AutoCloner

Multiple sequence alignment - TraesCS5B01G167500

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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	TraesCS5B01G167500	chr5B	100.000	3254	0	0	1	3254	309815958	309819211	0.000000e+00	6010.0
1	TraesCS5B01G167500	chr5B	86.181	1317	135	25	1065	2370	312261194	312262474	0.000000e+00	1380.0
2	TraesCS5B01G167500	chr5B	84.873	1223	125	34	1074	2285	310034951	310036124	0.000000e+00	1179.0
3	TraesCS5B01G167500	chr5B	79.887	1238	206	31	1074	2293	309665820	309664608	0.000000e+00	867.0
4	TraesCS5B01G167500	chr5B	80.357	112	17	5	2645	2753	467509112	467509221	2.690000e-11	80.5
5	TraesCS5B01G167500	chr5D	90.916	2521	166	20	524	3014	275146488	275148975	0.000000e+00	3328.0
6	TraesCS5B01G167500	chr5D	95.945	1159	39	7	479	1636	274775477	274776628	0.000000e+00	1873.0
7	TraesCS5B01G167500	chr5D	86.673	1028	109	18	1065	2081	275195267	275196277	0.000000e+00	1114.0
8	TraesCS5B01G167500	chr5D	93.687	697	38	4	1635	2330	274777896	274778587	0.000000e+00	1038.0
9	TraesCS5B01G167500	chr5D	79.628	1237	211	29	1074	2293	274572450	274571238	0.000000e+00	850.0
10	TraesCS5B01G167500	chr5D	96.914	486	8	4	1	485	274774890	274775369	0.000000e+00	808.0
11	TraesCS5B01G167500	chr5D	79.553	1164	207	23	1101	2255	245715649	245716790	0.000000e+00	802.0
12	TraesCS5B01G167500	chr5D	89.366	489	22	7	1	485	394199991	394199529	3.620000e-164	588.0
13	TraesCS5B01G167500	chr5D	87.333	300	19	7	2071	2370	275196825	275197105	3.130000e-85	326.0
14	TraesCS5B01G167500	chr5D	87.013	308	13	6	42	346	487671481	487671198	4.050000e-84	322.0
15	TraesCS5B01G167500	chr5A	91.022	2328	125	20	956	3250	363919686	363921962	0.000000e+00	3064.0
16	TraesCS5B01G167500	chr5A	92.559	1196	65	8	923	2113	363861818	363862994	0.000000e+00	1694.0
17	TraesCS5B01G167500	chr5A	86.204	1312	136	31	1074	2370	364198654	364199935	0.000000e+00	1378.0
18	TraesCS5B01G167500	chr5A	98.155	271	3	1	1	271	363855779	363856047	3.800000e-129	472.0
19	TraesCS5B01G167500	chr5A	89.381	339	33	3	524	861	363856389	363856725	1.080000e-114	424.0
20	TraesCS5B01G167500	chr5A	92.045	176	11	1	2155	2330	363862995	363863167	9.020000e-61	244.0
21	TraesCS5B01G167500	chr5A	86.047	172	11	6	308	479	363856048	363856206	4.320000e-39	172.0
22	TraesCS5B01G167500	chr5A	93.750	80	5	0	858	937	363858485	363858564	1.590000e-23	121.0
