AutoCloner

Multiple sequence alignment - TraesCS7B01G324600

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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	TraesCS7B01G324600	chr7B	100.000	2264	0	0	1	2264	577211325	577213588	0.000000e+00	4181
1	TraesCS7B01G324600	chr7B	94.239	1597	50	9	657	2243	707572306	707570742	0.000000e+00	2401
2	TraesCS7B01G324600	chr7B	93.690	1569	63	10	687	2243	707617282	707618826	0.000000e+00	2316
3	TraesCS7B01G324600	chr7B	96.071	789	8	8	1	767	133432591	133431804	0.000000e+00	1264
4	TraesCS7B01G324600	chr7B	89.441	161	16	1	2104	2263	707571000	707570840	3.810000e-48	202
5	TraesCS7B01G324600	chr2B	96.370	2259	42	7	1	2243	154585556	154583322	0.000000e+00	3681
6	TraesCS7B01G324600	chr2B	95.805	1597	34	7	657	2243	798601596	798603169	0.000000e+00	2547
7	TraesCS7B01G324600	chr2B	94.722	360	17	2	1906	2264	154583517	154583159	1.960000e-155	558
8	TraesCS7B01G324600	chr2B	84.121	529	52	14	1737	2264	563915374	563914877	1.220000e-132	483
9	TraesCS7B01G324600	chr2B	85.000	240	13	1	2025	2264	798602856	798603072	2.930000e-54	222
10	TraesCS7B01G324600	chr2B	86.294	197	21	2	2073	2264	42195542	42195737	2.280000e-50	209
11	TraesCS7B01G324600	chr6B	93.915	2268	71	9	1	2243	661051594	661053819	0.000000e+00	3362
12	TraesCS7B01G324600	chr6B	93.681	1994	69	15	1	1941	687514450	687512461	0.000000e+00	2931
13	TraesCS7B01G324600	chr5B	93.030	2267	81	21	1	2243	454660885	454663098	0.000000e+00	3240
14	TraesCS7B01G324600	chr5B	96.071	789	9	7	1	767	351469554	351468766	0.000000e+00	1266
15	TraesCS7B01G324600	chr5B	96.071	789	8	8	1	767	436476616	436477403	0.000000e+00	1264
16	TraesCS7B01G324600	chr6A	96.499	1771	39	4	1	1749	74992244	74990475	0.000000e+00	2905
17	TraesCS7B01G324600	chr6A	95.939	788	11	6	1	767	137872545	137873332	0.000000e+00	1258
18	TraesCS7B01G324600	chr1B	92.558	1693	78	16	591	2264	550439508	550437845	0.000000e+00	2385
19	TraesCS7B01G324600	chr1B	96.066	788	10	6	1	767	649301258	649300471	0.000000e+00	1264
20	TraesCS7B01G324600	chr1B	95.696	790	10	9	1	767	302772296	302771508	0.000000e+00	1249
21	TraesCS7B01G324600	chr1B	84.519	239	14	7	2026	2264	357900300	357900085	4.900000e-52	215
22	TraesCS7B01G324600	chr2A	96.389	1357	41	3	400	1749	601815297	601813942	0.000000e+00	2228
23	TraesCS7B01G324600	chr2A	95.812	788	12	6	1	767	148615222	148614435	0.000000e+00	1253
24	TraesCS7B01G324600	chr2A	95.558	788	14	6	1	767	728933734	728934521	0.000000e+00	1242
25	TraesCS7B01G324600	chr2A	95.455	792	11	7	1	767	752002684	752003475	0.000000e+00	1240
26	TraesCS7B01G324600	chr4A	95.691	789	11	8	1	767	735292757	735293544	0.000000e+00	1247
