AutoCloner

Multiple sequence alignment - TraesCS2D01G548400

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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	TraesCS2D01G548400	chr2D	100.000	2567	0	0	1	2567	624287745	624285179	0.000000e+00	4741.0
1	TraesCS2D01G548400	chr2B	94.215	1210	41	10	570	1771	766184037	766182849	0.000000e+00	1820.0
2	TraesCS2D01G548400	chr2B	86.420	405	47	8	2168	2567	766182348	766181947	1.090000e-118	436.0
3	TraesCS2D01G548400	chr2B	83.333	450	35	18	43	484	80103045	80103462	1.860000e-101	379.0
4	TraesCS2D01G548400	chr2B	88.217	314	29	4	1861	2171	766182705	766182397	4.040000e-98	368.0
5	TraesCS2D01G548400	chr2A	93.947	760	35	7	1207	1965	755693042	755692293	0.000000e+00	1138.0
6	TraesCS2D01G548400	chr2A	92.890	661	26	10	576	1221	755693809	755693155	0.000000e+00	941.0
7	TraesCS2D01G548400	chr2A	86.111	216	27	2	2352	2567	755688673	755688461	1.990000e-56	230.0
8	TraesCS2D01G548400	chr2A	89.773	88	5	4	2275	2358	755689879	755689792	2.700000e-20	110.0
9	TraesCS2D01G548400	chr5D	96.453	592	7	1	1	578	545533735	545533144	0.000000e+00	965.0
10	TraesCS2D01G548400	chr5D	82.500	600	74	16	1	575	459924882	459925475	4.930000e-137	497.0
11	TraesCS2D01G548400	chr3D	96.540	578	17	3	1	578	19766097	19766671	0.000000e+00	953.0
12	TraesCS2D01G548400	chr3D	92.573	579	40	3	1	578	45062647	45063223	0.000000e+00	828.0
13	TraesCS2D01G548400	chr7D	95.439	592	13	1	1	578	393113277	393113868	0.000000e+00	931.0
14	TraesCS2D01G548400	chr7D	95.270	592	13	2	1	578	393111889	393111299	0.000000e+00	924.0
15	TraesCS2D01G548400	chr4D	94.158	582	33	1	1	581	375069936	375069355	0.000000e+00	885.0
16	TraesCS2D01G548400	chrUn	93.599	578	16	6	1	578	70158037	70158593	0.000000e+00	843.0
17	TraesCS2D01G548400	chr1D	92.919	579	38	3	1	578	414450665	414451241	0.000000e+00	839.0
18	TraesCS2D01G548400	chr1B	85.610	549	60	13	43	578	572991829	572992371	2.230000e-155	558.0
19	TraesCS2D01G548400	chr6A	82.759	609	67	22	1	578	56129541	56130142	2.280000e-140	508.0
20	TraesCS2D01G548400	chr7A	91.515	330	12	6	1	318	147919851	147920176	8.430000e-120	440.0
21	TraesCS2D01G548400	chr7A	92.593	54	4	0	1831	1884	625682783	625682730	7.620000e-11	78.7
22	TraesCS2D01G548400	chr4B	82.000	100	14	2	1780	1879	453367364	453367459	5.890000e-12	82.4
23	TraesCS2D01G548400	chr4A	92.857	56	4	0	1831	1886	543335620	543335565	5.890000e-12	82.4
24	TraesCS2D01G548400	chr6D	94.118	34	2	0	1921	1954	3343391	3343358	5.000000e-03	52.8

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	TraesCS2D01G548400	chr2D	624285179	624287745	2566	True	4741.000000	4741	100.000000	1	2567	1	chr2D.!!$R1	2566
