AutoCloner

Multiple sequence alignment - TraesCS5B01G029300

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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	TraesCS5B01G029300	chr5B	100.000	3845	0	0	1	3845	29336446	29340290	0.000000e+00	7101.0
1	TraesCS5B01G029300	chr5B	87.581	1538	169	19	1283	2812	553725325	553726848	0.000000e+00	1762.0
2	TraesCS5B01G029300	chr5D	93.349	3894	124	47	1	3829	38722813	38726636	0.000000e+00	5631.0
3	TraesCS5B01G029300	chr5D	87.638	1537	170	17	1283	2812	453239006	453240529	0.000000e+00	1768.0
4	TraesCS5B01G029300	chr5A	91.984	3206	127	51	685	3845	27515723	27518843	0.000000e+00	4377.0
5	TraesCS5B01G029300	chr5A	86.792	1537	183	17	1283	2812	572021723	572023246	0.000000e+00	1696.0
6	TraesCS5B01G029300	chr5A	84.925	199	13	10	496	685	27515299	27515489	6.560000e-43	185.0
7	TraesCS5B01G029300	chr5A	90.541	74	5	2	184	255	703378693	703378620	3.160000e-16	97.1
8	TraesCS5B01G029300	chr5A	83.529	85	11	3	174	255	651754214	651754298	4.120000e-10	76.8
9	TraesCS5B01G029300	chr2D	76.923	1508	272	56	1364	2821	301379616	301378135	0.000000e+00	787.0
10	TraesCS5B01G029300	chr2D	96.552	87	2	1	294	379	529533049	529533135	4.000000e-30	143.0
11	TraesCS5B01G029300	chr2D	83.784	111	12	3	256	360	577160676	577160786	2.440000e-17	100.0
12	TraesCS5B01G029300	chr2D	86.420	81	8	3	179	256	8781407	8781487	6.840000e-13	86.1
13	TraesCS5B01G029300	chr2D	86.667	75	8	2	185	259	378756865	378756793	8.850000e-12	82.4
14	TraesCS5B01G029300	chr2D	86.076	79	8	3	181	256	434352446	434352524	8.850000e-12	82.4
15	TraesCS5B01G029300	chr2A	77.062	1382	261	43	1364	2712	378398063	378396705	0.000000e+00	745.0
16	TraesCS5B01G029300	chr2A	96.552	87	2	1	294	379	674025908	674025994	4.000000e-30	143.0
17	TraesCS5B01G029300	chr2A	92.537	67	5	0	294	360	715345344	715345410	3.160000e-16	97.1
18	TraesCS5B01G029300	chr2B	77.306	1247	237	37	1364	2578	363343701	363342469	0.000000e+00	693.0
19	TraesCS5B01G029300	chr2B	84.685	111	10	5	256	359	694062717	694062827	1.890000e-18	104.0
20	TraesCS5B01G029300	chr2B	94.030	67	3	1	2022	2087	240301581	240301647	2.440000e-17	100.0
21	TraesCS5B01G029300	chr2B	85.000	100	12	1	2127	2226	240301645	240301741	8.790000e-17	99.0
22	TraesCS5B01G029300	chr3A	80.882	340	49	12	3510	3845	502090957	502091284	1.770000e-63	254.0
23	TraesCS5B01G029300	chr3A	91.473	129	6	2	1498	1626	22236256	22236379	5.110000e-39	172.0
24	TraesCS5B01G029300	chr7D	91.139	79	3	3	185	259	204247274	204247196	1.890000e-18	104.0
25	TraesCS5B01G029300	chr1D	91.304	69	3	3	185	250	107217892	107217960	1.470000e-14	91.6
26	TraesCS5B01G029300	chr6D	83.495	103	10	4	256	351	388948347	388948449	5.290000e-14	89.8
