AutoCloner

Multiple sequence alignment - TraesCS1B01G038600

Loading Multiple Alignment...

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	TraesCS1B01G038600	chr1B	100.000	3092	0	0	1	3092	18365466	18362375	0.000000e+00	5710.0
1	TraesCS1B01G038600	chr1B	98.291	2165	32	4	931	3092	18684571	18686733	0.000000e+00	3788.0
2	TraesCS1B01G038600	chr1B	94.691	2166	102	6	931	3092	18092588	18090432	0.000000e+00	3350.0
3	TraesCS1B01G038600	chr1B	95.381	1537	70	1	932	2468	17895352	17893817	0.000000e+00	2444.0
4	TraesCS1B01G038600	chr1B	90.325	1664	149	9	931	2590	539871725	539870070	0.000000e+00	2170.0
5	TraesCS1B01G038600	chr1B	88.150	1384	150	10	931	2306	18117438	18116061	0.000000e+00	1635.0
6	TraesCS1B01G038600	chr1B	83.031	1874	230	57	1012	2827	17965678	17963835	0.000000e+00	1618.0
7	TraesCS1B01G038600	chr1B	75.851	323	44	24	2762	3080	539870067	539869775	1.930000e-27	134.0
8	TraesCS1B01G038600	chr1B	76.208	269	35	22	2584	2827	18115778	18115514	7.010000e-22	115.0
9	TraesCS1B01G038600	chr1B	78.808	151	18	10	2581	2717	19073361	19073211	4.250000e-14	89.8
10	TraesCS1B01G038600	chr2B	93.344	1277	73	5	932	2200	95096261	95094989	0.000000e+00	1877.0
11	TraesCS1B01G038600	chr2B	92.857	854	39	9	2243	3092	95094920	95094085	0.000000e+00	1219.0
12	TraesCS1B01G038600	chr2B	94.000	50	2	1	2307	2356	95094960	95094912	1.190000e-09	75.0
13	TraesCS1B01G038600	chr1D	80.890	2224	299	64	931	3080	12550775	12548604	0.000000e+00	1637.0
14	TraesCS1B01G038600	chr1D	90.111	1173	113	3	931	2102	13253482	13254652	0.000000e+00	1520.0
15	TraesCS1B01G038600	chr1D	96.695	817	25	2	100	916	393549402	393550216	0.000000e+00	1358.0
16	TraesCS1B01G038600	chr1D	96.450	817	28	1	100	916	368797057	368797872	0.000000e+00	1347.0
17	TraesCS1B01G038600	chr1A	91.560	1173	97	2	931	2103	14586117	14587287	0.000000e+00	1616.0
18	TraesCS1B01G038600	chr1A	97.087	103	3	0	1	103	189266029	189266131	1.140000e-39	174.0
19	TraesCS1B01G038600	chr5D	96.519	833	26	3	100	932	563848680	563847851	0.000000e+00	1375.0
20	TraesCS1B01G038600	chr5D	97.087	103	3	0	1	103	199922117	199922219	1.140000e-39	174.0
21	TraesCS1B01G038600	chr4D	96.506	830	26	3	100	929	289509777	289510603	0.000000e+00	1369.0
22	TraesCS1B01G038600	chr4D	97.087	103	3	0	1	103	411512990	411512888	1.140000e-39	174.0
23	TraesCS1B01G038600	chr5B	96.279	833	31	0	100	932	239107549	239106717	0.000000e+00	1367.0
24	TraesCS1B01G038600	chr6D	96.279	833	27	4	100	932	356794836	356794008	0.000000e+00	1363.0
25	TraesCS1B01G038600	chr6D	97.087	103	3	0	1	103	222024919	222024817	1.140000e-39	174.0
26	TraesCS1B01G038600	chr3D	96.386	830	27	3	100	929	790765	791591	0.000000e+00	1363.0
27	TraesCS1B01G038600	chr3D	97.087	103	3	0	1	103	1785991	1786093	1.140000e-39	174.0