1	TraesCS2D01G548400	chr2B	766181947	766184037	2090	True	874.666667	1820	89.617333	570	2567	3	chr2B.!!$R1	1997
2	TraesCS2D01G548400	chr2A	755688461	755693809	5348	True	604.750000	1138	90.680250	576	2567	4	chr2A.!!$R1	1991
3	TraesCS2D01G548400	chr5D	545533144	545533735	591	True	965.000000	965	96.453000	1	578	1	chr5D.!!$R1	577
4	TraesCS2D01G548400	chr5D	459924882	459925475	593	False	497.000000	497	82.500000	1	575	1	chr5D.!!$F1	574
5	TraesCS2D01G548400	chr3D	19766097	19766671	574	False	953.000000	953	96.540000	1	578	1	chr3D.!!$F1	577
6	TraesCS2D01G548400	chr3D	45062647	45063223	576	False	828.000000	828	92.573000	1	578	1	chr3D.!!$F2	577
7	TraesCS2D01G548400	chr7D	393113277	393113868	591	False	931.000000	931	95.439000	1	578	1	chr7D.!!$F1	577
8	TraesCS2D01G548400	chr7D	393111299	393111889	590	True	924.000000	924	95.270000	1	578	1	chr7D.!!$R1	577
9	TraesCS2D01G548400	chr4D	375069355	375069936	581	True	885.000000	885	94.158000	1	581	1	chr4D.!!$R1	580
10	TraesCS2D01G548400	chrUn	70158037	70158593	556	False	843.000000	843	93.599000	1	578	1	chrUn.!!$F1	577
11	TraesCS2D01G548400	chr1D	414450665	414451241	576	False	839.000000	839	92.919000	1	578	1	chr1D.!!$F1	577
12	TraesCS2D01G548400	chr1B	572991829	572992371	542	False	558.000000	558	85.610000	43	578	1	chr1B.!!$F1	535
13	TraesCS2D01G548400	chr6A	56129541	56130142	601	False	508.000000	508	82.759000	1	578	1	chr6A.!!$F1	577

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
713	782	0.109272	TCTACGACGGCAAGCTCTTG	60.109	55.0	0.0	5.31	43.14	3.02	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2255	4745	0.039472	CATCACCCCCACCATCAACA	59.961	55.0	0.0	0.0	0.0	3.33	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
299	324	3.386237	GCGAGCAGGGGAGTGAGT	61.386	66.667	0.00	0.00	0.00	3.41
662	731	5.950758	AATCGTTTGCAATAACTGTACCA	57.049	34.783	0.00	0.00	0.00	3.25
709	778	1.507174	GAGTCTACGACGGCAAGCT	59.493	57.895	0.00	0.00	37.67	3.74
713	782	0.109272	TCTACGACGGCAAGCTCTTG	60.109	55.000	0.00	5.31	43.14	3.02
855	927	1.527370	GAGCTATTTGCCCCCGACT	59.473	57.895	0.00	0.00	44.23	4.18
856	928	0.756903	GAGCTATTTGCCCCCGACTA	59.243	55.000	0.00	0.00	44.23	2.59
857	929	0.468648	AGCTATTTGCCCCCGACTAC	59.531	55.000	0.00	0.00	44.23	2.73
858	930	0.179468	GCTATTTGCCCCCGACTACA	59.821	55.000	0.00	0.00	35.15	2.74
859	931	1.407712	GCTATTTGCCCCCGACTACAA	60.408	52.381	0.00	0.00	35.15	2.41
860	932	2.561569	CTATTTGCCCCCGACTACAAG	58.438	52.381	0.00	0.00	0.00	3.16
861	933	0.679960	ATTTGCCCCCGACTACAAGC	60.680	55.000	0.00	0.00	0.00	4.01
