AutoCloner

Multiple sequence alignment - TraesCS7A01G277900

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	TraesCS7A01G277900	chr7A	100.000	3202	0	0	1	3202	292817750	292820951	0.000000e+00	5914
1	TraesCS7A01G277900	chr7A	86.400	125	11	4	3070	3189	696503161	696503038	7.210000e-27	132
2	TraesCS7A01G277900	chr7B	94.626	2382	60	20	868	3194	247264939	247262571	0.000000e+00	3627
3	TraesCS7A01G277900	chr7B	84.786	585	76	10	1	573	64725171	64725754	2.770000e-160	575
4	TraesCS7A01G277900	chr7B	88.636	132	15	0	2985	3116	254836599	254836730	9.190000e-36	161
5	TraesCS7A01G277900	chr7D	95.943	1553	34	5	884	2410	266874607	266876156	0.000000e+00	2492
6	TraesCS7A01G277900	chr7D	91.717	821	32	10	2410	3198	266882264	266883080	0.000000e+00	1107
7	TraesCS7A01G277900	chr7D	94.413	179	8	1	640	818	266874431	266874607	1.130000e-69	274
8	TraesCS7A01G277900	chr7D	87.952	83	10	0	3117	3199	496154985	496154903	7.310000e-17	99
9	TraesCS7A01G277900	chr3B	85.832	607	74	9	1	597	241670046	241670650	4.510000e-178	634
10	TraesCS7A01G277900	chr3B	88.636	132	15	0	2985	3116	72459867	72459998	9.190000e-36	161
11	TraesCS7A01G277900	chr4D	85.033	608	76	11	1	597	299779751	299779148	3.530000e-169	604
12	TraesCS7A01G277900	chr4D	88.636	132	15	0	2985	3116	346467971	346468102	9.190000e-36	161
13	TraesCS7A01G277900	chr5A	85.515	573	66	13	1	560	529099439	529098871	1.660000e-162	582
14	TraesCS7A01G277900	chr5D	83.914	603	85	9	5	597	502542375	502542975	1.670000e-157	566
15	TraesCS7A01G277900	chr1D	83.497	612	85	11	1	598	447448905	447448296	1.000000e-154	556
16	TraesCS7A01G277900	chr1D	82.906	585	86	10	1	573	250734419	250735001	6.130000e-142	514
17	TraesCS7A01G277900	chr5B	83.445	598	85	11	11	597	626190632	626191226	7.810000e-151	544
18	TraesCS7A01G277900	chr1B	81.997	611	90	19	1	597	542426806	542427410	4.770000e-138	501
19	TraesCS7A01G277900	chr2A	85.052	194	25	2	2985	3174	144848076	144848269	9.060000e-46	195
20	TraesCS7A01G277900	chr2D	85.484	186	21	4	2994	3173	155479528	155479343	4.220000e-44	189
21	TraesCS7A01G277900	chr4A	89.922	129	12	1	2988	3116	103731494	103731367	7.110000e-37	165
22	TraesCS7A01G277900	chr2B	85.806	155	18	2	3027	3177	212774904	212774750	9.190000e-36	161
23	TraesCS7A01G277900	chr2B	96.721	61	2	0	3117	3177	166470840	166470900	5.650000e-18	102
24	TraesCS7A01G277900	chr1A	87.879	132	16	0	2985	3116	188135638	188135769	4.280000e-34	156
25	TraesCS7A01G277900	chr3A	80.275	218	20	14	2986	3182	215954877	215955092	3.330000e-30	143

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	TraesCS7A01G277900	chr7A	292817750	292820951	3201	False	5914	5914	100.000	1	3202	1	chr7A.!!$F1	3201