28	TraesCS1B01G038600	chr2D	96.145	830	29	3	100	929	154545005	154545831	0.000000e+00	1352.0
29	TraesCS1B01G038600	chr2D	95.495	111	4	1	1	111	547484144	547484035	3.170000e-40	176.0
30	TraesCS1B01G038600	chr7D	95.918	833	32	2	100	932	83244149	83243319	0.000000e+00	1349.0
31	TraesCS1B01G038600	chr3B	98.020	101	2	0	1	101	793747875	793747975	3.170000e-40	176.0
32	TraesCS1B01G038600	chr6A	97.087	103	3	0	1	103	271964105	271964207	1.140000e-39	174.0
33	TraesCS1B01G038600	chr4B	97.087	103	3	0	1	103	624433085	624433187	1.140000e-39	174.0

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	TraesCS1B01G038600	chr1B	18362375	18365466	3091	True	5710	5710	100.000000	1	3092	1	chr1B.!!$R4	3091
1	TraesCS1B01G038600	chr1B	18684571	18686733	2162	False	3788	3788	98.291000	931	3092	1	chr1B.!!$F1	2161
2	TraesCS1B01G038600	chr1B	18090432	18092588	2156	True	3350	3350	94.691000	931	3092	1	chr1B.!!$R3	2161
3	TraesCS1B01G038600	chr1B	17893817	17895352	1535	True	2444	2444	95.381000	932	2468	1	chr1B.!!$R1	1536
4	TraesCS1B01G038600	chr1B	17963835	17965678	1843	True	1618	1618	83.031000	1012	2827	1	chr1B.!!$R2	1815
5	TraesCS1B01G038600	chr1B	539869775	539871725	1950	True	1152	2170	83.088000	931	3080	2	chr1B.!!$R7	2149
6	TraesCS1B01G038600	chr1B	18115514	18117438	1924	True	875	1635	82.179000	931	2827	2	chr1B.!!$R6	1896
7	TraesCS1B01G038600	chr2B	95094085	95096261	2176	True	1057	1877	93.400333	932	3092	3	chr2B.!!$R1	2160
8	TraesCS1B01G038600	chr1D	12548604	12550775	2171	True	1637	1637	80.890000	931	3080	1	chr1D.!!$R1	2149
9	TraesCS1B01G038600	chr1D	13253482	13254652	1170	False	1520	1520	90.111000	931	2102	1	chr1D.!!$F1	1171
10	TraesCS1B01G038600	chr1D	393549402	393550216	814	False	1358	1358	96.695000	100	916	1	chr1D.!!$F3	816
11	TraesCS1B01G038600	chr1D	368797057	368797872	815	False	1347	1347	96.450000	100	916	1	chr1D.!!$F2	816
12	TraesCS1B01G038600	chr1A	14586117	14587287	1170	False	1616	1616	91.560000	931	2103	1	chr1A.!!$F1	1172
13	TraesCS1B01G038600	chr5D	563847851	563848680	829	True	1375	1375	96.519000	100	932	1	chr5D.!!$R1	832
14	TraesCS1B01G038600	chr4D	289509777	289510603	826	False	1369	1369	96.506000	100	929	1	chr4D.!!$F1	829
15	TraesCS1B01G038600	chr5B	239106717	239107549	832	True	1367	1367	96.279000	100	932	1	chr5B.!!$R1	832
16	TraesCS1B01G038600	chr6D	356794008	356794836	828	True	1363	1363	96.279000	100	932	1	chr6D.!!$R2	832
17	TraesCS1B01G038600	chr3D	790765	791591	826	False	1363	1363	96.386000	100	929	1	chr3D.!!$F1	829
18	TraesCS1B01G038600	chr2D	154545005	154545831	826	False	1352	1352	96.145000	100	929	1	chr2D.!!$F1	829
19	TraesCS1B01G038600	chr7D	83243319	83244149	830	True	1349	1349	95.918000	100	932	1	chr7D.!!$R1	832

