037	3.120000e-76	296.0
28	TraesCS2B01G228400	chr2A	87.121	264	30	4	1	261	174230892	174231154	3.120000e-76	296.0
29	TraesCS2B01G228400	chr2A	89.177	231	21	3	2178	2404	174040231	174040461	6.750000e-73	285.0
30	TraesCS2B01G228400	chr2A	91.935	62	5	0	574	635	174031476	174031537	2.040000e-13	87.9
31	TraesCS2B01G228400	chr2A	87.037	54	5	2	287	338	119341900	119341847	4.450000e-05	60.2
32	TraesCS2B01G228400	chr5B	97.120	764	21	1	3363	4125	22625350	22624587	0.000000e+00	1288.0
33	TraesCS2B01G228400	chr5B	97.109	761	21	1	3366	4126	683373207	683373966	0.000000e+00	1282.0
34	TraesCS2B01G228400	chr5B	95.122	41	2	0	277	317	557903643	557903603	9.570000e-07	65.8
35	TraesCS2B01G228400	chr1B	96.842	760	24	0	3366	4125	290315801	290316560	0.000000e+00	1271.0
36	TraesCS2B01G228400	chr3D	81.925	935	159	7	2223	3152	307881620	307882549	0.000000e+00	782.0
37	TraesCS2B01G228400	chr3D	85.246	61	3	4	259	317	578738172	578738228	1.600000e-04	58.4
38	TraesCS2B01G228400	chr3B	80.515	970	179	7	2223	3190	413864067	413863106	0.000000e+00	736.0
39	TraesCS2B01G228400	chr3B	84.231	260	38	2	1635	1891	413865386	413865127	2.460000e-62	250.0
40	TraesCS2B01G228400	chr3A	80.662	936	169	9	2223	3152	427193146	427194075	0.000000e+00	715.0
41	TraesCS2B01G228400	chr6D	77.118	909	195	12	2222	3127	453651419	453650521	7.910000e-142	514.0
42	TraesCS2B01G228400	chr6D	85.938	64	7	1	276	337	165527193	165527130	2.660000e-07	67.6
43	TraesCS2B01G228400	chr6D	85.938	64	7	1	276	337	225352811	225352874	2.660000e-07	67.6
44	TraesCS2B01G228400	chr1A	77.041	845	169	17	2223	3060	534051259	534050433	2.910000e-126	462.0
45	TraesCS2B01G228400	chr7D	83.333	66	8	2	276	338	16185427	16185362	1.600000e-04	58.4

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	TraesCS2B01G228400	chr2B	222140955	222145080	4125	False	7620.00	7620	100.000000	1	4126	1	chr2B.!!$F2	4125
1	TraesCS2B01G228400	chr2B	222151165	222151921	756	False	1308.00	1308	97.766000	3366	4126	1	chr2B.!!$F3	760
2	TraesCS2B01G228400	chr2B	234348978	234349738	760	True	1279.00	1279	96.978000	3366	4126	1	chr2B.!!$R1	760
3	TraesCS2B01G228400	chr2B	234355823	234356583	760	True	1279.00	1279	96.978000	3366	4126	1	chr2B.!!$R2	760
4	TraesCS2B01G228400	chr2B	238976809	238977574	765	False	1271.00	1271	96.606000	3361	4126	1	chr2B.!!$F5	765
5	TraesCS2B01G228400	chr2B	800910176	800910937	761	True	1269.00	1269	96.723000	3364	4126	1	chr2B.!!$R3	762
6	TraesCS2B01G228400	chr2B	227889460	227890221	761	False	1267.00	1267	96.719000	3366	4125	1	chr2B.!!$F4	759
7	TraesCS2B01G228400	chr2D	174321197	174325672	4475	False	1141.50	2049	91.727000	1	3358	4	chr2D.!!$F1	3357
8	TraesCS2B01G228400	chr2D	174382061	174383848	1787	False	511.00	846	85.480333	1138	2970	3	chr2D.!!$F3	1832
