AutoCloner

Multiple sequence alignment - TraesCS2A01G085400

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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	TraesCS2A01G085400	chr2A	100.000	2660	0	0	1	2660	39354676	39357335	0.000000e+00	4913.0
1	TraesCS2A01G085400	chr2A	93.694	2125	74	22	409	2509	39452874	39450786	0.000000e+00	3127.0
2	TraesCS2A01G085400	chr2A	94.870	1969	80	11	553	2509	39410597	39408638	0.000000e+00	3057.0
3	TraesCS2A01G085400	chr2A	80.064	1565	241	48	126	1663	39310580	39312100	0.000000e+00	1096.0
4	TraesCS2A01G085400	chr2A	90.000	410	39	2	1106	1515	39418930	39418523	1.810000e-146	529.0
5	TraesCS2A01G085400	chr2A	93.373	166	10	1	129	293	39453320	39453155	7.360000e-61	244.0
6	TraesCS2A01G085400	chr2A	85.470	117	5	5	291	403	39453077	39452969	7.780000e-21	111.0
7	TraesCS2A01G085400	chr2D	94.454	2218	82	23	412	2614	36052135	36054326	0.000000e+00	3376.0
8	TraesCS2A01G085400	chr2D	78.544	1291	223	37	421	1689	36096360	36095102	0.000000e+00	800.0
9	TraesCS2A01G085400	chr2D	76.651	878	159	28	401	1265	35978590	35979434	6.760000e-121	444.0
10	TraesCS2A01G085400	chr2D	94.149	188	8	3	2325	2510	36198018	36198204	1.560000e-72	283.0
11	TraesCS2A01G085400	chr2D	95.930	172	4	3	125	293	36051697	36051868	2.610000e-70	276.0
12	TraesCS2A01G085400	chr2D	93.578	109	6	1	126	233	35927162	35927270	7.620000e-36	161.0
13	TraesCS2A01G085400	chr2D	97.561	41	1	0	2611	2651	36054380	36054420	1.320000e-08	71.3
14	TraesCS2A01G085400	chr2B	93.266	1886	72	15	552	2405	61476412	61474550	0.000000e+00	2728.0
15	TraesCS2A01G085400	chr2B	93.574	747	43	3	547	1292	61367425	61368167	0.000000e+00	1109.0
16	TraesCS2A01G085400	chr2B	92.105	684	52	2	882	1564	61311780	61312462	0.000000e+00	963.0
17	TraesCS2A01G085400	chr2B	91.528	661	41	7	1279	1932	61369454	61370106	0.000000e+00	896.0
18	TraesCS2A01G085400	chr2B	97.059	170	4	1	128	296	61476914	61476745	4.330000e-73	285.0
19	TraesCS2A01G085400	chr2B	88.496	113	5	4	291	403	61476672	61476568	2.150000e-26	130.0
20	TraesCS2A01G085400	chr3D	92.105	836	55	7	716	1549	380122973	380123799	0.000000e+00	1168.0
21	TraesCS2A01G085400	chr3D	94.234	607	26	3	1536	2141	380132158	380132756	0.000000e+00	918.0
22	TraesCS2A01G085400	chr3D	82.979	94	8	5	310	403	380096297	380096382	7.890000e-11	78.7
23	TraesCS2A01G085400	chrUn	87.156	109	5	1	2251	2350	261568267	261568375	6.020000e-22	115.0
24	TraesCS2A01G085400	chr1B	85.965	114	6	2	2247	2350	633717402	633717289	2.160000e-21	113.0
25	TraesCS2A01G085400	chr5D	85.841	113	5	2	2249	2350	6252846	6252958	2.800000e-20	110.0
26	TraesCS2A01G085400	chr1D	85.321	109	7	1	2251	2350	51831536	51831644	1.300000e-18	104.0
27	TraesCS2A01G085400	chr6B	91.525	59	5	0	2251	2309	450091716	450091774	6.100000e-12	82.4