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
216	217	0.096454	GTTAACGGCCTGTTCGCATC	59.904	55.0	14.79	2.09	42.09	3.91	F
272	273	0.608640	CGCCCTATCCGAATTAGGCT	59.391	55.0	0.00	0.00	38.27	4.58	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1571	1572	4.703897	TCTACAAAGTCCACCAAGAACTG	58.296	43.478	0.0	0.0	0.0	3.16	R
2528	2665	3.259876	TCCGGTTCTTGCTTAGCTTCTTA	59.740	43.478	5.6	0.0	0.0	2.10	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
18	19	3.123674	CCGAAGGCGCCTATGATAC	57.876	57.895	33.07	15.42	46.14	2.24
19	20	0.732880	CCGAAGGCGCCTATGATACG	60.733	60.000	33.07	24.82	46.14	3.06
20	21	0.732880	CGAAGGCGCCTATGATACGG	60.733	60.000	33.07	8.92	0.00	4.02
26	27	2.810486	GCCTATGATACGGCGACAC	58.190	57.895	16.62	4.35	36.45	3.67
27	28	1.002250	GCCTATGATACGGCGACACG	61.002	60.000	16.62	5.88	36.45	4.49
52	53	2.037847	GCCCAACAGAGGCCCATT	59.962	61.111	0.00	0.00	45.16	3.16
53	54	2.054453	GCCCAACAGAGGCCCATTC	61.054	63.158	0.00	0.00	45.16	2.67
54	55	1.380380	CCCAACAGAGGCCCATTCC	60.380	63.158	0.00	0.00	0.00	3.01
55	56	1.693640	CCAACAGAGGCCCATTCCT	59.306	57.895	0.00	0.00	39.67	3.36
56	57	0.918983	CCAACAGAGGCCCATTCCTA	59.081	55.000	0.00	0.00	36.38	2.94
57	58	1.496429	CCAACAGAGGCCCATTCCTAT	59.504	52.381	0.00	0.00	36.38	2.57
59	60	2.173356	CAACAGAGGCCCATTCCTATGA	59.827	50.000	10.93	0.00	45.74	2.15
60	61	2.492025	ACAGAGGCCCATTCCTATGAA	58.508	47.619	10.93	0.00	45.74	2.57
61	62	2.852449	ACAGAGGCCCATTCCTATGAAA	59.148	45.455	10.93	0.00	45.74	2.69
62	63	3.269381	ACAGAGGCCCATTCCTATGAAAA	59.731	43.478	10.93	0.00	45.74	2.29
63	64	3.887716	CAGAGGCCCATTCCTATGAAAAG	59.112	47.826	0.00	0.00	45.74	2.27
64	65	2.625314	GAGGCCCATTCCTATGAAAAGC	59.375	50.000	0.00	0.00	36.38	3.51
65	66	1.688735	GGCCCATTCCTATGAAAAGCC	59.311	52.381	0.00	4.21	37.05	4.35
66	67	1.688735	GCCCATTCCTATGAAAAGCCC	59.311	52.381	0.00	0.00	33.32	5.19
67	68	1.956477	CCCATTCCTATGAAAAGCCCG	59.044	52.381	0.00	0.00	33.32	6.13
68	69	1.956477	CCATTCCTATGAAAAGCCCGG	59.044	52.381	0.00	0.00	33.32	5.73
69	70	1.338020	CATTCCTATGAAAAGCCCGGC	59.662	52.381	0.00	0.00	33.32	6.13
70	71	0.395173	TTCCTATGAAAAGCCCGGCC	60.395	55.000	5.55	0.00	0.00	6.13
71	72	1.828224	CCTATGAAAAGCCCGGCCC	60.828	63.158	5.55	0.00	0.00	5.80
72	73	2.124487	TATGAAAAGCCCGGCCCG	60.124	61.111	5.55	0.00	0.00	6.13
73	74	2.886730	CTATGAAAAGCCCGGCCCGT	62.887	60.000	5.55	0.00	0.00	5.28
74	75	2.487274	TATGAAAAGCCCGGCCCGTT	62.487	55.000	5.55	0.00	0.00	4.44
75	76	3.299977	GAAAAGCCCGGCCCGTTT	61.300	61.111	5.55	4.36	0.00	3.60
76	77	3.567478	GAAAAGCCCGGCCCGTTTG	62.567	63.158	5.55	0.00	0.00	2.93
77	78	4.589675	AAAGCCCGGCCCGTTTGA	62.590	61.111	5.55	0.00	0.00	2.69