1	TraesCS7A01G277900	chr7B	247262571	247264939	2368	True	3627	3627	94.626	868	3194	1	chr7B.!!$R1	2326
2	TraesCS7A01G277900	chr7B	64725171	64725754	583	False	575	575	84.786	1	573	1	chr7B.!!$F1	572
3	TraesCS7A01G277900	chr7D	266874431	266876156	1725	False	1383	2492	95.178	640	2410	2	chr7D.!!$F2	1770
4	TraesCS7A01G277900	chr7D	266882264	266883080	816	False	1107	1107	91.717	2410	3198	1	chr7D.!!$F1	788
5	TraesCS7A01G277900	chr3B	241670046	241670650	604	False	634	634	85.832	1	597	1	chr3B.!!$F2	596
6	TraesCS7A01G277900	chr4D	299779148	299779751	603	True	604	604	85.033	1	597	1	chr4D.!!$R1	596
7	TraesCS7A01G277900	chr5A	529098871	529099439	568	True	582	582	85.515	1	560	1	chr5A.!!$R1	559
8	TraesCS7A01G277900	chr5D	502542375	502542975	600	False	566	566	83.914	5	597	1	chr5D.!!$F1	592
9	TraesCS7A01G277900	chr1D	447448296	447448905	609	True	556	556	83.497	1	598	1	chr1D.!!$R1	597
10	TraesCS7A01G277900	chr1D	250734419	250735001	582	False	514	514	82.906	1	573	1	chr1D.!!$F1	572
11	TraesCS7A01G277900	chr5B	626190632	626191226	594	False	544	544	83.445	11	597	1	chr5B.!!$F1	586
12	TraesCS7A01G277900	chr1B	542426806	542427410	604	False	501	501	81.997	1	597	1	chr1B.!!$F1	596

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
538	562	0.035439	AACAGACGGCCGATCCAAAT	60.035	50.0	35.9	7.12	34.01	2.32	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2246	2298	7.598493	CCAACAACAATAAAAATCTACACTGGG	59.402	37.037	0.0	0.0	0.0	4.45	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
77	78	4.948621	AGACTAAGGCGAAAGAAGTAGCTA	59.051	41.667	0.00	0.00	0.00	3.32
147	148	2.341101	TGTCGCCGAGGAAGAGGTC	61.341	63.158	0.00	0.00	0.00	3.85
275	285	1.403647	CGAGATGGCGTGGTCAAACTA	60.404	52.381	0.00	0.00	0.00	2.24
277	287	1.623811	AGATGGCGTGGTCAAACTACT	59.376	47.619	0.00	0.00	0.00	2.57
367	381	5.774690	TCTTTTTGGAGGCTGACATTGTATT	59.225	36.000	0.00	0.00	0.00	1.89
399	414	3.936453	GCATGGTACCGACATGAACTTTA	59.064	43.478	13.51	0.00	46.60	1.85
430	447	4.619160	GCATGGTCGCTGACATGATCTATA	60.619	45.833	13.38	0.00	33.68	1.31
481	501	1.219646	TAAAACGGGTCGCTTGTGTC	58.780	50.000	0.00	0.00	0.00	3.67
538	562	0.035439	AACAGACGGCCGATCCAAAT	60.035	50.000	35.90	7.12	34.01	2.32
542	566	1.134098	AGACGGCCGATCCAAATGAAT	60.134	47.619	35.90	3.54	34.01	2.57
575	600	6.423776	ACAAAATCACCATCAGTTTGGATT	57.576	33.333	0.00	0.00	39.25	3.01
577	602	6.041865	ACAAAATCACCATCAGTTTGGATTGA	59.958	34.615	0.00	0.00	39.25	2.57
598	623	1.460267	CGCGTTGAAGTTGCTCTTACG	60.460	52.381	0.00	10.70	39.60	3.18
599	624	1.525619	GCGTTGAAGTTGCTCTTACGT	59.474	47.619	14.07	0.00	39.13	3.57
600	625	2.033151	GCGTTGAAGTTGCTCTTACGTT	60.033	45.455	0.00	0.00	39.13	3.99
601	626	3.545426	GCGTTGAAGTTGCTCTTACGTTT	60.545	43.478	0.00	0.00	39.13	3.60
