AutoCloner

Multiple sequence alignment - TraesCS3B01G034000

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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	TraesCS3B01G034000	chr3B	100.000	2264	0	0	1	2264	16203482	16201219	0.000000e+00	4181.0
1	TraesCS3B01G034000	chr3B	87.500	72	8	1	1933	2004	40991198	40991128	5.180000e-12	82.4
2	TraesCS3B01G034000	chr2B	93.652	1985	76	24	1	1959	579908135	579910095	0.000000e+00	2922.0
3	TraesCS3B01G034000	chr2B	92.865	1780	91	17	1	1753	47387777	47386007	0.000000e+00	2551.0
4	TraesCS3B01G034000	chr2B	91.066	347	25	2	1911	2251	102804061	102804407	4.400000e-127	464.0
5	TraesCS3B01G034000	chr2B	94.834	271	14	0	1912	2182	102804215	102804485	7.480000e-115	424.0
6	TraesCS3B01G034000	chr2B	87.761	335	35	1	1910	2244	579910127	579910455	9.810000e-104	387.0
7	TraesCS3B01G034000	chr7B	92.823	1867	97	17	1	1830	27326584	27328450	0.000000e+00	2671.0
8	TraesCS3B01G034000	chr5B	92.555	1867	102	15	1	1830	428831267	428833133	0.000000e+00	2643.0
9	TraesCS3B01G034000	chr5B	92.501	1867	103	15	1	1830	428825816	428827682	0.000000e+00	2638.0
10	TraesCS3B01G034000	chr5B	92.774	1204	53	15	659	1830	578836897	578835696	0.000000e+00	1711.0
11	TraesCS3B01G034000	chr5B	94.395	339	19	0	1911	2249	641181180	641180842	2.580000e-144	521.0
12	TraesCS3B01G034000	chr5B	90.909	286	19	2	1973	2251	641181272	641180987	5.900000e-101	377.0
13	TraesCS3B01G034000	chr5B	90.345	290	20	3	1967	2250	16030358	16030645	7.640000e-100	374.0
14	TraesCS3B01G034000	chr5B	90.681	279	18	3	1911	2183	578835477	578835201	4.600000e-97	364.0
15	TraesCS3B01G034000	chr5B	89.180	305	8	12	1533	1812	16030056	16030360	7.690000e-95	357.0
16	TraesCS3B01G034000	chr5B	90.741	270	17	3	1917	2180	16030460	16030727	9.950000e-94	353.0
17	TraesCS3B01G034000	chr6A	92.493	1865	93	19	1	1830	592020692	592018840	0.000000e+00	2625.0
18	TraesCS3B01G034000	chr6A	92.027	1781	109	19	1	1753	74992223	74990448	0.000000e+00	2471.0
19	TraesCS3B01G034000	chr6B	92.374	1862	107	15	1	1830	687514429	687512571	0.000000e+00	2619.0
20	TraesCS3B01G034000	chr6B	91.191	1873	114	27	1	1830	650646695	650644831	0.000000e+00	2497.0
21	TraesCS3B01G034000	chr6B	92.233	1751	106	14	1	1723	661051615	661053363	0.000000e+00	2453.0
22	TraesCS3B01G034000	chr1B	94.213	1607	90	3	1	1605	357902161	357900556	0.000000e+00	2449.0
23	TraesCS3B01G034000	chr1B	93.363	1341	51	14	659	1961	623645811	623647151	0.000000e+00	1949.0
24	TraesCS3B01G034000	chr1B	92.063	252	17	1	2000	2251	623647118	623647366	3.580000e-93	351.0