27	TraesCS7B01G324600	chr4B	95.575	791	10	9	1	767	655791040	655791829	0.000000e+00	1243
28	TraesCS7B01G324600	chr3B	94.797	788	14	9	1	767	179362619	179361838	0.000000e+00	1203
29	TraesCS7B01G324600	chr3B	94.706	340	17	1	1926	2264	179360967	179360628	5.540000e-146	527
30	TraesCS7B01G324600	chr3B	84.398	532	49	16	1737	2264	16122670	16122169	2.020000e-135	492

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	TraesCS7B01G324600	chr7B	577211325	577213588	2263	False	4181.0	4181	100.0000	1	2264	1	chr7B.!!$F1	2263
1	TraesCS7B01G324600	chr7B	707617282	707618826	1544	False	2316.0	2316	93.6900	687	2243	1	chr7B.!!$F2	1556
2	TraesCS7B01G324600	chr7B	707570742	707572306	1564	True	1301.5	2401	91.8400	657	2263	2	chr7B.!!$R2	1606
3	TraesCS7B01G324600	chr7B	133431804	133432591	787	True	1264.0	1264	96.0710	1	767	1	chr7B.!!$R1	766
4	TraesCS7B01G324600	chr2B	154583159	154585556	2397	True	2119.5	3681	95.5460	1	2264	2	chr2B.!!$R2	2263
5	TraesCS7B01G324600	chr2B	798601596	798603169	1573	False	1384.5	2547	90.4025	657	2264	2	chr2B.!!$F2	1607
6	TraesCS7B01G324600	chr6B	661051594	661053819	2225	False	3362.0	3362	93.9150	1	2243	1	chr6B.!!$F1	2242
7	TraesCS7B01G324600	chr6B	687512461	687514450	1989	True	2931.0	2931	93.6810	1	1941	1	chr6B.!!$R1	1940
8	TraesCS7B01G324600	chr5B	454660885	454663098	2213	False	3240.0	3240	93.0300	1	2243	1	chr5B.!!$F2	2242
9	TraesCS7B01G324600	chr5B	351468766	351469554	788	True	1266.0	1266	96.0710	1	767	1	chr5B.!!$R1	766
10	TraesCS7B01G324600	chr5B	436476616	436477403	787	False	1264.0	1264	96.0710	1	767	1	chr5B.!!$F1	766
11	TraesCS7B01G324600	chr6A	74990475	74992244	1769	True	2905.0	2905	96.4990	1	1749	1	chr6A.!!$R1	1748
12	TraesCS7B01G324600	chr6A	137872545	137873332	787	False	1258.0	1258	95.9390	1	767	1	chr6A.!!$F1	766
13	TraesCS7B01G324600	chr1B	550437845	550439508	1663	True	2385.0	2385	92.5580	591	2264	1	chr1B.!!$R3	1673
14	TraesCS7B01G324600	chr1B	649300471	649301258	787	True	1264.0	1264	96.0660	1	767	1	chr1B.!!$R4	766
15	TraesCS7B01G324600	chr1B	302771508	302772296	788	True	1249.0	1249	95.6960	1	767	1	chr1B.!!$R1	766
16	TraesCS7B01G324600	chr2A	601813942	601815297	1355	True	2228.0	2228	96.3890	400	1749	1	chr2A.!!$R2	1349
17	TraesCS7B01G324600	chr2A	148614435	148615222	787	True	1253.0	1253	95.8120	1	767	1	chr2A.!!$R1	766
18	TraesCS7B01G324600	chr2A	728933734	728934521	787	False	1242.0	1242	95.5580	1	767	1	chr2A.!!$F1	766
19	TraesCS7B01G324600	chr2A	752002684	752003475	791	False	1240.0	1240	95.4550	1	767	1	chr2A.!!$F2	766
20	TraesCS7B01G324600	chr4A	735292757	735293544	787	False	1247.0	1247	95.6910	1	767	1	chr4A.!!$F1	766
21	TraesCS7B01G324600	chr4B	655791040	655791829	789	False	1243.0	1243	95.5750	1	767	1	chr4B.!!$F1	766