81	82	3.361977	CCCGGCCCGTTTGACTTG	61.362	66.667	0.85	0.00	0.00	3.16
82	83	3.361977	CCGGCCCGTTTGACTTGG	61.362	66.667	0.85	0.00	0.00	3.61
83	84	2.593436	CGGCCCGTTTGACTTGGT	60.593	61.111	0.00	0.00	0.00	3.67
84	85	2.190841	CGGCCCGTTTGACTTGGTT	61.191	57.895	0.00	0.00	0.00	3.67
85	86	0.885596	CGGCCCGTTTGACTTGGTTA	60.886	55.000	0.00	0.00	0.00	2.85
86	87	1.320507	GGCCCGTTTGACTTGGTTAA	58.679	50.000	0.00	0.00	0.00	2.01
87	88	1.682323	GGCCCGTTTGACTTGGTTAAA	59.318	47.619	0.00	0.00	0.00	1.52
88	89	2.101082	GGCCCGTTTGACTTGGTTAAAA	59.899	45.455	0.00	0.00	0.00	1.52
89	90	3.377439	GCCCGTTTGACTTGGTTAAAAG	58.623	45.455	0.00	0.00	0.00	2.27
90	91	3.797524	GCCCGTTTGACTTGGTTAAAAGG	60.798	47.826	10.91	10.91	39.15	3.11
91	92	3.382227	CCCGTTTGACTTGGTTAAAAGGT	59.618	43.478	14.57	0.00	38.32	3.50
92	93	4.356289	CCGTTTGACTTGGTTAAAAGGTG	58.644	43.478	10.10	0.00	36.50	4.00
93	94	4.356289	CGTTTGACTTGGTTAAAAGGTGG	58.644	43.478	0.00	0.00	0.00	4.61
94	95	4.116961	GTTTGACTTGGTTAAAAGGTGGC	58.883	43.478	0.00	0.00	0.00	5.01
95	96	1.950909	TGACTTGGTTAAAAGGTGGCG	59.049	47.619	0.00	0.00	0.00	5.69
96	97	1.268625	GACTTGGTTAAAAGGTGGCGG	59.731	52.381	0.00	0.00	0.00	6.13
97	98	0.601057	CTTGGTTAAAAGGTGGCGGG	59.399	55.000	0.00	0.00	0.00	6.13
98	99	0.106116	TTGGTTAAAAGGTGGCGGGT	60.106	50.000	0.00	0.00	0.00	5.28
144	145	2.158325	AGAGGCCCATTCCTGTGAAAAA	60.158	45.455	0.00	0.00	36.38	1.94
150	151	1.613437	CATTCCTGTGAAAAAGCCGGT	59.387	47.619	1.90	0.00	33.32	5.28
216	217	0.096454	GTTAACGGCCTGTTCGCATC	59.904	55.000	14.79	2.09	42.09	3.91
272	273	0.608640	CGCCCTATCCGAATTAGGCT	59.391	55.000	0.00	0.00	38.27	4.58
557	558	1.473258	ACATACGGCCCGTTACTGTA	58.527	50.000	16.82	0.00	41.54	2.74
739	740	1.405105	CGACCCATGATTGGCGAAATT	59.595	47.619	0.00	0.00	42.15	1.82
747	748	6.072008	CCCATGATTGGCGAAATTATGATACA	60.072	38.462	13.74	0.00	42.23	2.29
751	752	4.431416	TGGCGAAATTATGATACACCCT	57.569	40.909	0.00	0.00	0.00	4.34
890	891	2.522185	CATTGATCCCTAAGGCCCATG	58.478	52.381	0.00	0.00	0.00	3.66
949	950	7.455058	AGGCCAATATTCAACCGTAATACATA	58.545	34.615	5.01	0.00	0.00	2.29
1071	1072	3.332187	TCCAGGGATTTTGTACACATGGA	59.668	43.478	11.48	11.48	32.10	3.41
1571	1572	4.331443	TGTGTGCATTGGTACATATTCGAC	59.669	41.667	0.00	0.00	41.73	4.20
2527	2664	6.122277	TGTGTCTGTCTCAAGAAGGAATTTT	58.878	36.000	0.00	0.00	0.00	1.82
2528	2665	6.603201	TGTGTCTGTCTCAAGAAGGAATTTTT	59.397	34.615	0.00	0.00	0.00	1.94
2781	2971	1.136828	TGGGTCCAGTTGTAGCAGTT	58.863	50.000	0.00	0.00	0.00	3.16
2973	3163	6.258727	TCGAAATATTGATGGCTTCAGAGTTC	59.741	38.462	13.07	13.07	35.27	3.01
3064	3262	2.032178	GCCGGTAATTCTCATTGACTGC	59.968	50.000	1.90	0.00	0.00	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	0.732880	CGTATCATAGGCGCCTTCGG	60.733	60.000	37.74	23.73	35.95	4.30