602	627	4.201576	CGTTGAAGTTGCTCTTACGTTTC	58.798	43.478	0.00	0.00	35.01	2.78
603	628	4.201576	GTTGAAGTTGCTCTTACGTTTCG	58.798	43.478	0.00	0.00	36.40	3.46
604	629	3.450578	TGAAGTTGCTCTTACGTTTCGT	58.549	40.909	0.00	0.00	44.35	3.85
605	630	3.866910	TGAAGTTGCTCTTACGTTTCGTT	59.133	39.130	0.00	0.00	41.54	3.85
606	631	4.330620	TGAAGTTGCTCTTACGTTTCGTTT	59.669	37.500	0.00	0.00	41.54	3.60
607	632	4.448363	AGTTGCTCTTACGTTTCGTTTC	57.552	40.909	0.00	0.00	41.54	2.78
608	633	3.246936	AGTTGCTCTTACGTTTCGTTTCC	59.753	43.478	0.00	0.00	41.54	3.13
609	634	2.823984	TGCTCTTACGTTTCGTTTCCA	58.176	42.857	0.00	0.00	41.54	3.53
610	635	3.395639	TGCTCTTACGTTTCGTTTCCAT	58.604	40.909	0.00	0.00	41.54	3.41
611	636	3.810941	TGCTCTTACGTTTCGTTTCCATT	59.189	39.130	0.00	0.00	41.54	3.16
612	637	4.148891	GCTCTTACGTTTCGTTTCCATTG	58.851	43.478	0.00	0.00	41.54	2.82
613	638	4.136517	TCTTACGTTTCGTTTCCATTGC	57.863	40.909	0.00	0.00	41.54	3.56
614	639	2.973419	TACGTTTCGTTTCCATTGCC	57.027	45.000	0.00	0.00	41.54	4.52
615	640	1.314730	ACGTTTCGTTTCCATTGCCT	58.685	45.000	0.00	0.00	36.35	4.75
616	641	1.265905	ACGTTTCGTTTCCATTGCCTC	59.734	47.619	0.00	0.00	36.35	4.70
617	642	1.535462	CGTTTCGTTTCCATTGCCTCT	59.465	47.619	0.00	0.00	0.00	3.69
618	643	2.412847	CGTTTCGTTTCCATTGCCTCTC	60.413	50.000	0.00	0.00	0.00	3.20
619	644	2.552315	GTTTCGTTTCCATTGCCTCTCA	59.448	45.455	0.00	0.00	0.00	3.27
620	645	1.808411	TCGTTTCCATTGCCTCTCAC	58.192	50.000	0.00	0.00	0.00	3.51
621	646	0.443869	CGTTTCCATTGCCTCTCACG	59.556	55.000	0.00	0.00	0.00	4.35
622	647	0.804989	GTTTCCATTGCCTCTCACGG	59.195	55.000	0.00	0.00	0.00	4.94
623	648	0.322456	TTTCCATTGCCTCTCACGGG	60.322	55.000	0.00	0.00	0.00	5.28
624	649	1.198094	TTCCATTGCCTCTCACGGGA	61.198	55.000	0.00	0.00	0.00	5.14
625	650	1.198094	TCCATTGCCTCTCACGGGAA	61.198	55.000	0.00	0.00	38.80	3.97
626	651	1.026718	CCATTGCCTCTCACGGGAAC	61.027	60.000	0.00	0.00	37.20	3.62
666	691	2.635338	GTCAAACCGGCGAACACC	59.365	61.111	9.30	0.00	0.00	4.16
709	734	2.030562	CGTCTGGCTCACCGGTTT	59.969	61.111	2.97	0.00	43.58	3.27
712	737	0.321653	GTCTGGCTCACCGGTTTCAT	60.322	55.000	2.97	0.00	43.58	2.57
755	780	1.134694	GCGTGAAACATTCCTCGGC	59.865	57.895	0.00	0.00	35.74	5.54
775	800	3.322211	CCATTGACATGGTGCACAATT	57.678	42.857	20.43	3.87	44.81	2.32
836	861	4.696899	AAAAGTCTAAACCATAAGGCGC	57.303	40.909	0.00	0.00	39.06	6.53
837	862	1.935933	AGTCTAAACCATAAGGCGCG	58.064	50.000	0.00	0.00	39.06	6.86
838	863	1.479323	AGTCTAAACCATAAGGCGCGA	59.521	47.619	12.10	0.00	39.06	5.87
839	864	1.859080	GTCTAAACCATAAGGCGCGAG	59.141	52.381	12.10	0.00	39.06	5.03
840	865	1.202486	TCTAAACCATAAGGCGCGAGG	60.202	52.381	12.10	3.22	39.06	4.63
