AutoCloner

Multiple sequence alignment - TraesCS7B01G495700

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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	TraesCS7B01G495700	chr7B	100.000	2642	0	0	1	2642	746969797	746972438	0.000000e+00	4879.0
1	TraesCS7B01G495700	chr7B	91.984	1497	99	10	371	1864	749066883	749065405	0.000000e+00	2080.0
2	TraesCS7B01G495700	chr7B	94.733	1234	61	2	432	1665	744892598	744893827	0.000000e+00	1916.0
3	TraesCS7B01G495700	chr7B	93.412	759	32	4	1900	2642	749143213	749142457	0.000000e+00	1109.0
4	TraesCS7B01G495700	chr7B	96.644	298	10	0	1	298	749067334	749067037	1.830000e-136	496.0
5	TraesCS7B01G495700	chr7B	98.592	213	3	0	1652	1864	747363201	747363413	6.900000e-101	377.0
6	TraesCS7B01G495700	chr7B	100.000	79	0	0	1786	1864	749143390	749143312	2.120000e-31	147.0
7	TraesCS7B01G495700	chr7B	97.872	47	0	1	1855	1901	747363359	747363404	2.180000e-11	80.5
8	TraesCS7B01G495700	chr7B	100.000	41	0	0	1861	1901	746971611	746971651	2.820000e-10	76.8
9	TraesCS7B01G495700	chr7B	100.000	41	0	0	1815	1855	746971657	746971697	2.820000e-10	76.8
10	TraesCS7B01G495700	chr7B	97.727	44	1	0	1861	1904	749143361	749143318	2.820000e-10	76.8
11	TraesCS7B01G495700	chr7A	92.444	1350	77	15	319	1657	734637257	734638592	0.000000e+00	1905.0
12	TraesCS7B01G495700	chr7A	93.056	72	5	0	1898	1969	669296696	669296625	3.600000e-19	106.0
13	TraesCS7B01G495700	chr7A	91.781	73	6	0	1897	1969	543760984	543760912	4.650000e-18	102.0
14	TraesCS7B01G495700	chr7D	91.432	922	53	12	346	1248	632838297	632839211	0.000000e+00	1242.0
15	TraesCS7B01G495700	chr7D	93.056	72	5	0	1898	1969	551746185	551746256	3.600000e-19	106.0
16	TraesCS7B01G495700	chr7D	94.286	35	2	0	1957	1991	90043168	90043202	1.000000e-03	54.7
17	TraesCS7B01G495700	chrUn	90.476	315	30	0	1	315	300671829	300672143	1.460000e-112	416.0
18	TraesCS7B01G495700	chrUn	93.056	72	5	0	1898	1969	114387294	114387223	3.600000e-19	106.0
19	TraesCS7B01G495700	chrUn	92.105	38	3	0	1957	1994	17042461	17042424	1.000000e-03	54.7
20	TraesCS7B01G495700	chrUn	92.105	38	3	0	1957	1994	405573159	405573122	1.000000e-03	54.7
21	TraesCS7B01G495700	chr3B	81.733	531	66	15	2141	2642	745529288	745528760	5.260000e-112	414.0
22	TraesCS7B01G495700	chr3B	81.238	533	67	19	2140	2642	18452346	18451817	1.470000e-107	399.0
23	TraesCS7B01G495700	chr3B	82.438	484	55	15	2187	2642	79940424	79940905	1.910000e-106	396.0
24	TraesCS7B01G495700	chr3B	86.076	237	33	0	2140	2376	75067825	75067589	3.370000e-64	255.0
25	TraesCS7B01G495700	chr1B	81.579	532	64	17	2140	2642	416998602	416999128	2.450000e-110	409.0