22	TraesCS7B01G324600	chr3B	179360628	179362619	1991	True	865.0	1203	94.7515	1	2264	2	chr3B.!!$R2	2263
23	TraesCS7B01G324600	chr3B	16122169	16122670	501	True	492.0	492	84.3980	1737	2264	1	chr3B.!!$R1	527

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
607	642	0.112995	AGGTGGTAGTGGTGGTCGTA	59.887	55.0	0.0	0.0	0.0	3.43	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2127	2506	0.107508	CTTGGCGTCTGGATGTCCAT	60.108	55.0	1.54	0.0	46.46	3.41	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
532	567	3.845259	GTGGAGGCGGCACCGATA	61.845	66.667	19.99	0.13	46.52	2.92
593	628	1.373497	GCACGAGTGTCAGAGGTGG	60.373	63.158	5.07	0.00	0.00	4.61
597	632	1.202903	ACGAGTGTCAGAGGTGGTAGT	60.203	52.381	0.00	0.00	0.00	2.73
604	639	0.608640	CAGAGGTGGTAGTGGTGGTC	59.391	60.000	0.00	0.00	0.00	4.02
607	642	0.112995	AGGTGGTAGTGGTGGTCGTA	59.887	55.000	0.00	0.00	0.00	3.43
611	646	1.101331	GGTAGTGGTGGTCGTAGAGG	58.899	60.000	0.00	0.00	36.95	3.69
612	647	1.101331	GTAGTGGTGGTCGTAGAGGG	58.899	60.000	0.00	0.00	36.95	4.30
637	672	2.232452	ACAAGTGCTAGAGGTGCTAGTG	59.768	50.000	0.00	0.00	46.81	2.74
638	673	2.223803	AGTGCTAGAGGTGCTAGTGT	57.776	50.000	0.00	0.00	46.81	3.55
639	674	2.530701	AGTGCTAGAGGTGCTAGTGTT	58.469	47.619	0.00	0.00	46.81	3.32
640	675	2.494073	AGTGCTAGAGGTGCTAGTGTTC	59.506	50.000	0.00	0.00	46.81	3.18
642	677	1.473278	GCTAGAGGTGCTAGTGTTCGT	59.527	52.381	0.00	0.00	46.81	3.85
645	680	3.069079	AGAGGTGCTAGTGTTCGTAGA	57.931	47.619	0.00	0.00	0.00	2.59
646	681	3.011119	AGAGGTGCTAGTGTTCGTAGAG	58.989	50.000	0.00	0.00	38.43	2.43
647	682	2.093106	AGGTGCTAGTGTTCGTAGAGG	58.907	52.381	0.00	0.00	38.43	3.69
648	683	1.134560	GGTGCTAGTGTTCGTAGAGGG	59.865	57.143	0.00	0.00	38.43	4.30
651	686	1.065851	GCTAGTGTTCGTAGAGGGAGC	59.934	57.143	0.00	0.00	38.43	4.70
652	687	2.366533	CTAGTGTTCGTAGAGGGAGCA	58.633	52.381	0.00	0.00	38.43	4.26
654	689	0.601558	GTGTTCGTAGAGGGAGCACA	59.398	55.000	4.28	0.00	42.81	4.57
673	708	0.977395	AAGTGCTAGAGGTGGTGGTC	59.023	55.000	0.00	0.00	0.00	4.02
677	712	1.810532	CTAGAGGTGGTGGTCGAGC	59.189	63.158	7.89	7.89	0.00	5.03
678	713	0.681564	CTAGAGGTGGTGGTCGAGCT	60.682	60.000	16.64	0.00	33.17	4.09
681	716	2.184579	GGTGGTGGTCGAGCTAGC	59.815	66.667	16.64	6.62	0.00	3.42
773	958	3.321648	TGGTGGTCGAGCAGGCAT	61.322	61.111	19.24	0.00	0.00	4.40
797	982	1.192146	GCTAGAGGTGGTGGTGGTCA	61.192	60.000	0.00	0.00	0.00	4.02
1246	1438	1.260561	GGCCAACTAACGCATATGACG	59.739	52.381	6.97	12.04	0.00	4.35
1335	1528	5.836024	TCATGGTTTATATGTAGTCCCCC	57.164	43.478	0.00	0.00	0.00	5.40
1453	1647	1.742768	GAGGAGTCCTATGCACGGG	59.257	63.158	12.99	2.46	31.76	5.28
2064	2443	2.203337	TGGCGTCTGGCTTGCTTT	60.203	55.556	0.00	0.00	42.94	3.51