27	TraesCS5B01G029300	chr6B	83.495	103	10	5	256	351	581853049	581853151	5.290000e-14	89.8
28	TraesCS5B01G029300	chr7B	82.105	95	12	5	170	259	634299387	634299293	4.120000e-10	76.8
29	TraesCS5B01G029300	chr6A	79.208	101	14	3	3507	3607	562462608	562462515	3.210000e-06	63.9
30	TraesCS5B01G029300	chrUn	94.595	37	2	0	294	330	367367484	367367520	1.490000e-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	TraesCS5B01G029300	chr5B	29336446	29340290	3844	False	7101	7101	100.0000	1	3845	1	chr5B.!!$F1	3844
1	TraesCS5B01G029300	chr5B	553725325	553726848	1523	False	1762	1762	87.5810	1283	2812	1	chr5B.!!$F2	1529
2	TraesCS5B01G029300	chr5D	38722813	38726636	3823	False	5631	5631	93.3490	1	3829	1	chr5D.!!$F1	3828
3	TraesCS5B01G029300	chr5D	453239006	453240529	1523	False	1768	1768	87.6380	1283	2812	1	chr5D.!!$F2	1529
4	TraesCS5B01G029300	chr5A	27515299	27518843	3544	False	2281	4377	88.4545	496	3845	2	chr5A.!!$F3	3349
5	TraesCS5B01G029300	chr5A	572021723	572023246	1523	False	1696	1696	86.7920	1283	2812	1	chr5A.!!$F1	1529
6	TraesCS5B01G029300	chr2D	301378135	301379616	1481	True	787	787	76.9230	1364	2821	1	chr2D.!!$R1	1457
7	TraesCS5B01G029300	chr2A	378396705	378398063	1358	True	745	745	77.0620	1364	2712	1	chr2A.!!$R1	1348
8	TraesCS5B01G029300	chr2B	363342469	363343701	1232	True	693	693	77.3060	1364	2578	1	chr2B.!!$R1	1214

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
945	1234	0.17576	TCGCCGGAGAAGAGAATTGG	59.824	55.0	5.05	0.0	0.0	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2936	3270	0.244994	TTTCTGCTCGTCCTCTGCTC	59.755	55.0	0.0	0.0	0.0	4.26	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
93	94	8.570068	AACCAGACTAACTAAACTTGTTTTGA	57.430	30.769	12.89	0.00	0.00	2.69
156	157	9.113838	GTCCATATGTCAAAGTATTGAACTGAT	57.886	33.333	1.24	0.00	46.66	2.90
173	174	8.651589	TGAACTGATCTATATAAACCGGAGAT	57.348	34.615	9.46	3.33	0.00	2.75
189	190	9.557061	AAACCGGAGATAAAAATCTAATACTCC	57.443	33.333	9.46	0.00	39.16	3.85
275	276	4.732285	ACTGAACACTAAATGAAGCACG	57.268	40.909	0.00	0.00	0.00	5.34
280	281	5.935206	TGAACACTAAATGAAGCACGGAATA	59.065	36.000	0.00	0.00	0.00	1.75
335	336	9.935241	TCATCTTAGATCAATCAAATAGCTACC	57.065	33.333	0.00	0.00	0.00	3.18
467	468	9.877222	ACTAATAAAAAGAAGAAAGAAGGGGAA	57.123	29.630	0.00	0.00	0.00	3.97
487	488	9.859152	AGGGGAAGAAATAATGAAAGAGAATAG	57.141	33.333	0.00	0.00	0.00	1.73
514	541	4.979204	CAGCATGCTGTTGGTTGG	57.021	55.556	34.76	11.09	39.10	3.77
529	561	1.896660	TTGGGAGCACTCGTTTGCC	60.897	57.895	7.28	0.72	44.14	4.52
557	589	2.413502	GCAACACGAGACACAACACAAA	60.414	45.455	0.00	0.00	0.00	2.83
