AutoCloner

Multiple sequence alignment - TraesCS1B01G042700

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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	TraesCS1B01G042700	chr1B	100.000	2474	0	0	1	2474	22185321	22187794	0.000000e+00	4569.0
1	TraesCS1B01G042700	chr1B	93.368	2337	130	6	2	2333	6437883	6435567	0.000000e+00	3434.0
2	TraesCS1B01G042700	chr1B	85.946	1231	122	23	65	1252	5521102	5519880	0.000000e+00	1267.0
3	TraesCS1B01G042700	chr1B	85.164	1247	124	30	65	1252	5688038	5686794	0.000000e+00	1221.0
4	TraesCS1B01G042700	chr1B	89.117	634	51	9	65	683	5585822	5585192	0.000000e+00	773.0
5	TraesCS1B01G042700	chr1B	87.145	599	62	9	644	1233	5584961	5584369	0.000000e+00	665.0
6	TraesCS1B01G042700	chr1B	92.800	125	8	1	2350	2474	6435578	6435455	1.950000e-41	180.0
7	TraesCS1B01G042700	chr1D	93.713	2195	103	13	2	2165	7157031	7154841	0.000000e+00	3256.0
8	TraesCS1B01G042700	chr1D	90.909	1628	106	26	542	2156	4341947	4343545	0.000000e+00	2148.0
9	TraesCS1B01G042700	chr1D	83.424	2033	241	55	65	2053	5138785	5140765	0.000000e+00	1799.0
10	TraesCS1B01G042700	chr1D	94.450	919	48	2	2	917	4341344	4342262	0.000000e+00	1411.0
11	TraesCS1B01G042700	chr1D	86.953	1234	109	19	64	1252	99010	100236	0.000000e+00	1339.0
12	TraesCS1B01G042700	chr1D	83.065	1429	162	35	673	2053	5356862	5358258	0.000000e+00	1225.0
13	TraesCS1B01G042700	chr1D	82.615	1369	167	33	695	2053	3710385	3709078	0.000000e+00	1144.0
14	TraesCS1B01G042700	chr1D	84.127	819	92	13	1274	2084	100219	101007	0.000000e+00	758.0
15	TraesCS1B01G042700	chr1D	83.007	818	104	10	1274	2084	85404	86193	0.000000e+00	708.0
16	TraesCS1B01G042700	chr1D	91.852	270	21	1	2205	2474	4343809	4344077	2.320000e-100	375.0
17	TraesCS1B01G042700	chr1D	92.032	251	20	0	2219	2469	7154615	7154365	1.090000e-93	353.0
18	TraesCS1B01G042700	chr1D	90.526	95	8	1	65	158	4341312	4341406	9.290000e-25	124.0
19	TraesCS1B01G042700	chr1D	90.526	95	8	1	65	158	7157063	7156969	9.290000e-25	124.0
20	TraesCS1B01G042700	chr1D	92.308	52	2	2	2	52	5138817	5138867	3.410000e-09	73.1
21	TraesCS1B01G042700	chr1A	83.484	1441	159	44	652	2053	6517521	6518921	0.000000e+00	1269.0
22	TraesCS1B01G042700	chr1A	83.373	836	98	13	1261	2084	4095940	4095134	0.000000e+00	736.0
23	TraesCS1B01G042700	chr1A	84.084	666	85	16	65	722	6561451	6562103	7.510000e-175	623.0

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	TraesCS1B01G042700	chr1B	22185321	22187794	2473	False	4569.000000	4569	100.000000	1	2474	1	chr1B.!!$F1	2473