9	TraesCS2B01G228400	chr2D	174330197	174331603	1406	False	414.00	549	82.342000	14	1144	2	chr2D.!!$F2	1130
10	TraesCS2B01G228400	chr2A	174195615	174196581	966	False	1273.00	1273	90.599000	2396	3352	1	chr2A.!!$F1	956
11	TraesCS2B01G228400	chr2A	174023645	174031537	7892	False	809.15	1999	89.792500	1	3358	6	chr2A.!!$F3	3357
12	TraesCS2B01G228400	chr2A	174244077	174246763	2686	False	774.00	1129	85.377000	574	3309	3	chr2A.!!$F5	2735
13	TraesCS2B01G228400	chr2A	174038864	174040461	1597	False	461.00	802	86.769000	765	2404	3	chr2A.!!$F4	1639
14	TraesCS2B01G228400	chr5B	22624587	22625350	763	True	1288.00	1288	97.120000	3363	4125	1	chr5B.!!$R1	762
15	TraesCS2B01G228400	chr5B	683373207	683373966	759	False	1282.00	1282	97.109000	3366	4126	1	chr5B.!!$F1	760
16	TraesCS2B01G228400	chr1B	290315801	290316560	759	False	1271.00	1271	96.842000	3366	4125	1	chr1B.!!$F1	759
17	TraesCS2B01G228400	chr3D	307881620	307882549	929	False	782.00	782	81.925000	2223	3152	1	chr3D.!!$F1	929
18	TraesCS2B01G228400	chr3B	413863106	413865386	2280	True	493.00	736	82.373000	1635	3190	2	chr3B.!!$R1	1555
19	TraesCS2B01G228400	chr3A	427193146	427194075	929	False	715.00	715	80.662000	2223	3152	1	chr3A.!!$F1	929
20	TraesCS2B01G228400	chr6D	453650521	453651419	898	True	514.00	514	77.118000	2222	3127	1	chr6D.!!$R2	905
21	TraesCS2B01G228400	chr1A	534050433	534051259	826	True	462.00	462	77.041000	2223	3060	1	chr1A.!!$R1	837

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
717	2323	3.334691	TCACATTGTTACTGGCAGTAGC	58.665	45.455	28.17	28.17	41.10	3.58	F
1415	3047	1.001378	CGGCCACTTTGAAAAGGTCAG	60.001	52.381	2.24	0.00	40.31	3.51	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1584	3256	0.965866	TGATGTTCGCTCGGAGGACT	60.966	55.0	7.2	0.0	0.0	3.85	R
3253	6870	0.886043	GTACGACAACCACCAACCCC	60.886	60.0	0.0	0.0	0.0	4.95	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
96	98	3.440173	GTGACGATTTCATGAACCATGGT	59.560	43.478	13.00	13.00	41.66	3.55
123	125	4.393062	CAGGTATCGAAGTGCTTGTCAATT	59.607	41.667	0.00	0.00	35.44	2.32
130	133	4.380678	CGAAGTGCTTGTCAATTGAATGTG	59.619	41.667	10.35	2.43	32.52	3.21
337	350	6.761099	TTTATGTAAGCTCGGCCAAATTTA	57.239	33.333	2.24	0.00	0.00	1.40
338	351	4.632538	ATGTAAGCTCGGCCAAATTTAC	57.367	40.909	2.24	6.89	0.00	2.01
348	363	5.071370	TCGGCCAAATTTACAAGGTCTTTA	58.929	37.500	2.24	0.00	0.00	1.85
415	437	7.756395	ATGAATGACATGAGTGAGTTTCTTT	57.244	32.000	0.00	0.00	37.87	2.52
477	504	6.260936	AGAAACTCACTCATGTCATTCGTTTT	59.739	34.615	0.00	0.00	0.00	2.43
478	505	6.377327	AACTCACTCATGTCATTCGTTTTT	57.623	33.333	0.00	0.00	0.00	1.94
479	506	5.990408	ACTCACTCATGTCATTCGTTTTTC	58.010	37.500	0.00	0.00	0.00	2.29
480	507	5.760253	ACTCACTCATGTCATTCGTTTTTCT	59.240	36.000	0.00	0.00	0.00	2.52
