AutoCloner

Multiple sequence alignment - TraesCS2D01G581500

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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	TraesCS2D01G581500	chr2D	100.000	3393	0	0	1	3393	643007758	643004366	0.000000e+00	6266.0
1	TraesCS2D01G581500	chr2D	92.304	1884	107	10	824	2702	643124112	643122262	0.000000e+00	2641.0
2	TraesCS2D01G581500	chr2D	91.782	864	62	2	1612	2469	642955319	642956179	0.000000e+00	1194.0
3	TraesCS2D01G581500	chr2D	90.278	216	15	5	422	633	643082206	643081993	9.270000e-71	278.0
4	TraesCS2D01G581500	chr2D	88.839	224	14	8	422	636	643124392	643124171	7.220000e-67	265.0
5	TraesCS2D01G581500	chr2A	92.775	3405	205	20	1	3393	767987322	767983947	0.000000e+00	4887.0
6	TraesCS2D01G581500	chrUn	92.042	2752	180	20	669	3393	31626762	31624023	0.000000e+00	3832.0
7	TraesCS2D01G581500	chrUn	91.667	864	69	1	1612	2475	31553762	31554622	0.000000e+00	1194.0
8	TraesCS2D01G581500	chrUn	91.045	268	21	1	991	1255	183059007	183058740	3.220000e-95	359.0
9	TraesCS2D01G581500	chr6D	80.699	1430	232	32	995	2396	382079601	382081014	0.000000e+00	1072.0
10	TraesCS2D01G581500	chr6D	81.219	607	92	12	2640	3237	376907719	376908312	1.430000e-128	470.0
11	TraesCS2D01G581500	chr6D	86.667	60	8	0	129	188	3495056	3494997	2.190000e-07	67.6
12	TraesCS2D01G581500	chr6D	73.936	188	35	8	91	271	289514839	289514659	2.830000e-06	63.9
13	TraesCS2D01G581500	chr2B	78.529	1360	226	42	1012	2341	787533950	787532627	0.000000e+00	833.0
14	TraesCS2D01G581500	chr7B	82.696	601	82	11	2643	3237	246624451	246623867	6.490000e-142	514.0
15	TraesCS2D01G581500	chr7B	82.392	602	82	12	2643	3237	246629335	246628751	1.410000e-138	503.0
16	TraesCS2D01G581500	chr4D	77.469	901	173	21	1456	2341	469073552	469072667	2.340000e-141	512.0
17	TraesCS2D01G581500	chr4D	78.065	155	32	2	20	173	451639573	451639726	2.790000e-16	97.1
18	TraesCS2D01G581500	chr7A	82.645	605	76	16	2643	3238	423569469	423570053	3.020000e-140	508.0
19	TraesCS2D01G581500	chr7A	82.125	593	85	12	2643	3227	500779411	500779990	3.940000e-134	488.0
20	TraesCS2D01G581500	chr7A	76.735	245	47	10	32	271	509759852	509759613	9.880000e-26	128.0
21	TraesCS2D01G581500	chr3B	81.188	606	95	13	2643	3239	575617483	575618078	1.430000e-128	470.0
22	TraesCS2D01G581500	chr3B	81.633	98	10	2	135	225	39446428	39446524	1.310000e-09	75.0
23	TraesCS2D01G581500	chr1D	80.203	591	93	13	2643	3223	456158309	456157733	4.050000e-114	422.0