862	934	2.757980	TTTGCCCCCGACTACAAGCC	62.758	60.000	0.00	0.00	0.00	4.35
863	935	3.400054	GCCCCCGACTACAAGCCT	61.400	66.667	0.00	0.00	0.00	4.58
864	936	2.901042	CCCCCGACTACAAGCCTC	59.099	66.667	0.00	0.00	0.00	4.70
914	997	3.703001	TTCTTCATCCCACTCCTTCAC	57.297	47.619	0.00	0.00	0.00	3.18
1011	1099	3.826157	TCCCTAGGCAAAATCACAAACTG	59.174	43.478	2.05	0.00	0.00	3.16
1013	1101	4.039124	CCCTAGGCAAAATCACAAACTGTT	59.961	41.667	2.05	0.00	0.00	3.16
1014	1102	5.222631	CCTAGGCAAAATCACAAACTGTTC	58.777	41.667	0.00	0.00	0.00	3.18
1015	1103	4.734398	AGGCAAAATCACAAACTGTTCA	57.266	36.364	0.00	0.00	0.00	3.18
1016	1104	4.432712	AGGCAAAATCACAAACTGTTCAC	58.567	39.130	0.00	0.00	0.00	3.18
1017	1105	4.081752	AGGCAAAATCACAAACTGTTCACA	60.082	37.500	0.00	0.00	0.00	3.58
1018	1106	4.629200	GGCAAAATCACAAACTGTTCACAA	59.371	37.500	0.00	0.00	0.00	3.33
1024	1112	4.980590	TCACAAACTGTTCACAATCACAC	58.019	39.130	0.00	0.00	0.00	3.82
1039	1127	1.539869	ACACCCATGCACCTCCTCT	60.540	57.895	0.00	0.00	0.00	3.69
1071	1159	1.379146	GGCCTTCCTCGTCCCTTTT	59.621	57.895	0.00	0.00	0.00	2.27
1086	1177	2.093869	CCCTTTTCTTGCCATGTCCATG	60.094	50.000	0.14	0.14	38.51	3.66
1622	1840	7.360946	GGACGTAAACTCTTGACATTGCTAAAT	60.361	37.037	0.00	0.00	0.00	1.40
1708	1926	4.657436	AGAGAAAGATACCACGATGACC	57.343	45.455	0.00	0.00	0.00	4.02
1833	2082	4.706962	GGAGAAAACATGCACCCTTCTATT	59.293	41.667	0.00	0.00	0.00	1.73
1944	2220	2.223112	GCTCATGCATTTCGTCGAACAT	60.223	45.455	7.29	5.49	39.41	2.71
1946	2222	4.406069	CTCATGCATTTCGTCGAACATTT	58.594	39.130	7.29	0.00	0.00	2.32
1947	2223	4.157649	TCATGCATTTCGTCGAACATTTG	58.842	39.130	7.29	4.81	0.00	2.32
1948	2224	2.315011	TGCATTTCGTCGAACATTTGC	58.685	42.857	7.29	14.14	0.00	3.68
1949	2225	2.287248	TGCATTTCGTCGAACATTTGCA	60.287	40.909	20.91	20.91	0.00	4.08
1950	2226	2.723658	GCATTTCGTCGAACATTTGCAA	59.276	40.909	18.79	0.00	0.00	4.08
1972	2248	1.830086	CAGCACACACAACACACATG	58.170	50.000	0.00	0.00	0.00	3.21
1976	2252	2.186891	CACACACAACACACATGCAAG	58.813	47.619	0.00	0.00	0.00	4.01
2005	4388	1.629861	TGACTCTTGATCATGTGGCCA	59.370	47.619	0.00	0.00	0.00	5.36
2014	4397	2.518112	ATGTGGCCACGTGTTGCA	60.518	55.556	29.84	11.33	0.00	4.08
2020	4403	2.477176	GCCACGTGTTGCAGAACCA	61.477	57.895	15.65	0.00	0.00	3.67
2098	4481	5.924825	ACTTACATAAACGACGAGCTTCTTT	59.075	36.000	0.00	0.00	0.00	2.52
2103	4486	0.946221	ACGACGAGCTTCTTTGGCAG	60.946	55.000	0.00	0.00	0.00	4.85
2121	4504	2.659897	CGCTGGCGACTGGATAGC	60.660	66.667	9.51	0.00	42.83	2.97
2132	4515	2.109181	GGATAGCACCACCTCGCC	59.891	66.667	0.00	0.00	0.00	5.54