481	508	6.260936	ACTCACTCATGTCATTCGTTTTTCTT	59.739	34.615	0.00	0.00	0.00	2.52
482	509	7.026631	TCACTCATGTCATTCGTTTTTCTTT	57.973	32.000	0.00	0.00	0.00	2.52
548	575	6.694877	TTGTGTACACCTATCAGCTAGTAG	57.305	41.667	22.91	0.00	0.00	2.57
551	578	6.318144	TGTGTACACCTATCAGCTAGTAGTTC	59.682	42.308	22.91	0.00	0.00	3.01
717	2323	3.334691	TCACATTGTTACTGGCAGTAGC	58.665	45.455	28.17	28.17	41.10	3.58
740	2346	5.779922	CACTAGTACTACTTGCACCTTGAA	58.220	41.667	0.00	0.00	0.00	2.69
774	2380	6.952083	GTCACCGCTTTTAGTTTAACTAATCG	59.048	38.462	16.93	17.87	40.08	3.34
1122	2754	2.943369	ATTTGCTGTGGTGGCACCCA	62.943	55.000	32.61	26.26	39.55	4.51
1407	3039	3.452474	CAACAAATTCGGCCACTTTGAA	58.548	40.909	21.85	9.92	34.69	2.69
1415	3047	1.001378	CGGCCACTTTGAAAAGGTCAG	60.001	52.381	2.24	0.00	40.31	3.51
1425	3057	1.170290	AAAAGGTCAGGTTTCCGCCG	61.170	55.000	0.00	0.00	0.00	6.46
1488	3120	2.874701	CGAGAAATGGGTCAAGCATAGG	59.125	50.000	0.00	0.00	0.00	2.57
1491	3123	3.782523	AGAAATGGGTCAAGCATAGGAGA	59.217	43.478	0.00	0.00	0.00	3.71
1553	3196	7.218204	GGTATTTGTAATCGTTTCATCAAGCAC	59.782	37.037	0.00	0.00	0.00	4.40
1554	3197	4.320667	TGTAATCGTTTCATCAAGCACG	57.679	40.909	0.00	0.00	0.00	5.34
1555	3198	3.991121	TGTAATCGTTTCATCAAGCACGA	59.009	39.130	0.00	0.00	45.12	4.35
1584	3256	7.908827	TTTACAGGAATTAAGTGCGTGATTA	57.091	32.000	0.00	0.00	0.00	1.75
1597	3269	1.022735	GTGATTAGTCCTCCGAGCGA	58.977	55.000	0.00	0.00	0.00	4.93
1611	3283	5.220854	CCTCCGAGCGAACATCATTTAATTT	60.221	40.000	0.00	0.00	0.00	1.82
1663	3335	3.058160	ATGCTGCCAGCGTTGTCC	61.058	61.111	12.80	0.00	46.26	4.02
1900	3578	1.123077	ACTTGTGAGTCAGCACCTCA	58.877	50.000	0.00	0.00	37.99	3.86
1907	3585	2.683362	TGAGTCAGCACCTCATAGTACG	59.317	50.000	0.00	0.00	34.12	3.67
1919	3960	7.536855	CACCTCATAGTACGAGTTAAACTTCT	58.463	38.462	0.00	0.00	0.00	2.85
1921	3962	8.242739	ACCTCATAGTACGAGTTAAACTTCTTC	58.757	37.037	0.00	0.00	0.00	2.87
1922	3963	8.460428	CCTCATAGTACGAGTTAAACTTCTTCT	58.540	37.037	0.00	0.00	0.00	2.85
1923	3964	9.843334	CTCATAGTACGAGTTAAACTTCTTCTT	57.157	33.333	0.00	0.00	0.00	2.52
1973	4014	9.685828	TCTAAAATTATTGTTTTTGGAACGGAG	57.314	29.630	0.00	0.00	32.70	4.63
1993	4034	4.323257	GGAGGGAGTATTCGTCTTTTCCAA	60.323	45.833	0.00	0.00	0.00	3.53
2019	4063	7.881775	AAGTTTCAAGATACAAACTTCCTGT	57.118	32.000	4.35	0.00	45.54	4.00
2059	4103	4.761739	AGCATCGATTTTTCTTGTGAGGAA	59.238	37.500	0.00	0.00	0.00	3.36
2127	4885	9.908747	AATACTGATGTAGAGTAACACTAGAGT	57.091	33.333	0.00	0.00	30.75	3.24
2139	5436	7.280356	AGTAACACTAGAGTCCATGTTTTGTT	58.720	34.615	8.95	0.00	36.67	2.83
2342	5929	7.938715	CAAGCTATGCAAGAAGGAGAAAATAT	58.061	34.615	0.00	0.00	0.00	1.28
2596	6184	6.463995	AAAACAAACTTGAGTATGAAGGCA	57.536	33.333	0.00	0.00	31.81	4.75
2645	6235	7.013750	TGCTGTGTTGTTTACTTGATTCCATTA	59.986	33.333	0.00	0.00	0.00	1.90