26	TraesCS7B01G495700	chr1B	93.056	72	5	0	1898	1969	32368254	32368183	3.600000e-19	106.0
27	TraesCS7B01G495700	chr1A	89.841	315	32	0	1	315	74319895	74320209	3.170000e-109	405.0
28	TraesCS7B01G495700	chr4A	81.139	509	59	16	2165	2642	651448103	651448605	8.930000e-100	374.0
29	TraesCS7B01G495700	chr4A	94.286	35	2	0	1957	1991	639035528	639035494	1.000000e-03	54.7
30	TraesCS7B01G495700	chr6D	87.619	315	31	3	1	314	46832697	46832390	2.500000e-95	359.0
31	TraesCS7B01G495700	chr6D	93.056	72	5	0	1899	1970	98264677	98264748	3.600000e-19	106.0
32	TraesCS7B01G495700	chr5D	93.056	72	5	0	1898	1969	357446664	357446593	3.600000e-19	106.0
33	TraesCS7B01G495700	chr1D	93.056	72	5	0	1898	1969	474598947	474598876	3.600000e-19	106.0
34	TraesCS7B01G495700	chr6B	92.105	38	3	0	1957	1994	66771461	66771424	1.000000e-03	54.7
35	TraesCS7B01G495700	chr3D	94.286	35	2	0	1957	1991	612527768	612527802	1.000000e-03	54.7

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	TraesCS7B01G495700	chr7B	746969797	746972438	2641	False	1677.533333	4879	100.000000	1	2642	3	chr7B.!!$F2	2641
1	TraesCS7B01G495700	chr7B	744892598	744893827	1229	False	1916.000000	1916	94.733000	432	1665	1	chr7B.!!$F1	1233
2	TraesCS7B01G495700	chr7B	749065405	749067334	1929	True	1288.000000	2080	94.314000	1	1864	2	chr7B.!!$R1	1863
3	TraesCS7B01G495700	chr7B	749142457	749143390	933	True	444.266667	1109	97.046333	1786	2642	3	chr7B.!!$R2	856
4	TraesCS7B01G495700	chr7A	734637257	734638592	1335	False	1905.000000	1905	92.444000	319	1657	1	chr7A.!!$F1	1338
5	TraesCS7B01G495700	chr7D	632838297	632839211	914	False	1242.000000	1242	91.432000	346	1248	1	chr7D.!!$F3	902
6	TraesCS7B01G495700	chr3B	745528760	745529288	528	True	414.000000	414	81.733000	2141	2642	1	chr3B.!!$R3	501
7	TraesCS7B01G495700	chr3B	18451817	18452346	529	True	399.000000	399	81.238000	2140	2642	1	chr3B.!!$R1	502
8	TraesCS7B01G495700	chr1B	416998602	416999128	526	False	409.000000	409	81.579000	2140	2642	1	chr1B.!!$F1	502
9	TraesCS7B01G495700	chr4A	651448103	651448605	502	False	374.000000	374	81.139000	2165	2642	1	chr4A.!!$F1	477

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
121	122	1.251527	AAGATCTGACCAGCGTCGGT	61.252	55.0	0.0	0.0	44.53	4.69	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2118	2308	0.243907	TAGTTCACTCGCTGCCTGTC	59.756	55.0	0.0	0.0	0.0	3.51	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
108	109	2.650813	GATGCACCGGCCGAAGATCT	62.651	60.000	30.73	6.21	40.13	2.75
121	122	1.251527	AAGATCTGACCAGCGTCGGT	61.252	55.000	0.00	0.00	44.53	4.69