2065	2444	2.256461	GGCGTCTGGCTTGCTTTG	59.744	61.111	0.00	0.00	42.94	2.77
2066	2445	2.429739	GCGTCTGGCTTGCTTTGC	60.430	61.111	0.00	0.00	39.11	3.68
2067	2446	2.912624	GCGTCTGGCTTGCTTTGCT	61.913	57.895	0.00	0.00	39.11	3.91
2068	2447	1.208614	CGTCTGGCTTGCTTTGCTC	59.791	57.895	0.00	0.00	0.00	4.26
2069	2448	1.208614	GTCTGGCTTGCTTTGCTCG	59.791	57.895	0.00	0.00	0.00	5.03
2070	2449	1.227943	TCTGGCTTGCTTTGCTCGT	60.228	52.632	0.00	0.00	0.00	4.18
2071	2450	1.081641	CTGGCTTGCTTTGCTCGTG	60.082	57.895	0.00	0.00	0.00	4.35
2072	2451	2.429739	GGCTTGCTTTGCTCGTGC	60.430	61.111	1.71	1.71	40.20	5.34
2081	2460	3.545574	TGCTCGTGCAGGTGACCA	61.546	61.111	8.30	0.00	45.31	4.02
2082	2461	2.740055	GCTCGTGCAGGTGACCAG	60.740	66.667	12.31	0.00	39.41	4.00
2083	2462	3.051210	CTCGTGCAGGTGACCAGA	58.949	61.111	3.63	0.00	0.00	3.86
2084	2463	1.373497	CTCGTGCAGGTGACCAGAC	60.373	63.158	3.63	0.00	0.00	3.51
2085	2464	2.087462	CTCGTGCAGGTGACCAGACA	62.087	60.000	3.63	0.00	0.00	3.41
2086	2465	1.665916	CGTGCAGGTGACCAGACAG	60.666	63.158	3.63	0.00	0.00	3.51
2087	2466	1.302033	GTGCAGGTGACCAGACAGG	60.302	63.158	3.63	0.00	45.67	4.00
2088	2467	2.359230	GCAGGTGACCAGACAGGC	60.359	66.667	3.63	0.00	43.14	4.85
2089	2468	2.348998	CAGGTGACCAGACAGGCC	59.651	66.667	3.63	0.00	43.14	5.19
2090	2469	3.314331	AGGTGACCAGACAGGCCG	61.314	66.667	3.63	0.00	43.14	6.13
2091	2470	3.626924	GGTGACCAGACAGGCCGT	61.627	66.667	0.00	0.00	43.14	5.68
2092	2471	2.048127	GTGACCAGACAGGCCGTC	60.048	66.667	16.80	16.80	45.77	4.79
2120	2499	3.108289	CGCAGGTGAGCAGACGTG	61.108	66.667	0.00	4.04	35.32	4.49
2121	2500	2.029666	GCAGGTGAGCAGACGTGT	59.970	61.111	0.00	0.00	34.80	4.49
2122	2501	2.313172	GCAGGTGAGCAGACGTGTG	61.313	63.158	8.61	8.61	34.80	3.82
2123	2502	1.068083	CAGGTGAGCAGACGTGTGT	59.932	57.895	14.77	0.97	0.00	3.72
2124	2503	0.530650	CAGGTGAGCAGACGTGTGTT	60.531	55.000	14.77	8.36	0.00	3.32
2125	2504	0.178068	AGGTGAGCAGACGTGTGTTT	59.822	50.000	14.77	3.03	0.00	2.83
2126	2505	0.304705	GGTGAGCAGACGTGTGTTTG	59.695	55.000	14.77	0.00	33.51	2.93
2127	2506	1.286501	GTGAGCAGACGTGTGTTTGA	58.713	50.000	14.77	0.00	32.09	2.69
2128	2507	1.867233	GTGAGCAGACGTGTGTTTGAT	59.133	47.619	14.77	0.00	32.09	2.57
2129	2508	1.866601	TGAGCAGACGTGTGTTTGATG	59.133	47.619	14.77	0.00	32.09	3.07
2130	2509	1.195448	GAGCAGACGTGTGTTTGATGG	59.805	52.381	14.77	0.00	32.09	3.51
2131	2510	1.202639	AGCAGACGTGTGTTTGATGGA	60.203	47.619	14.77	0.00	32.09	3.41
2132	2511	1.069906	GCAGACGTGTGTTTGATGGAC	60.070	52.381	14.77	0.00	32.09	4.02
2133	2512	2.209273	CAGACGTGTGTTTGATGGACA	58.791	47.619	4.19	0.00	32.09	4.02
2134	2513	2.807967	CAGACGTGTGTTTGATGGACAT	59.192	45.455	4.19	0.00	32.09	3.06