23	TraesCS5B01G167500	chr6D	91.935	62	4	1	2675	2735	446510691	446510752	5.780000e-13	86.1
24	TraesCS5B01G167500	chr3D	88.525	61	6	1	2676	2735	495318408	495318348	4.500000e-09	73.1

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	TraesCS5B01G167500	chr5B	309815958	309819211	3253	False	6010.000000	6010	100.000000	1	3254	1	chr5B.!!$F1	3253
1	TraesCS5B01G167500	chr5B	312261194	312262474	1280	False	1380.000000	1380	86.181000	1065	2370	1	chr5B.!!$F3	1305
2	TraesCS5B01G167500	chr5B	310034951	310036124	1173	False	1179.000000	1179	84.873000	1074	2285	1	chr5B.!!$F2	1211
3	TraesCS5B01G167500	chr5B	309664608	309665820	1212	True	867.000000	867	79.887000	1074	2293	1	chr5B.!!$R1	1219
4	TraesCS5B01G167500	chr5D	275146488	275148975	2487	False	3328.000000	3328	90.916000	524	3014	1	chr5D.!!$F2	2490
5	TraesCS5B01G167500	chr5D	274774890	274778587	3697	False	1239.666667	1873	95.515333	1	2330	3	chr5D.!!$F3	2329
6	TraesCS5B01G167500	chr5D	274571238	274572450	1212	True	850.000000	850	79.628000	1074	2293	1	chr5D.!!$R1	1219
7	TraesCS5B01G167500	chr5D	245715649	245716790	1141	False	802.000000	802	79.553000	1101	2255	1	chr5D.!!$F1	1154
8	TraesCS5B01G167500	chr5D	275195267	275197105	1838	False	720.000000	1114	87.003000	1065	2370	2	chr5D.!!$F4	1305
9	TraesCS5B01G167500	chr5A	363919686	363921962	2276	False	3064.000000	3064	91.022000	956	3250	1	chr5A.!!$F1	2294
10	TraesCS5B01G167500	chr5A	364198654	364199935	1281	False	1378.000000	1378	86.204000	1074	2370	1	chr5A.!!$F2	1296
11	TraesCS5B01G167500	chr5A	363855779	363863167	7388	False	521.166667	1694	91.989500	1	2330	6	chr5A.!!$F3	2329

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
948	6127	0.714439	GCTCTTTTCGTCGGTACAGC	59.286	55.000	0.0	0.0	0.0	4.40	F
1123	6303	1.153823	AACATTCTCCGTCGCCTCG	60.154	57.895	0.0	0.0	0.0	4.63	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2028	8494	1.228862	GTGGGCAAGGTCATTGGGT	60.229	57.895	0.0	0.0	39.47	4.51	R
3065	10136	0.994247	TGCACATGAATCCCACTCCT	59.006	50.000	0.0	0.0	0.00	3.69	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
229	230	9.702726	TTAGTAATAACATTCTGACGTACGTAC	57.297	33.333	22.87	15.90	0.00	3.67
271	272	1.569030	ATGTGCTGCATGGTCCTCCT	61.569	55.000	5.27	0.00	36.26	3.69
281	282	6.072452	GCTGCATGGTCCTCCTATAATAAAAC	60.072	42.308	0.00	0.00	34.23	2.43