166	167	2.972505	CGCCAACGCCTGTCTTGT	60.973	61.111	0.00	0.00	0.00	3.16
259	260	3.717294	GGCGAGGGGGAAGAGCAA	61.717	66.667	0.00	0.00	0.00	3.91
295	296	2.969238	GTGCTGATGGGATCGCCG	60.969	66.667	7.38	0.00	33.83	6.46
298	299	4.996434	CTGATGGGATCGCCGCCC	62.996	72.222	7.38	0.00	46.22	6.13
317	361	1.731433	CGTGCCGCCTAGGTTAGCTA	61.731	60.000	11.31	0.00	43.70	3.32
335	379	3.254657	AGCTATAGCAGAGTCCGATGTTC	59.745	47.826	26.07	0.00	45.16	3.18
375	459	1.621814	TCCGGCTACAAGTGCTAGTTT	59.378	47.619	0.00	0.00	0.00	2.66
393	480	8.038944	TGCTAGTTTTTAGAAGATTCCGTGTAT	58.961	33.333	0.00	0.00	0.00	2.29
470	575	3.791545	AGTTGGCCCTTTATAAGATGGGA	59.208	43.478	18.64	2.59	42.11	4.37
485	590	1.496060	TGGGATGATCGTAGCCTTGT	58.504	50.000	0.00	0.00	0.00	3.16
486	591	2.673258	TGGGATGATCGTAGCCTTGTA	58.327	47.619	0.00	0.00	0.00	2.41
487	592	2.364324	TGGGATGATCGTAGCCTTGTAC	59.636	50.000	0.00	0.00	0.00	2.90
544	652	4.016113	GCTGTGGCTAGGAATTTTAACG	57.984	45.455	0.00	0.00	35.22	3.18
784	906	3.632643	TCTTGCTAAGCCATGATGACA	57.367	42.857	0.00	0.00	0.00	3.58
815	937	1.338674	CCGATACAAAGTGCCAGTGGA	60.339	52.381	15.20	0.00	0.00	4.02
887	1009	2.027625	CCTTCCACAAGACGACCGC	61.028	63.158	0.00	0.00	0.00	5.68
1012	1134	1.819632	GTGCCCATGATCGTCACCC	60.820	63.158	0.00	0.00	0.00	4.61
1072	1194	1.471119	GACTCCGACTCATGTACCCA	58.529	55.000	0.00	0.00	0.00	4.51
1089	1211	3.588906	ACCGACGTGCACGAGACA	61.589	61.111	42.94	0.00	43.02	3.41
1197	1319	3.414700	GCTCAGTCGCCGGTGTTG	61.415	66.667	16.01	14.60	0.00	3.33
1269	1391	2.573869	CACGACATGGAGCCTCGT	59.426	61.111	2.75	2.75	41.23	4.18
1363	1488	3.376234	CAGAATCGCCATGACTCAACATT	59.624	43.478	0.00	0.00	0.00	2.71
1371	1496	4.624015	CCATGACTCAACATTTGCTTGTT	58.376	39.130	0.00	0.00	40.39	2.83
1529	1654	2.418746	GCTACGATTTCCTTGCTCCTCA	60.419	50.000	0.00	0.00	0.00	3.86
1563	1688	3.187227	TCAAAGCAATTCTCAAGAGCGAC	59.813	43.478	0.00	0.00	0.00	5.19
1596	1721	2.031069	ACTCATCATCGATTACCCGTCG	60.031	50.000	0.00	0.00	40.30	5.12
1614	1739	3.731216	CGTCGATTGTAGTGGAGCTATTG	59.269	47.826	0.00	0.00	31.50	1.90
1644	1769	0.244994	CTCCCTCACCTCGTTGACTG	59.755	60.000	0.00	0.00	0.00	3.51
1657	1782	6.077838	CCTCGTTGACTGCAAACTTAATTAC	58.922	40.000	0.00	0.00	35.42	1.89
1661	1786	6.689241	CGTTGACTGCAAACTTAATTACACAA	59.311	34.615	0.00	0.00	35.42	3.33
1662	1787	7.378461	CGTTGACTGCAAACTTAATTACACAAT	59.622	33.333	0.00	0.00	35.42	2.71
1663	1788	9.672086	GTTGACTGCAAACTTAATTACACAATA	57.328	29.630	0.00	0.00	35.42	1.90
1664	1789	9.891828	TTGACTGCAAACTTAATTACACAATAG	57.108	29.630	0.00	0.00	0.00	1.73
1684	1809	9.676861	ACAATAGTACTACTATATATGGCGACA	57.323	33.333	4.31	0.00	40.32	4.35