24	TraesCS2D01G581500	chr4B	74.677	928	201	25	1438	2351	663985664	663986571	6.870000e-102	381.0
25	TraesCS2D01G581500	chr5A	77.219	597	129	6	1758	2351	702898080	702897488	3.240000e-90	342.0
26	TraesCS2D01G581500	chr1A	93.878	98	3	3	563	660	582711859	582711953	9.810000e-31	145.0
27	TraesCS2D01G581500	chr1B	92.857	98	4	3	563	660	675869641	675869735	4.570000e-29	139.0
28	TraesCS2D01G581500	chr1B	92.857	98	4	3	563	660	675877827	675877921	4.570000e-29	139.0
29	TraesCS2D01G581500	chr1B	91.837	98	5	3	563	660	675927731	675927825	2.120000e-27	134.0
30	TraesCS2D01G581500	chr7D	76.250	240	48	6	29	261	545306023	545306260	5.950000e-23	119.0
31	TraesCS2D01G581500	chr7D	77.108	166	34	4	29	192	26730809	26730646	3.600000e-15	93.5
32	TraesCS2D01G581500	chr3A	80.412	97	16	2	73	169	708811365	708811458	1.690000e-08	71.3

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	TraesCS2D01G581500	chr2D	643004366	643007758	3392	True	6266	6266	100.0000	1	3393	1	chr2D.!!$R1	3392
1	TraesCS2D01G581500	chr2D	643122262	643124392	2130	True	1453	2641	90.5715	422	2702	2	chr2D.!!$R3	2280
2	TraesCS2D01G581500	chr2D	642955319	642956179	860	False	1194	1194	91.7820	1612	2469	1	chr2D.!!$F1	857
3	TraesCS2D01G581500	chr2A	767983947	767987322	3375	True	4887	4887	92.7750	1	3393	1	chr2A.!!$R1	3392
4	TraesCS2D01G581500	chrUn	31624023	31626762	2739	True	3832	3832	92.0420	669	3393	1	chrUn.!!$R1	2724
5	TraesCS2D01G581500	chrUn	31553762	31554622	860	False	1194	1194	91.6670	1612	2475	1	chrUn.!!$F1	863
6	TraesCS2D01G581500	chr6D	382079601	382081014	1413	False	1072	1072	80.6990	995	2396	1	chr6D.!!$F2	1401
7	TraesCS2D01G581500	chr6D	376907719	376908312	593	False	470	470	81.2190	2640	3237	1	chr6D.!!$F1	597
8	TraesCS2D01G581500	chr2B	787532627	787533950	1323	True	833	833	78.5290	1012	2341	1	chr2B.!!$R1	1329
9	TraesCS2D01G581500	chr7B	246623867	246624451	584	True	514	514	82.6960	2643	3237	1	chr7B.!!$R1	594
10	TraesCS2D01G581500	chr7B	246628751	246629335	584	True	503	503	82.3920	2643	3237	1	chr7B.!!$R2	594
11	TraesCS2D01G581500	chr4D	469072667	469073552	885	True	512	512	77.4690	1456	2341	1	chr4D.!!$R1	885
12	TraesCS2D01G581500	chr7A	423569469	423570053	584	False	508	508	82.6450	2643	3238	1	chr7A.!!$F1	595
13	TraesCS2D01G581500	chr7A	500779411	500779990	579	False	488	488	82.1250	2643	3227	1	chr7A.!!$F2	584
14	TraesCS2D01G581500	chr3B	575617483	575618078	595	False	470	470	81.1880	2643	3239	1	chr3B.!!$F2	596