2135	2514	3.067106	AGACGTGTGTTTGATGGACATC	58.933	45.455	0.00	5.37	38.29	3.06
2136	2515	2.151202	ACGTGTGTTTGATGGACATCC	58.849	47.619	9.61	0.00	37.02	3.51
2145	2524	3.477582	TGGACATCCAGACGCCAA	58.522	55.556	0.00	0.00	42.01	4.52
2146	2525	1.296392	TGGACATCCAGACGCCAAG	59.704	57.895	0.00	0.00	42.01	3.61
2147	2526	1.450312	GGACATCCAGACGCCAAGG	60.450	63.158	0.00	0.00	35.64	3.61
2148	2527	1.296715	GACATCCAGACGCCAAGGT	59.703	57.895	0.00	0.00	0.00	3.50
2149	2528	1.003355	ACATCCAGACGCCAAGGTG	60.003	57.895	0.00	0.00	0.00	4.00
2150	2529	2.045926	ATCCAGACGCCAAGGTGC	60.046	61.111	0.00	0.00	0.00	5.01
2159	2538	4.988598	CCAAGGTGCGTGGCGTCT	62.989	66.667	0.00	0.00	0.00	4.18
2160	2539	3.716006	CAAGGTGCGTGGCGTCTG	61.716	66.667	0.00	0.00	0.00	3.51
2172	2551	4.394712	CGTCTGCCTCCCACACCC	62.395	72.222	0.00	0.00	0.00	4.61
2173	2552	3.249189	GTCTGCCTCCCACACCCA	61.249	66.667	0.00	0.00	0.00	4.51
2174	2553	2.930019	TCTGCCTCCCACACCCAG	60.930	66.667	0.00	0.00	0.00	4.45
2175	2554	2.930019	CTGCCTCCCACACCCAGA	60.930	66.667	0.00	0.00	0.00	3.86
2176	2555	3.249189	TGCCTCCCACACCCAGAC	61.249	66.667	0.00	0.00	0.00	3.51
2177	2556	4.394712	GCCTCCCACACCCAGACG	62.395	72.222	0.00	0.00	0.00	4.18
2178	2557	4.394712	CCTCCCACACCCAGACGC	62.395	72.222	0.00	0.00	0.00	5.19
2179	2558	4.394712	CTCCCACACCCAGACGCC	62.395	72.222	0.00	0.00	0.00	5.68
2181	2560	4.704833	CCCACACCCAGACGCCAG	62.705	72.222	0.00	0.00	0.00	4.85
2182	2561	4.704833	CCACACCCAGACGCCAGG	62.705	72.222	0.00	0.00	0.00	4.45
2183	2562	3.625897	CACACCCAGACGCCAGGA	61.626	66.667	0.00	0.00	0.00	3.86
2184	2563	2.847234	ACACCCAGACGCCAGGAA	60.847	61.111	0.00	0.00	0.00	3.36
2185	2564	2.358737	CACCCAGACGCCAGGAAC	60.359	66.667	0.00	0.00	0.00	3.62
2186	2565	3.637273	ACCCAGACGCCAGGAACC	61.637	66.667	0.00	0.00	0.00	3.62
2187	2566	4.410400	CCCAGACGCCAGGAACCC	62.410	72.222	0.00	0.00	0.00	4.11
2188	2567	3.322466	CCAGACGCCAGGAACCCT	61.322	66.667	0.00	0.00	0.00	4.34
2197	2576	3.322466	AGGAACCCTGGCGTCTGG	61.322	66.667	5.87	5.87	29.57	3.86
2199	2578	4.021925	GAACCCTGGCGTCTGGCT	62.022	66.667	7.54	0.00	42.94	4.75
2200	2579	3.553095	GAACCCTGGCGTCTGGCTT	62.553	63.158	7.54	0.00	42.94	4.35
2201	2580	3.850098	AACCCTGGCGTCTGGCTTG	62.850	63.158	7.54	0.00	42.94	4.01
2202	2581	4.335647	CCCTGGCGTCTGGCTTGT	62.336	66.667	7.54	0.00	42.94	3.16
2203	2582	2.281761	CCTGGCGTCTGGCTTGTT	60.282	61.111	0.00	0.00	42.94	2.83
2204	2583	1.003839	CCTGGCGTCTGGCTTGTTA	60.004	57.895	0.00	0.00	42.94	2.41
2254	2775	1.977129	TGGTGTGTCTGATGGTCATCA	59.023	47.619	12.41	12.41	44.83	3.07

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
532	567	2.370189	CACCTCTTCCACCTCTTTCACT	59.630	50.000	0.00	0.00	0.00	3.41