2828	6433	3.055094	GTGTTCTCATTGAGCTTCCCCTA	60.055	47.826	8.89	0.00	0.00	3.53
2851	6456	2.040545	TGTTAATGAACCATGACCCGGT	59.959	45.455	0.00	0.00	38.85	5.28
2869	6474	2.609737	CGGTTATATGGGGAAGAGACGC	60.610	54.545	0.00	0.00	0.00	5.19
2908	6513	1.003233	GAGGTTCACCAACGGGATCTT	59.997	52.381	0.00	0.00	38.89	2.40
2912	6517	0.323629	TCACCAACGGGATCTTCCAC	59.676	55.000	0.00	0.00	38.64	4.02
2939	6544	2.426024	CAAGAATCCTGGTGCATTCCTG	59.574	50.000	0.00	0.00	30.41	3.86
3090	6696	0.940126	CATTAGACTGATGCGCCCAC	59.060	55.000	4.18	0.00	0.00	4.61
3224	6841	3.007940	TGGGATTCAGACTTCACGTGAAT	59.992	43.478	29.79	19.64	42.34	2.57
3255	6872	6.730960	TTGTGTCTTTACTATTAAAGCGGG	57.269	37.500	7.53	0.00	42.80	6.13
3271	6888	1.451072	GGGGTTGGTGGTTGTCGTA	59.549	57.895	0.00	0.00	0.00	3.43
3272	6889	0.886043	GGGGTTGGTGGTTGTCGTAC	60.886	60.000	0.00	0.00	0.00	3.67
3299	6917	1.548357	CCACCCACTCAGTCCTCCAG	61.548	65.000	0.00	0.00	0.00	3.86
3326	6950	9.716531	ATATATGCTATATCACCATGCACATAC	57.283	33.333	0.00	0.00	36.44	2.39
3342	6966	3.582647	CACATACATGGTCCTAGCCCATA	59.417	47.826	10.79	0.00	40.76	2.74
3358	6982	1.132262	CCATAAAAACTCCGCGCATGT	59.868	47.619	8.75	0.00	0.00	3.21
3359	6983	2.176369	CATAAAAACTCCGCGCATGTG	58.824	47.619	8.75	0.66	0.00	3.21
3360	6984	0.109964	TAAAAACTCCGCGCATGTGC	60.110	50.000	21.37	21.37	37.78	4.57
3361	6985	1.795170	AAAAACTCCGCGCATGTGCT	61.795	50.000	27.32	7.30	39.32	4.40
3723	8066	5.071519	ACAACTATGAGATTATGCAGCTCCT	59.928	40.000	0.00	0.00	0.00	3.69

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
96	98	5.105513	TGACAAGCACTTCGATACCTGATTA	60.106	40.000	0.00	0.00	0.00	1.75
123	125	7.177041	TGGATTCTCATTGACAATTCACATTCA	59.823	33.333	0.00	0.00	0.00	2.57
130	133	6.694411	CGGATTTGGATTCTCATTGACAATTC	59.306	38.462	0.00	0.00	0.00	2.17
323	336	1.544246	ACCTTGTAAATTTGGCCGAGC	59.456	47.619	0.00	0.00	0.00	5.03
337	350	7.068716	AGTGAAGCTTTTCAATAAAGACCTTGT	59.931	33.333	0.00	0.00	32.04	3.16
338	351	7.428826	AGTGAAGCTTTTCAATAAAGACCTTG	58.571	34.615	0.00	0.00	32.04	3.61
448	473	3.059884	TGACATGAGTGAGTTTCTTCGC	58.940	45.455	0.00	0.00	0.00	4.70
477	504	4.644685	CCACACAGGGAAAGAGAAAAAGAA	59.355	41.667	0.00	0.00	0.00	2.52
478	505	4.207165	CCACACAGGGAAAGAGAAAAAGA	58.793	43.478	0.00	0.00	0.00	2.52
479	506	3.954258	ACCACACAGGGAAAGAGAAAAAG	59.046	43.478	0.00	0.00	43.89	2.27
480	507	3.951680	GACCACACAGGGAAAGAGAAAAA	59.048	43.478	0.00	0.00	43.89	1.94
481	508	3.202151	AGACCACACAGGGAAAGAGAAAA	59.798	43.478	0.00	0.00	43.89	2.29
482	509	2.777692	AGACCACACAGGGAAAGAGAAA	59.222	45.455	0.00	0.00	43.89	2.52
622	941	1.901650	GCGCGTGACTTTCCTTCCAG	61.902	60.000	8.43	0.00	0.00	3.86
717	2323	5.386958	TCAAGGTGCAAGTAGTACTAGTG	57.613	43.478	11.04	9.62	32.88	2.74