2134	4517	1.521681	GATAGCACCACCTCGCCAC	60.522	63.158	0.00	0.00	0.00	5.01
2146	4530	0.321564	CTCGCCACCATCCAGAACAA	60.322	55.000	0.00	0.00	0.00	2.83
2153	4537	3.019564	CACCATCCAGAACAAATCTCCC	58.980	50.000	0.00	0.00	35.73	4.30
2163	4547	4.778143	AATCTCCCGTGGCCGTGC	62.778	66.667	0.00	0.00	0.00	5.34
2178	4616	2.815722	GTGCTTCTCTGGACACGAC	58.184	57.895	0.00	0.00	0.00	4.34
2194	4632	4.082657	ACGAAGTGGAGCTCGTCT	57.917	55.556	7.83	5.55	42.51	4.18
2199	4637	2.612672	CGAAGTGGAGCTCGTCTGTATA	59.387	50.000	7.83	0.00	0.00	1.47
2219	4709	2.165301	GCGTTCGATCACTTCCCGG	61.165	63.158	0.00	0.00	0.00	5.73
2220	4710	1.509463	CGTTCGATCACTTCCCGGA	59.491	57.895	0.73	0.00	0.00	5.14
2221	4711	0.525668	CGTTCGATCACTTCCCGGAG	60.526	60.000	0.73	0.00	0.00	4.63
2222	4712	0.806492	GTTCGATCACTTCCCGGAGC	60.806	60.000	0.73	0.00	0.00	4.70
2223	4713	0.970937	TTCGATCACTTCCCGGAGCT	60.971	55.000	0.73	0.00	0.00	4.09
2224	4714	1.227089	CGATCACTTCCCGGAGCTG	60.227	63.158	0.73	0.00	0.00	4.24
2225	4715	1.522580	GATCACTTCCCGGAGCTGC	60.523	63.158	0.73	0.00	0.00	5.25
2226	4716	1.965754	GATCACTTCCCGGAGCTGCT	61.966	60.000	0.73	0.00	0.00	4.24
2227	4717	0.687757	ATCACTTCCCGGAGCTGCTA	60.688	55.000	0.73	0.00	0.00	3.49
2228	4718	1.153549	CACTTCCCGGAGCTGCTAC	60.154	63.158	0.73	0.33	0.00	3.58
2229	4719	2.359967	ACTTCCCGGAGCTGCTACC	61.360	63.158	0.73	7.15	0.00	3.18
2235	4725	3.541713	GGAGCTGCTACCGGGGAG	61.542	72.222	6.32	0.41	0.00	4.30
2260	4750	4.953868	CGTGCGGTCGGGTGTTGA	62.954	66.667	0.00	0.00	0.00	3.18
2261	4751	2.358247	GTGCGGTCGGGTGTTGAT	60.358	61.111	0.00	0.00	0.00	2.57
2262	4752	2.358125	TGCGGTCGGGTGTTGATG	60.358	61.111	0.00	0.00	0.00	3.07
2263	4753	3.124921	GCGGTCGGGTGTTGATGG	61.125	66.667	0.00	0.00	0.00	3.51
2264	4754	2.345991	CGGTCGGGTGTTGATGGT	59.654	61.111	0.00	0.00	0.00	3.55
2265	4755	2.032634	CGGTCGGGTGTTGATGGTG	61.033	63.158	0.00	0.00	0.00	4.17
2266	4756	1.674322	GGTCGGGTGTTGATGGTGG	60.674	63.158	0.00	0.00	0.00	4.61
2267	4757	1.674322	GTCGGGTGTTGATGGTGGG	60.674	63.158	0.00	0.00	0.00	4.61
2268	4758	2.361104	CGGGTGTTGATGGTGGGG	60.361	66.667	0.00	0.00	0.00	4.96
2269	4759	2.037208	GGGTGTTGATGGTGGGGG	59.963	66.667	0.00	0.00	0.00	5.40
2270	4760	2.851045	GGTGTTGATGGTGGGGGT	59.149	61.111	0.00	0.00	0.00	4.95
2271	4761	1.606313	GGTGTTGATGGTGGGGGTG	60.606	63.158	0.00	0.00	0.00	4.61
2272	4762	1.458486	GTGTTGATGGTGGGGGTGA	59.542	57.895	0.00	0.00	0.00	4.02
2273	4763	0.039618	GTGTTGATGGTGGGGGTGAT	59.960	55.000	0.00	0.00	0.00	3.06
2302	4792	3.227276	CGCCAGGCTAGGGACGAT	61.227	66.667	10.54	0.00	0.00	3.73