25	TraesCS3B01G034000	chr4B	92.163	1493	75	19	581	2033	598448373	598446883	0.000000e+00	2071.0
26	TraesCS3B01G034000	chr2D	90.834	1211	69	18	659	1828	641205464	641204255	0.000000e+00	1583.0
27	TraesCS3B01G034000	chr7D	88.834	1209	90	21	581	1753	16799120	16797921	0.000000e+00	1443.0
28	TraesCS3B01G034000	chr7D	92.833	600	17	11	1257	1830	21073387	21072788	0.000000e+00	846.0
29	TraesCS3B01G034000	chr7D	96.341	82	3	0	1827	1908	21072727	21072646	3.920000e-28	135.0

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	TraesCS3B01G034000	chr3B	16201219	16203482	2263	True	4181.000000	4181	100.000000	1	2264	1	chr3B.!!$R1	2263
1	TraesCS3B01G034000	chr2B	47386007	47387777	1770	True	2551.000000	2551	92.865000	1	1753	1	chr2B.!!$R1	1752
2	TraesCS3B01G034000	chr2B	579908135	579910455	2320	False	1654.500000	2922	90.706500	1	2244	2	chr2B.!!$F2	2243
3	TraesCS3B01G034000	chr7B	27326584	27328450	1866	False	2671.000000	2671	92.823000	1	1830	1	chr7B.!!$F1	1829
4	TraesCS3B01G034000	chr5B	428825816	428833133	7317	False	2640.500000	2643	92.528000	1	1830	2	chr5B.!!$F2	1829
5	TraesCS3B01G034000	chr5B	578835201	578836897	1696	True	1037.500000	1711	91.727500	659	2183	2	chr5B.!!$R1	1524
6	TraesCS3B01G034000	chr5B	16030056	16030727	671	False	361.333333	374	90.088667	1533	2250	3	chr5B.!!$F1	717
7	TraesCS3B01G034000	chr6A	592018840	592020692	1852	True	2625.000000	2625	92.493000	1	1830	1	chr6A.!!$R2	1829
8	TraesCS3B01G034000	chr6A	74990448	74992223	1775	True	2471.000000	2471	92.027000	1	1753	1	chr6A.!!$R1	1752
9	TraesCS3B01G034000	chr6B	687512571	687514429	1858	True	2619.000000	2619	92.374000	1	1830	1	chr6B.!!$R2	1829
10	TraesCS3B01G034000	chr6B	650644831	650646695	1864	True	2497.000000	2497	91.191000	1	1830	1	chr6B.!!$R1	1829
11	TraesCS3B01G034000	chr6B	661051615	661053363	1748	False	2453.000000	2453	92.233000	1	1723	1	chr6B.!!$F1	1722
12	TraesCS3B01G034000	chr1B	357900556	357902161	1605	True	2449.000000	2449	94.213000	1	1605	1	chr1B.!!$R1	1604
13	TraesCS3B01G034000	chr1B	623645811	623647366	1555	False	1150.000000	1949	92.713000	659	2251	2	chr1B.!!$F1	1592
14	TraesCS3B01G034000	chr4B	598446883	598448373	1490	True	2071.000000	2071	92.163000	581	2033	1	chr4B.!!$R1	1452
15	TraesCS3B01G034000	chr2D	641204255	641205464	1209	True	1583.000000	1583	90.834000	659	1828	1	chr2D.!!$R1	1169
16	TraesCS3B01G034000	chr7D	16797921	16799120	1199	True	1443.000000	1443	88.834000	581	1753	1	chr7D.!!$R1	1172