288	289	6.711194	GGTCCTCCTATAATAAAACCAGAAGC	59.289	42.308	0.00	0.00	0.00	3.86
305	306	5.297278	CCAGAAGCGATTACTACTCTACTGT	59.703	44.000	0.00	0.00	0.00	3.55
306	307	6.195868	CAGAAGCGATTACTACTCTACTGTG	58.804	44.000	0.00	0.00	0.00	3.66
350	351	6.485313	TCAAATTGAGGTAGTGAAATTCGTGT	59.515	34.615	0.00	0.00	0.00	4.49
466	467	1.071542	TGATGGACACGGTGATGTTGT	59.928	47.619	16.29	0.00	31.24	3.32
517	636	2.224523	TGGGTCATTTCACTCCAGTCAC	60.225	50.000	0.00	0.00	0.00	3.67
725	873	5.303078	AGCGATATGGATGTGAACTAGAACT	59.697	40.000	0.00	0.00	0.00	3.01
785	933	4.034510	ACGCTATCACAAGAATTAAGCAGC	59.965	41.667	0.00	0.00	0.00	5.25
827	975	3.644738	TCGAAGAGAGTTTACCCAAGGTT	59.355	43.478	0.00	0.00	37.09	3.50
948	6127	0.714439	GCTCTTTTCGTCGGTACAGC	59.286	55.000	0.00	0.00	0.00	4.40
1020	6200	3.917760	GCCGGACCATCTCTCCCG	61.918	72.222	5.05	0.00	41.47	5.14
1123	6303	1.153823	AACATTCTCCGTCGCCTCG	60.154	57.895	0.00	0.00	0.00	4.63
1713	8176	1.559368	TCGATTTCGACCCCTGGTTA	58.441	50.000	0.00	0.00	44.22	2.85
2299	9335	1.208052	TCCTTCCCTCTTCAAGATGCG	59.792	52.381	0.00	0.00	0.00	4.73
2306	9342	3.529533	CCTCTTCAAGATGCGACTCATT	58.470	45.455	0.00	0.00	35.05	2.57
2317	9353	2.160219	TGCGACTCATTGATGTTGCTTC	59.840	45.455	19.94	3.38	42.39	3.86
2330	9366	5.358725	TGATGTTGCTTCATCATGTGCTTAT	59.641	36.000	16.24	0.64	45.89	1.73
2386	9425	2.766313	TGTTCGATATATGCTGGTGGC	58.234	47.619	0.00	0.00	42.22	5.01
2440	9479	9.778741	ACATGTCTGTTTTAGAATTTCTAGTCA	57.221	29.630	6.26	6.65	37.12	3.41
2442	9481	9.778741	ATGTCTGTTTTAGAATTTCTAGTCACA	57.221	29.630	6.26	9.23	37.12	3.58
2443	9482	9.607988	TGTCTGTTTTAGAATTTCTAGTCACAA	57.392	29.630	6.26	0.00	37.12	3.33
2453	9492	9.651913	AGAATTTCTAGTCACAATCTCTTTCTC	57.348	33.333	0.00	0.00	0.00	2.87
2480	9519	5.106712	CGATCTCTTTCTCGATTCCTCTAGG	60.107	48.000	0.00	0.00	37.05	3.02
2484	9523	6.095720	TCTCTTTCTCGATTCCTCTAGGTTTC	59.904	42.308	0.00	0.00	36.34	2.78
2492	9531	8.577048	TCGATTCCTCTAGGTTTCGATATATT	57.423	34.615	16.55	0.00	41.19	1.28
2494	9533	8.679100	CGATTCCTCTAGGTTTCGATATATTCT	58.321	37.037	14.17	0.00	40.44	2.40
2498	9537	7.393796	TCCTCTAGGTTTCGATATATTCTGGTC	59.606	40.741	0.00	0.00	36.34	4.02
2518	9557	5.538813	TGGTCGTAGAAGGTCTAATGCATAT	59.461	40.000	0.00	0.00	39.69	1.78
2524	9563	9.504710	CGTAGAAGGTCTAATGCATATGTATAC	57.495	37.037	6.73	2.03	29.58	1.47