1	TraesCS1B01G042700	chr1B	6435455	6437883	2428	True	1807.000000	3434	93.084000	2	2474	2	chr1B.!!$R4	2472
2	TraesCS1B01G042700	chr1B	5519880	5521102	1222	True	1267.000000	1267	85.946000	65	1252	1	chr1B.!!$R1	1187
3	TraesCS1B01G042700	chr1B	5686794	5688038	1244	True	1221.000000	1221	85.164000	65	1252	1	chr1B.!!$R2	1187
4	TraesCS1B01G042700	chr1B	5584369	5585822	1453	True	719.000000	773	88.131000	65	1233	2	chr1B.!!$R3	1168
5	TraesCS1B01G042700	chr1D	7154365	7157063	2698	True	1244.333333	3256	92.090333	2	2469	3	chr1D.!!$R2	2467
6	TraesCS1B01G042700	chr1D	5356862	5358258	1396	False	1225.000000	1225	83.065000	673	2053	1	chr1D.!!$F2	1380
7	TraesCS1B01G042700	chr1D	3709078	3710385	1307	True	1144.000000	1144	82.615000	695	2053	1	chr1D.!!$R1	1358
8	TraesCS1B01G042700	chr1D	99010	101007	1997	False	1048.500000	1339	85.540000	64	2084	2	chr1D.!!$F3	2020
9	TraesCS1B01G042700	chr1D	4341312	4344077	2765	False	1014.500000	2148	91.934250	2	2474	4	chr1D.!!$F4	2472
10	TraesCS1B01G042700	chr1D	5138785	5140765	1980	False	936.050000	1799	87.866000	2	2053	2	chr1D.!!$F5	2051
11	TraesCS1B01G042700	chr1D	85404	86193	789	False	708.000000	708	83.007000	1274	2084	1	chr1D.!!$F1	810
12	TraesCS1B01G042700	chr1A	6517521	6518921	1400	False	1269.000000	1269	83.484000	652	2053	1	chr1A.!!$F1	1401
13	TraesCS1B01G042700	chr1A	4095134	4095940	806	True	736.000000	736	83.373000	1261	2084	1	chr1A.!!$R1	823
14	TraesCS1B01G042700	chr1A	6561451	6562103	652	False	623.000000	623	84.084000	65	722	1	chr1A.!!$F2	657

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
318	351	0.976641	AGGAAAGAGATGGTGCACGA	59.023	50.000	11.45	7.55	0.0	4.35	F
629	669	1.340017	ACAACCACCATTATCGCAGCT	60.340	47.619	0.00	0.00	0.0	4.24	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1180	1733	0.106469	TGTTGGGGTTGTTGCTGCTA	60.106	50.0	0.0	0.0	0.00	3.49	R
2341	3165	0.038526	CCTTTGCCGAGTACGACACT	60.039	55.0	0.0	0.0	42.66	3.55	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
23	24	5.778161	TGATAAGTGCGTGACATGTAAAG	57.222	39.130	0.00	0.00	0.00	1.85
25	26	3.878086	AAGTGCGTGACATGTAAAGTG	57.122	42.857	0.00	0.00	0.00	3.16
27	28	3.462982	AGTGCGTGACATGTAAAGTGAA	58.537	40.909	0.00	0.00	0.00	3.18
29	30	5.234752	AGTGCGTGACATGTAAAGTGAATA	58.765	37.500	0.00	0.00	0.00	1.75
30	31	5.874810	AGTGCGTGACATGTAAAGTGAATAT	59.125	36.000	0.00	0.00	0.00	1.28
31	32	5.959527	GTGCGTGACATGTAAAGTGAATATG	59.040	40.000	0.00	0.00	0.00	1.78
32	33	5.064579	TGCGTGACATGTAAAGTGAATATGG	59.935	40.000	0.00	0.00	0.00	2.74
33	34	5.501715	CGTGACATGTAAAGTGAATATGGC	58.498	41.667	0.00	0.00	0.00	4.40
