AutoCloner

Multiple sequence alignment - TraesCS1D01G115000

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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	TraesCS1D01G115000	chr1D	100.000	3174	0	0	1	3174	110906378	110903205	0.000000e+00	5862.0
1	TraesCS1D01G115000	chr1D	94.727	1043	47	3	2128	3162	475528296	475527254	0.000000e+00	1615.0
2	TraesCS1D01G115000	chr6B	90.894	1867	111	22	251	2102	694681910	694680088	0.000000e+00	2451.0
3	TraesCS1D01G115000	chr7A	90.713	1852	107	23	251	2082	625643113	625641307	0.000000e+00	2407.0
4	TraesCS1D01G115000	chr7A	92.616	1571	85	15	251	1808	625675906	625674354	0.000000e+00	2230.0
5	TraesCS1D01G115000	chr7A	92.411	1041	61	7	2127	3163	475799954	475798928	0.000000e+00	1469.0
6	TraesCS1D01G115000	chr7A	84.739	1055	127	7	1002	2052	631652533	631653557	0.000000e+00	1026.0
7	TraesCS1D01G115000	chr7A	85.441	261	17	7	4	252	625643447	625643196	5.260000e-63	252.0
8	TraesCS1D01G115000	chr7D	91.673	1369	73	21	757	2102	543731876	543730526	0.000000e+00	1858.0
9	TraesCS1D01G115000	chr7D	94.787	1055	40	5	2128	3174	36177460	36176413	0.000000e+00	1629.0
10	TraesCS1D01G115000	chr7D	93.631	1052	49	10	2127	3162	245402432	245401383	0.000000e+00	1555.0
11	TraesCS1D01G115000	chr7D	83.252	1021	116	22	979	1989	530430811	530431786	0.000000e+00	887.0
12	TraesCS1D01G115000	chr7D	87.864	206	13	2	61	254	543732620	543732415	6.850000e-57	231.0
13	TraesCS1D01G115000	chr1B	95.446	1076	33	12	794	1864	169025363	169024299	0.000000e+00	1701.0
14	TraesCS1D01G115000	chr1B	92.412	514	20	7	14	520	169029466	169028965	0.000000e+00	715.0
15	TraesCS1D01G115000	chr1B	93.818	275	7	2	1857	2127	169013846	169013578	3.810000e-109	405.0
16	TraesCS1D01G115000	chr1B	100.000	32	0	0	14	45	169029792	169029761	3.420000e-05	60.2
17	TraesCS1D01G115000	chr6D	95.014	1043	42	4	2127	3159	472510962	472512004	0.000000e+00	1629.0
18	TraesCS1D01G115000	chr6D	94.450	1045	48	4	2128	3162	7981042	7979998	0.000000e+00	1600.0
19	TraesCS1D01G115000	chr6D	94.247	1043	52	3	2128	3162	306318199	306317157	0.000000e+00	1587.0
20	TraesCS1D01G115000	chr6D	94.028	1055	43	6	2128	3162	29978789	29977735	0.000000e+00	1581.0
21	TraesCS1D01G115000	chr3D	93.942	1040	55	3	2128	3159	85226134	85227173	0.000000e+00	1565.0
22	TraesCS1D01G115000	chr3D	93.548	1054	49	11	2123	3159	42349625	42350676	0.000000e+00	1552.0
23	TraesCS1D01G115000	chr4D	93.684	1045	57	4	2127	3162	507114495	507113451	0.000000e+00	1555.0