2572	9611	4.371855	TCTAGCTACACTGTACACATGC	57.628	45.455	0.00	0.00	0.00	4.06
2600	9639	5.858381	TGCTATCCTGGTCTGTCATATTTC	58.142	41.667	0.00	0.00	0.00	2.17
2602	9641	5.509840	GCTATCCTGGTCTGTCATATTTCGT	60.510	44.000	0.00	0.00	0.00	3.85
2641	9681	6.034256	GCAATTCGATGGAGTTTGAAATCAAG	59.966	38.462	6.65	0.00	37.15	3.02
2645	9685	5.181245	TCGATGGAGTTTGAAATCAAGAACC	59.819	40.000	0.00	2.75	37.15	3.62
2652	9692	8.337532	GGAGTTTGAAATCAAGAACCAATTTTG	58.662	33.333	0.00	0.00	37.15	2.44
2673	9713	4.934515	TGTGGTACGTTTTGGGAAATTTC	58.065	39.130	9.83	9.83	0.00	2.17
2698	9738	5.228427	CAAAAAGTGGTAGTTTTTCGGAACG	59.772	40.000	4.59	0.00	41.14	3.95
2786	9829	4.406069	CCGCTTGTCATTGTTAGATGTTG	58.594	43.478	0.00	0.00	0.00	3.33
2795	9838	8.046708	TGTCATTGTTAGATGTTGGCTTATAGT	58.953	33.333	0.00	0.00	0.00	2.12
2811	9854	6.431852	GGCTTATAGTCGACCTCTAGAATTCT	59.568	42.308	13.01	13.56	0.00	2.40
2822	9865	6.963322	ACCTCTAGAATTCTAAAATGCAGGT	58.037	36.000	15.85	14.94	0.00	4.00
2853	9896	8.311109	TGCTTTATTATTTTGAAAAGAGGGGTC	58.689	33.333	0.00	0.00	31.96	4.46
2864	9930	8.713708	TTGAAAAGAGGGGTCATTAATTGTTA	57.286	30.769	0.00	0.00	0.00	2.41
2885	9951	9.757227	TTGTTAAGTGAATTGAAGGTAAAATGG	57.243	29.630	0.00	0.00	0.00	3.16
2938	10004	8.984891	TTATATGCTTTGTTGATTGTTTGGAG	57.015	30.769	0.00	0.00	0.00	3.86
2940	10006	5.083533	TGCTTTGTTGATTGTTTGGAGTT	57.916	34.783	0.00	0.00	0.00	3.01
2967	10033	7.763985	AGACCTTTTATTTGTGTTTTCCTTGTG	59.236	33.333	0.00	0.00	0.00	3.33
2981	10047	5.705609	TTCCTTGTGCCAAAAGAATAGAC	57.294	39.130	0.00	0.00	0.00	2.59
2996	10062	5.745227	AGAATAGACCTTGTGTGTTATGGG	58.255	41.667	0.00	0.00	0.00	4.00
3005	10071	5.064198	CCTTGTGTGTTATGGGTATTGTACG	59.936	44.000	0.00	0.00	0.00	3.67
3037	10108	2.509548	TCATTAATGGCCCTAGCACAGT	59.490	45.455	15.36	0.00	42.56	3.55
3038	10109	3.053693	TCATTAATGGCCCTAGCACAGTT	60.054	43.478	15.36	0.00	42.56	3.16
3039	10110	4.165180	TCATTAATGGCCCTAGCACAGTTA	59.835	41.667	15.36	0.00	42.56	2.24
3044	10115	1.271163	GGCCCTAGCACAGTTACAACA	60.271	52.381	0.00	0.00	42.56	3.33
3077	10148	7.091443	CGAATTAGTATGTAGGAGTGGGATTC	58.909	42.308	0.00	0.00	0.00	2.52
3080	10151	5.815233	AGTATGTAGGAGTGGGATTCATG	57.185	43.478	0.00	0.00	0.00	3.07
3081	10152	5.219739	AGTATGTAGGAGTGGGATTCATGT	58.780	41.667	0.00	0.00	0.00	3.21
3083	10154	2.092968	TGTAGGAGTGGGATTCATGTGC	60.093	50.000	0.00	0.00	0.00	4.57