36	37	6.914215	GTGACATGTAAAGTGAATATGGCATG	59.086	38.462	10.98	0.00	38.85	4.06
37	38	6.602803	TGACATGTAAAGTGAATATGGCATGT	59.397	34.615	10.98	0.00	45.32	3.21
38	39	7.031226	ACATGTAAAGTGAATATGGCATGTC	57.969	36.000	10.98	8.10	40.82	3.06
40	41	7.286087	ACATGTAAAGTGAATATGGCATGTCAT	59.714	33.333	18.34	18.34	40.82	3.06
42	43	7.056006	TGTAAAGTGAATATGGCATGTCATCT	58.944	34.615	17.77	3.80	0.00	2.90
43	44	8.210265	TGTAAAGTGAATATGGCATGTCATCTA	58.790	33.333	17.77	0.00	0.00	1.98
44	45	9.224267	GTAAAGTGAATATGGCATGTCATCTAT	57.776	33.333	17.77	2.49	0.00	1.98
46	47	9.445878	AAAGTGAATATGGCATGTCATCTATAG	57.554	33.333	17.77	0.00	0.00	1.31
49	50	7.335171	GTGAATATGGCATGTCATCTATAGCAA	59.665	37.037	17.77	0.00	0.00	3.91
50	51	7.884354	TGAATATGGCATGTCATCTATAGCAAA	59.116	33.333	17.77	0.00	0.00	3.68
51	52	5.954296	ATGGCATGTCATCTATAGCAAAC	57.046	39.130	7.07	0.00	0.00	2.93
53	54	5.379187	TGGCATGTCATCTATAGCAAACAT	58.621	37.500	0.00	1.85	0.00	2.71
54	55	5.471116	TGGCATGTCATCTATAGCAAACATC	59.529	40.000	0.00	6.50	0.00	3.06
55	56	5.471116	GGCATGTCATCTATAGCAAACATCA	59.529	40.000	0.00	0.00	0.00	3.07
56	57	6.150641	GGCATGTCATCTATAGCAAACATCAT	59.849	38.462	0.00	0.79	0.00	2.45
57	58	7.021790	GCATGTCATCTATAGCAAACATCATG	58.978	38.462	9.43	10.36	0.00	3.07
60	61	8.593492	TGTCATCTATAGCAAACATCATGTAC	57.407	34.615	0.00	0.00	0.00	2.90
62	63	7.875041	GTCATCTATAGCAAACATCATGTACCT	59.125	37.037	0.00	0.00	0.00	3.08
63	64	8.432013	TCATCTATAGCAAACATCATGTACCTT	58.568	33.333	0.00	0.00	0.00	3.50
65	66	9.632638	ATCTATAGCAAACATCATGTACCTTTT	57.367	29.630	0.00	0.00	0.00	2.27
66	67	9.109393	TCTATAGCAAACATCATGTACCTTTTC	57.891	33.333	0.00	0.00	0.00	2.29
96	128	5.657745	TCGGGTGTAAAAGTGATACTATCCA	59.342	40.000	0.00	0.00	0.00	3.41
158	190	7.981789	TCATCTACCTCAAACATCATGTACTTC	59.018	37.037	0.00	0.00	0.00	3.01
318	351	0.976641	AGGAAAGAGATGGTGCACGA	59.023	50.000	11.45	7.55	0.00	4.35
479	513	3.411446	CACAAATGGAGACTAGCCACAA	58.589	45.455	0.00	0.00	38.44	3.33
526	560	6.737346	GCAACAACAACCATTACCACTACAAT	60.737	38.462	0.00	0.00	0.00	2.71
531	565	9.567848	CAACAACCATTACCACTACAATAAATC	57.432	33.333	0.00	0.00	0.00	2.17
629	669	1.340017	ACAACCACCATTATCGCAGCT	60.340	47.619	0.00	0.00	0.00	4.24
666	709	2.937519	TCACAGCAACAACCACCATTA	58.062	42.857	0.00	0.00	0.00	1.90
749	1152	1.588667	CGCAGCAACAACAACCACC	60.589	57.895	0.00	0.00	0.00	4.61
884	1380	3.990959	ACCACAACAACCACCATTTTT	57.009	38.095	0.00	0.00	0.00	1.94
919	1472	4.638304	ACTAGTTCTACCGCAACAACAAT	58.362	39.130	0.00	0.00	0.00	2.71
984	1537	1.516110	AGGTATTCCTCCAGCAGCAT	58.484	50.000	0.00	0.00	40.58	3.79