24	TraesCS1D01G115000	chr2D	92.053	1057	61	13	2125	3159	74953109	74954164	0.000000e+00	1465.0
25	TraesCS1D01G115000	chr6A	91.188	1044	72	10	2123	3156	608441019	608439986	0.000000e+00	1400.0
26	TraesCS1D01G115000	chr2A	90.307	1042	77	14	2128	3156	84021467	84022497	0.000000e+00	1343.0
27	TraesCS1D01G115000	chr2A	83.333	408	35	15	792	1178	701782706	701783101	2.340000e-91	346.0
28	TraesCS1D01G115000	chr2A	85.714	266	17	5	1	254	701781663	701781919	8.730000e-66	261.0
29	TraesCS1D01G115000	chr7B	87.122	893	65	24	251	1122	587480362	587479499	0.000000e+00	966.0
30	TraesCS1D01G115000	chr7B	86.674	893	69	31	251	1122	587519623	587518760	0.000000e+00	944.0
31	TraesCS1D01G115000	chr7B	86.168	882	67	22	251	1124	587102429	587101595	0.000000e+00	902.0
32	TraesCS1D01G115000	chr7B	85.601	882	63	25	251	1124	587267636	587266811	0.000000e+00	867.0
33	TraesCS1D01G115000	chr7B	89.216	714	43	12	251	956	587441357	587440670	0.000000e+00	861.0
34	TraesCS1D01G115000	chr7B	87.176	772	79	11	1057	1812	569439964	569440731	0.000000e+00	859.0
35	TraesCS1D01G115000	chr7B	82.968	957	114	24	1110	2057	591565963	591565047	0.000000e+00	819.0
36	TraesCS1D01G115000	chr7B	87.761	670	47	13	258	918	587615884	587615241	0.000000e+00	750.0
37	TraesCS1D01G115000	chr7B	87.712	236	24	1	988	1218	587464528	587464293	1.450000e-68	270.0

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	TraesCS1D01G115000	chr1D	110903205	110906378	3173	True	5862.0	5862	100.000000	1	3174	1	chr1D.!!$R1	3173
1	TraesCS1D01G115000	chr1D	475527254	475528296	1042	True	1615.0	1615	94.727000	2128	3162	1	chr1D.!!$R2	1034
2	TraesCS1D01G115000	chr6B	694680088	694681910	1822	True	2451.0	2451	90.894000	251	2102	1	chr6B.!!$R1	1851
3	TraesCS1D01G115000	chr7A	625674354	625675906	1552	True	2230.0	2230	92.616000	251	1808	1	chr7A.!!$R2	1557
4	TraesCS1D01G115000	chr7A	475798928	475799954	1026	True	1469.0	1469	92.411000	2127	3163	1	chr7A.!!$R1	1036
5	TraesCS1D01G115000	chr7A	625641307	625643447	2140	True	1329.5	2407	88.077000	4	2082	2	chr7A.!!$R3	2078
6	TraesCS1D01G115000	chr7A	631652533	631653557	1024	False	1026.0	1026	84.739000	1002	2052	1	chr7A.!!$F1	1050
7	TraesCS1D01G115000	chr7D	36176413	36177460	1047	True	1629.0	1629	94.787000	2128	3174	1	chr7D.!!$R1	1046
8	TraesCS1D01G115000	chr7D	245401383	245402432	1049	True	1555.0	1555	93.631000	2127	3162	1	chr7D.!!$R2	1035