15	TraesCS2D01G581500	chr1D	456157733	456158309	576	True	422	422	80.2030	2643	3223	1	chr1D.!!$R1	580
16	TraesCS2D01G581500	chr4B	663985664	663986571	907	False	381	381	74.6770	1438	2351	1	chr4B.!!$F1	913
17	TraesCS2D01G581500	chr5A	702897488	702898080	592	True	342	342	77.2190	1758	2351	1	chr5A.!!$R1	593

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
783	797	0.328258	GGCTTTGCTGGGGACTTAGA	59.672	55.000	0.0	0.0	0.00	2.1	F
1726	1792	1.285373	AGGTCATACCCTGTCGTCTCT	59.715	52.381	0.0	0.0	39.75	3.1	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1744	1834	1.201769	CGCACCGTTACGTTCTTGATG	60.202	52.381	3.52	0.0	0.0	3.07	R
2878	2988	0.713579	ACCTAGCTCTTCCACCCTCT	59.286	55.000	0.00	0.0	0.0	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
57	58	8.186163	CCTAATAAGTGTCATACGTCTTGTACA	58.814	37.037	0.00	0.00	35.44	2.90
69	70	7.450159	ATACGTCTTGTACAAGCATATGGCAG	61.450	42.308	27.49	13.43	39.77	4.85
70	71	9.723110	ATACGTCTTGTACAAGCATATGGCAGT	62.723	40.741	27.49	17.27	39.77	4.40
76	77	4.876701	GCATATGGCAGTCCCGAA	57.123	55.556	4.56	0.00	43.97	4.30
77	78	2.321213	GCATATGGCAGTCCCGAAC	58.679	57.895	4.56	0.00	43.97	3.95
78	79	1.498865	GCATATGGCAGTCCCGAACG	61.499	60.000	4.56	0.00	43.97	3.95
142	143	5.368145	AGTTAGCAGACATCACAACTTTCA	58.632	37.500	0.00	0.00	0.00	2.69
162	163	9.034544	ACTTTCATGCTTCAGTTTATTTTTGAC	57.965	29.630	0.00	0.00	0.00	3.18
169	170	7.219917	TGCTTCAGTTTATTTTTGACAGAAACG	59.780	33.333	0.00	0.00	35.61	3.60
225	226	4.582701	ATTGCCATCAAAGAAACGTCAA	57.417	36.364	0.00	0.00	35.56	3.18
228	229	2.726241	GCCATCAAAGAAACGTCAAAGC	59.274	45.455	0.00	0.00	0.00	3.51
237	238	3.777925	CGTCAAAGCCGGAGTGCG	61.778	66.667	5.05	0.00	36.02	5.34
238	239	3.423154	GTCAAAGCCGGAGTGCGG	61.423	66.667	20.08	20.08	36.02	5.69
262	263	3.679980	GCATCTGACACGTGACACTTATT	59.320	43.478	25.01	0.00	0.00	1.40
276	277	6.700520	GTGACACTTATTATTTAGGGAGTCCG	59.299	42.308	2.26	0.00	38.33	4.79
277	278	6.381994	TGACACTTATTATTTAGGGAGTCCGT	59.618	38.462	9.75	9.75	38.33	4.69
318	319	1.203100	AGCAAAAGAGCAGGGTGGATT	60.203	47.619	0.00	0.00	36.85	3.01
483	488	1.493311	GTACGTGCTCTTGTGCAGC	59.507	57.895	0.00	0.00	44.20	5.25
484	489	1.068921	TACGTGCTCTTGTGCAGCA	59.931	52.632	0.00	0.00	44.80	4.41
498	503	1.230635	GCAGCACACGAACAGATGGT	61.231	55.000	0.00	0.00	0.00	3.55
663	674	4.479993	CTTCGCCTCCCTGCCCAG	62.480	72.222	0.00	0.00	0.00	4.45