593	628	1.101331	CCCTCTACGACCACCACTAC	58.899	60.000	0.00	0.00	0.00	2.73
597	632	1.681327	GCTCCCTCTACGACCACCA	60.681	63.158	0.00	0.00	0.00	4.17
604	639	0.737715	GCACTTGTGCTCCCTCTACG	60.738	60.000	17.36	0.00	0.00	3.51
607	642	0.901124	CTAGCACTTGTGCTCCCTCT	59.099	55.000	28.34	9.45	45.00	3.69
611	646	0.610687	ACCTCTAGCACTTGTGCTCC	59.389	55.000	28.34	0.41	45.00	4.70
612	647	1.719600	CACCTCTAGCACTTGTGCTC	58.280	55.000	28.34	1.13	45.00	4.26
632	667	2.097791	GTGCTCCCTCTACGAACACTAG	59.902	54.545	0.00	0.00	0.00	2.57
634	669	0.889306	GTGCTCCCTCTACGAACACT	59.111	55.000	0.00	0.00	0.00	3.55
637	672	1.272769	ACTTGTGCTCCCTCTACGAAC	59.727	52.381	0.00	0.00	0.00	3.95
638	673	1.272490	CACTTGTGCTCCCTCTACGAA	59.728	52.381	0.00	0.00	0.00	3.85
639	674	0.888619	CACTTGTGCTCCCTCTACGA	59.111	55.000	0.00	0.00	0.00	3.43
640	675	0.737715	GCACTTGTGCTCCCTCTACG	60.738	60.000	17.36	0.00	0.00	3.51
642	677	2.103373	CTAGCACTTGTGCTCCCTCTA	58.897	52.381	28.34	11.64	45.00	2.43
645	680	0.901124	CTCTAGCACTTGTGCTCCCT	59.099	55.000	28.34	10.47	45.00	4.20
646	681	0.107945	CCTCTAGCACTTGTGCTCCC	60.108	60.000	28.34	0.06	45.00	4.30
647	682	0.610687	ACCTCTAGCACTTGTGCTCC	59.389	55.000	28.34	0.41	45.00	4.70
648	683	1.674221	CCACCTCTAGCACTTGTGCTC	60.674	57.143	28.34	1.13	45.00	4.26
651	686	1.609061	CCACCACCTCTAGCACTTGTG	60.609	57.143	0.00	0.00	0.00	3.33
652	687	0.687354	CCACCACCTCTAGCACTTGT	59.313	55.000	0.00	0.00	0.00	3.16
654	689	0.977395	GACCACCACCTCTAGCACTT	59.023	55.000	0.00	0.00	0.00	3.16
659	694	0.681564	AGCTCGACCACCACCTCTAG	60.682	60.000	0.00	0.00	0.00	2.43
662	697	1.810532	CTAGCTCGACCACCACCTC	59.189	63.158	0.00	0.00	0.00	3.85
663	698	2.352032	GCTAGCTCGACCACCACCT	61.352	63.158	7.70	0.00	0.00	4.00
664	699	2.184579	GCTAGCTCGACCACCACC	59.815	66.667	7.70	0.00	0.00	4.61
668	703	0.038159	ACTTGTGCTAGCTCGACCAC	60.038	55.000	17.23	4.92	0.00	4.16
673	708	3.721625	TAGCACTTGTGCTAGCTCG	57.278	52.632	25.81	3.24	44.28	5.03
678	713	1.550524	CCACCTCTAGCACTTGTGCTA	59.449	52.381	27.11	27.11	44.28	3.49
681	716	1.609061	CCACCACCTCTAGCACTTGTG	60.609	57.143	0.00	0.00	0.00	3.33
773	958	1.899814	CACCACCACCTCTAGCACTTA	59.100	52.381	0.00	0.00	0.00	2.24
797	982	2.355010	AGCACTTGTGCTTCCTCTTT	57.645	45.000	20.95	0.00	43.52	2.52
1246	1438	3.169355	CACCTAACATACCGGTGGTAC	57.831	52.381	19.93	0.00	41.31	3.34
1453	1647	4.162690	ACGCTCCCGCTCCAATCC	62.163	66.667	0.00	0.00	38.22	3.01
2065	2444	2.740055	CTGGTCACCTGCACGAGC	60.740	66.667	0.00	0.00	42.57	5.03
2066	2445	1.373497	GTCTGGTCACCTGCACGAG	60.373	63.158	0.00	0.00	0.00	4.18
2067	2446	2.087462	CTGTCTGGTCACCTGCACGA	62.087	60.000	0.00	0.00	0.00	4.35
2068	2447	1.665916	CTGTCTGGTCACCTGCACG	60.666	63.158	0.00	0.00	0.00	5.34