17	TraesCS3B01G034000	chr7D	21072646	21073387	741	True	490.500000	846	94.587000	1257	1908	2	chr7D.!!$R2	651

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
578	580	0.033504	GGTCGAGGAAGCACAAGTGA	59.966	55.0	4.04	0.0	0.0	3.41	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1620	7181	0.034198	TCGATGTCGGTGCCTTTTCA	59.966	50.0	2.25	0.0	40.29	2.69	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
49	50	4.865925	CACGAGACGGTTTTCAATATGGTA	59.134	41.667	0.00	0.00	0.00	3.25
88	89	0.827925	TCTGAAGACTCGGTGGTGCT	60.828	55.000	0.00	0.00	0.00	4.40
125	126	4.796606	AGTAAGTATCATTGGCCATGCTT	58.203	39.130	6.09	9.61	32.13	3.91
361	363	4.140447	AGAGGTTCAGGGGTGATATGGATA	60.140	45.833	0.00	0.00	0.00	2.59
446	448	2.050836	ATCAACTGTGGGGTGTGCGA	62.051	55.000	0.00	0.00	33.62	5.10
578	580	0.033504	GGTCGAGGAAGCACAAGTGA	59.966	55.000	4.04	0.00	0.00	3.41
579	581	1.140816	GTCGAGGAAGCACAAGTGAC	58.859	55.000	4.04	0.00	0.00	3.67
587	589	0.107456	AGCACAAGTGACAGAGGTGG	59.893	55.000	4.04	0.00	0.00	4.61
588	590	0.179045	GCACAAGTGACAGAGGTGGT	60.179	55.000	4.04	0.00	0.00	4.16
598	600	2.147387	AGAGGTGGTGGTGGTGGTC	61.147	63.158	0.00	0.00	0.00	4.02
601	603	2.509651	GGTGGTGGTGGTGGTCGTA	61.510	63.158	0.00	0.00	0.00	3.43
606	608	1.608336	TGGTGGTGGTCGTAGAGGG	60.608	63.158	0.00	0.00	36.95	4.30
610	612	2.772691	GGTGGTCGTAGAGGGAGCG	61.773	68.421	0.00	0.00	36.95	5.03
617	619	1.811679	GTAGAGGGAGCGCAAGTGC	60.812	63.158	11.47	0.00	41.68	4.40
625	627	3.369381	AGCGCAAGTGCTATAGGTG	57.631	52.632	11.47	0.00	45.14	4.00
626	628	0.811616	AGCGCAAGTGCTATAGGTGC	60.812	55.000	11.47	2.79	45.14	5.01
627	629	0.811616	GCGCAAGTGCTATAGGTGCT	60.812	55.000	0.30	0.00	39.32	4.40
628	630	1.538204	GCGCAAGTGCTATAGGTGCTA	60.538	52.381	0.30	0.00	39.32	3.49
629	631	2.398498	CGCAAGTGCTATAGGTGCTAG	58.602	52.381	1.04	0.00	39.32	3.42
630	632	2.223829	CGCAAGTGCTATAGGTGCTAGT	60.224	50.000	1.04	0.00	39.32	2.57
631	633	3.126831	GCAAGTGCTATAGGTGCTAGTG	58.873	50.000	1.04	0.00	38.21	2.74
632	634	3.126831	CAAGTGCTATAGGTGCTAGTGC	58.873	50.000	1.04	0.00	40.20	4.40
633	635	2.672098	AGTGCTATAGGTGCTAGTGCT	58.328	47.619	1.04	0.00	40.48	4.40
634	636	2.625790	AGTGCTATAGGTGCTAGTGCTC	59.374	50.000	1.04	0.00	40.48	4.26
635	637	2.362397	GTGCTATAGGTGCTAGTGCTCA	59.638	50.000	1.04	0.00	40.48	4.26
636	638	3.006323	GTGCTATAGGTGCTAGTGCTCAT	59.994	47.826	1.04	0.00	40.48	2.90
637	639	4.218635	GTGCTATAGGTGCTAGTGCTCATA	59.781	45.833	1.04	0.00	40.48	2.15
638	640	4.460731	TGCTATAGGTGCTAGTGCTCATAG	59.539	45.833	1.04	0.00	40.48	2.23