1	2	0.732880	CCGTATCATAGGCGCCTTCG	60.733	60.000	37.74	25.64	39.07	3.79
4	5	2.657237	GCCGTATCATAGGCGCCT	59.343	61.111	34.85	34.85	44.22	5.52
9	10	0.309922	ACGTGTCGCCGTATCATAGG	59.690	55.000	0.00	0.00	39.73	2.57
10	11	1.395670	CACGTGTCGCCGTATCATAG	58.604	55.000	7.58	0.00	39.45	2.23
11	12	0.029700	CCACGTGTCGCCGTATCATA	59.970	55.000	15.65	0.00	39.45	2.15
12	13	1.226859	CCACGTGTCGCCGTATCAT	60.227	57.895	15.65	0.00	39.45	2.45
13	14	2.179767	CCACGTGTCGCCGTATCA	59.820	61.111	15.65	0.00	39.45	2.15
14	15	3.252484	GCCACGTGTCGCCGTATC	61.252	66.667	15.65	0.00	39.45	2.24
15	16	4.058732	TGCCACGTGTCGCCGTAT	62.059	61.111	15.65	0.00	39.45	3.06
36	37	1.380380	GGAATGGGCCTCTGTTGGG	60.380	63.158	4.53	0.00	0.00	4.12
37	38	0.918983	TAGGAATGGGCCTCTGTTGG	59.081	55.000	4.53	0.00	39.50	3.77
38	39	2.173356	TCATAGGAATGGGCCTCTGTTG	59.827	50.000	4.53	1.12	39.50	3.33
39	40	2.492025	TCATAGGAATGGGCCTCTGTT	58.508	47.619	4.53	0.00	39.50	3.16
40	41	2.196742	TCATAGGAATGGGCCTCTGT	57.803	50.000	4.53	0.00	39.50	3.41
41	42	3.582998	TTTCATAGGAATGGGCCTCTG	57.417	47.619	4.53	0.00	39.50	3.35
42	43	3.689569	GCTTTTCATAGGAATGGGCCTCT	60.690	47.826	4.53	0.00	39.50	3.69
43	44	2.625314	GCTTTTCATAGGAATGGGCCTC	59.375	50.000	4.53	0.00	39.50	4.70
44	45	2.670939	GCTTTTCATAGGAATGGGCCT	58.329	47.619	4.53	0.00	42.15	5.19
45	46	1.688735	GGCTTTTCATAGGAATGGGCC	59.311	52.381	0.00	0.00	36.17	5.80
46	47	1.688735	GGGCTTTTCATAGGAATGGGC	59.311	52.381	0.00	0.00	33.61	5.36
47	48	1.956477	CGGGCTTTTCATAGGAATGGG	59.044	52.381	0.00	0.00	33.61	4.00
48	49	1.956477	CCGGGCTTTTCATAGGAATGG	59.044	52.381	0.00	0.00	33.61	3.16
49	50	1.338020	GCCGGGCTTTTCATAGGAATG	59.662	52.381	12.87	0.00	31.93	2.67
50	51	1.692411	GCCGGGCTTTTCATAGGAAT	58.308	50.000	12.87	0.00	31.93	3.01
51	52	0.395173	GGCCGGGCTTTTCATAGGAA	60.395	55.000	22.87	0.00	0.00	3.36
52	53	1.226262	GGCCGGGCTTTTCATAGGA	59.774	57.895	22.87	0.00	0.00	2.94
53	54	1.828224	GGGCCGGGCTTTTCATAGG	60.828	63.158	28.80	0.00	0.00	2.57
54	55	2.186826	CGGGCCGGGCTTTTCATAG	61.187	63.158	28.80	5.53	0.00	2.23
55	56	2.124487	CGGGCCGGGCTTTTCATA	60.124	61.111	28.80	0.00	0.00	2.15
56	57	3.879180	AACGGGCCGGGCTTTTCAT	62.879	57.895	31.78	1.72	0.00	2.57
57	58	4.589675	AACGGGCCGGGCTTTTCA	62.590	61.111	31.78	0.00	0.00	2.69
58	59	3.299977	AAACGGGCCGGGCTTTTC	61.300	61.111	31.78	10.12	0.00	2.29
59	60	3.611674	CAAACGGGCCGGGCTTTT	61.612	61.111	31.78	22.67	0.00	2.27
60	61	4.589675	TCAAACGGGCCGGGCTTT	62.590	61.111	31.78	18.73	0.00	3.51
64	65	3.361977	CAAGTCAAACGGGCCGGG	61.362	66.667	31.78	19.04	0.00	5.73
65	66	3.361977	CCAAGTCAAACGGGCCGG	61.362	66.667	31.78	13.02	0.00	6.13
66	67	0.885596	TAACCAAGTCAAACGGGCCG	60.886	55.000	27.06	27.06	0.00	6.13