1756	1881	8.353684	AGGTCTGATAAAATCTCATGTACGTAG	58.646	37.037	0.00	0.00	0.00	3.51
1757	1882	7.115095	GGTCTGATAAAATCTCATGTACGTAGC	59.885	40.741	0.00	0.00	0.00	3.58
1759	1884	7.648112	TCTGATAAAATCTCATGTACGTAGCAC	59.352	37.037	0.00	0.00	0.00	4.40
1771	1897	1.082117	CGTAGCACGTCCATGGGTTC	61.082	60.000	13.02	0.00	36.74	3.62
1773	1899	1.195442	TAGCACGTCCATGGGTTCCA	61.195	55.000	13.02	0.00	38.19	3.53
1874	2001	7.786046	TCTAAAAGTATAACCCTCACAGTCA	57.214	36.000	0.00	0.00	0.00	3.41
1875	2002	8.197592	TCTAAAAGTATAACCCTCACAGTCAA	57.802	34.615	0.00	0.00	0.00	3.18
1876	2003	8.822805	TCTAAAAGTATAACCCTCACAGTCAAT	58.177	33.333	0.00	0.00	0.00	2.57
1877	2004	7.687941	AAAAGTATAACCCTCACAGTCAATG	57.312	36.000	0.00	0.00	0.00	2.82
1878	2005	6.374417	AAGTATAACCCTCACAGTCAATGT	57.626	37.500	0.00	0.00	45.43	2.71
1879	2006	7.490657	AAGTATAACCCTCACAGTCAATGTA	57.509	36.000	0.00	0.00	41.41	2.29
1880	2007	6.875076	AGTATAACCCTCACAGTCAATGTAC	58.125	40.000	0.00	0.00	41.41	2.90
1881	2008	6.668283	AGTATAACCCTCACAGTCAATGTACT	59.332	38.462	0.00	0.00	41.41	2.73
1882	2009	4.706842	AACCCTCACAGTCAATGTACTT	57.293	40.909	0.00	0.00	41.41	2.24
1883	2010	4.008074	ACCCTCACAGTCAATGTACTTG	57.992	45.455	0.00	0.00	41.41	3.16
1884	2011	2.744202	CCCTCACAGTCAATGTACTTGC	59.256	50.000	0.00	0.00	41.41	4.01
1886	2013	4.005650	CCTCACAGTCAATGTACTTGCAT	58.994	43.478	0.00	0.00	41.41	3.96
1888	2015	5.391310	CCTCACAGTCAATGTACTTGCATTC	60.391	44.000	0.00	0.00	41.41	2.67
1889	2016	5.062528	TCACAGTCAATGTACTTGCATTCA	58.937	37.500	0.00	0.00	41.41	2.57
1890	2017	5.530543	TCACAGTCAATGTACTTGCATTCAA	59.469	36.000	0.00	0.00	41.41	2.69
1892	2019	5.299028	ACAGTCAATGTACTTGCATTCAACA	59.701	36.000	0.00	0.00	41.60	3.33
1893	2020	6.183360	ACAGTCAATGTACTTGCATTCAACAA	60.183	34.615	0.00	0.00	41.60	2.83
1897	2024	9.013490	GTCAATGTACTTGCATTCAACAATATC	57.987	33.333	0.00	0.00	37.00	1.63
1898	2025	8.959548	TCAATGTACTTGCATTCAACAATATCT	58.040	29.630	0.00	0.00	37.00	1.98
1905	2032	9.123902	ACTTGCATTCAACAATATCTAATAGCA	57.876	29.630	0.00	0.00	0.00	3.49
1933	2123	8.324567	GCTATAGCATATTAAGAATTGTCTCGC	58.675	37.037	20.01	0.00	41.59	5.03
1953	2143	9.219497	GTCTCGCTAAATATATCGGTGTATAAC	57.781	37.037	0.00	0.00	0.00	1.89
1958	2148	9.512435	GCTAAATATATCGGTGTATAACGTCAT	57.488	33.333	0.00	0.00	0.00	3.06
1984	2174	2.418368	AGCATATTTTGAGGTCGGCA	57.582	45.000	0.00	0.00	0.00	5.69
1989	2179	5.536161	AGCATATTTTGAGGTCGGCATTATT	59.464	36.000	0.00	0.00	0.00	1.40
2007	2197	2.190398	TTTAGCCATAGAGGGGAGCA	57.810	50.000	0.00	0.00	38.09	4.26
2103	2293	2.173126	AGGAATCCCTCTCTGACAGG	57.827	55.000	1.81	0.00	38.86	4.00