9	TraesCS1D01G115000	chr7D	543730526	543732620	2094	True	1044.5	1858	89.768500	61	2102	2	chr7D.!!$R3	2041
10	TraesCS1D01G115000	chr7D	530430811	530431786	975	False	887.0	887	83.252000	979	1989	1	chr7D.!!$F1	1010
11	TraesCS1D01G115000	chr1B	169024299	169029792	5493	True	825.4	1701	95.952667	14	1864	3	chr1B.!!$R2	1850
12	TraesCS1D01G115000	chr6D	472510962	472512004	1042	False	1629.0	1629	95.014000	2127	3159	1	chr6D.!!$F1	1032
13	TraesCS1D01G115000	chr6D	7979998	7981042	1044	True	1600.0	1600	94.450000	2128	3162	1	chr6D.!!$R1	1034
14	TraesCS1D01G115000	chr6D	306317157	306318199	1042	True	1587.0	1587	94.247000	2128	3162	1	chr6D.!!$R3	1034
15	TraesCS1D01G115000	chr6D	29977735	29978789	1054	True	1581.0	1581	94.028000	2128	3162	1	chr6D.!!$R2	1034
16	TraesCS1D01G115000	chr3D	85226134	85227173	1039	False	1565.0	1565	93.942000	2128	3159	1	chr3D.!!$F2	1031
17	TraesCS1D01G115000	chr3D	42349625	42350676	1051	False	1552.0	1552	93.548000	2123	3159	1	chr3D.!!$F1	1036
18	TraesCS1D01G115000	chr4D	507113451	507114495	1044	True	1555.0	1555	93.684000	2127	3162	1	chr4D.!!$R1	1035
19	TraesCS1D01G115000	chr2D	74953109	74954164	1055	False	1465.0	1465	92.053000	2125	3159	1	chr2D.!!$F1	1034
20	TraesCS1D01G115000	chr6A	608439986	608441019	1033	True	1400.0	1400	91.188000	2123	3156	1	chr6A.!!$R1	1033
21	TraesCS1D01G115000	chr2A	84021467	84022497	1030	False	1343.0	1343	90.307000	2128	3156	1	chr2A.!!$F1	1028
22	TraesCS1D01G115000	chr2A	701781663	701783101	1438	False	303.5	346	84.523500	1	1178	2	chr2A.!!$F2	1177
23	TraesCS1D01G115000	chr7B	587479499	587480362	863	True	966.0	966	87.122000	251	1122	1	chr7B.!!$R5	871
24	TraesCS1D01G115000	chr7B	587518760	587519623	863	True	944.0	944	86.674000	251	1122	1	chr7B.!!$R6	871
25	TraesCS1D01G115000	chr7B	587101595	587102429	834	True	902.0	902	86.168000	251	1124	1	chr7B.!!$R1	873
26	TraesCS1D01G115000	chr7B	587266811	587267636	825	True	867.0	867	85.601000	251	1124	1	chr7B.!!$R2	873
27	TraesCS1D01G115000	chr7B	587440670	587441357	687	True	861.0	861	89.216000	251	956	1	chr7B.!!$R3	705
28	TraesCS1D01G115000	chr7B	569439964	569440731	767	False	859.0	859	87.176000	1057	1812	1	chr7B.!!$F1	755
29	TraesCS1D01G115000	chr7B	591565047	591565963	916	True	819.0	819	82.968000	1110	2057	1	chr7B.!!$R8	947
30	TraesCS1D01G115000	chr7B	587615241	587615884	643	True	750.0	750	87.761000	258	918	1	chr7B.!!$R7	660