3084	10155	0.994247	AGGAGTGGGATTCATGTGCA	59.006	50.000	0.00	0.00	0.00	4.57
3085	10156	1.567649	AGGAGTGGGATTCATGTGCAT	59.432	47.619	0.00	0.00	0.00	3.96
3086	10157	1.679680	GGAGTGGGATTCATGTGCATG	59.320	52.381	5.86	5.86	40.09	4.06
3087	10158	2.646930	GAGTGGGATTCATGTGCATGA	58.353	47.619	10.48	10.48	45.30	3.07
3096	10167	2.448453	TCATGTGCATGAAATCTGCCA	58.552	42.857	11.95	0.00	44.14	4.92
3097	10168	2.425668	TCATGTGCATGAAATCTGCCAG	59.574	45.455	11.95	0.00	44.14	4.85
3098	10169	1.913778	TGTGCATGAAATCTGCCAGT	58.086	45.000	0.00	0.00	38.89	4.00
3099	10170	1.814394	TGTGCATGAAATCTGCCAGTC	59.186	47.619	0.00	0.00	38.89	3.51
3100	10171	1.089112	TGCATGAAATCTGCCAGTCG	58.911	50.000	0.00	0.00	38.89	4.18
3101	10172	1.089920	GCATGAAATCTGCCAGTCGT	58.910	50.000	0.00	0.00	33.44	4.34
3102	10173	1.470098	GCATGAAATCTGCCAGTCGTT	59.530	47.619	0.00	0.00	33.44	3.85
3103	10174	2.730090	GCATGAAATCTGCCAGTCGTTG	60.730	50.000	0.00	0.00	33.44	4.10
3104	10175	2.542020	TGAAATCTGCCAGTCGTTGA	57.458	45.000	0.00	0.00	0.00	3.18
3105	10176	2.416747	TGAAATCTGCCAGTCGTTGAG	58.583	47.619	0.00	0.00	0.00	3.02
3106	10177	2.037121	TGAAATCTGCCAGTCGTTGAGA	59.963	45.455	0.00	0.00	0.00	3.27
3107	10178	2.376808	AATCTGCCAGTCGTTGAGAG	57.623	50.000	0.00	0.00	0.00	3.20
3108	10179	1.261480	ATCTGCCAGTCGTTGAGAGT	58.739	50.000	0.00	0.00	0.00	3.24
3109	10180	1.040646	TCTGCCAGTCGTTGAGAGTT	58.959	50.000	0.00	0.00	0.00	3.01
3110	10181	2.235891	TCTGCCAGTCGTTGAGAGTTA	58.764	47.619	0.00	0.00	0.00	2.24
3116	10187	4.326548	GCCAGTCGTTGAGAGTTATACAAC	59.673	45.833	0.00	0.00	39.96	3.32
3138	10209	2.495270	TCGGCATGTTTTATGGTTGCAT	59.505	40.909	0.00	0.00	35.04	3.96
3140	10211	3.675502	CGGCATGTTTTATGGTTGCATCA	60.676	43.478	0.00	0.00	35.04	3.07
3147	10218	5.581479	TGTTTTATGGTTGCATCATGATTGC	59.419	36.000	17.85	17.85	0.00	3.56
3181	10252	5.599732	TGAACAATACTTGTGCTTGCATTT	58.400	33.333	0.00	0.00	44.59	2.32
3182	10253	6.743110	TGAACAATACTTGTGCTTGCATTTA	58.257	32.000	0.00	0.00	44.59	1.40
3183	10254	7.377398	TGAACAATACTTGTGCTTGCATTTAT	58.623	30.769	0.00	0.00	44.59	1.40
3210	10281	8.328758	TCTTAATTTCTCATGATAGTTGTGGGT	58.671	33.333	0.00	0.00	0.00	4.51
3211	10282	8.877864	TTAATTTCTCATGATAGTTGTGGGTT	57.122	30.769	0.00	0.00	0.00	4.11
3220	10291	9.822727	TCATGATAGTTGTGGGTTAGATAGATA	57.177	33.333	0.00	0.00	0.00	1.98
3250	10321	6.267070	TGTAAAACATATGTGATGCATGCAG	58.733	36.000	26.69	11.97	38.47	4.41