2069	2448	1.302033	CCTGTCTGGTCACCTGCAC	60.302	63.158	0.00	0.00	0.00	4.57
2070	2449	3.150949	CCTGTCTGGTCACCTGCA	58.849	61.111	0.00	0.00	0.00	4.41
2071	2450	2.359230	GCCTGTCTGGTCACCTGC	60.359	66.667	0.00	0.00	38.35	4.85
2072	2451	2.348998	GGCCTGTCTGGTCACCTG	59.651	66.667	0.00	0.00	40.97	4.00
2073	2452	3.314331	CGGCCTGTCTGGTCACCT	61.314	66.667	0.00	0.00	41.50	4.00
2074	2453	3.591254	GACGGCCTGTCTGGTCACC	62.591	68.421	17.12	0.00	44.58	4.02
2075	2454	2.048127	GACGGCCTGTCTGGTCAC	60.048	66.667	17.12	0.00	44.58	3.67
2083	2462	4.626081	GCACACCAGACGGCCTGT	62.626	66.667	0.00	0.00	41.33	4.00
2103	2482	3.108289	CACGTCTGCTCACCTGCG	61.108	66.667	0.00	0.00	35.36	5.18
2104	2483	2.029666	ACACGTCTGCTCACCTGC	59.970	61.111	0.00	0.00	0.00	4.85
2105	2484	0.530650	AACACACGTCTGCTCACCTG	60.531	55.000	0.00	0.00	0.00	4.00
2106	2485	0.178068	AAACACACGTCTGCTCACCT	59.822	50.000	0.00	0.00	0.00	4.00
2107	2486	0.304705	CAAACACACGTCTGCTCACC	59.695	55.000	0.00	0.00	0.00	4.02
2108	2487	1.286501	TCAAACACACGTCTGCTCAC	58.713	50.000	0.00	0.00	0.00	3.51
2109	2488	1.866601	CATCAAACACACGTCTGCTCA	59.133	47.619	0.00	0.00	0.00	4.26
2110	2489	1.195448	CCATCAAACACACGTCTGCTC	59.805	52.381	0.00	0.00	0.00	4.26
2111	2490	1.202639	TCCATCAAACACACGTCTGCT	60.203	47.619	0.00	0.00	0.00	4.24
2112	2491	1.069906	GTCCATCAAACACACGTCTGC	60.070	52.381	0.00	0.00	0.00	4.26
2113	2492	2.209273	TGTCCATCAAACACACGTCTG	58.791	47.619	0.00	0.00	0.00	3.51
2114	2493	2.613026	TGTCCATCAAACACACGTCT	57.387	45.000	0.00	0.00	0.00	4.18
2115	2494	2.159627	GGATGTCCATCAAACACACGTC	59.840	50.000	9.34	0.00	39.54	4.34
2116	2495	2.151202	GGATGTCCATCAAACACACGT	58.849	47.619	9.34	0.00	39.54	4.49
2117	2496	2.150390	TGGATGTCCATCAAACACACG	58.850	47.619	9.34	0.00	42.01	4.49
2118	2497	3.189287	GTCTGGATGTCCATCAAACACAC	59.811	47.826	9.34	0.00	46.46	3.82
2119	2498	3.411446	GTCTGGATGTCCATCAAACACA	58.589	45.455	9.34	0.00	46.46	3.72
2120	2499	2.416547	CGTCTGGATGTCCATCAAACAC	59.583	50.000	9.34	0.00	46.46	3.32
2121	2500	2.698803	CGTCTGGATGTCCATCAAACA	58.301	47.619	9.34	0.00	46.46	2.83
2122	2501	1.398390	GCGTCTGGATGTCCATCAAAC	59.602	52.381	9.34	3.54	46.46	2.93
2123	2502	1.678728	GGCGTCTGGATGTCCATCAAA	60.679	52.381	9.34	0.00	46.46	2.69
2124	2503	0.107703	GGCGTCTGGATGTCCATCAA	60.108	55.000	9.34	0.00	46.46	2.57
2125	2504	1.264045	TGGCGTCTGGATGTCCATCA	61.264	55.000	9.34	0.00	46.46	3.07
2126	2505	0.107703	TTGGCGTCTGGATGTCCATC	60.108	55.000	1.54	0.00	46.46	3.51
2127	2506	0.107508	CTTGGCGTCTGGATGTCCAT	60.108	55.000	1.54	0.00	46.46	3.41
2128	2507	1.296392	CTTGGCGTCTGGATGTCCA	59.704	57.895	1.17	1.17	45.30	4.02
2129	2508	1.450312	CCTTGGCGTCTGGATGTCC	60.450	63.158	0.00	0.00	0.00	4.02