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	3982	0.03254	GTTGCACAGCCCTTCAAAGG	59.967	55.0	1.54	1.54	46.06	3.11	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2375	6285	1.067846	AGACGACTTAATGAGCGCACA	60.068	47.619	10.65	10.65	0.0	4.57	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
123	450	4.437390	CGATGCTTGTTGGTACCTTTCATC	60.437	45.833	14.36	14.37	0.00	2.92
202	529	4.608774	TGACCGACGGTGACCCCT	62.609	66.667	27.26	0.00	35.25	4.79
248	686	0.674581	CGCCTTGTTGCTGATCTCCA	60.675	55.000	0.00	0.00	0.00	3.86
249	687	0.807496	GCCTTGTTGCTGATCTCCAC	59.193	55.000	0.00	0.00	0.00	4.02
301	739	2.663196	GCCTTGGGCTGACGTACT	59.337	61.111	0.80	0.00	46.69	2.73
316	754	1.193874	CGTACTTTGAAGTTGTCCGGC	59.806	52.381	0.00	0.00	40.37	6.13
317	755	2.490991	GTACTTTGAAGTTGTCCGGCT	58.509	47.619	0.00	0.00	40.37	5.52
318	756	1.308998	ACTTTGAAGTTGTCCGGCTG	58.691	50.000	0.00	0.00	35.21	4.85
319	757	0.593128	CTTTGAAGTTGTCCGGCTGG	59.407	55.000	4.71	4.71	0.00	4.85
320	758	0.106918	TTTGAAGTTGTCCGGCTGGT	60.107	50.000	12.43	0.00	36.30	4.00
321	759	0.817634	TTGAAGTTGTCCGGCTGGTG	60.818	55.000	12.43	0.00	36.30	4.17
322	760	2.594592	AAGTTGTCCGGCTGGTGC	60.595	61.111	12.43	6.71	36.30	5.01
323	761	3.414136	AAGTTGTCCGGCTGGTGCA	62.414	57.895	12.43	9.45	41.91	4.57
324	762	2.672996	GTTGTCCGGCTGGTGCAT	60.673	61.111	12.43	0.00	41.91	3.96
325	763	2.672651	TTGTCCGGCTGGTGCATG	60.673	61.111	12.43	0.00	41.91	4.06
326	764	4.720902	TGTCCGGCTGGTGCATGG	62.721	66.667	12.43	0.00	41.91	3.66
578	3982	0.032540	GTTGCACAGCCCTTCAAAGG	59.967	55.000	1.54	1.54	46.06	3.11
1029	4867	3.506096	CCACCGTCTCGCGAGCTA	61.506	66.667	30.97	12.71	44.77	3.32
1105	4943	4.508128	GAGACGGCGCATCGGGAA	62.508	66.667	10.83	0.00	0.00	3.97
1226	5065	3.518998	CTCGTCCGCTCACCCGAT	61.519	66.667	0.00	0.00	0.00	4.18
1705	5584	4.681978	GCTCGTGGACGCCTGGTT	62.682	66.667	0.00	0.00	39.60	3.67
1958	5850	3.023949	GCTCCTCACATGCGACCCT	62.024	63.158	0.00	0.00	0.00	4.34
2009	5901	3.484806	TGCCCGTGGTTCACTGGT	61.485	61.111	9.57	0.00	40.17	4.00
2016	5908	1.839747	TGGTTCACTGGTACCGCCT	60.840	57.895	7.57	0.00	37.28	5.52
2051	5949	0.249784	CTGCGTAGGATGCATGCTCT	60.250	55.000	25.15	15.36	39.71	4.09
2052	5950	1.000171	CTGCGTAGGATGCATGCTCTA	60.000	52.381	25.15	14.38	39.71	2.43
2053	5951	1.269778	TGCGTAGGATGCATGCTCTAC	60.270	52.381	25.15	22.53	34.76	2.59
2054	5952	1.691127	CGTAGGATGCATGCTCTACG	58.309	55.000	32.10	32.10	45.40	3.51