560	592	5.197549	CAACACGAGACACAACACAAATAG	58.802	41.667	0.00	0.00	0.00	1.73
576	608	5.007626	CACAAATAGTAGTACGCGGGTAGTA	59.992	44.000	19.90	19.90	34.22	1.82
579	611	5.723672	ATAGTAGTACGCGGGTAGTAGTA	57.276	43.478	29.47	29.47	41.39	1.82
581	613	2.990066	AGTACGCGGGTAGTAGTAGT	57.010	50.000	17.52	0.00	30.46	2.73
582	614	2.555199	AGTACGCGGGTAGTAGTAGTG	58.445	52.381	17.52	0.00	30.46	2.74
583	615	2.168521	AGTACGCGGGTAGTAGTAGTGA	59.831	50.000	17.52	0.00	30.46	3.41
584	616	2.113860	ACGCGGGTAGTAGTAGTGAA	57.886	50.000	12.47	0.00	0.00	3.18
588	620	3.855950	CGCGGGTAGTAGTAGTGAAAAAG	59.144	47.826	0.00	0.00	0.00	2.27
633	665	3.517100	AGCATACATACATAGGCAGAGGG	59.483	47.826	0.00	0.00	34.30	4.30
635	667	4.020218	GCATACATACATAGGCAGAGGGAA	60.020	45.833	0.00	0.00	32.16	3.97
772	1041	1.795286	CGTTTCAACACTCTGCTCCTC	59.205	52.381	0.00	0.00	0.00	3.71
883	1167	1.687492	TCTTCTCCCCTCTCCTCTCA	58.313	55.000	0.00	0.00	0.00	3.27
884	1168	1.286553	TCTTCTCCCCTCTCCTCTCAC	59.713	57.143	0.00	0.00	0.00	3.51
886	1170	1.075600	CTCCCCTCTCCTCTCACCC	60.076	68.421	0.00	0.00	0.00	4.61
887	1171	2.443016	CCCCTCTCCTCTCACCCG	60.443	72.222	0.00	0.00	0.00	5.28
943	1232	0.179097	GCTCGCCGGAGAAGAGAATT	60.179	55.000	9.83	0.00	43.27	2.17
945	1234	0.175760	TCGCCGGAGAAGAGAATTGG	59.824	55.000	5.05	0.00	0.00	3.16
957	1246	1.153249	GAATTGGATCGGCCGGACA	60.153	57.895	27.83	18.85	40.66	4.02
976	1265	1.002544	CACCCGCCTTCTTCTTCTTCT	59.997	52.381	0.00	0.00	0.00	2.85
977	1266	1.700186	ACCCGCCTTCTTCTTCTTCTT	59.300	47.619	0.00	0.00	0.00	2.52
978	1267	2.904434	ACCCGCCTTCTTCTTCTTCTTA	59.096	45.455	0.00	0.00	0.00	2.10
1098	1387	4.699522	GCCAGCTCGGTCCGGTTT	62.700	66.667	12.29	0.00	36.97	3.27
1099	1388	2.032071	CCAGCTCGGTCCGGTTTT	59.968	61.111	12.29	0.00	0.00	2.43
1255	1544	4.441695	CCTCGCCGCAGAAGCAGA	62.442	66.667	0.00	0.00	42.27	4.26
1340	1641	1.597461	CCTTCGAGGAGGGGTTCAC	59.403	63.158	0.00	0.00	37.67	3.18
2220	2530	1.078426	CCCCAAGTACGCCAAGGAG	60.078	63.158	0.00	0.00	0.00	3.69
2763	3097	4.521062	GACATGCGGCTCGAGGCT	62.521	66.667	32.85	16.83	41.46	4.58
2864	3198	6.371548	CACTAATCGATTCCTTGGTTCTTTGA	59.628	38.462	15.25	0.00	0.00	2.69
2901	3235	0.820871	ATTGGTCCTCTCGCTCTCAC	59.179	55.000	0.00	0.00	0.00	3.51
2916	3250	0.108898	CTCACCACTCCGAGCTTCTG	60.109	60.000	0.00	0.00	0.00	3.02
2928	3262	1.002274	GCTTCTGGGAGGAGGAGGA	59.998	63.158	0.00	0.00	0.00	3.71
2929	3263	1.048160	GCTTCTGGGAGGAGGAGGAG	61.048	65.000	0.00	0.00	0.00	3.69
2931	3265	2.445654	CTGGGAGGAGGAGGAGGC	60.446	72.222	0.00	0.00	0.00	4.70
2932	3266	3.284251	TGGGAGGAGGAGGAGGCA	61.284	66.667	0.00	0.00	0.00	4.75
2933	3267	2.445654	GGGAGGAGGAGGAGGCAG	60.446	72.222	0.00	0.00	0.00	4.85