2118	2308	3.717707	TGACAGGAACTCAAGTCTTTCG	58.282	45.455	0.00	0.00	34.60	3.46
2127	2317	0.514691	CAAGTCTTTCGACAGGCAGC	59.485	55.000	5.89	0.00	42.73	5.25
2143	2333	1.201647	GCAGCGAGTGAACTAGTACCA	59.798	52.381	0.00	0.00	0.00	3.25
2238	2428	0.165079	GGGCGACACGTGTATTTGTG	59.835	55.000	23.44	8.52	41.81	3.33
2263	2457	2.064581	GTGGCGGGGTAGGATCTGT	61.065	63.158	0.00	0.00	0.00	3.41
2312	2506	4.351874	TTTTCTCAACGTCCTCTCCATT	57.648	40.909	0.00	0.00	0.00	3.16
2356	2550	3.245048	GTGTTGCAATTTTTCTTCACCCG	59.755	43.478	0.59	0.00	0.00	5.28
2373	2567	4.994852	TCACCCGATTTCTCACTAAGTTTG	59.005	41.667	0.00	0.00	0.00	2.93
2450	2672	5.855740	ATACTACACCTAGCTCAGTTTCC	57.144	43.478	0.00	0.00	0.00	3.13
2586	2811	2.647299	TCTTCCCTAGGATTTGTGCCAA	59.353	45.455	11.48	0.00	0.00	4.52

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
166	167	2.490148	CCCCTGTATGCTCTCGCGA	61.490	63.158	9.26	9.26	39.65	5.87
272	273	0.179034	GATCCCATCAGCACCACCTC	60.179	60.000	0.00	0.00	0.00	3.85
299	300	0.680061	ATAGCTAACCTAGGCGGCAC	59.320	55.000	13.08	0.00	35.61	5.01
300	301	2.168496	CTATAGCTAACCTAGGCGGCA	58.832	52.381	13.08	2.77	35.61	5.69
302	303	2.164624	CTGCTATAGCTAACCTAGGCGG	59.835	54.545	24.61	0.00	42.66	6.13
303	304	3.082548	TCTGCTATAGCTAACCTAGGCG	58.917	50.000	24.61	0.00	42.66	5.52
304	305	4.083565	ACTCTGCTATAGCTAACCTAGGC	58.916	47.826	24.61	0.00	42.66	3.93
306	307	4.393680	CGGACTCTGCTATAGCTAACCTAG	59.606	50.000	24.61	12.90	42.66	3.02
308	309	3.150767	CGGACTCTGCTATAGCTAACCT	58.849	50.000	24.61	4.45	42.66	3.50
309	310	3.147629	TCGGACTCTGCTATAGCTAACC	58.852	50.000	24.61	17.71	42.66	2.85
317	361	4.471904	TTTGAACATCGGACTCTGCTAT	57.528	40.909	0.00	0.00	0.00	2.97
344	390	3.515059	TAGCCGGACTCTGCTACAT	57.485	52.632	5.05	0.00	39.00	2.29
375	459	8.515695	TCTCTACATACACGGAATCTTCTAAA	57.484	34.615	0.00	0.00	0.00	1.85
393	480	2.168521	GGCTGTGTATTGCCTCTCTACA	59.831	50.000	0.00	0.00	45.26	2.74
450	555	4.418526	TCATCCCATCTTATAAAGGGCCAA	59.581	41.667	6.18	0.00	41.22	4.52
470	575	5.589192	GTGTTAGTACAAGGCTACGATCAT	58.411	41.667	0.00	0.00	35.69	2.45
485	590	0.530744	CCTGCCTCTGCGTGTTAGTA	59.469	55.000	0.00	0.00	41.78	1.82
486	591	1.293498	CCTGCCTCTGCGTGTTAGT	59.707	57.895	0.00	0.00	41.78	2.24
487	592	2.103042	GCCTGCCTCTGCGTGTTAG	61.103	63.158	0.00	0.00	41.78	2.34
535	643	1.018910	CCGCCGGATCCGTTAAAATT	58.981	50.000	31.22	0.00	37.81	1.82
615	737	1.947642	GTACCCGCTTATCGCCACG	60.948	63.158	0.00	0.00	36.73	4.94
784	906	2.202703	GTATCGGCCGTTGTCGCT	60.203	61.111	27.15	4.88	40.09	4.93
797	919	3.059352	AGTCCACTGGCACTTTGTATC	57.941	47.619	0.00	0.00	0.00	2.24