741	755	3.948719	TGGTGGGTGAGTTCCGGC	61.949	66.667	0.00	0.00	0.00	6.13
783	797	0.328258	GGCTTTGCTGGGGACTTAGA	59.672	55.000	0.00	0.00	0.00	2.10
815	829	3.972971	GACCAGCTGCTGCCCAGAG	62.973	68.421	23.86	11.54	44.64	3.35
887	903	2.064014	GTAAACGAGAAAGGGACGTGG	58.936	52.381	0.00	0.00	40.10	4.94
893	909	2.100916	CGAGAAAGGGACGTGGACATAT	59.899	50.000	0.00	0.00	0.00	1.78
925	941	3.649843	AGGATGATGAAATGGCCAATGT	58.350	40.909	10.96	0.00	0.00	2.71
935	951	6.804677	TGAAATGGCCAATGTGTTCATATAC	58.195	36.000	10.96	0.00	33.49	1.47
936	952	6.379417	TGAAATGGCCAATGTGTTCATATACA	59.621	34.615	10.96	0.00	33.49	2.29
937	953	5.772825	ATGGCCAATGTGTTCATATACAC	57.227	39.130	10.96	2.34	46.71	2.90
960	984	3.243941	ACCACTACGTGCTGTAAATGTGA	60.244	43.478	0.00	0.00	31.67	3.58
969	993	1.355210	GTAAATGTGATGCCCGGCG	59.645	57.895	4.58	0.00	0.00	6.46
1089	1116	2.637383	GCTGACCCTCTTCGACCGT	61.637	63.158	0.00	0.00	0.00	4.83
1152	1179	1.975407	ACCGACTCCGTCCAACGAT	60.975	57.895	0.24	0.00	46.05	3.73
1155	1182	1.810030	GACTCCGTCCAACGATGCC	60.810	63.158	0.24	0.00	46.05	4.40
1160	1187	2.100631	CGTCCAACGATGCCCTCAC	61.101	63.158	0.00	0.00	46.05	3.51
1203	1230	4.016706	GTGTACCCGCACCTGGCT	62.017	66.667	0.00	0.00	41.67	4.75
1341	1368	2.125673	GTCACCGACACCGATGGG	60.126	66.667	0.00	0.00	38.22	4.00
1711	1777	2.431683	GGACAAGGCAGCAGGTCA	59.568	61.111	11.14	0.00	32.00	4.02
1726	1792	1.285373	AGGTCATACCCTGTCGTCTCT	59.715	52.381	0.00	0.00	39.75	3.10
1744	1834	1.839994	TCTGATCCCATGTCCTCCAAC	59.160	52.381	0.00	0.00	0.00	3.77
2098	2188	1.008079	GTCGTTCGTGGACTTCGGT	60.008	57.895	0.00	0.00	0.00	4.69
2102	2192	0.243095	GTTCGTGGACTTCGGTAGCT	59.757	55.000	0.00	0.00	0.00	3.32
2293	2383	0.317160	TGATCTTCTTGCCGTCGTGT	59.683	50.000	0.00	0.00	0.00	4.49
2396	2501	9.914131	AAAGAGCTAAACCAAAGATGTAAAATC	57.086	29.630	0.00	0.00	0.00	2.17
2407	2512	7.325694	CAAAGATGTAAAATCAATGCTCCCTT	58.674	34.615	0.00	0.00	0.00	3.95
2459	2564	3.657448	ATCGATTCGCACGGGCACA	62.657	57.895	11.77	0.00	41.24	4.57
2469	2574	1.012086	CACGGGCACAATCATCTCAG	58.988	55.000	0.00	0.00	0.00	3.35
2475	2580	1.929836	GCACAATCATCTCAGGACGAC	59.070	52.381	0.00	0.00	0.00	4.34
2524	2629	1.000506	GTTCCGGTCTAGTGACAAGCA	59.999	52.381	0.00	0.00	44.61	3.91
2545	2651	8.776470	CAAGCATGGTGATTTTTCTGTATTTTT	58.224	29.630	0.00	0.00	0.00	1.94
2546	2652	8.314143	AGCATGGTGATTTTTCTGTATTTTTG	57.686	30.769	0.00	0.00	0.00	2.44
2601	2707	7.811653	TGTGTAAATAAATCTGCGAATTCACA	58.188	30.769	6.22	0.53	0.00	3.58