639	641	4.702612	GCTATAGGTGCTAGTGCTCATAGA	59.297	45.833	1.04	0.00	40.48	1.98
640	642	5.163663	GCTATAGGTGCTAGTGCTCATAGAG	60.164	48.000	1.04	0.00	39.59	2.43
641	643	2.315176	AGGTGCTAGTGCTCATAGAGG	58.685	52.381	0.00	0.00	40.48	3.69
642	644	1.342819	GGTGCTAGTGCTCATAGAGGG	59.657	57.143	0.00	0.00	40.48	4.30
643	645	2.311463	GTGCTAGTGCTCATAGAGGGA	58.689	52.381	0.00	0.00	40.48	4.20
644	646	2.295909	GTGCTAGTGCTCATAGAGGGAG	59.704	54.545	0.00	0.00	40.48	4.30
645	647	2.091610	TGCTAGTGCTCATAGAGGGAGT	60.092	50.000	0.00	0.00	40.48	3.85
647	649	3.504520	GCTAGTGCTCATAGAGGGAGTAC	59.495	52.174	0.00	0.00	44.97	2.73
649	651	3.982516	AGTGCTCATAGAGGGAGTACAA	58.017	45.455	12.02	0.00	46.39	2.41
653	655	3.491792	GCTCATAGAGGGAGTACAAGTGC	60.492	52.174	0.00	0.00	34.83	4.40
657	659	3.741245	AGAGGGAGTACAAGTGCTAGA	57.259	47.619	0.00	0.00	0.00	2.43
742	822	0.463654	TGGTCGAGCAAGCACAAGTT	60.464	50.000	16.20	0.00	0.00	2.66
794	6334	0.470456	AGAGGTGGTGGTGGTCGTAA	60.470	55.000	0.00	0.00	0.00	3.18
820	6360	1.967319	CACAAGTGCTACAGGTGGTT	58.033	50.000	0.00	0.00	0.00	3.67
980	6521	5.053145	ACTCTCTTTGTGACTTGTGCTAAG	58.947	41.667	0.58	0.58	0.00	2.18
1010	6551	4.527816	TCTTTTTGTAGGCATGGCTTCATT	59.472	37.500	28.30	5.01	0.00	2.57
1027	6568	0.613853	ATTCGGTTCCAGGACGAGGA	60.614	55.000	2.65	0.00	37.95	3.71
1203	6761	2.993937	AGAAGGTTTTTCGTGTGTCCA	58.006	42.857	0.00	0.00	0.00	4.02
1596	7157	1.137872	GATGCACAAGAGGAGGACGAT	59.862	52.381	0.00	0.00	0.00	3.73
1605	7166	0.463204	AGGAGGACGATGCACATGAG	59.537	55.000	0.00	0.00	0.00	2.90
1606	7167	0.531532	GGAGGACGATGCACATGAGG	60.532	60.000	0.00	0.00	0.00	3.86
1609	7170	0.531532	GGACGATGCACATGAGGAGG	60.532	60.000	0.00	0.00	0.00	4.30
1611	7172	0.176680	ACGATGCACATGAGGAGGAC	59.823	55.000	0.00	0.00	0.00	3.85
1612	7173	0.176449	CGATGCACATGAGGAGGACA	59.824	55.000	0.00	0.00	0.00	4.02
1613	7174	1.405933	CGATGCACATGAGGAGGACAA	60.406	52.381	0.00	0.00	0.00	3.18
1615	7176	0.325933	TGCACATGAGGAGGACAAGG	59.674	55.000	0.00	0.00	0.00	3.61
1616	7177	1.028868	GCACATGAGGAGGACAAGGC	61.029	60.000	0.00	0.00	0.00	4.35
1617	7178	0.325933	CACATGAGGAGGACAAGGCA	59.674	55.000	0.00	0.00	0.00	4.75
1618	7179	0.326264	ACATGAGGAGGACAAGGCAC	59.674	55.000	0.00	0.00	0.00	5.01
1620	7181	1.194781	ATGAGGAGGACAAGGCACGT	61.195	55.000	0.00	0.00	0.00	4.49
1656	7242	4.038522	ACATCGATGATGGACTTTCGAGAT	59.961	41.667	31.33	0.07	43.60	2.75
1860	7530	4.209452	ACAAAAGACATAAGTGTGTGCG	57.791	40.909	0.00	0.00	39.09	5.34