2934	3268	2.693017	GGAGGAGGAGGAGGCAGA	59.307	66.667	0.00	0.00	0.00	4.26
2935	3269	1.457455	GGAGGAGGAGGAGGCAGAG	60.457	68.421	0.00	0.00	0.00	3.35
2936	3270	1.457455	GAGGAGGAGGAGGCAGAGG	60.457	68.421	0.00	0.00	0.00	3.69
2988	3323	0.250901	GCTTTTCAGAGGGAGCCACA	60.251	55.000	0.00	0.00	0.00	4.17
2989	3324	1.528129	CTTTTCAGAGGGAGCCACAC	58.472	55.000	0.00	0.00	0.00	3.82
2990	3325	0.843309	TTTTCAGAGGGAGCCACACA	59.157	50.000	0.00	0.00	0.00	3.72
2991	3326	0.397941	TTTCAGAGGGAGCCACACAG	59.602	55.000	0.00	0.00	0.00	3.66
3024	3359	4.994756	AAGCGGTTGCCCCCAAGG	62.995	66.667	0.00	0.00	44.31	3.61
3069	3406	4.791411	GCGGTTACTCATCATCACTCTCTC	60.791	50.000	0.00	0.00	0.00	3.20
3070	3407	4.578516	CGGTTACTCATCATCACTCTCTCT	59.421	45.833	0.00	0.00	0.00	3.10
3128	3468	6.022107	ACCTTTTCACCTTTTACCCTTAGT	57.978	37.500	0.00	0.00	0.00	2.24
3129	3469	7.152942	ACCTTTTCACCTTTTACCCTTAGTA	57.847	36.000	0.00	0.00	0.00	1.82
3130	3470	7.000472	ACCTTTTCACCTTTTACCCTTAGTAC	59.000	38.462	0.00	0.00	0.00	2.73
3131	3471	6.999871	CCTTTTCACCTTTTACCCTTAGTACA	59.000	38.462	0.00	0.00	0.00	2.90
3132	3472	7.174426	CCTTTTCACCTTTTACCCTTAGTACAG	59.826	40.741	0.00	0.00	0.00	2.74
3181	3521	3.848978	ACTAGGTGAGTTTAGGGAGGT	57.151	47.619	0.00	0.00	33.13	3.85
3250	3600	7.175797	TGGACTCTGTTATTCTAGAGAGACAA	58.824	38.462	10.48	0.00	42.34	3.18
3251	3601	7.338196	TGGACTCTGTTATTCTAGAGAGACAAG	59.662	40.741	10.48	9.83	42.34	3.16
3482	3848	2.613977	CCAAACGCCTCTCTCTCATGTT	60.614	50.000	0.00	0.00	0.00	2.71
3494	3860	5.410746	TCTCTCTCATGTTTGACTGAATTGC	59.589	40.000	0.00	0.00	0.00	3.56
3558	3924	9.817809	TCTATACTAGCTGAACAGTAAAATTGG	57.182	33.333	0.00	0.00	31.35	3.16
3645	4013	0.865111	CGAGGTGCGTGTGAAATTCA	59.135	50.000	0.00	0.00	34.64	2.57
3750	4118	6.258287	TCACATGCCTGAAATTTGAGTTTTTG	59.742	34.615	3.91	0.00	0.00	2.44

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
63	64	6.985059	ACAAGTTTAGTTAGTCTGGTTCTCAC	59.015	38.462	0.00	0.00	0.00	3.51
112	113	2.446994	TGTGGACCCCAACCGAGT	60.447	61.111	0.00	0.00	34.18	4.18
115	116	2.032071	GACTGTGGACCCCAACCG	59.968	66.667	0.00	0.00	34.18	4.44
167	168	8.808092	AGAGGGAGTATTAGATTTTTATCTCCG	58.192	37.037	0.00	0.00	40.47	4.63
275	276	6.183360	CCATTTTTGCTGGCAATTTCTATTCC	60.183	38.462	8.86	0.00	35.70	3.01
280	281	4.067192	GTCCATTTTTGCTGGCAATTTCT	58.933	39.130	8.86	0.00	35.70	2.52
330	331	7.804843	TCTAGATTAGTTCAGTACAGGTAGC	57.195	40.000	0.00	0.00	0.00	3.58
335	336	8.472007	AGGGATTCTAGATTAGTTCAGTACAG	57.528	38.462	0.00	0.00	0.00	2.74
467	468	9.118300	CACAGCCTATTCTCTTTCATTATTTCT	57.882	33.333	0.00	0.00	0.00	2.52