2607	2713	4.836125	AATCTGCGAATTCACAAGTGTT	57.164	36.364	6.22	0.00	0.00	3.32
2612	2718	2.980586	CGAATTCACAAGTGTTTCGCA	58.019	42.857	19.46	0.00	38.88	5.10
2747	2853	4.022413	TGTTTGTGACGGGGAATGATTA	57.978	40.909	0.00	0.00	0.00	1.75
2800	2906	1.363807	GTGCCCAAAAGGAGTGTGC	59.636	57.895	0.00	0.00	38.24	4.57
2811	2917	2.704572	AGGAGTGTGCTGAAATACTGC	58.295	47.619	0.00	0.00	42.47	4.40
2853	2963	9.930693	GGGACTCTACTGGAATTTTATATGTAG	57.069	37.037	0.00	0.00	0.00	2.74
2906	3016	3.888930	TGGAAGAGCTAGGTTTGTTTTGG	59.111	43.478	0.00	0.00	0.00	3.28
2930	3044	0.674581	TCAGCTCTGCATTTGACCCG	60.675	55.000	0.00	0.00	0.00	5.28
2945	3059	2.618241	TGACCCGCATGATTAAGATTGC	59.382	45.455	0.00	0.00	0.00	3.56
2968	3082	6.207221	TGCAAGTTGATCTCACACATACAATT	59.793	34.615	7.16	0.00	0.00	2.32
2971	3085	9.764870	CAAGTTGATCTCACACATACAATTTAG	57.235	33.333	0.00	0.00	0.00	1.85
3053	3177	1.089920	AAACTGGCATGTCTGATCGC	58.910	50.000	11.50	0.00	0.00	4.58
3072	3196	2.603412	CGCGGTTGTTTACATTGCTCAA	60.603	45.455	0.00	0.00	0.00	3.02
3165	3293	8.402683	AGATTCTTACCCTCTAGCCTCATTATA	58.597	37.037	0.00	0.00	0.00	0.98
3167	3295	5.944599	TCTTACCCTCTAGCCTCATTATACG	59.055	44.000	0.00	0.00	0.00	3.06
3170	3298	5.638133	ACCCTCTAGCCTCATTATACGTTA	58.362	41.667	0.00	0.00	0.00	3.18
3196	3324	2.936498	CGGCACCACGAAAAAGATAGAT	59.064	45.455	0.00	0.00	35.47	1.98
3296	3424	3.837213	GCAGTTGCTTGCAAGATTAGA	57.163	42.857	30.39	7.07	43.53	2.10
3302	3430	5.532406	AGTTGCTTGCAAGATTAGACTTTGA	59.468	36.000	30.39	0.00	0.00	2.69
3378	3511	8.991243	AAAGCTTGATAATAAGTGTACGTGTA	57.009	30.769	0.00	0.00	0.00	2.90
3387	3520	0.449388	GTGTACGTGTAGACTCCGGG	59.551	60.000	0.00	0.00	0.00	5.73

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
7	8	8.743714	AGGTTCCTTGATTAATTAGCTCAAAAG	58.256	33.333	11.47	7.84	0.00	2.27
25	26	7.123847	AGACGTATGACACTTATTAGGTTCCTT	59.876	37.037	0.00	0.00	0.00	3.36
57	58	0.546122	TTCGGGACTGCCATATGCTT	59.454	50.000	0.00	0.00	42.00	3.91
112	113	8.148351	AGTTGTGATGTCTGCTAACTAAAGTTA	58.852	33.333	2.76	2.76	39.31	2.24
132	133	7.935338	AATAAACTGAAGCATGAAAGTTGTG	57.065	32.000	0.00	0.00	33.30	3.33
142	143	9.034544	GTTTCTGTCAAAAATAAACTGAAGCAT	57.965	29.630	0.00	0.00	34.54	3.79
162	163	5.408299	TCCATTTACTCATGACACGTTTCTG	59.592	40.000	3.00	0.00	0.00	3.02
169	170	5.512788	CGCAAATTCCATTTACTCATGACAC	59.487	40.000	0.00	0.00	0.00	3.67
192	193	1.258982	GATGGCAATTCTAGTCACGCG	59.741	52.381	3.53	3.53	0.00	6.01