3251	10322	4.316205	AAACATATGTGATGCATGCAGG	57.684	40.909	26.69	4.17	38.47	4.85
3252	10323	2.940158	ACATATGTGATGCATGCAGGT	58.060	42.857	26.69	10.42	38.47	4.00
3253	10324	3.293337	ACATATGTGATGCATGCAGGTT	58.707	40.909	26.69	9.56	38.47	3.50

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
281	282	5.297278	ACAGTAGAGTAGTAATCGCTTCTGG	59.703	44.000	13.84	1.84	35.67	3.86
288	289	8.497554	GTCCTATTCACAGTAGAGTAGTAATCG	58.502	40.741	0.00	0.00	0.00	3.34
305	306	6.373005	TTGACAATCTTCCTGTCCTATTCA	57.627	37.500	0.82	0.00	42.13	2.57
306	307	7.872113	ATTTGACAATCTTCCTGTCCTATTC	57.128	36.000	0.82	0.00	42.13	1.75
479	480	1.459450	CCAAATACCCCAGTCAACGG	58.541	55.000	0.00	0.00	0.00	4.44
758	906	9.144747	CTGCTTAATTCTTGTGATAGCGTATAT	57.855	33.333	0.00	0.00	0.00	0.86
762	910	4.034510	GCTGCTTAATTCTTGTGATAGCGT	59.965	41.667	0.00	0.00	0.00	5.07
785	933	8.797215	TCTTCGAAATATGAAATTTGAAATGCG	58.203	29.630	0.00	0.00	0.00	4.73
817	965	2.038033	GACACAGCACTAACCTTGGGTA	59.962	50.000	0.00	0.00	33.12	3.69
827	975	7.744087	ATATTTTGAACTTGACACAGCACTA	57.256	32.000	0.00	0.00	0.00	2.74
948	6127	0.605589	GGACGGAGGGAGGTGTTTTG	60.606	60.000	0.00	0.00	0.00	2.44
978	6158	1.138859	GTTTGGCTTTGCAAGGAAGGT	59.861	47.619	13.48	0.00	0.00	3.50
1123	6303	4.516195	GAGAAGGTCGGCGAGGGC	62.516	72.222	11.20	0.00	38.90	5.19
1266	6456	1.893137	GGGGTGTCAATTTCCTTGGAC	59.107	52.381	0.00	0.00	35.43	4.02
1743	8206	3.539604	GCAGATGTGCCAGTAGATCTTT	58.460	45.455	2.79	0.00	44.72	2.52
2028	8494	1.228862	GTGGGCAAGGTCATTGGGT	60.229	57.895	0.00	0.00	39.47	4.51
2317	9353	6.485648	TGATCTGAGGAAATAAGCACATGATG	59.514	38.462	0.00	0.00	0.00	3.07
2330	9366	6.359804	CCACATAGGAAATGATCTGAGGAAA	58.640	40.000	0.00	0.00	41.22	3.13
2391	9430	7.988737	TGTATTTGGAATGATTGCTCTACAAG	58.011	34.615	0.00	0.00	42.87	3.16
2396	9435	6.832384	AGACATGTATTTGGAATGATTGCTCT	59.168	34.615	0.00	0.00	0.00	4.09
2397	9436	6.916387	CAGACATGTATTTGGAATGATTGCTC	59.084	38.462	0.00	0.00	0.00	4.26
2439	9478	4.753233	AGATCGTGGAGAAAGAGATTGTG	58.247	43.478	0.00	0.00	0.00	3.33
2440	9479	4.709397	AGAGATCGTGGAGAAAGAGATTGT	59.291	41.667	0.00	0.00	0.00	2.71
2441	9480	5.261209	AGAGATCGTGGAGAAAGAGATTG	57.739	43.478	0.00	0.00	0.00	2.67
2442	9481	5.930837	AAGAGATCGTGGAGAAAGAGATT	57.069	39.130	0.00	0.00	0.00	2.40