67	68	1.320507	TTAACCAAGTCAAACGGGCC	58.679	50.000	0.00	0.00	0.00	5.80
68	69	3.377439	CTTTTAACCAAGTCAAACGGGC	58.623	45.455	0.00	0.00	0.00	6.13
69	70	3.382227	ACCTTTTAACCAAGTCAAACGGG	59.618	43.478	0.00	0.00	0.00	5.28
70	71	4.356289	CACCTTTTAACCAAGTCAAACGG	58.644	43.478	0.00	0.00	0.00	4.44
71	72	4.356289	CCACCTTTTAACCAAGTCAAACG	58.644	43.478	0.00	0.00	0.00	3.60
72	73	4.116961	GCCACCTTTTAACCAAGTCAAAC	58.883	43.478	0.00	0.00	0.00	2.93
73	74	3.181485	CGCCACCTTTTAACCAAGTCAAA	60.181	43.478	0.00	0.00	0.00	2.69
74	75	2.359531	CGCCACCTTTTAACCAAGTCAA	59.640	45.455	0.00	0.00	0.00	3.18
75	76	1.950909	CGCCACCTTTTAACCAAGTCA	59.049	47.619	0.00	0.00	0.00	3.41
76	77	1.268625	CCGCCACCTTTTAACCAAGTC	59.731	52.381	0.00	0.00	0.00	3.01
77	78	1.324383	CCGCCACCTTTTAACCAAGT	58.676	50.000	0.00	0.00	0.00	3.16
78	79	0.601057	CCCGCCACCTTTTAACCAAG	59.399	55.000	0.00	0.00	0.00	3.61
79	80	0.106116	ACCCGCCACCTTTTAACCAA	60.106	50.000	0.00	0.00	0.00	3.67
80	81	0.537828	GACCCGCCACCTTTTAACCA	60.538	55.000	0.00	0.00	0.00	3.67
81	82	1.579964	CGACCCGCCACCTTTTAACC	61.580	60.000	0.00	0.00	0.00	2.85
82	83	1.579964	CCGACCCGCCACCTTTTAAC	61.580	60.000	0.00	0.00	0.00	2.01
83	84	1.302671	CCGACCCGCCACCTTTTAA	60.303	57.895	0.00	0.00	0.00	1.52
84	85	2.348243	CCGACCCGCCACCTTTTA	59.652	61.111	0.00	0.00	0.00	1.52
216	217	1.021968	GCGGGTTGTAAATGGGCTAG	58.978	55.000	0.00	0.00	0.00	3.42
272	273	1.319541	GGCCTAGATGACGCTACTGA	58.680	55.000	0.00	0.00	0.00	3.41
287	288	2.811873	GCTGAATCATATTGGACGGCCT	60.812	50.000	9.82	0.00	34.31	5.19
557	558	1.422531	TGGCCCACAAGCAGAAAATT	58.577	45.000	0.00	0.00	0.00	1.82
739	740	3.901844	GGCCTTCTACAGGGTGTATCATA	59.098	47.826	0.00	0.00	44.16	2.15
747	748	1.281925	CCATGGGCCTTCTACAGGGT	61.282	60.000	2.85	0.00	44.16	4.34
751	752	1.140312	GGATCCATGGGCCTTCTACA	58.860	55.000	13.02	0.00	0.00	2.74
890	891	1.343069	AGGATCCATCGGCCTTCTAC	58.657	55.000	15.82	0.00	0.00	2.59
949	950	5.122519	CAACCTACCCTTTTTGCAAAATGT	58.877	37.500	24.39	21.47	0.00	2.71
1071	1072	5.813513	ATTCCTTTGCTTTCACCAAATCT	57.186	34.783	0.00	0.00	32.34	2.40
1571	1572	4.703897	TCTACAAAGTCCACCAAGAACTG	58.296	43.478	0.00	0.00	0.00	3.16
2527	2664	4.000988	CCGGTTCTTGCTTAGCTTCTTAA	58.999	43.478	5.60	0.00	0.00	1.85
2528	2665	3.259876	TCCGGTTCTTGCTTAGCTTCTTA	59.740	43.478	5.60	0.00	0.00	2.10
2781	2971	9.820725	ATATACATACAAAAGGCTAACGTACAA	57.179	29.630	0.00	0.00	0.00	2.41
2886	3076	6.518493	AGTTACGAGGTTAAACTCAACATGA	58.482	36.000	20.24	0.00	37.34	3.07
2973	3163	8.406172	ACAACACACAGTATGCTTTTAAAAAG	57.594	30.769	1.66	0.00	42.53	2.27
3064	3262	3.323403	TGGAACCAAAAATAACAGGCTGG	59.677	43.478	20.34	0.21	0.00	4.85

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.