468	469	8.348507	CCACAGCCTATTCTCTTTCATTATTTC	58.651	37.037	0.00	0.00	0.00	2.17
506	533	0.818040	AACGAGTGCTCCCAACCAAC	60.818	55.000	0.00	0.00	0.00	3.77
514	541	2.032681	AGGGCAAACGAGTGCTCC	59.967	61.111	10.65	11.19	46.91	4.70
557	589	4.608948	ACTACTACCCGCGTACTACTAT	57.391	45.455	4.92	0.00	0.00	2.12
560	592	3.491267	CACTACTACTACCCGCGTACTAC	59.509	52.174	4.92	0.00	0.00	2.73
576	608	6.295292	GCAATTTGGGGATCTTTTTCACTACT	60.295	38.462	0.00	0.00	0.00	2.57
579	611	4.263025	GGCAATTTGGGGATCTTTTTCACT	60.263	41.667	0.00	0.00	0.00	3.41
581	613	3.008923	GGGCAATTTGGGGATCTTTTTCA	59.991	43.478	0.00	0.00	0.00	2.69
582	614	3.609853	GGGCAATTTGGGGATCTTTTTC	58.390	45.455	0.00	0.00	0.00	2.29
583	615	2.308570	GGGGCAATTTGGGGATCTTTTT	59.691	45.455	0.00	0.00	0.00	1.94
584	616	1.915489	GGGGCAATTTGGGGATCTTTT	59.085	47.619	0.00	0.00	0.00	2.27
588	620	1.002792	TGGGGGCAATTTGGGGATC	59.997	57.895	0.00	0.00	0.00	3.36
641	673	5.388408	TCTTTTTCTTCTCGTCTCCCTAC	57.612	43.478	0.00	0.00	0.00	3.18
642	674	6.267014	TCTTTCTTTTTCTTCTCGTCTCCCTA	59.733	38.462	0.00	0.00	0.00	3.53
644	676	5.298347	TCTTTCTTTTTCTTCTCGTCTCCC	58.702	41.667	0.00	0.00	0.00	4.30
772	1041	4.371231	AAGGGACAGGGGAGGGGG	62.371	72.222	0.00	0.00	0.00	5.40
883	1167	2.903350	GCGTTGTGGGTTTCGGGT	60.903	61.111	0.00	0.00	0.00	5.28
884	1168	3.666253	GGCGTTGTGGGTTTCGGG	61.666	66.667	0.00	0.00	0.00	5.14
886	1170	0.386731	GATTGGCGTTGTGGGTTTCG	60.387	55.000	0.00	0.00	0.00	3.46
887	1171	0.671251	TGATTGGCGTTGTGGGTTTC	59.329	50.000	0.00	0.00	0.00	2.78
932	1221	2.488952	GGCCGATCCAATTCTCTTCTC	58.511	52.381	0.00	0.00	34.01	2.87
933	1222	1.202580	CGGCCGATCCAATTCTCTTCT	60.203	52.381	24.07	0.00	34.01	2.85
934	1223	1.221414	CGGCCGATCCAATTCTCTTC	58.779	55.000	24.07	0.00	34.01	2.87
935	1224	0.179045	CCGGCCGATCCAATTCTCTT	60.179	55.000	30.73	0.00	34.01	2.85
936	1225	1.048724	TCCGGCCGATCCAATTCTCT	61.049	55.000	30.73	0.00	34.01	3.10
957	1246	1.353091	AGAAGAAGAAGAAGGCGGGT	58.647	50.000	0.00	0.00	0.00	5.28
976	1265	4.499865	CGCTGATCCTCGGAAGAAGAATAA	60.500	45.833	0.00	0.00	41.32	1.40
977	1266	3.004839	CGCTGATCCTCGGAAGAAGAATA	59.995	47.826	0.00	0.00	41.32	1.75
978	1267	2.223923	CGCTGATCCTCGGAAGAAGAAT	60.224	50.000	0.00	0.00	41.32	2.40
1340	1641	1.746615	CGCTCCAGGACATTGTGGG	60.747	63.158	0.00	0.00	34.27	4.61
2220	2530	0.249073	CCCACATCATCTCCGACGAC	60.249	60.000	0.00	0.00	0.00	4.34
2763	3097	4.735132	GACGGCAGCTGCACGGTA	62.735	66.667	35.88	0.00	44.36	4.02
2901	3235	1.954362	CTCCCAGAAGCTCGGAGTGG	61.954	65.000	6.90	6.16	38.72	4.00
2916	3250	2.445654	CTGCCTCCTCCTCCTCCC	60.446	72.222	0.00	0.00	0.00	4.30
2928	3262	1.685421	GTCCTCTGCTCCTCTGCCT	60.685	63.158	0.00	0.00	0.00	4.75