863	888	5.907197	CGATATTCAACGCTAACCTGAAT	57.093	39.130	2.46	2.46	41.47	2.57
864	889	5.670097	CGATATTCAACGCTAACCTGAATG	58.330	41.667	6.76	0.00	39.51	2.67
865	890	5.462068	CGATATTCAACGCTAACCTGAATGA	59.538	40.000	6.76	0.00	39.51	2.57
866	891	6.019075	CGATATTCAACGCTAACCTGAATGAA	60.019	38.462	6.76	0.00	39.51	2.57
874	899	3.001736	GCTAACCTGAATGAATCGACTGC	59.998	47.826	0.00	0.00	0.00	4.40
1030	1055	1.330655	TTCTCCTCCTCGCCCACATC	61.331	60.000	0.00	0.00	0.00	3.06
1219	1255	2.125673	GCGACCACCAGCGTGTAT	60.126	61.111	0.00	0.00	38.41	2.29
1330	1378	1.586826	CAACGTGGTGTCGTCGTCA	60.587	57.895	0.00	0.00	43.38	4.35
1431	1479	2.435938	CCATTGGGACGTCACGGG	60.436	66.667	18.91	13.07	35.59	5.28
2063	2114	5.555017	AGTTGCTCATTCTGTCAATGTACT	58.445	37.500	0.00	0.00	0.00	2.73
2068	2119	5.220303	GCTCATTCTGTCAATGTACTTCGTC	60.220	44.000	0.00	0.00	0.00	4.20
2069	2120	5.778862	TCATTCTGTCAATGTACTTCGTCA	58.221	37.500	0.00	0.00	0.00	4.35
2246	2298	2.111756	GCTGCACATAATAAAGCGCAC	58.888	47.619	11.47	0.00	0.00	5.34
2339	2392	7.690256	ACAAGAATAGAGTGGTCCTGTAAATT	58.310	34.615	0.00	0.00	0.00	1.82
2603	2671	1.168714	GACAAAGGACATGACCTGGC	58.831	55.000	17.66	5.53	40.49	4.85
2649	2717	5.838529	ACCGGAGTAAAATCAAAACAAAGG	58.161	37.500	9.46	0.00	0.00	3.11
2690	2758	6.099341	CAGCCTAACACATATATACGCATGA	58.901	40.000	0.00	0.00	0.00	3.07
2769	2837	4.592942	TGATGGCTCACAGAAAGCTAATT	58.407	39.130	0.00	0.00	39.75	1.40
2789	2857	5.733620	ATTCCACATCTTTGCAACTGATT	57.266	34.783	0.00	0.00	0.00	2.57
2868	2936	4.816385	TGAGATCAAGCAGAAACGTTTTCT	59.184	37.500	15.89	10.91	0.00	2.52
3016	3084	4.712829	TCGGGATAGACCAAACTTGACATA	59.287	41.667	0.00	0.00	41.20	2.29
3177	3268	2.345876	AGGCTTTGTTGTTGTTGTTGC	58.654	42.857	0.00	0.00	0.00	4.17
3200	3291	2.671963	CTGCTGCTGCTGCTGGAA	60.672	61.111	27.67	10.41	37.92	3.53
3201	3292	2.979197	CTGCTGCTGCTGCTGGAAC	61.979	63.158	27.67	7.80	37.92	3.62

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
77	78	0.037882	CCCGTCATCATGCTAGCGAT	60.038	55.000	10.77	4.70	0.00	4.58
127	128	2.636412	CCTCTTCCTCGGCGACACA	61.636	63.158	4.99	0.00	0.00	3.72
147	148	2.353889	CCTGCATCTTCTCGAACCATTG	59.646	50.000	0.00	0.00	0.00	2.82
430	447	3.134985	ACAAATTTAAAAGGCCCACGGTT	59.865	39.130	0.00	0.00	0.00	4.44
507	531	0.249322	CGTCTGTTTGGTGTCCGTCT	60.249	55.000	0.00	0.00	0.00	4.18
522	546	0.251916	TTCATTTGGATCGGCCGTCT	59.748	50.000	27.15	14.32	40.66	4.18
551	576	5.867903	TCCAAACTGATGGTGATTTTGTT	57.132	34.783	4.63	0.00	41.46	2.83
566	591	1.588674	TCAACGCGTCAATCCAAACT	58.411	45.000	14.44	0.00	0.00	2.66
575	600	0.529773	AGAGCAACTTCAACGCGTCA	60.530	50.000	14.44	0.00	0.00	4.35
577	602	1.525619	GTAAGAGCAACTTCAACGCGT	59.474	47.619	5.58	5.58	39.72	6.01