1157	1710	3.460103	TCGTCCTACAAGAACAACAACC	58.540	45.455	0.00	0.00	0.00	3.77
1375	1946	3.285484	GAGGTGATGACTTCCATTGCAT	58.715	45.455	0.00	0.00	35.17	3.96
1379	1950	3.444742	GTGATGACTTCCATTGCATTCCA	59.555	43.478	0.00	0.00	35.17	3.53
1393	1964	0.623723	ATTCCATACCCTGCCAACGT	59.376	50.000	0.00	0.00	0.00	3.99
1402	1973	1.163420	CCTGCCAACGTTGTGCAGTA	61.163	55.000	39.17	22.80	44.09	2.74
1403	1974	0.041312	CTGCCAACGTTGTGCAGTAC	60.041	55.000	37.07	18.64	42.39	2.73
1477	2048	3.689649	CCAAGTTGGTGCCTACTGATAAC	59.310	47.826	14.21	0.00	32.78	1.89
1706	2284	5.957771	AGTTCATAGGTTCATCTTGCCTA	57.042	39.130	0.00	0.00	38.98	3.93
1821	2404	9.220767	GTTGAACAGAAGAAAGGACTAACATAT	57.779	33.333	0.00	0.00	0.00	1.78
1904	2492	8.353684	CCAACTACTACCATTGTCTATAGTGAG	58.646	40.741	0.00	0.00	0.00	3.51
1932	2520	7.390162	ACCTAAACCGGTTTTATCGTTAATTCA	59.610	33.333	35.69	13.37	31.94	2.57
1936	2524	6.834876	ACCGGTTTTATCGTTAATTCAGTTC	58.165	36.000	0.00	0.00	0.00	3.01
1948	2546	7.165154	TCGTTAATTCAGTTCGCTTTCTTTTTG	59.835	33.333	0.00	0.00	0.00	2.44
1998	2603	6.570058	CACATTAACTTGTCGAGAAAAAGTCG	59.430	38.462	0.00	0.00	38.84	4.18
2020	2625	5.296780	TCGAGCTTTTTCTTGAACTTCACAT	59.703	36.000	0.00	0.00	0.00	3.21
2024	2633	7.196331	AGCTTTTTCTTGAACTTCACATACAC	58.804	34.615	0.00	0.00	0.00	2.90
2122	2731	5.484173	TCGCTACATCAATCCAACAATTC	57.516	39.130	0.00	0.00	0.00	2.17
2125	2734	6.150976	TCGCTACATCAATCCAACAATTCTTT	59.849	34.615	0.00	0.00	0.00	2.52
2138	2747	3.439129	ACAATTCTTTTGCTAGGTACGGC	59.561	43.478	0.00	0.00	0.00	5.68
2170	2779	1.360192	GCAGCAGGGTGTTTGTGTC	59.640	57.895	0.07	0.00	0.00	3.67
2179	2788	1.308998	GTGTTTGTGTCTGTCTGGGG	58.691	55.000	0.00	0.00	0.00	4.96
2184	2793	2.607750	TGTCTGTCTGGGGAGGGC	60.608	66.667	0.00	0.00	0.00	5.19
2232	3056	3.134442	TGTTTTGCCCTTTTCATGCTCTT	59.866	39.130	0.00	0.00	0.00	2.85
2235	3059	5.743636	TTTGCCCTTTTCATGCTCTTATT	57.256	34.783	0.00	0.00	0.00	1.40
2280	3104	9.135189	TCATAGAATGCAAAATAAGCAACCTAT	57.865	29.630	0.00	0.00	46.27	2.57
2329	3153	2.832661	GCCACACACACTGGGCAA	60.833	61.111	0.00	0.00	45.70	4.52
2330	3154	2.422231	GCCACACACACTGGGCAAA	61.422	57.895	0.00	0.00	45.70	3.68
2331	3155	1.735360	CCACACACACTGGGCAAAG	59.265	57.895	0.00	0.00	0.00	2.77
2332	3156	1.735360	CACACACACTGGGCAAAGG	59.265	57.895	0.00	0.00	0.00	3.11
2333	3157	2.127232	ACACACACTGGGCAAAGGC	61.127	57.895	0.00	0.00	40.13	4.35
2334	3158	1.829533	CACACACTGGGCAAAGGCT	60.830	57.895	0.00	0.00	40.87	4.58
2335	3159	1.076044	ACACACTGGGCAAAGGCTT	60.076	52.632	0.00	0.00	40.87	4.35