2035	7941	4.681978	GACCGTGGCGTCTGGCTT	62.682	66.667	0.00	0.00	42.94	4.35
2168	8079	2.847234	ACCCAGACGCCAAGGACA	60.847	61.111	0.00	0.00	0.00	4.02
2183	8094	4.363990	ACAGTGGCGTCTGGCTCG	62.364	66.667	12.68	0.00	42.94	5.03
2194	8105	0.878523	TCTGGCTCGTTTTGGTCACG	60.879	55.000	0.00	0.00	39.08	4.35
2196	8107	2.251642	GGCTCGTTTTGGTCACGCT	61.252	57.895	0.00	0.00	37.57	5.07
2198	8109	1.569493	CTCGTTTTGGTCACGCTGG	59.431	57.895	0.00	0.00	37.57	4.85
2200	8111	0.745128	TCGTTTTGGTCACGCTGGTT	60.745	50.000	0.00	0.00	37.57	3.67
2201	8112	0.938713	CGTTTTGGTCACGCTGGTTA	59.061	50.000	0.00	0.00	0.00	2.85
2244	8155	3.272364	ATGCACACCCAGACGCCAT	62.272	57.895	0.00	0.00	0.00	4.40
2245	8156	3.434319	GCACACCCAGACGCCATG	61.434	66.667	0.00	0.00	0.00	3.66
2246	8157	2.747460	CACACCCAGACGCCATGG	60.747	66.667	7.63	7.63	37.58	3.66
2247	8158	3.249189	ACACCCAGACGCCATGGT	61.249	61.111	14.67	0.00	35.96	3.55
2248	8159	2.436646	CACCCAGACGCCATGGTC	60.437	66.667	14.67	3.65	35.96	4.02
2249	8160	3.717294	ACCCAGACGCCATGGTCC	61.717	66.667	14.67	2.77	37.66	4.46
2250	8161	3.716195	CCCAGACGCCATGGTCCA	61.716	66.667	14.67	0.00	37.66	4.02
2251	8162	2.436646	CCAGACGCCATGGTCCAC	60.437	66.667	14.67	3.03	37.66	4.02
2252	8163	2.665000	CAGACGCCATGGTCCACT	59.335	61.111	14.67	5.39	37.66	4.00
2253	8164	1.613317	CCAGACGCCATGGTCCACTA	61.613	60.000	14.67	0.00	37.66	2.74
2254	8165	0.460284	CAGACGCCATGGTCCACTAC	60.460	60.000	14.67	0.00	37.66	2.73
2255	8166	0.902984	AGACGCCATGGTCCACTACA	60.903	55.000	14.67	0.00	37.66	2.74
2256	8167	0.036765	GACGCCATGGTCCACTACAA	60.037	55.000	14.67	0.00	0.00	2.41
2257	8168	0.036388	ACGCCATGGTCCACTACAAG	60.036	55.000	14.67	0.00	0.00	3.16
2258	8169	0.249120	CGCCATGGTCCACTACAAGA	59.751	55.000	14.67	0.00	0.00	3.02
2259	8170	1.338674	CGCCATGGTCCACTACAAGAA	60.339	52.381	14.67	0.00	0.00	2.52
2260	8171	2.790433	GCCATGGTCCACTACAAGAAA	58.210	47.619	14.67	0.00	0.00	2.52
2261	8172	2.488153	GCCATGGTCCACTACAAGAAAC	59.512	50.000	14.67	0.00	0.00	2.78
2262	8173	3.810743	GCCATGGTCCACTACAAGAAACT	60.811	47.826	14.67	0.00	0.00	2.66
2263	8174	4.398319	CCATGGTCCACTACAAGAAACTT	58.602	43.478	2.57	0.00	0.00	2.66

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
49	50	1.859427	CGCACCTCAAATGCAGCACT	61.859	55.000	0.00	0.00	43.57	4.40
88	89	2.092538	ACTTACTAGGCCTCTCGCACTA	60.093	50.000	9.68	0.00	40.31	2.74
125	126	1.431440	GCCGCCGTTATCAAATGCA	59.569	52.632	0.00	0.00	0.00	3.96
361	363	1.486726	GCTAGTGTATCCAGCCAGGTT	59.513	52.381	0.00	0.00	39.02	3.50