598	623	2.552315	TGAGAGGCAATGGAAACGAAAC	59.448	45.455	0.00	0.00	0.00	2.78
599	624	2.552315	GTGAGAGGCAATGGAAACGAAA	59.448	45.455	0.00	0.00	0.00	3.46
600	625	2.151202	GTGAGAGGCAATGGAAACGAA	58.849	47.619	0.00	0.00	0.00	3.85
601	626	1.808411	GTGAGAGGCAATGGAAACGA	58.192	50.000	0.00	0.00	0.00	3.85
602	627	0.443869	CGTGAGAGGCAATGGAAACG	59.556	55.000	0.00	0.00	0.00	3.60
603	628	0.804989	CCGTGAGAGGCAATGGAAAC	59.195	55.000	0.00	0.00	0.00	2.78
604	629	0.322456	CCCGTGAGAGGCAATGGAAA	60.322	55.000	0.00	0.00	0.00	3.13
605	630	1.198094	TCCCGTGAGAGGCAATGGAA	61.198	55.000	0.00	0.00	0.00	3.53
606	631	1.198094	TTCCCGTGAGAGGCAATGGA	61.198	55.000	0.00	0.00	0.00	3.41
607	632	1.026718	GTTCCCGTGAGAGGCAATGG	61.027	60.000	0.00	0.00	0.00	3.16
608	633	1.026718	GGTTCCCGTGAGAGGCAATG	61.027	60.000	0.00	0.00	0.00	2.82
609	634	1.299976	GGTTCCCGTGAGAGGCAAT	59.700	57.895	0.00	0.00	0.00	3.56
610	635	1.701031	TTGGTTCCCGTGAGAGGCAA	61.701	55.000	0.00	0.00	0.00	4.52
611	636	1.701031	TTTGGTTCCCGTGAGAGGCA	61.701	55.000	0.00	0.00	0.00	4.75
612	637	1.072505	TTTGGTTCCCGTGAGAGGC	59.927	57.895	0.00	0.00	0.00	4.70
613	638	0.107831	TGTTTGGTTCCCGTGAGAGG	59.892	55.000	0.00	0.00	0.00	3.69
614	639	1.806542	CATGTTTGGTTCCCGTGAGAG	59.193	52.381	0.00	0.00	0.00	3.20
615	640	1.142060	ACATGTTTGGTTCCCGTGAGA	59.858	47.619	0.00	0.00	0.00	3.27
616	641	1.535462	GACATGTTTGGTTCCCGTGAG	59.465	52.381	0.00	0.00	0.00	3.51
617	642	1.600023	GACATGTTTGGTTCCCGTGA	58.400	50.000	0.00	0.00	0.00	4.35
618	643	0.596082	GGACATGTTTGGTTCCCGTG	59.404	55.000	0.00	0.00	0.00	4.94
619	644	0.476771	AGGACATGTTTGGTTCCCGT	59.523	50.000	0.00	0.00	0.00	5.28
620	645	2.081462	GTAGGACATGTTTGGTTCCCG	58.919	52.381	0.00	0.00	0.00	5.14
621	646	2.081462	CGTAGGACATGTTTGGTTCCC	58.919	52.381	0.00	0.00	0.00	3.97
637	662	0.730494	GGTTTGACCGTCGTCCGTAG	60.730	60.000	0.00	0.00	38.32	3.51
638	663	1.285641	GGTTTGACCGTCGTCCGTA	59.714	57.895	0.00	0.00	38.32	4.02
639	664	2.028043	GGTTTGACCGTCGTCCGT	59.972	61.111	0.00	0.00	38.32	4.69
666	691	1.226746	GTTTTCACCTGTCAGACCGG	58.773	55.000	9.41	9.41	0.00	5.28
817	842	2.093869	TCGCGCCTTATGGTTTAGACTT	60.094	45.455	0.00	0.00	35.27	3.01
818	843	1.479323	TCGCGCCTTATGGTTTAGACT	59.521	47.619	0.00	0.00	35.27	3.24
819	844	1.859080	CTCGCGCCTTATGGTTTAGAC	59.141	52.381	0.00	0.00	35.27	2.59
820	845	1.202486	CCTCGCGCCTTATGGTTTAGA	60.202	52.381	0.00	0.00	35.27	2.10
821	846	1.217882	CCTCGCGCCTTATGGTTTAG	58.782	55.000	0.00	0.00	35.27	1.85
822	847	0.812412	GCCTCGCGCCTTATGGTTTA	60.812	55.000	0.00	0.00	35.27	2.01
823	848	2.112815	GCCTCGCGCCTTATGGTTT	61.113	57.895	0.00	0.00	35.27	3.27
824	849	2.513897	GCCTCGCGCCTTATGGTT	60.514	61.111	0.00	0.00	35.27	3.67