815	937	5.246307	GGCCGAGCAAGGAAATATTATAGT	58.754	41.667	1.32	0.00	0.00	2.12
887	1009	3.001902	TAGTCTGCTGGTTCGCCGG	62.002	63.158	0.00	0.00	46.52	6.13
928	1050	0.321653	GATTGCTCCAGGTCCGTTGT	60.322	55.000	0.00	0.00	0.00	3.32
952	1074	0.250513	AAGGCATCGTCCTTGAGGTC	59.749	55.000	5.77	0.00	44.36	3.85
1072	1194	3.588906	TGTCTCGTGCACGTCGGT	61.589	61.111	35.74	0.00	40.80	4.69
1089	1211	3.075884	GTCAGAGAAGACGTGGACTAGT	58.924	50.000	0.00	0.00	0.00	2.57
1200	1322	2.671963	GACCCCGTGAACAAGGCC	60.672	66.667	0.00	0.00	0.00	5.19
1269	1391	1.303561	GAGCATGGCCTCCAACACA	60.304	57.895	3.32	0.00	36.95	3.72
1371	1496	3.071837	TGATACCTGTCCGCGGCA	61.072	61.111	23.51	20.67	0.00	5.69
1529	1654	6.127793	AGAATTGCTTTGAGATTGCCTCTAT	58.872	36.000	0.00	0.00	42.44	1.98
1563	1688	1.159285	TGATGAGTTGCTCAAAGCCG	58.841	50.000	2.80	0.00	44.04	5.52
1596	1721	3.142174	GGCCAATAGCTCCACTACAATC	58.858	50.000	0.00	0.00	43.05	2.67
1597	1722	2.509548	TGGCCAATAGCTCCACTACAAT	59.490	45.455	0.61	0.00	43.05	2.71
1635	1760	6.037281	TGTGTAATTAAGTTTGCAGTCAACGA	59.963	34.615	0.00	0.00	30.75	3.85
1657	1782	9.932699	GTCGCCATATATAGTAGTACTATTGTG	57.067	37.037	24.35	19.07	38.17	3.33
1661	1786	9.902684	AACTGTCGCCATATATAGTAGTACTAT	57.097	33.333	23.09	23.09	43.36	2.12
1663	1788	9.902684	ATAACTGTCGCCATATATAGTAGTACT	57.097	33.333	8.14	8.14	0.00	2.73
1708	1833	7.004086	ACCTTGATGGACATTTTTAGTCTCAA	58.996	34.615	0.00	0.00	39.71	3.02
1720	1845	7.580910	AGATTTTATCAGACCTTGATGGACAT	58.419	34.615	0.12	0.00	46.01	3.06
1721	1846	6.962182	AGATTTTATCAGACCTTGATGGACA	58.038	36.000	0.12	0.00	46.01	4.02
1725	1850	8.447924	ACATGAGATTTTATCAGACCTTGATG	57.552	34.615	0.00	0.00	46.01	3.07
1731	1856	7.115095	GCTACGTACATGAGATTTTATCAGACC	59.885	40.741	0.00	0.00	0.00	3.85
1756	1881	2.033448	TGGAACCCATGGACGTGC	59.967	61.111	15.22	0.00	0.00	5.34
1757	1882	2.032634	CGTGGAACCCATGGACGTG	61.033	63.158	15.22	0.00	36.92	4.49
1759	1884	1.740296	GACGTGGAACCCATGGACG	60.740	63.158	15.22	17.18	44.23	4.79
1760	1885	0.899720	TAGACGTGGAACCCATGGAC	59.100	55.000	15.22	1.21	44.23	4.02
1771	1897	4.394920	ACCAATTAATGCAAGTAGACGTGG	59.605	41.667	0.00	0.00	0.00	4.94
1773	1899	4.328983	CGACCAATTAATGCAAGTAGACGT	59.671	41.667	0.00	0.00	0.00	4.34
1864	1991	3.402110	TGCAAGTACATTGACTGTGAGG	58.598	45.455	8.63	0.00	41.83	3.86
1865	1992	5.179929	TGAATGCAAGTACATTGACTGTGAG	59.820	40.000	0.00	0.00	41.83	3.51
1866	1993	5.062528	TGAATGCAAGTACATTGACTGTGA	58.937	37.500	0.00	0.00	41.83	3.58
1867	1994	5.361135	TGAATGCAAGTACATTGACTGTG	57.639	39.130	0.00	0.00	41.83	3.66
1868	1995	5.299028	TGTTGAATGCAAGTACATTGACTGT	59.701	36.000	0.00	0.00	41.83	3.55