446	448	1.742761	CTCATTGTGTCGCCCTTCAT	58.257	50.000	0.00	0.00	0.00	2.57
578	580	2.452064	CCACCACCACCACCTCTGT	61.452	63.158	0.00	0.00	0.00	3.41
579	581	2.397413	GACCACCACCACCACCTCTG	62.397	65.000	0.00	0.00	0.00	3.35
587	589	1.590147	CCTCTACGACCACCACCAC	59.410	63.158	0.00	0.00	0.00	4.16
588	590	1.608336	CCCTCTACGACCACCACCA	60.608	63.158	0.00	0.00	0.00	4.17
598	600	1.517257	CACTTGCGCTCCCTCTACG	60.517	63.158	9.73	0.00	0.00	3.51
610	612	3.126831	CACTAGCACCTATAGCACTTGC	58.873	50.000	0.00	0.00	42.49	4.01
617	619	5.356751	CCTCTATGAGCACTAGCACCTATAG	59.643	48.000	0.00	0.00	45.49	1.31
618	620	5.257262	CCTCTATGAGCACTAGCACCTATA	58.743	45.833	0.00	0.00	45.49	1.31
619	621	4.085733	CCTCTATGAGCACTAGCACCTAT	58.914	47.826	0.00	0.00	45.49	2.57
620	622	3.491342	CCTCTATGAGCACTAGCACCTA	58.509	50.000	0.00	0.00	45.49	3.08
621	623	2.315176	CCTCTATGAGCACTAGCACCT	58.685	52.381	0.00	0.00	45.49	4.00
622	624	1.342819	CCCTCTATGAGCACTAGCACC	59.657	57.143	0.00	0.00	45.49	5.01
623	625	2.295909	CTCCCTCTATGAGCACTAGCAC	59.704	54.545	0.00	0.00	45.49	4.40
624	626	2.091610	ACTCCCTCTATGAGCACTAGCA	60.092	50.000	0.00	0.00	45.49	3.49
625	627	2.593026	ACTCCCTCTATGAGCACTAGC	58.407	52.381	0.00	0.00	42.56	3.42
626	628	4.720046	TGTACTCCCTCTATGAGCACTAG	58.280	47.826	0.00	0.00	32.98	2.57
627	629	4.790718	TGTACTCCCTCTATGAGCACTA	57.209	45.455	0.00	0.00	32.98	2.74
628	630	3.671740	TGTACTCCCTCTATGAGCACT	57.328	47.619	0.00	0.00	32.98	4.40
629	631	3.702045	ACTTGTACTCCCTCTATGAGCAC	59.298	47.826	0.00	0.00	32.98	4.40
630	632	3.701542	CACTTGTACTCCCTCTATGAGCA	59.298	47.826	0.00	0.00	32.98	4.26
631	633	3.491792	GCACTTGTACTCCCTCTATGAGC	60.492	52.174	0.00	0.00	32.98	4.26
632	634	3.957497	AGCACTTGTACTCCCTCTATGAG	59.043	47.826	0.00	0.00	35.92	2.90
633	635	3.982516	AGCACTTGTACTCCCTCTATGA	58.017	45.455	0.00	0.00	0.00	2.15
634	636	5.133941	TCTAGCACTTGTACTCCCTCTATG	58.866	45.833	0.00	0.00	0.00	2.23
635	637	5.381757	CTCTAGCACTTGTACTCCCTCTAT	58.618	45.833	0.00	0.00	0.00	1.98
636	638	4.385421	CCTCTAGCACTTGTACTCCCTCTA	60.385	50.000	0.00	0.00	0.00	2.43
637	639	3.626222	CCTCTAGCACTTGTACTCCCTCT	60.626	52.174	0.00	0.00	0.00	3.69
638	640	2.691011	CCTCTAGCACTTGTACTCCCTC	59.309	54.545	0.00	0.00	0.00	4.30
639	641	2.043252	ACCTCTAGCACTTGTACTCCCT	59.957	50.000	0.00	0.00	0.00	4.20
640	642	2.166664	CACCTCTAGCACTTGTACTCCC	59.833	54.545	0.00	0.00	0.00	4.30
641	643	2.166664	CCACCTCTAGCACTTGTACTCC	59.833	54.545	0.00	0.00	0.00	3.85
642	644	2.826725	ACCACCTCTAGCACTTGTACTC	59.173	50.000	0.00	0.00	0.00	2.59