2443	9482	5.656416	AGAAAGAGATCGTGGAGAAAGAGAT	59.344	40.000	0.00	0.00	0.00	2.75
2444	9483	5.013547	AGAAAGAGATCGTGGAGAAAGAGA	58.986	41.667	0.00	0.00	0.00	3.10
2445	9484	5.323371	AGAAAGAGATCGTGGAGAAAGAG	57.677	43.478	0.00	0.00	0.00	2.85
2446	9485	4.142578	CGAGAAAGAGATCGTGGAGAAAGA	60.143	45.833	0.00	0.00	34.30	2.52
2447	9486	4.101942	CGAGAAAGAGATCGTGGAGAAAG	58.898	47.826	0.00	0.00	34.30	2.62
2448	9487	3.756963	TCGAGAAAGAGATCGTGGAGAAA	59.243	43.478	0.00	0.00	39.86	2.52
2449	9488	3.344515	TCGAGAAAGAGATCGTGGAGAA	58.655	45.455	0.00	0.00	39.86	2.87
2450	9489	2.987232	TCGAGAAAGAGATCGTGGAGA	58.013	47.619	0.00	0.00	39.86	3.71
2451	9490	3.980646	ATCGAGAAAGAGATCGTGGAG	57.019	47.619	0.00	0.00	39.86	3.86
2452	9491	3.066900	GGAATCGAGAAAGAGATCGTGGA	59.933	47.826	0.00	0.00	39.86	4.02
2453	9492	3.067461	AGGAATCGAGAAAGAGATCGTGG	59.933	47.826	0.00	0.00	39.86	4.94
2480	9519	7.537991	CCTTCTACGACCAGAATATATCGAAAC	59.462	40.741	0.00	0.00	37.97	2.78
2484	9523	6.372103	AGACCTTCTACGACCAGAATATATCG	59.628	42.308	0.00	0.00	40.39	2.92
2492	9531	3.380637	GCATTAGACCTTCTACGACCAGA	59.619	47.826	0.00	0.00	0.00	3.86
2494	9533	3.093814	TGCATTAGACCTTCTACGACCA	58.906	45.455	0.00	0.00	0.00	4.02
2498	9537	9.504710	GTATACATATGCATTAGACCTTCTACG	57.495	37.037	3.54	0.00	0.00	3.51
2531	9570	8.777089	AGCTAGATACTATGATCCATACAGAGA	58.223	37.037	0.00	0.00	32.04	3.10
2534	9573	9.620259	TGTAGCTAGATACTATGATCCATACAG	57.380	37.037	18.38	0.00	0.00	2.74
2537	9576	9.620259	CAGTGTAGCTAGATACTATGATCCATA	57.380	37.037	18.38	0.00	0.00	2.74
2550	9589	4.646945	AGCATGTGTACAGTGTAGCTAGAT	59.353	41.667	11.18	0.00	0.00	1.98
2572	9611	3.133542	TGACAGACCAGGATAGCAATGAG	59.866	47.826	0.00	0.00	0.00	2.90
2645	9685	4.683832	TCCCAAAACGTACCACAAAATTG	58.316	39.130	0.00	0.00	0.00	2.32
2652	9692	4.300803	GGAAATTTCCCAAAACGTACCAC	58.699	43.478	24.44	0.00	41.62	4.16
2680	9720	1.869132	AGCGTTCCGAAAAACTACCAC	59.131	47.619	0.00	0.00	0.00	4.16
2786	9829	6.431852	AGAATTCTAGAGGTCGACTATAAGCC	59.568	42.308	16.46	0.00	0.00	4.35
2795	9838	6.873997	TGCATTTTAGAATTCTAGAGGTCGA	58.126	36.000	14.63	0.00	0.00	4.20
2811	9854	4.414337	AAAGCAACCAACCTGCATTTTA	57.586	36.364	0.00	0.00	42.48	1.52
2864	9930	6.994421	ACCCATTTTACCTTCAATTCACTT	57.006	33.333	0.00	0.00	0.00	3.16
2938	10004	9.811995	AAGGAAAACACAAATAAAAGGTCTAAC	57.188	29.630	0.00	0.00	0.00	2.34
2940	10006	8.973182	ACAAGGAAAACACAAATAAAAGGTCTA	58.027	29.630	0.00	0.00	0.00	2.59