2336	3160	0.687427	ACACACTGGGCAAAGGCTTT	60.687	50.000	6.68	6.68	40.87	3.51
2337	3161	0.249573	CACACTGGGCAAAGGCTTTG	60.250	55.000	30.74	30.74	43.44	2.77
2367	3219	1.000506	GTACTCGGCAAAGGACACTCA	59.999	52.381	0.00	0.00	29.85	3.41
2383	3235	0.037605	CTCAGCGTACCCCTTTTCGT	60.038	55.000	0.00	0.00	0.00	3.85
2400	3252	4.377839	TTCGTCAAACAGAAATTTGCCA	57.622	36.364	0.00	0.00	39.08	4.92
2413	3265	6.428771	CAGAAATTTGCCAAGATCCATTTGTT	59.571	34.615	0.00	0.00	0.00	2.83
2456	3308	3.061322	CCGAGTTTCAAATACGGTCACA	58.939	45.455	9.01	0.00	38.97	3.58

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
2	3	5.347635	TCACTTTACATGTCACGCACTTATC	59.652	40.000	0.00	0.00	0.00	1.75
3	4	5.234752	TCACTTTACATGTCACGCACTTAT	58.765	37.500	0.00	0.00	0.00	1.73
4	5	4.623002	TCACTTTACATGTCACGCACTTA	58.377	39.130	0.00	0.00	0.00	2.24
7	8	3.870723	TTCACTTTACATGTCACGCAC	57.129	42.857	0.00	0.00	0.00	5.34
9	10	5.501715	CCATATTCACTTTACATGTCACGC	58.498	41.667	0.00	0.00	0.00	5.34
13	14	7.031226	ACATGCCATATTCACTTTACATGTC	57.969	36.000	0.00	0.00	42.18	3.06
14	15	6.602803	TGACATGCCATATTCACTTTACATGT	59.397	34.615	2.69	2.69	46.85	3.21
17	18	7.056006	AGATGACATGCCATATTCACTTTACA	58.944	34.615	0.00	0.00	0.00	2.41
18	19	7.502120	AGATGACATGCCATATTCACTTTAC	57.498	36.000	0.00	0.00	0.00	2.01
20	21	9.445878	CTATAGATGACATGCCATATTCACTTT	57.554	33.333	0.00	0.00	0.00	2.66
22	23	7.046652	GCTATAGATGACATGCCATATTCACT	58.953	38.462	3.21	0.00	0.00	3.41
23	24	6.820152	TGCTATAGATGACATGCCATATTCAC	59.180	38.462	3.21	0.00	0.00	3.18
25	26	7.854557	TTGCTATAGATGACATGCCATATTC	57.145	36.000	3.21	0.00	0.00	1.75
27	28	7.170277	TGTTTGCTATAGATGACATGCCATAT	58.830	34.615	3.21	0.00	0.00	1.78
29	30	5.379187	TGTTTGCTATAGATGACATGCCAT	58.621	37.500	3.21	0.00	0.00	4.40
30	31	4.779696	TGTTTGCTATAGATGACATGCCA	58.220	39.130	3.21	0.00	0.00	4.92
31	32	5.471116	TGATGTTTGCTATAGATGACATGCC	59.529	40.000	15.58	7.04	0.00	4.40
32	33	6.549912	TGATGTTTGCTATAGATGACATGC	57.450	37.500	15.58	10.14	0.00	4.06
33	34	8.095937	ACATGATGTTTGCTATAGATGACATG	57.904	34.615	15.58	14.76	37.06	3.21
36	37	7.875041	AGGTACATGATGTTTGCTATAGATGAC	59.125	37.037	2.29	0.00	0.00	3.06
37	38	7.966812	AGGTACATGATGTTTGCTATAGATGA	58.033	34.615	2.29	0.00	0.00	2.92
38	39	8.613060	AAGGTACATGATGTTTGCTATAGATG	57.387	34.615	2.29	0.00	0.00	2.90
40	41	9.109393	GAAAAGGTACATGATGTTTGCTATAGA	57.891	33.333	2.29	0.00	0.00	1.98
42	43	7.831690	TGGAAAAGGTACATGATGTTTGCTATA	59.168	33.333	2.29	0.00	0.00	1.31
43	44	6.663093	TGGAAAAGGTACATGATGTTTGCTAT	59.337	34.615	2.29	0.00	0.00	2.97
44	45	6.007076	TGGAAAAGGTACATGATGTTTGCTA	58.993	36.000	2.29	0.00	0.00	3.49