643	645	2.563179	CACCACCTCTAGCACTTGTACT	59.437	50.000	0.00	0.00	0.00	2.73
644	646	2.353803	CCACCACCTCTAGCACTTGTAC	60.354	54.545	0.00	0.00	0.00	2.90
645	647	1.899814	CCACCACCTCTAGCACTTGTA	59.100	52.381	0.00	0.00	0.00	2.41
647	649	0.687354	ACCACCACCTCTAGCACTTG	59.313	55.000	0.00	0.00	0.00	3.16
649	651	1.251527	CGACCACCACCTCTAGCACT	61.252	60.000	0.00	0.00	0.00	4.40
653	655	0.965866	TGCTCGACCACCACCTCTAG	60.966	60.000	0.00	0.00	0.00	2.43
657	659	2.743718	CTTGCTCGACCACCACCT	59.256	61.111	0.00	0.00	0.00	4.00
742	822	0.680280	GCTCGACCACCACCTCTAGA	60.680	60.000	0.00	0.00	0.00	2.43
794	6334	2.498167	CTGTAGCACTTGTGCTTCCTT	58.502	47.619	29.37	10.95	43.52	3.36
812	6352	0.677288	TCTACGACCACAACCACCTG	59.323	55.000	0.00	0.00	0.00	4.00
820	6360	3.322541	TCAACCATTCTTCTACGACCACA	59.677	43.478	0.00	0.00	0.00	4.17
980	6521	5.120674	GCCATGCCTACAAAAAGAACAATTC	59.879	40.000	0.00	0.00	0.00	2.17
1010	6551	1.975407	GTCCTCGTCCTGGAACCGA	60.975	63.158	8.82	8.82	35.10	4.69
1203	6761	3.780902	TCGACGATCATGTGCATAGTTT	58.219	40.909	0.00	0.00	0.00	2.66
1596	7157	0.325933	CCTTGTCCTCCTCATGTGCA	59.674	55.000	0.00	0.00	0.00	4.57
1605	7166	0.534203	TTTCACGTGCCTTGTCCTCC	60.534	55.000	11.67	0.00	0.00	4.30
1606	7167	1.264288	CTTTTCACGTGCCTTGTCCTC	59.736	52.381	11.67	0.00	0.00	3.71
1609	7170	0.317854	GCCTTTTCACGTGCCTTGTC	60.318	55.000	11.67	0.00	0.00	3.18
1611	7172	0.594796	GTGCCTTTTCACGTGCCTTG	60.595	55.000	11.67	1.05	0.00	3.61
1612	7173	1.733526	GTGCCTTTTCACGTGCCTT	59.266	52.632	11.67	0.00	0.00	4.35
1613	7174	2.193536	GGTGCCTTTTCACGTGCCT	61.194	57.895	11.67	0.00	37.83	4.75
1615	7176	2.051345	CGGTGCCTTTTCACGTGC	60.051	61.111	11.67	0.00	37.83	5.34
1616	7177	1.278637	GTCGGTGCCTTTTCACGTG	59.721	57.895	9.94	9.94	37.83	4.49
1617	7178	0.534203	ATGTCGGTGCCTTTTCACGT	60.534	50.000	0.00	0.00	37.83	4.49
1618	7179	0.165944	GATGTCGGTGCCTTTTCACG	59.834	55.000	0.00	0.00	37.83	4.35
1620	7181	0.034198	TCGATGTCGGTGCCTTTTCA	59.966	50.000	2.25	0.00	40.29	2.69
1656	7242	5.635417	TGACAAGTTCATCACACACAAAA	57.365	34.783	0.00	0.00	0.00	2.44
1860	7530	5.007682	TGGCCCTGACTGTTAATAGTTTTC	58.992	41.667	6.31	0.00	0.00	2.29
2035	7941	0.393132	TCACCTGCGTGACCAAAACA	60.393	50.000	0.00	0.00	44.20	2.83
2168	8079	2.660258	AAAACGAGCCAGACGCCACT	62.660	55.000	0.00	0.00	38.78	4.00
2183	8094	1.002142	GGTAACCAGCGTGACCAAAAC	60.002	52.381	0.00	0.00	42.66	2.43
2210	8121	2.161012	GTGCATCAGACACATCAACCAG	59.839	50.000	0.00	0.00	37.96	4.00

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.