2345	4836	4.497842	CCGGATGCGATGAAATGATGAAAA	60.498	41.667	8.71	0.00	0.00	2.29
2395	6014	2.814913	GAATTGGACGGCGGGAGGTT	62.815	60.000	13.24	0.00	0.00	3.50
2406	6025	3.547513	GGAGGTTCGCGGGGCTAT	61.548	66.667	6.13	0.00	0.00	2.97
2407	6026	2.280186	GAGGTTCGCGGGGCTATG	60.280	66.667	6.13	0.00	0.00	2.23
2418	6037	1.071471	GGGCTATGGGGTGTCGATG	59.929	63.158	0.00	0.00	0.00	3.84
2451	6070	3.365265	CGGTTGAGGCAAGGTGGC	61.365	66.667	0.00	0.00	44.10	5.01
2508	6127	2.272146	GGGCGAGAATGGAGGCAA	59.728	61.111	0.00	0.00	0.00	4.52
2513	6132	2.094026	GGCGAGAATGGAGGCAATTTTT	60.094	45.455	0.00	0.00	0.00	1.94

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
299	324	4.074526	GCTCCCACTCGCTGCTCA	62.075	66.667	0.00	0.00	0.00	4.26
709	778	2.443255	AGAGTTTGGAAAGGGAGCAAGA	59.557	45.455	0.00	0.00	0.00	3.02
713	782	2.568623	TGAGAGTTTGGAAAGGGAGC	57.431	50.000	0.00	0.00	0.00	4.70
855	927	3.343617	GCTAATGTTGTGGAGGCTTGTA	58.656	45.455	0.00	0.00	0.00	2.41
856	928	2.162681	GCTAATGTTGTGGAGGCTTGT	58.837	47.619	0.00	0.00	0.00	3.16
857	929	1.474077	GGCTAATGTTGTGGAGGCTTG	59.526	52.381	0.00	0.00	0.00	4.01
858	930	1.075374	TGGCTAATGTTGTGGAGGCTT	59.925	47.619	0.00	0.00	35.61	4.35
859	931	0.698238	TGGCTAATGTTGTGGAGGCT	59.302	50.000	0.00	0.00	35.61	4.58
860	932	1.202348	GTTGGCTAATGTTGTGGAGGC	59.798	52.381	0.00	0.00	35.18	4.70
861	933	2.795329	AGTTGGCTAATGTTGTGGAGG	58.205	47.619	0.00	0.00	0.00	4.30
862	934	5.882557	AGATTAGTTGGCTAATGTTGTGGAG	59.117	40.000	4.79	0.00	45.16	3.86
863	935	5.815581	AGATTAGTTGGCTAATGTTGTGGA	58.184	37.500	4.79	0.00	45.16	4.02
864	936	6.597672	TGTAGATTAGTTGGCTAATGTTGTGG	59.402	38.462	4.79	0.00	45.16	4.17
970	1057	2.240921	GGAGGATCAGGGCTTTCTTCTT	59.759	50.000	0.00	0.00	36.25	2.52
1011	1099	1.612950	TGCATGGGTGTGATTGTGAAC	59.387	47.619	0.00	0.00	0.00	3.18
1013	1101	1.246649	GTGCATGGGTGTGATTGTGA	58.753	50.000	0.00	0.00	0.00	3.58
1014	1102	0.244450	GGTGCATGGGTGTGATTGTG	59.756	55.000	0.00	0.00	0.00	3.33
1015	1103	0.112995	AGGTGCATGGGTGTGATTGT	59.887	50.000	0.00	0.00	0.00	2.71
1016	1104	0.813184	GAGGTGCATGGGTGTGATTG	59.187	55.000	0.00	0.00	0.00	2.67
1017	1105	0.323725	GGAGGTGCATGGGTGTGATT	60.324	55.000	0.00	0.00	0.00	2.57
1018	1106	1.210204	AGGAGGTGCATGGGTGTGAT	61.210	55.000	0.00	0.00	0.00	3.06
1024	1112	1.225704	GGAAGAGGAGGTGCATGGG	59.774	63.158	0.00	0.00	0.00	4.00
1071	1159	1.317431	GCTGCATGGACATGGCAAGA	61.317	55.000	13.63	0.00	39.16	3.02
1086	1177	3.749064	TCGTCCGTGAGAGGCTGC	61.749	66.667	0.00	0.00	0.00	5.25
1166	1257	4.428294	TTTATCTCATTCAGGAGCCTGG	57.572	45.455	16.06	1.16	43.75	4.45
1622	1840	9.750125	CTTGTGAGATACATATGTTTGCTACTA	57.250	33.333	14.77	5.22	39.48	1.82