835	860	1.201825	GCGTTGAATATCGCCTCGC	59.798	57.895	0.00	0.00	45.54	5.03
841	866	5.462068	TCATTCAGGTTAGCGTTGAATATCG	59.538	40.000	7.34	0.00	0.00	2.92
842	867	6.844696	TCATTCAGGTTAGCGTTGAATATC	57.155	37.500	7.34	0.00	0.00	1.63
843	868	7.307396	CGATTCATTCAGGTTAGCGTTGAATAT	60.307	37.037	7.34	1.33	33.72	1.28
844	869	6.019075	CGATTCATTCAGGTTAGCGTTGAATA	60.019	38.462	7.34	0.00	33.72	1.75
845	870	5.220662	CGATTCATTCAGGTTAGCGTTGAAT	60.221	40.000	0.00	0.00	35.63	2.57
846	871	4.092821	CGATTCATTCAGGTTAGCGTTGAA	59.907	41.667	0.00	0.00	0.00	2.69
847	872	3.616821	CGATTCATTCAGGTTAGCGTTGA	59.383	43.478	0.00	0.00	0.00	3.18
848	873	3.616821	TCGATTCATTCAGGTTAGCGTTG	59.383	43.478	0.00	0.00	0.00	4.10
849	874	3.617263	GTCGATTCATTCAGGTTAGCGTT	59.383	43.478	0.00	0.00	0.00	4.84
850	875	3.119101	AGTCGATTCATTCAGGTTAGCGT	60.119	43.478	0.00	0.00	0.00	5.07
851	876	3.243877	CAGTCGATTCATTCAGGTTAGCG	59.756	47.826	0.00	0.00	0.00	4.26
852	877	3.001736	GCAGTCGATTCATTCAGGTTAGC	59.998	47.826	0.00	0.00	0.00	3.09
853	878	4.183865	TGCAGTCGATTCATTCAGGTTAG	58.816	43.478	0.00	0.00	0.00	2.34
854	879	4.200838	TGCAGTCGATTCATTCAGGTTA	57.799	40.909	0.00	0.00	0.00	2.85
855	880	3.057969	TGCAGTCGATTCATTCAGGTT	57.942	42.857	0.00	0.00	0.00	3.50
856	881	2.768253	TGCAGTCGATTCATTCAGGT	57.232	45.000	0.00	0.00	0.00	4.00
857	882	4.334759	AGAATTGCAGTCGATTCATTCAGG	59.665	41.667	10.62	0.00	42.83	3.86
858	883	5.481200	AGAATTGCAGTCGATTCATTCAG	57.519	39.130	10.62	0.00	42.83	3.02
859	884	5.633927	CAAGAATTGCAGTCGATTCATTCA	58.366	37.500	10.62	0.00	42.83	2.57
1030	1055	0.661552	CGATGAATGAGGCTGCAAGG	59.338	55.000	0.50	0.00	0.00	3.61
1219	1255	1.642037	CGGAGGACAGAGACGCGTTA	61.642	60.000	15.53	0.00	0.00	3.18
1317	1353	1.658114	CTCCTTGACGACGACACCA	59.342	57.895	0.00	0.00	0.00	4.17
1318	1354	1.733399	GCTCCTTGACGACGACACC	60.733	63.158	0.00	0.00	0.00	4.16
2207	2259	8.856103	TGTGCAGCTGATGTATTTATAGTAGTA	58.144	33.333	20.43	0.00	0.00	1.82
2208	2260	7.726216	TGTGCAGCTGATGTATTTATAGTAGT	58.274	34.615	20.43	0.00	0.00	2.73
2209	2261	8.768957	ATGTGCAGCTGATGTATTTATAGTAG	57.231	34.615	20.43	0.00	0.00	2.57
2246	2298	7.598493	CCAACAACAATAAAAATCTACACTGGG	59.402	37.037	0.00	0.00	0.00	4.45
2603	2671	7.008357	CGGTAACATCGCAGAATACACATATAG	59.992	40.741	0.00	0.00	43.58	1.31
2769	2837	3.507233	GGAATCAGTTGCAAAGATGTGGA	59.493	43.478	14.34	0.69	0.00	4.02
2789	2857	9.083422	TCACATTTTAATTTGATTGTACCAGGA	57.917	29.630	0.00	0.00	0.00	3.86
2861	2929	0.110823	CGTGGCGGAGAAAGAAAACG	60.111	55.000	0.00	0.00	0.00	3.60
2868	2936	1.741401	CAGCATCGTGGCGGAGAAA	60.741	57.895	0.00	0.00	39.27	2.52
3016	3084	4.542697	GTCTCTCTTTATGGACTCCTCCT	58.457	47.826	0.00	0.00	37.48	3.69

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.