2056	5954	2.667137	GTAGGATGCATGCTCTACGAC	58.333	52.381	25.15	12.95	0.00	4.34
2077	5975	5.201713	ACTACCACCATTCTACATCATCG	57.798	43.478	0.00	0.00	0.00	3.84
2102	6000	2.033550	CGGAGTCCATTTCTAGTCCTCG	59.966	54.545	10.49	0.00	33.70	4.63
2103	6001	3.288964	GGAGTCCATTTCTAGTCCTCGA	58.711	50.000	3.60	0.00	33.19	4.04
2104	6002	3.316868	GGAGTCCATTTCTAGTCCTCGAG	59.683	52.174	5.13	5.13	33.19	4.04
2105	6003	3.292460	AGTCCATTTCTAGTCCTCGAGG	58.708	50.000	26.32	26.32	0.00	4.63
2106	6004	2.362717	GTCCATTTCTAGTCCTCGAGGG	59.637	54.545	30.80	15.09	35.41	4.30
2107	6005	2.024273	TCCATTTCTAGTCCTCGAGGGT	60.024	50.000	30.80	20.36	36.25	4.34
2108	6006	3.203710	TCCATTTCTAGTCCTCGAGGGTA	59.796	47.826	30.80	20.39	36.25	3.69
2109	6007	3.318557	CCATTTCTAGTCCTCGAGGGTAC	59.681	52.174	30.80	21.97	36.25	3.34
2110	6008	3.726557	TTTCTAGTCCTCGAGGGTACA	57.273	47.619	30.80	9.24	36.25	2.90
2111	6009	3.726557	TTCTAGTCCTCGAGGGTACAA	57.273	47.619	30.80	13.72	36.25	2.41
2112	6010	3.726557	TCTAGTCCTCGAGGGTACAAA	57.273	47.619	30.80	13.53	36.25	2.83
2113	6011	3.618351	TCTAGTCCTCGAGGGTACAAAG	58.382	50.000	30.80	20.99	36.25	2.77
2114	6012	1.558233	AGTCCTCGAGGGTACAAAGG	58.442	55.000	30.80	3.16	36.25	3.11
2115	6013	1.203149	AGTCCTCGAGGGTACAAAGGT	60.203	52.381	30.80	4.01	36.25	3.50
2116	6014	1.067071	GTCCTCGAGGGTACAAAGGTG	60.067	57.143	30.80	0.89	36.25	4.00
2117	6015	1.203087	TCCTCGAGGGTACAAAGGTGA	60.203	52.381	30.80	4.17	36.25	4.02
2118	6016	1.831736	CCTCGAGGGTACAAAGGTGAT	59.168	52.381	24.62	0.00	0.00	3.06
2119	6017	3.028850	CCTCGAGGGTACAAAGGTGATA	58.971	50.000	24.62	0.00	0.00	2.15
2120	6018	3.641906	CCTCGAGGGTACAAAGGTGATAT	59.358	47.826	24.62	0.00	0.00	1.63
2121	6019	4.501571	CCTCGAGGGTACAAAGGTGATATG	60.502	50.000	24.62	0.00	0.00	1.78
2122	6020	4.028131	TCGAGGGTACAAAGGTGATATGT	58.972	43.478	0.00	0.00	0.00	2.29
2123	6021	4.468510	TCGAGGGTACAAAGGTGATATGTT	59.531	41.667	0.00	0.00	0.00	2.71
2124	6022	5.046159	TCGAGGGTACAAAGGTGATATGTTT	60.046	40.000	0.00	0.00	0.00	2.83
2125	6023	5.646360	CGAGGGTACAAAGGTGATATGTTTT	59.354	40.000	0.00	0.00	0.00	2.43
2126	6024	6.403200	CGAGGGTACAAAGGTGATATGTTTTG	60.403	42.308	0.00	0.00	36.77	2.44
2127	6025	5.714806	AGGGTACAAAGGTGATATGTTTTGG	59.285	40.000	0.00	0.00	35.42	3.28
2128	6026	5.712917	GGGTACAAAGGTGATATGTTTTGGA	59.287	40.000	0.00	0.00	35.42	3.53
2129	6027	6.127730	GGGTACAAAGGTGATATGTTTTGGAG	60.128	42.308	0.00	0.00	35.42	3.86