1870	1997	6.389830	TTGTTGAATGCAAGTACATTGACT	57.610	33.333	0.00	0.00	41.83	3.41
1871	1998	8.915871	ATATTGTTGAATGCAAGTACATTGAC	57.084	30.769	0.00	0.00	41.83	3.18
1872	1999	8.959548	AGATATTGTTGAATGCAAGTACATTGA	58.040	29.630	0.00	0.00	41.83	2.57
1879	2006	9.123902	TGCTATTAGATATTGTTGAATGCAAGT	57.876	29.630	0.00	0.00	34.01	3.16
1880	2007	9.390795	GTGCTATTAGATATTGTTGAATGCAAG	57.609	33.333	0.00	0.00	34.01	4.01
1881	2008	8.069574	CGTGCTATTAGATATTGTTGAATGCAA	58.930	33.333	0.00	0.00	0.00	4.08
1882	2009	7.575365	CGTGCTATTAGATATTGTTGAATGCA	58.425	34.615	0.00	0.00	0.00	3.96
1883	2010	6.521133	GCGTGCTATTAGATATTGTTGAATGC	59.479	38.462	0.00	0.00	0.00	3.56
1884	2011	7.800767	AGCGTGCTATTAGATATTGTTGAATG	58.199	34.615	0.00	0.00	0.00	2.67
1888	2015	8.535592	GCTATAGCGTGCTATTAGATATTGTTG	58.464	37.037	18.62	0.00	39.65	3.33
1889	2016	8.251026	TGCTATAGCGTGCTATTAGATATTGTT	58.749	33.333	18.62	0.00	45.83	2.83
1890	2017	7.772166	TGCTATAGCGTGCTATTAGATATTGT	58.228	34.615	18.62	0.00	45.83	2.71
1897	2024	9.952188	TCTTAATATGCTATAGCGTGCTATTAG	57.048	33.333	26.43	15.86	45.83	1.73
1900	2027	9.823647	AATTCTTAATATGCTATAGCGTGCTAT	57.176	29.630	26.43	17.65	45.83	2.97
1901	2028	9.087424	CAATTCTTAATATGCTATAGCGTGCTA	57.913	33.333	26.43	15.34	45.83	3.49
1903	2030	7.743104	ACAATTCTTAATATGCTATAGCGTGC	58.257	34.615	26.43	2.18	45.83	5.34
1904	2031	9.144747	AGACAATTCTTAATATGCTATAGCGTG	57.855	33.333	26.43	11.51	45.83	5.34
1905	2032	9.360093	GAGACAATTCTTAATATGCTATAGCGT	57.640	33.333	22.53	22.53	36.50	5.07
1920	2110	8.088981	ACCGATATATTTAGCGAGACAATTCTT	58.911	33.333	2.29	0.00	39.53	2.52
1944	2134	6.390987	GCTATTAGCATGACGTTATACACC	57.609	41.667	10.83	0.00	41.89	4.16
1984	2174	4.852118	TGCTCCCCTCTATGGCTAAATAAT	59.148	41.667	0.00	0.00	0.00	1.28
1989	2179	2.190398	TTGCTCCCCTCTATGGCTAA	57.810	50.000	0.00	0.00	0.00	3.09
2007	2197	5.530171	GTCTGTTACATGGCTCATCATCATT	59.470	40.000	0.00	0.00	0.00	2.57
2118	2308	0.243907	TAGTTCACTCGCTGCCTGTC	59.756	55.000	0.00	0.00	0.00	3.51
2127	2317	3.992427	GGGTTTTGGTACTAGTTCACTCG	59.008	47.826	0.00	0.00	0.00	4.18
2143	2333	3.526019	TCATCCTCGGAAATAGGGGTTTT	59.474	43.478	0.00	0.00	34.66	2.43
2263	2457	7.213678	TGCATCTAAACGATATGTCCATACAA	58.786	34.615	0.00	0.00	39.58	2.41
2312	2506	4.185394	CACACCCATAATTGTACACGCTA	58.815	43.478	0.00	0.00	0.00	4.26
2356	2550	6.729187	AGTGCAACAAACTTAGTGAGAAATC	58.271	36.000	0.00	0.00	41.43	2.17
2541	2766	1.439679	CTAGAGCCACCCGAACAAAC	58.560	55.000	0.00	0.00	0.00	2.93
2586	2811	3.731089	CATGCACACCAATGGAAAACTT	58.269	40.909	6.16	0.00	0.00	2.66

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.