46	47	5.132897	TGGAAAAGGTACATGATGTTTGC	57.867	39.130	2.29	0.00	0.00	3.68
49	50	7.090173	CGATTTTGGAAAAGGTACATGATGTT	58.910	34.615	2.29	0.00	0.00	2.71
50	51	6.350110	CCGATTTTGGAAAAGGTACATGATGT	60.350	38.462	2.65	2.65	0.00	3.06
51	52	6.035843	CCGATTTTGGAAAAGGTACATGATG	58.964	40.000	0.00	0.00	0.00	3.07
53	54	4.461081	CCCGATTTTGGAAAAGGTACATGA	59.539	41.667	0.00	0.00	0.00	3.07
54	55	4.219725	ACCCGATTTTGGAAAAGGTACATG	59.780	41.667	0.00	0.00	0.00	3.21
55	56	4.219725	CACCCGATTTTGGAAAAGGTACAT	59.780	41.667	0.00	0.00	0.00	2.29
56	57	3.570550	CACCCGATTTTGGAAAAGGTACA	59.429	43.478	0.00	0.00	0.00	2.90
57	58	3.570975	ACACCCGATTTTGGAAAAGGTAC	59.429	43.478	0.00	0.00	0.00	3.34
60	61	4.857509	TTACACCCGATTTTGGAAAAGG	57.142	40.909	0.00	0.00	0.00	3.11
62	63	6.043411	CACTTTTACACCCGATTTTGGAAAA	58.957	36.000	0.00	0.00	33.91	2.29
63	64	5.360144	TCACTTTTACACCCGATTTTGGAAA	59.640	36.000	0.00	0.00	0.00	3.13
65	66	4.462133	TCACTTTTACACCCGATTTTGGA	58.538	39.130	0.00	0.00	0.00	3.53
66	67	4.839668	TCACTTTTACACCCGATTTTGG	57.160	40.909	0.00	0.00	0.00	3.28
96	128	8.510243	TCACTTTACATGTCATGCATTTATCT	57.490	30.769	12.91	0.00	35.19	1.98
158	190	5.912360	AGTTGTGCATATGATCATACACG	57.088	39.130	17.60	10.29	0.00	4.49
345	378	6.554419	TGATGCTTGTGCTTGTTATAATCAC	58.446	36.000	0.00	0.00	40.48	3.06
350	383	6.155827	GGTTTTGATGCTTGTGCTTGTTATA	58.844	36.000	0.00	0.00	40.48	0.98
353	386	3.197265	GGTTTTGATGCTTGTGCTTGTT	58.803	40.909	0.00	0.00	40.48	2.83
479	513	1.360393	TGGTTTCTCCAAGCCAGGGT	61.360	55.000	0.00	0.00	44.12	4.34
629	669	4.440802	GCTGTGAAAATGGTGGTTGTTGTA	60.441	41.667	0.00	0.00	0.00	2.41
666	709	0.311790	CTGGTTGTTGTTGCTGCGAT	59.688	50.000	0.00	0.00	0.00	4.58
749	1152	0.250124	TGGTGGTTGTTGCGGTAGAG	60.250	55.000	0.00	0.00	0.00	2.43
884	1380	3.616219	AGAACTAGTTGTTGGTGTTGCA	58.384	40.909	14.14	0.00	39.30	4.08
919	1472	9.948964	CAAGATAGATGGATGAACATATGGTAA	57.051	33.333	7.80	0.00	0.00	2.85
1180	1733	0.106469	TGTTGGGGTTGTTGCTGCTA	60.106	50.000	0.00	0.00	0.00	3.49
1326	1897	1.205417	GCTATTTGGTGTGGCTGCAAT	59.795	47.619	0.50	0.00	0.00	3.56
1375	1946	0.402504	AACGTTGGCAGGGTATGGAA	59.597	50.000	0.00	0.00	0.00	3.53
1379	1950	1.241315	GCACAACGTTGGCAGGGTAT	61.241	55.000	30.34	5.60	0.00	2.73
1393	1964	0.958091	GGCACATTGGTACTGCACAA	59.042	50.000	6.40	0.00	32.20	3.33
1402	1973	1.669760	CGTACACCGGCACATTGGT	60.670	57.895	0.00	0.00	39.66	3.67
1403	1974	3.173853	CGTACACCGGCACATTGG	58.826	61.111	0.00	0.00	0.00	3.16
1635	2213	5.242434	TCCACACAATACCAGTATGAACAC	58.758	41.667	0.00	0.00	39.69	3.32