2130	6028	6.433093	GGTACAAAGGTGATATGTTTTGGAGT	59.567	38.462	0.00	0.00	35.42	3.85
2281	6190	1.007038	CGTTTTCTGACGGTCCGGA	60.007	57.895	17.28	0.00	39.27	5.14
2408	6337	0.106419	GTCGTCTCCCTCCCTCTCAT	60.106	60.000	0.00	0.00	0.00	2.90
2611	6553	6.620949	GCTCTTTGGGTAAGTTTTTCGATCTC	60.621	42.308	0.00	0.00	35.28	2.75
2695	6638	4.142038	AGGGTAAGCTTTGGTTACTGTTG	58.858	43.478	3.20	0.00	43.38	3.33
2739	6682	2.982470	GCTGTTTGAGCTGTGTTTATGC	59.018	45.455	0.00	0.00	45.21	3.14
2768	6717	7.391388	TTCAAAACTAGGGTTAGGGTTCTTA	57.609	36.000	0.00	0.00	34.90	2.10
2786	6735	6.096423	GGTTCTTACTGGATTGGGGAATTAAC	59.904	42.308	0.00	0.00	0.00	2.01
2892	6841	2.416107	TTTCTGTGGCCAGCTGGAGG	62.416	60.000	37.21	18.72	38.66	4.30
3151	7107	1.745087	ACGAACTGCAATATGCCTTGG	59.255	47.619	0.00	0.00	44.23	3.61

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
59	386	3.620300	TACAACTCGTGGAGGCGCG	62.620	63.158	0.00	0.00	33.35	6.86
202	529	0.876777	ACGTCGTCGGCATCAACAAA	60.877	50.000	7.05	0.00	41.85	2.83
248	686	0.731514	CATGTCTACGCAACGACGGT	60.732	55.000	0.00	0.00	37.37	4.83
249	687	1.988409	CATGTCTACGCAACGACGG	59.012	57.895	0.00	0.00	37.37	4.79
296	734	1.193874	GCCGGACAACTTCAAAGTACG	59.806	52.381	5.05	0.00	38.57	3.67
298	736	2.489971	CAGCCGGACAACTTCAAAGTA	58.510	47.619	5.05	0.00	38.57	2.24
301	739	0.106918	ACCAGCCGGACAACTTCAAA	60.107	50.000	5.05	0.00	35.59	2.69
316	754	2.124403	GGAGAGGCCATGCACCAG	60.124	66.667	5.01	0.00	36.34	4.00
317	755	4.100084	CGGAGAGGCCATGCACCA	62.100	66.667	5.01	0.00	35.94	4.17
318	756	4.864334	CCGGAGAGGCCATGCACC	62.864	72.222	5.01	0.63	35.94	5.01
327	765	3.358076	GACGACTTGGCCGGAGAGG	62.358	68.421	5.05	6.28	44.97	3.69
1105	4943	1.670406	AGCTCGTACTCGTCGGTGT	60.670	57.895	0.00	0.00	38.33	4.16
1233	5072	4.821589	CCTCCTCTTGCCGTCGCC	62.822	72.222	0.00	0.00	0.00	5.54
1685	5564	4.056125	CAGGCGTCCACGAGCTCA	62.056	66.667	15.40	0.00	43.02	4.26
2009	5901	3.142838	GCAGGGACGTAGGCGGTA	61.143	66.667	0.00	0.00	43.45	4.02
2016	5908	2.037367	AGCAGAGGCAGGGACGTA	59.963	61.111	0.00	0.00	44.61	3.57
2051	5949	5.195185	TGATGTAGAATGGTGGTAGTCGTA	58.805	41.667	0.00	0.00	0.00	3.43
2052	5950	4.021229	TGATGTAGAATGGTGGTAGTCGT	58.979	43.478	0.00	0.00	0.00	4.34
2053	5951	4.649088	TGATGTAGAATGGTGGTAGTCG	57.351	45.455	0.00	0.00	0.00	4.18
2054	5952	5.223382	CGATGATGTAGAATGGTGGTAGTC	58.777	45.833	0.00	0.00	0.00	2.59
2055	5953	4.501571	GCGATGATGTAGAATGGTGGTAGT	60.502	45.833	0.00	0.00	0.00	2.73