1708	1926	3.748048	CCGCTCACATATACTTCCCAATG	59.252	47.826	0.00	0.00	0.00	2.82
1814	2063	6.670695	AAAGAATAGAAGGGTGCATGTTTT	57.329	33.333	0.00	0.00	0.00	2.43
1820	2069	5.030147	TCCTCTAAAGAATAGAAGGGTGCA	58.970	41.667	0.00	0.00	0.00	4.57
1821	2070	5.129650	ACTCCTCTAAAGAATAGAAGGGTGC	59.870	44.000	0.00	0.00	0.00	5.01
1822	2071	6.800072	ACTCCTCTAAAGAATAGAAGGGTG	57.200	41.667	0.00	0.00	0.00	4.61
1944	2220	0.175073	TGTGTGTGCTGCATTGCAAA	59.825	45.000	13.18	1.04	45.12	3.68
1946	2222	0.528033	GTTGTGTGTGCTGCATTGCA	60.528	50.000	11.50	11.50	41.05	4.08
1947	2223	0.528033	TGTTGTGTGTGCTGCATTGC	60.528	50.000	5.27	0.46	0.00	3.56
1948	2224	1.202203	GTGTTGTGTGTGCTGCATTG	58.798	50.000	5.27	0.00	0.00	2.82
1949	2225	0.816373	TGTGTTGTGTGTGCTGCATT	59.184	45.000	5.27	0.00	0.00	3.56
1950	2226	0.101040	GTGTGTTGTGTGTGCTGCAT	59.899	50.000	5.27	0.00	0.00	3.96
1972	2248	2.999355	CAAGAGTCACCTTCTAGCTTGC	59.001	50.000	0.00	0.00	0.00	4.01
1976	2252	4.727507	TGATCAAGAGTCACCTTCTAGC	57.272	45.455	0.00	0.00	0.00	3.42
2005	4388	1.711060	CGGTTGGTTCTGCAACACGT	61.711	55.000	0.00	0.00	33.70	4.49
2052	4435	3.302344	GCATTGGTGCCACCGGTT	61.302	61.111	2.97	0.00	45.76	4.44
2074	4457	5.056894	AGAAGCTCGTCGTTTATGTAAGT	57.943	39.130	0.00	0.00	0.00	2.24
2075	4458	6.234213	CAAAGAAGCTCGTCGTTTATGTAAG	58.766	40.000	0.00	0.00	0.00	2.34
2103	4486	2.659897	CTATCCAGTCGCCAGCGC	60.660	66.667	7.27	0.00	39.59	5.92
2121	4504	2.436646	GATGGTGGCGAGGTGGTG	60.437	66.667	0.00	0.00	0.00	4.17
2132	4515	3.019564	GGGAGATTTGTTCTGGATGGTG	58.980	50.000	0.00	0.00	33.74	4.17
2134	4517	2.292267	CGGGAGATTTGTTCTGGATGG	58.708	52.381	0.00	0.00	33.74	3.51
2163	4547	1.267261	ACTTCGTCGTGTCCAGAGAAG	59.733	52.381	1.98	1.98	40.40	2.85
2165	4549	0.591659	CACTTCGTCGTGTCCAGAGA	59.408	55.000	0.00	0.00	0.00	3.10
2166	4550	0.387367	CCACTTCGTCGTGTCCAGAG	60.387	60.000	0.00	0.00	33.07	3.35
2178	4616	0.803117	TACAGACGAGCTCCACTTCG	59.197	55.000	8.47	0.00	0.00	3.79
2191	4629	4.537965	AGTGATCGAACGCATATACAGAC	58.462	43.478	9.02	0.00	0.00	3.51
2194	4632	4.295870	GGAAGTGATCGAACGCATATACA	58.704	43.478	9.02	0.00	0.00	2.29
2199	4637	0.806102	CGGGAAGTGATCGAACGCAT	60.806	55.000	9.02	0.00	0.00	4.73
2219	4709	3.541713	CCTCCCCGGTAGCAGCTC	61.542	72.222	0.00	0.00	0.00	4.09
2243	4733	4.953868	TCAACACCCGACCGCACG	62.954	66.667	0.00	0.00	0.00	5.34
2244	4734	2.358247	ATCAACACCCGACCGCAC	60.358	61.111	0.00	0.00	0.00	5.34
2245	4735	2.358125	CATCAACACCCGACCGCA	60.358	61.111	0.00	0.00	0.00	5.69
2246	4736	3.124921	CCATCAACACCCGACCGC	61.125	66.667	0.00	0.00	0.00	5.68