1706	2284	1.964373	CCGGCTTGCGGTTGTAACT	60.964	57.895	0.00	0.00	0.00	2.24
1821	2404	9.231297	CTCAAATCTCCAACCATTAAAGAGTTA	57.769	33.333	0.00	0.00	0.00	2.24
1862	2446	7.266905	AGTAGTTGGAACCATATACAAACCT	57.733	36.000	14.16	0.00	0.00	3.50
1932	2520	3.518634	TTGCCAAAAAGAAAGCGAACT	57.481	38.095	0.00	0.00	0.00	3.01
1936	2524	5.844301	ATGTATTTGCCAAAAAGAAAGCG	57.156	34.783	0.00	0.00	0.00	4.68
1948	2546	9.364989	TGCAAAGAATTAGTAAATGTATTTGCC	57.635	29.630	21.44	11.96	45.68	4.52
1998	2603	7.377131	GTGTATGTGAAGTTCAAGAAAAAGCTC	59.623	37.037	7.25	0.00	0.00	4.09
2074	2683	1.955778	TGCAACCACTCAAAGGACATG	59.044	47.619	0.00	0.00	0.00	3.21
2125	2734	0.978151	TCCTTTGCCGTACCTAGCAA	59.022	50.000	8.17	8.17	46.74	3.91
2138	2747	1.288127	GCTGCCAGCAACTCCTTTG	59.712	57.895	12.82	0.00	41.89	2.77
2187	2796	2.949644	AGTAATGCGCAAAGAATACCCC	59.050	45.455	17.11	0.00	0.00	4.95
2195	2805	4.203077	GCAAAACAAAGTAATGCGCAAAG	58.797	39.130	17.11	1.62	0.00	2.77
2318	3142	0.249573	CAAAGCCTTTGCCCAGTGTG	60.250	55.000	3.91	0.00	38.69	3.82
2331	3155	4.002511	GAGTACGACACTTGGCAAAGCC	62.003	54.545	0.00	0.00	43.39	4.35
2332	3156	1.194772	GAGTACGACACTTGGCAAAGC	59.805	52.381	0.00	0.00	37.72	3.51
2333	3157	1.455786	CGAGTACGACACTTGGCAAAG	59.544	52.381	0.00	0.00	42.66	2.77
2334	3158	1.493772	CGAGTACGACACTTGGCAAA	58.506	50.000	0.00	0.00	42.66	3.68
2335	3159	3.188773	CGAGTACGACACTTGGCAA	57.811	52.632	0.00	0.00	42.66	4.52
2336	3160	4.957266	CGAGTACGACACTTGGCA	57.043	55.556	0.00	0.00	42.66	4.92
2339	3163	1.455786	CTTTGCCGAGTACGACACTTG	59.544	52.381	0.00	0.00	42.66	3.16
2340	3164	1.604693	CCTTTGCCGAGTACGACACTT	60.605	52.381	0.00	0.00	42.66	3.16
2341	3165	0.038526	CCTTTGCCGAGTACGACACT	60.039	55.000	0.00	0.00	42.66	3.55
2342	3166	0.038892	TCCTTTGCCGAGTACGACAC	60.039	55.000	0.00	0.00	42.66	3.67
2343	3167	0.038892	GTCCTTTGCCGAGTACGACA	60.039	55.000	0.00	0.00	42.66	4.35
2344	3168	0.038892	TGTCCTTTGCCGAGTACGAC	60.039	55.000	0.00	0.00	42.66	4.34
2345	3169	0.038892	GTGTCCTTTGCCGAGTACGA	60.039	55.000	0.00	0.00	42.66	3.43
2346	3170	0.038526	AGTGTCCTTTGCCGAGTACG	60.039	55.000	0.00	0.00	39.43	3.67
2347	3171	1.000506	TGAGTGTCCTTTGCCGAGTAC	59.999	52.381	0.00	0.00	0.00	2.73
2348	3172	1.272490	CTGAGTGTCCTTTGCCGAGTA	59.728	52.381	0.00	0.00	0.00	2.59
2383	3235	5.070180	TGGATCTTGGCAAATTTCTGTTTGA	59.930	36.000	0.00	0.00	40.64	2.69
2400	3252	5.049405	GTCGAGTGTTCAACAAATGGATCTT	60.049	40.000	0.00	0.00	0.00	2.40
2413	3265	4.807304	GGTAAAGACTTTGTCGAGTGTTCA	59.193	41.667	10.80	0.00	37.67	3.18

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.