2130	2509	1.021390	CACCTTGGCGTCTGGATGTC	61.021	60.000	6.64	0.00	0.00	3.06
2131	2510	1.003355	CACCTTGGCGTCTGGATGT	60.003	57.895	6.64	0.00	0.00	3.06
2132	2511	2.401766	GCACCTTGGCGTCTGGATG	61.402	63.158	6.64	3.19	0.00	3.51
2133	2512	2.045926	GCACCTTGGCGTCTGGAT	60.046	61.111	6.64	0.00	0.00	3.41
2142	2521	4.988598	AGACGCCACGCACCTTGG	62.989	66.667	0.00	0.00	37.17	3.61
2143	2522	3.716006	CAGACGCCACGCACCTTG	61.716	66.667	0.00	0.00	0.00	3.61
2155	2534	4.394712	GGGTGTGGGAGGCAGACG	62.395	72.222	0.00	0.00	0.00	4.18
2156	2535	3.249189	TGGGTGTGGGAGGCAGAC	61.249	66.667	0.00	0.00	0.00	3.51
2157	2536	2.930019	CTGGGTGTGGGAGGCAGA	60.930	66.667	0.00	0.00	0.00	4.26
2158	2537	2.930019	TCTGGGTGTGGGAGGCAG	60.930	66.667	0.00	0.00	0.00	4.85
2159	2538	3.249189	GTCTGGGTGTGGGAGGCA	61.249	66.667	0.00	0.00	0.00	4.75
2160	2539	4.394712	CGTCTGGGTGTGGGAGGC	62.395	72.222	0.00	0.00	0.00	4.70
2161	2540	4.394712	GCGTCTGGGTGTGGGAGG	62.395	72.222	0.00	0.00	0.00	4.30
2162	2541	4.394712	GGCGTCTGGGTGTGGGAG	62.395	72.222	0.00	0.00	0.00	4.30
2164	2543	4.704833	CTGGCGTCTGGGTGTGGG	62.705	72.222	0.00	0.00	0.00	4.61
2165	2544	4.704833	CCTGGCGTCTGGGTGTGG	62.705	72.222	4.79	0.00	0.00	4.17
2166	2545	3.177194	TTCCTGGCGTCTGGGTGTG	62.177	63.158	13.43	0.00	33.38	3.82
2167	2546	2.847234	TTCCTGGCGTCTGGGTGT	60.847	61.111	13.43	0.00	33.38	4.16
2168	2547	2.358737	GTTCCTGGCGTCTGGGTG	60.359	66.667	13.43	0.00	33.38	4.61
2169	2548	3.637273	GGTTCCTGGCGTCTGGGT	61.637	66.667	13.43	0.00	33.38	4.51
2170	2549	4.410400	GGGTTCCTGGCGTCTGGG	62.410	72.222	13.43	3.07	33.38	4.45
2171	2550	3.322466	AGGGTTCCTGGCGTCTGG	61.322	66.667	6.60	6.60	29.57	3.86
2180	2559	3.322466	CCAGACGCCAGGGTTCCT	61.322	66.667	0.00	0.00	0.00	3.36
2182	2561	3.553095	AAGCCAGACGCCAGGGTTC	62.553	63.158	0.00	0.00	41.44	3.62
2183	2562	3.570212	AAGCCAGACGCCAGGGTT	61.570	61.111	0.00	0.00	40.54	4.11
2184	2563	4.335647	CAAGCCAGACGCCAGGGT	62.336	66.667	0.00	0.00	38.78	4.34
2185	2564	2.463589	TAACAAGCCAGACGCCAGGG	62.464	60.000	0.00	0.00	38.78	4.45
2186	2565	0.392998	ATAACAAGCCAGACGCCAGG	60.393	55.000	0.00	0.00	38.78	4.45
2187	2566	0.729116	CATAACAAGCCAGACGCCAG	59.271	55.000	0.00	0.00	38.78	4.85
2188	2567	1.305219	GCATAACAAGCCAGACGCCA	61.305	55.000	0.00	0.00	38.78	5.69
2189	2568	1.026718	AGCATAACAAGCCAGACGCC	61.027	55.000	0.00	0.00	38.78	5.68
2190	2569	0.375106	GAGCATAACAAGCCAGACGC	59.625	55.000	0.00	0.00	37.98	5.19
2191	2570	1.394917	GTGAGCATAACAAGCCAGACG	59.605	52.381	0.00	0.00	0.00	4.18
2192	2571	1.394917	CGTGAGCATAACAAGCCAGAC	59.605	52.381	0.00	0.00	0.00	3.51
2193	2572	1.725641	CGTGAGCATAACAAGCCAGA	58.274	50.000	0.00	0.00	0.00	3.86

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.