2929	3263	2.899505	GTCCTCTGCTCCTCTGCC	59.100	66.667	0.00	0.00	0.00	4.85
2931	3265	2.003658	GCTCGTCCTCTGCTCCTCTG	62.004	65.000	0.00	0.00	0.00	3.35
2932	3266	1.752694	GCTCGTCCTCTGCTCCTCT	60.753	63.158	0.00	0.00	0.00	3.69
2933	3267	2.003658	CTGCTCGTCCTCTGCTCCTC	62.004	65.000	0.00	0.00	0.00	3.71
2934	3268	2.036414	TGCTCGTCCTCTGCTCCT	59.964	61.111	0.00	0.00	0.00	3.69
2935	3269	1.599606	TTCTGCTCGTCCTCTGCTCC	61.600	60.000	0.00	0.00	0.00	4.70
2936	3270	0.244994	TTTCTGCTCGTCCTCTGCTC	59.755	55.000	0.00	0.00	0.00	4.26
3024	3359	1.876156	GCTAACTGTATCCATGCCTGC	59.124	52.381	0.00	0.00	0.00	4.85
3025	3360	2.138320	CGCTAACTGTATCCATGCCTG	58.862	52.381	0.00	0.00	0.00	4.85
3026	3361	1.070758	CCGCTAACTGTATCCATGCCT	59.929	52.381	0.00	0.00	0.00	4.75
3027	3362	1.512926	CCGCTAACTGTATCCATGCC	58.487	55.000	0.00	0.00	0.00	4.40
3102	3439	8.060689	ACTAAGGGTAAAAGGTGAAAAGGTAAA	58.939	33.333	0.00	0.00	0.00	2.01
3103	3440	7.585440	ACTAAGGGTAAAAGGTGAAAAGGTAA	58.415	34.615	0.00	0.00	0.00	2.85
3128	3468	9.270707	ACCCTAACTAATTTACCATGTACTGTA	57.729	33.333	0.00	0.00	0.00	2.74
3129	3469	8.154420	ACCCTAACTAATTTACCATGTACTGT	57.846	34.615	0.00	0.00	0.00	3.55
3130	3470	9.760077	CTACCCTAACTAATTTACCATGTACTG	57.240	37.037	0.00	0.00	0.00	2.74
3131	3471	9.498039	ACTACCCTAACTAATTTACCATGTACT	57.502	33.333	0.00	0.00	0.00	2.73
3166	3506	3.382227	GCTCTCTACCTCCCTAAACTCAC	59.618	52.174	0.00	0.00	0.00	3.51
3167	3507	3.269906	AGCTCTCTACCTCCCTAAACTCA	59.730	47.826	0.00	0.00	0.00	3.41
3181	3521	0.036952	GCCACAGTGCAAGCTCTCTA	60.037	55.000	0.00	0.00	0.00	2.43
3229	3579	7.094508	TGCTTGTCTCTCTAGAATAACAGAG	57.905	40.000	0.00	0.00	39.77	3.35
3250	3600	2.291217	GGTTCAATTCCCCTCTCTTGCT	60.291	50.000	0.00	0.00	0.00	3.91
3251	3601	2.095461	GGTTCAATTCCCCTCTCTTGC	58.905	52.381	0.00	0.00	0.00	4.01
3482	3848	2.294233	GTGAGCAAGGCAATTCAGTCAA	59.706	45.455	0.00	0.00	0.00	3.18
3494	3860	5.745294	CGAATTGAATTATTGGTGAGCAAGG	59.255	40.000	2.75	0.00	0.00	3.61
3588	3954	3.006644	TGCATGCAAAAAGGCTTCATGTA	59.993	39.130	20.30	16.49	37.44	2.29
3591	3957	2.843401	TGCATGCAAAAAGGCTTCAT	57.157	40.000	20.30	0.00	34.04	2.57
3592	3958	2.102757	TCTTGCATGCAAAAAGGCTTCA	59.897	40.909	31.37	7.85	35.33	3.02
3593	3959	2.758009	TCTTGCATGCAAAAAGGCTTC	58.242	42.857	31.37	0.00	35.33	3.86
3594	3960	2.914695	TCTTGCATGCAAAAAGGCTT	57.085	40.000	31.37	0.00	35.33	4.35
3596	3962	1.129811	GCATCTTGCATGCAAAAAGGC	59.870	47.619	31.37	28.39	44.26	4.35
3645	4013	1.202806	CCTCCAATGTCGTATGCCCAT	60.203	52.381	0.00	0.00	0.00	4.00
3730	4098	6.536941	GGTAACAAAAACTCAAATTTCAGGCA	59.463	34.615	0.00	0.00	0.00	4.75

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.