2247	4737	2.032634	CACCATCAACACCCGACCG	61.033	63.158	0.00	0.00	0.00	4.79
2248	4738	1.674322	CCACCATCAACACCCGACC	60.674	63.158	0.00	0.00	0.00	4.79
2249	4739	1.674322	CCCACCATCAACACCCGAC	60.674	63.158	0.00	0.00	0.00	4.79
2250	4740	2.753701	CCCACCATCAACACCCGA	59.246	61.111	0.00	0.00	0.00	5.14
2251	4741	2.361104	CCCCACCATCAACACCCG	60.361	66.667	0.00	0.00	0.00	5.28
2252	4742	2.037208	CCCCCACCATCAACACCC	59.963	66.667	0.00	0.00	0.00	4.61
2253	4743	1.606313	CACCCCCACCATCAACACC	60.606	63.158	0.00	0.00	0.00	4.16
2254	4744	0.039618	ATCACCCCCACCATCAACAC	59.960	55.000	0.00	0.00	0.00	3.32
2255	4745	0.039472	CATCACCCCCACCATCAACA	59.961	55.000	0.00	0.00	0.00	3.33
2256	4746	0.684153	CCATCACCCCCACCATCAAC	60.684	60.000	0.00	0.00	0.00	3.18
2257	4747	1.696686	CCATCACCCCCACCATCAA	59.303	57.895	0.00	0.00	0.00	2.57
2258	4748	2.315794	CCCATCACCCCCACCATCA	61.316	63.158	0.00	0.00	0.00	3.07
2259	4749	1.999634	CTCCCATCACCCCCACCATC	62.000	65.000	0.00	0.00	0.00	3.51
2260	4750	2.008723	CTCCCATCACCCCCACCAT	61.009	63.158	0.00	0.00	0.00	3.55
2261	4751	2.613696	CTCCCATCACCCCCACCA	60.614	66.667	0.00	0.00	0.00	4.17
2262	4752	3.420482	CCTCCCATCACCCCCACC	61.420	72.222	0.00	0.00	0.00	4.61
2263	4753	2.286121	TCCTCCCATCACCCCCAC	60.286	66.667	0.00	0.00	0.00	4.61
2264	4754	2.042762	CTCCTCCCATCACCCCCA	59.957	66.667	0.00	0.00	0.00	4.96
2265	4755	2.774351	CCTCCTCCCATCACCCCC	60.774	72.222	0.00	0.00	0.00	5.40
2266	4756	2.774351	CCCTCCTCCCATCACCCC	60.774	72.222	0.00	0.00	0.00	4.95
2267	4757	3.493303	GCCCTCCTCCCATCACCC	61.493	72.222	0.00	0.00	0.00	4.61
2268	4758	3.493303	GGCCCTCCTCCCATCACC	61.493	72.222	0.00	0.00	0.00	4.02
2269	4759	3.866582	CGGCCCTCCTCCCATCAC	61.867	72.222	0.00	0.00	0.00	3.06
2364	5983	0.469917	TCCAATTCCGGCCAGATCTC	59.530	55.000	2.24	0.00	0.00	2.75
2365	5984	0.181350	GTCCAATTCCGGCCAGATCT	59.819	55.000	2.24	0.00	0.00	2.75
2406	6025	2.528127	ACCACCATCGACACCCCA	60.528	61.111	0.00	0.00	0.00	4.96
2407	6026	2.046314	CACCACCATCGACACCCC	60.046	66.667	0.00	0.00	0.00	4.95
2418	6037	2.358247	CGGCTACCACACACCACC	60.358	66.667	0.00	0.00	0.00	4.61
2454	6073	2.821366	CCGCATCCACTCCAGTGC	60.821	66.667	0.76	0.00	44.34	4.40
2456	6075	4.101448	GGCCGCATCCACTCCAGT	62.101	66.667	0.00	0.00	0.00	4.00
2482	6101	1.756950	ATTCTCGCCCACCGCTCTA	60.757	57.895	0.00	0.00	36.73	2.43
2513	6132	1.150536	AGCCCACGCTTGGAGAAAA	59.849	52.632	11.54	0.00	45.55	2.29
2516	6135	2.293318	ATCAGCCCACGCTTGGAGA	61.293	57.895	11.54	6.15	45.55	3.71
2533	6152	4.525487	TCCGCGACCCTAAAATATACTCAT	59.475	41.667	8.23	0.00	0.00	2.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.