237	238	2.432456	TCACGTGTCAGATGCGCC	60.432	61.111	16.51	0.00	0.00	6.53
238	239	2.021584	TGTCACGTGTCAGATGCGC	61.022	57.895	16.51	0.00	0.00	6.09
240	241	1.502231	AAGTGTCACGTGTCAGATGC	58.498	50.000	15.79	4.53	0.00	3.91
262	263	5.378230	TCTACAGACGGACTCCCTAAATA	57.622	43.478	0.00	0.00	0.00	1.40
276	277	6.080406	GCTTTTGCTTACAACATCTACAGAC	58.920	40.000	0.00	0.00	43.35	3.51
277	278	6.241207	GCTTTTGCTTACAACATCTACAGA	57.759	37.500	0.00	0.00	43.35	3.41
318	319	0.538057	CTCAAGTCCCCAGCAAAGCA	60.538	55.000	0.00	0.00	0.00	3.91
427	428	8.184192	GTGGTTTCAACTTTCAATGATCGATAT	58.816	33.333	0.00	0.00	0.00	1.63
431	432	5.518812	TGTGGTTTCAACTTTCAATGATCG	58.481	37.500	0.00	0.00	0.00	3.69
483	488	1.148310	GGTGACCATCTGTTCGTGTG	58.852	55.000	0.00	0.00	0.00	3.82
484	489	0.756294	TGGTGACCATCTGTTCGTGT	59.244	50.000	0.00	0.00	0.00	4.49
498	503	3.369787	CCACATATCTCTGCAGTTGGTGA	60.370	47.826	14.67	6.15	0.00	4.02
831	845	1.906574	ACCAGATTTAGCAGTTCCCGA	59.093	47.619	0.00	0.00	0.00	5.14
893	909	7.818930	GCCATTTCATCATCCTTTGAAAACTTA	59.181	33.333	2.60	0.00	43.04	2.24
925	941	5.648178	ACGTAGTGGTGTGTATATGAACA	57.352	39.130	0.00	0.00	42.51	3.18
942	958	3.242413	GGCATCACATTTACAGCACGTAG	60.242	47.826	0.00	0.00	0.00	3.51
1089	1116	1.133513	ACAAAGATGTCCAAGGTGGCA	60.134	47.619	0.00	0.00	37.47	4.92
1311	1338	2.927004	GGTGACGAAACTGCCATCA	58.073	52.632	0.00	0.00	0.00	3.07
1341	1368	2.747855	GGCACTGCAGGGTACAGC	60.748	66.667	19.18	10.93	38.79	4.40
1711	1777	2.588620	GGATCAGAGACGACAGGGTAT	58.411	52.381	0.00	0.00	0.00	2.73
1726	1792	1.667595	TGTTGGAGGACATGGGATCA	58.332	50.000	0.00	0.00	0.00	2.92
1744	1834	1.201769	CGCACCGTTACGTTCTTGATG	60.202	52.381	3.52	0.00	0.00	3.07
2026	2116	3.716195	CGGATGGCCTCCACCACA	61.716	66.667	17.97	0.00	45.24	4.17
2071	2161	1.471287	TCCACGAACGACTGGATGTAG	59.529	52.381	0.14	0.00	31.20	2.74
2263	2353	2.172082	CAAGAAGATCATGAGGCCCTCA	59.828	50.000	17.41	17.41	44.99	3.86
2459	2564	3.017442	TCTTCGTCGTCCTGAGATGATT	58.983	45.455	0.00	0.00	40.16	2.57
2469	2574	4.815040	TTATCTCAGATCTTCGTCGTCC	57.185	45.455	0.00	0.00	0.00	4.79
2475	2580	6.210078	GGTACCTGTTTATCTCAGATCTTCG	58.790	44.000	4.06	0.00	35.20	3.79
2515	2620	4.682860	CAGAAAAATCACCATGCTTGTCAC	59.317	41.667	0.00	0.00	0.00	3.67
2545	2651	5.667539	TTTGAATTTGACACAGGGAAACA	57.332	34.783	0.00	0.00	0.00	2.83
2546	2652	9.573133	CTATATTTGAATTTGACACAGGGAAAC	57.427	33.333	0.00	0.00	0.00	2.78