2967	10033	4.278419	ACACACAAGGTCTATTCTTTTGGC	59.722	41.667	0.00	0.00	0.00	4.52
2981	10047	5.064198	CGTACAATACCCATAACACACAAGG	59.936	44.000	0.00	0.00	0.00	3.61
3005	10071	7.112452	AGGGCCATTAATGAAGTATTTGTTC	57.888	36.000	17.23	0.00	0.00	3.18
3017	10088	2.936202	ACTGTGCTAGGGCCATTAATG	58.064	47.619	6.18	8.58	37.74	1.90
3044	10115	9.463902	ACTCCTACATACTAATTCGCTATGTAT	57.536	33.333	8.92	0.00	34.41	2.29
3065	10136	0.994247	TGCACATGAATCCCACTCCT	59.006	50.000	0.00	0.00	0.00	3.69
3077	10148	2.165641	ACTGGCAGATTTCATGCACATG	59.834	45.455	23.66	4.18	45.68	3.21
3080	10151	1.202110	CGACTGGCAGATTTCATGCAC	60.202	52.381	23.66	0.00	45.68	4.57
3081	10152	1.089112	CGACTGGCAGATTTCATGCA	58.911	50.000	23.66	0.00	45.68	3.96
3083	10154	2.743664	TCAACGACTGGCAGATTTCATG	59.256	45.455	23.66	11.77	0.00	3.07
3084	10155	3.005554	CTCAACGACTGGCAGATTTCAT	58.994	45.455	23.66	0.00	0.00	2.57
3085	10156	2.037121	TCTCAACGACTGGCAGATTTCA	59.963	45.455	23.66	0.00	0.00	2.69
3086	10157	2.670414	CTCTCAACGACTGGCAGATTTC	59.330	50.000	23.66	7.57	0.00	2.17
3087	10158	2.037772	ACTCTCAACGACTGGCAGATTT	59.962	45.455	23.66	7.82	0.00	2.17
3088	10159	1.620819	ACTCTCAACGACTGGCAGATT	59.379	47.619	23.66	9.48	0.00	2.40
3089	10160	1.261480	ACTCTCAACGACTGGCAGAT	58.739	50.000	23.66	5.29	0.00	2.90
3090	10161	1.040646	AACTCTCAACGACTGGCAGA	58.959	50.000	23.66	0.00	0.00	4.26
3091	10162	2.724977	TAACTCTCAACGACTGGCAG	57.275	50.000	14.16	14.16	0.00	4.85
3092	10163	3.508402	TGTATAACTCTCAACGACTGGCA	59.492	43.478	0.00	0.00	0.00	4.92
3093	10164	4.106029	TGTATAACTCTCAACGACTGGC	57.894	45.455	0.00	0.00	0.00	4.85
3094	10165	5.710984	AGTTGTATAACTCTCAACGACTGG	58.289	41.667	0.00	0.00	43.53	4.00
3107	10178	6.910433	CCATAAAACATGCCGAGTTGTATAAC	59.090	38.462	0.00	0.00	30.28	1.89
3108	10179	6.600032	ACCATAAAACATGCCGAGTTGTATAA	59.400	34.615	0.00	0.00	30.28	0.98
3109	10180	6.116806	ACCATAAAACATGCCGAGTTGTATA	58.883	36.000	0.00	0.00	30.28	1.47
3110	10181	4.947388	ACCATAAAACATGCCGAGTTGTAT	59.053	37.500	0.00	0.00	31.23	2.29
3116	10187	2.094803	TGCAACCATAAAACATGCCGAG	60.095	45.455	0.00	0.00	36.20	4.63
3119	10190	3.859443	TGATGCAACCATAAAACATGCC	58.141	40.909	0.00	0.00	36.20	4.40
3183	10254	9.177608	CCCACAACTATCATGAGAAATTAAGAA	57.822	33.333	0.09	0.00	0.00	2.52

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.