2056	5954	3.990469	GCGATGATGTAGAATGGTGGTAG	59.010	47.826	0.00	0.00	0.00	3.18
2077	5975	3.449632	GACTAGAAATGGACTCCGAAGC	58.550	50.000	0.00	0.00	0.00	3.86
2102	6000	6.127730	CCAAAACATATCACCTTTGTACCCTC	60.128	42.308	0.00	0.00	0.00	4.30
2103	6001	5.714806	CCAAAACATATCACCTTTGTACCCT	59.285	40.000	0.00	0.00	0.00	4.34
2104	6002	5.712917	TCCAAAACATATCACCTTTGTACCC	59.287	40.000	0.00	0.00	0.00	3.69
2105	6003	6.433093	ACTCCAAAACATATCACCTTTGTACC	59.567	38.462	0.00	0.00	0.00	3.34
2106	6004	7.448748	ACTCCAAAACATATCACCTTTGTAC	57.551	36.000	0.00	0.00	0.00	2.90
2107	6005	9.747898	ATTACTCCAAAACATATCACCTTTGTA	57.252	29.630	0.00	0.00	0.00	2.41
2108	6006	8.650143	ATTACTCCAAAACATATCACCTTTGT	57.350	30.769	0.00	0.00	0.00	2.83
2110	6008	8.903820	GCTATTACTCCAAAACATATCACCTTT	58.096	33.333	0.00	0.00	0.00	3.11
2111	6009	8.052748	TGCTATTACTCCAAAACATATCACCTT	58.947	33.333	0.00	0.00	0.00	3.50
2112	6010	7.573710	TGCTATTACTCCAAAACATATCACCT	58.426	34.615	0.00	0.00	0.00	4.00
2113	6011	7.801716	TGCTATTACTCCAAAACATATCACC	57.198	36.000	0.00	0.00	0.00	4.02
2121	6019	9.999009	GGTAGTTTTATGCTATTACTCCAAAAC	57.001	33.333	0.00	0.00	35.61	2.43
2122	6020	9.742144	TGGTAGTTTTATGCTATTACTCCAAAA	57.258	29.630	0.00	0.00	0.00	2.44
2123	6021	9.169592	GTGGTAGTTTTATGCTATTACTCCAAA	57.830	33.333	0.00	0.00	0.00	3.28
2124	6022	8.545472	AGTGGTAGTTTTATGCTATTACTCCAA	58.455	33.333	0.00	0.00	0.00	3.53
2125	6023	8.086143	AGTGGTAGTTTTATGCTATTACTCCA	57.914	34.615	0.00	0.00	0.00	3.86
2126	6024	8.959705	AAGTGGTAGTTTTATGCTATTACTCC	57.040	34.615	0.00	0.00	0.00	3.85
2334	6243	2.390599	CGGTCGGTCGGAGTAACGA	61.391	63.158	0.00	0.00	41.13	3.85
2375	6285	1.067846	AGACGACTTAATGAGCGCACA	60.068	47.619	10.65	10.65	0.00	4.57
2408	6337	3.717294	GCGGGCAGGGGAGAAGAA	61.717	66.667	0.00	0.00	0.00	2.52
2611	6553	1.763545	GAACCCTAACCCTAGCTCAGG	59.236	57.143	0.00	0.00	45.07	3.86
2695	6638	4.498894	ACCATAACCCTGCCTACTAAAC	57.501	45.455	0.00	0.00	0.00	2.01
2739	6682	4.399303	CCCTAACCCTAGTTTTGAAGCATG	59.601	45.833	0.00	0.00	37.42	4.06
2768	6717	6.081356	TCAAAAGTTAATTCCCCAATCCAGT	58.919	36.000	0.00	0.00	0.00	4.00
2786	6735	6.875726	TCACAGAACCAGACATAGATCAAAAG	59.124	38.462	0.00	0.00	0.00	2.27
2857	6806	1.578206	GAAAAGAGGCTCCACGGTGC	61.578	60.000	11.71	1.42	0.00	5.01
2892	6841	1.270550	CATGCAGGTGGGTTCAGAAAC	59.729	52.381	0.00	0.00	34.46	2.78

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.