2612	2718	7.833786	ACACACATGAGATTTATTTGCAAGAT	58.166	30.769	0.00	0.00	0.00	2.40
2656	2762	9.941325	TCATGTTGAATAAATGTTTAAAGCCAT	57.059	25.926	0.00	0.00	0.00	4.40
2747	2853	4.286297	TCCTCGAGTGAAATTCCACATT	57.714	40.909	12.31	0.00	39.42	2.71
2800	2906	6.939132	ATCAATTCCTCTGCAGTATTTCAG	57.061	37.500	14.67	1.93	0.00	3.02
2811	2917	3.321950	AGTCCCCCTATCAATTCCTCTG	58.678	50.000	0.00	0.00	0.00	3.35
2868	2978	2.854736	TCCACCCTCTGATCTCATGA	57.145	50.000	0.00	0.00	0.00	3.07
2870	2980	3.307506	CTCTTCCACCCTCTGATCTCAT	58.692	50.000	0.00	0.00	0.00	2.90
2871	2981	2.744760	CTCTTCCACCCTCTGATCTCA	58.255	52.381	0.00	0.00	0.00	3.27
2872	2982	1.412343	GCTCTTCCACCCTCTGATCTC	59.588	57.143	0.00	0.00	0.00	2.75
2873	2983	1.008206	AGCTCTTCCACCCTCTGATCT	59.992	52.381	0.00	0.00	0.00	2.75
2874	2984	1.494960	AGCTCTTCCACCCTCTGATC	58.505	55.000	0.00	0.00	0.00	2.92
2875	2985	2.676748	CTAGCTCTTCCACCCTCTGAT	58.323	52.381	0.00	0.00	0.00	2.90
2876	2986	1.342474	CCTAGCTCTTCCACCCTCTGA	60.342	57.143	0.00	0.00	0.00	3.27
2877	2987	1.118838	CCTAGCTCTTCCACCCTCTG	58.881	60.000	0.00	0.00	0.00	3.35
2878	2988	0.713579	ACCTAGCTCTTCCACCCTCT	59.286	55.000	0.00	0.00	0.00	3.69
2879	2989	1.574263	AACCTAGCTCTTCCACCCTC	58.426	55.000	0.00	0.00	0.00	4.30
2906	3016	2.613133	GTCAAATGCAGAGCTGATCCTC	59.387	50.000	0.85	0.00	0.00	3.71
2930	3044	7.201145	AGATCAACTTGCAATCTTAATCATGC	58.799	34.615	0.00	0.00	39.22	4.06
2945	3059	9.764870	CTAAATTGTATGTGTGAGATCAACTTG	57.235	33.333	0.00	0.00	0.00	3.16
2971	3085	1.812235	TGTGAGTCATGTGCCATGAC	58.188	50.000	27.40	27.40	46.41	3.06
2991	3105	8.951614	AAATATACTAGTCCCTAGCACATACA	57.048	34.615	0.00	0.00	37.57	2.29
2994	3108	9.245481	GTCTAAATATACTAGTCCCTAGCACAT	57.755	37.037	0.00	0.00	37.57	3.21
3030	3152	3.189080	CGATCAGACATGCCAGTTTTTCA	59.811	43.478	0.00	0.00	0.00	2.69
3053	3177	4.024048	ACTCTTGAGCAATGTAAACAACCG	60.024	41.667	0.00	0.00	0.00	4.44
3141	3269	7.122948	CGTATAATGAGGCTAGAGGGTAAGAAT	59.877	40.741	0.00	0.00	0.00	2.40
3143	3271	5.944599	CGTATAATGAGGCTAGAGGGTAAGA	59.055	44.000	0.00	0.00	0.00	2.10
3165	3293	1.740296	GTGGTGCCGCTCATAACGT	60.740	57.895	0.00	0.00	0.00	3.99
3167	3295	1.017177	TTCGTGGTGCCGCTCATAAC	61.017	55.000	0.06	0.00	0.00	1.89
3170	3298	1.169661	TTTTTCGTGGTGCCGCTCAT	61.170	50.000	0.06	0.00	0.00	2.90
3196	3324	5.948162	ACTACACGGTCCACTCTCTAATTTA	59.052	40.000	0.00	0.00	0.00	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.