774	2380	0.464373	TGAAGATCCGATTGGCAGGC	60.464	55.000	0.00	0.00	34.14	4.85
1407	3039	1.599797	CGGCGGAAACCTGACCTTT	60.600	57.895	0.00	0.00	0.00	3.11
1425	3057	3.745803	GCAAGCAGCCTGGACAGC	61.746	66.667	0.00	0.00	37.23	4.40
1488	3120	2.693267	ACGCAGGGTTAAGGATTCTC	57.307	50.000	0.00	0.00	0.00	2.87
1491	3123	1.353022	TGGAACGCAGGGTTAAGGATT	59.647	47.619	2.20	0.00	39.50	3.01
1584	3256	0.965866	TGATGTTCGCTCGGAGGACT	60.966	55.000	7.20	0.00	0.00	3.85
1663	3335	1.670406	AGGCTCTTCGCAGCTTGTG	60.670	57.895	0.00	0.00	41.67	3.33
1680	3352	3.119291	GACTGCGTCCATCTATTGACAG	58.881	50.000	0.00	0.00	0.00	3.51
1749	3421	4.734398	ATGACATCTCCAGTGAGTCTTC	57.266	45.455	0.00	0.00	39.75	2.87
1955	3996	4.076394	CTCCCTCCGTTCCAAAAACAATA	58.924	43.478	0.00	0.00	0.00	1.90
1969	4010	3.445857	GAAAAGACGAATACTCCCTCCG	58.554	50.000	0.00	0.00	0.00	4.63
1973	4014	5.952526	TTTTGGAAAAGACGAATACTCCC	57.047	39.130	0.00	0.00	0.00	4.30
2019	4063	6.223120	TCGATGCTAGCATATTAGCTTTTGA	58.777	36.000	29.64	12.13	43.70	2.69
2127	4885	2.487762	GCTCGGATCAACAAAACATGGA	59.512	45.455	0.00	0.00	0.00	3.41
2139	5436	6.971726	TTATTTAAGGTAGAGCTCGGATCA	57.028	37.500	8.37	0.00	0.00	2.92
2280	5867	7.862372	CCAATTAAACCATGTAGAATGGATTCG	59.138	37.037	11.25	0.00	41.64	3.34
2342	5929	1.002430	AGCCGAGCAAGTCATCTTTGA	59.998	47.619	0.00	0.00	0.00	2.69
2596	6184	5.924475	CTCACTGTTTTGAGTCGGTTAAT	57.076	39.130	0.00	0.00	38.61	1.40
2828	6433	3.699038	CCGGGTCATGGTTCATTAACAAT	59.301	43.478	0.00	0.00	37.34	2.71
2851	6456	3.035363	TGTGCGTCTCTTCCCCATATAA	58.965	45.455	0.00	0.00	0.00	0.98
2869	6474	1.081892	CTCCGGCTTGAACTCATGTG	58.918	55.000	0.00	0.00	0.00	3.21
2908	6513	1.079405	GGATTCTTGGACGCGTGGA	60.079	57.895	20.70	6.60	0.00	4.02
2912	6517	1.079127	ACCAGGATTCTTGGACGCG	60.079	57.895	20.68	3.53	0.00	6.01
2939	6544	1.305718	TGGCCCCCAACTAAATGGC	60.306	57.895	0.00	0.00	39.26	4.40
3090	6696	2.952783	GATTTGCGCGCCATGCAG	60.953	61.111	30.77	0.00	46.97	4.41
3253	6870	0.886043	GTACGACAACCACCAACCCC	60.886	60.000	0.00	0.00	0.00	4.95
3255	6872	1.223417	CCGTACGACAACCACCAACC	61.223	60.000	18.76	0.00	0.00	3.77
3299	6917	8.843885	ATGTGCATGGTGATATAGCATATATC	57.156	34.615	9.05	9.05	45.28	1.63
3342	6966	1.371635	GCACATGCGCGGAGTTTTT	60.372	52.632	8.83	0.00	0.00	1.94
3358	6982	5.457686	AGGGCATATTTCCTTCATAAAGCA	58.542	37.500	0.00	0.00	0.00	3.91
3359	6983	6.942576	TCTAGGGCATATTTCCTTCATAAAGC	59.057	38.462	0.00	0.00	34.75	3.51
3360	6984	7.609532	CCTCTAGGGCATATTTCCTTCATAAAG	59.390	40.741	0.00	0.00	34.75	1.85
3361	6985	7.461749	CCTCTAGGGCATATTTCCTTCATAAA	58.538	38.462	0.00	0.00	34.75	1.40
3723	8066	3.207778	CAAAGTGTTCCTCCGGTAAACA	58.792	45.455	0.00	8.12	0.00	2.83
3773	8979	6.384305	ACCTGTAGAGCACCTTTATAATCACT	59.616	38.462	0.00	0.00	0.00	3.41

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.