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	TraesCS2A01G085400	chr2A	39354676	39357335	2659	False	4913.000000	4913	100.000000	1	2660	1	chr2A.!!$F2	2659
1	TraesCS2A01G085400	chr2A	39408638	39410597	1959	True	3057.000000	3057	94.870000	553	2509	1	chr2A.!!$R1	1956
2	TraesCS2A01G085400	chr2A	39450786	39453320	2534	True	1160.666667	3127	90.845667	129	2509	3	chr2A.!!$R3	2380
3	TraesCS2A01G085400	chr2A	39310580	39312100	1520	False	1096.000000	1096	80.064000	126	1663	1	chr2A.!!$F1	1537
4	TraesCS2A01G085400	chr2D	36051697	36054420	2723	False	1241.100000	3376	95.981667	125	2651	3	chr2D.!!$F4	2526
5	TraesCS2A01G085400	chr2D	36095102	36096360	1258	True	800.000000	800	78.544000	421	1689	1	chr2D.!!$R1	1268
6	TraesCS2A01G085400	chr2D	35978590	35979434	844	False	444.000000	444	76.651000	401	1265	1	chr2D.!!$F2	864
7	TraesCS2A01G085400	chr2B	61474550	61476914	2364	True	1047.666667	2728	92.940333	128	2405	3	chr2B.!!$R1	2277
8	TraesCS2A01G085400	chr2B	61367425	61370106	2681	False	1002.500000	1109	92.551000	547	1932	2	chr2B.!!$F2	1385
9	TraesCS2A01G085400	chr2B	61311780	61312462	682	False	963.000000	963	92.105000	882	1564	1	chr2B.!!$F1	682
10	TraesCS2A01G085400	chr3D	380122973	380123799	826	False	1168.000000	1168	92.105000	716	1549	1	chr3D.!!$F2	833
11	TraesCS2A01G085400	chr3D	380132158	380132756	598	False	918.000000	918	94.234000	1536	2141	1	chr3D.!!$F3	605

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
540	735	0.106894	GCGGGAAGGTTGATAGGAGG	59.893	60.000	0.0	0.0	0.00	4.3	F
699	894	1.470098	GATGCCGACACTTTGCAAGAT	59.530	47.619	0.0	0.0	38.69	2.4	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1439	2946	0.810031	GTTGCCCATGTACGCGAGAT	60.810	55.0	15.93	0.0	0.0	2.75	R
2456	4055	0.818296	CTGGTCTACTGTTCCTCCGG	59.182	60.0	0.00	0.0	0.0	5.14	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
27	28	1.256812	AAAAATCTGGCTCAACCCCG	58.743	50.000	0.00	0.00	37.83	5.73
28	29	0.611896	AAAATCTGGCTCAACCCCGG	60.612	55.000	0.00	0.00	37.83	5.73
29	30	1.497309	AAATCTGGCTCAACCCCGGA	61.497	55.000	0.73	0.00	41.73	5.14
30	31	1.497309	AATCTGGCTCAACCCCGGAA	61.497	55.000	0.73	0.00	40.91	4.30
31	32	1.281925	ATCTGGCTCAACCCCGGAAT	61.282	55.000	0.73	0.00	40.91	3.01
32	33	1.750399	CTGGCTCAACCCCGGAATG	60.750	63.158	0.73	0.00	37.83	2.67
33	34	2.440247	GGCTCAACCCCGGAATGG	60.440	66.667	0.73	0.00	37.55	3.16
42	43	2.923035	CCGGAATGGGCCCATGTA	59.077	61.111	38.06	10.69	36.68	2.29
43	44	1.460255	CCGGAATGGGCCCATGTAT	59.540	57.895	38.06	23.12	36.68	2.29
44	45	0.895100	CCGGAATGGGCCCATGTATG	60.895	60.000	38.06	25.27	36.68	2.39
45	46	1.526575	CGGAATGGGCCCATGTATGC	61.527	60.000	38.06	25.41	36.68	3.14
46	47	1.526575	GGAATGGGCCCATGTATGCG	61.527	60.000	38.06	0.00	36.68	4.73
47	48	2.146073	GAATGGGCCCATGTATGCGC	62.146	60.000	38.06	16.56	40.49	6.09
50	51	2.429930	GGCCCATGTATGCGCCTA	59.570	61.111	4.18	0.00	45.83	3.93
51	52	1.672356	GGCCCATGTATGCGCCTAG	60.672	63.158	4.18	0.00	45.83	3.02
52	53	1.672356	GCCCATGTATGCGCCTAGG	60.672	63.158	4.18	3.67	0.00	3.02
53	54	1.672356	CCCATGTATGCGCCTAGGC	60.672	63.158	24.75	24.75	37.85	3.93
65	66	2.685202	CCTAGGCAGGCTATACCCC	58.315	63.158	3.74	0.00	40.58	4.95
66	67	1.258445	CCTAGGCAGGCTATACCCCG	61.258	65.000	3.74	0.00	40.58	5.73
67	68	1.229082	TAGGCAGGCTATACCCCGG	60.229	63.158	0.00	0.00	40.58	5.73
68	69	1.732355	TAGGCAGGCTATACCCCGGA	61.732	60.000	0.73	0.00	40.58	5.14
69	70	2.144738	GGCAGGCTATACCCCGGAA	61.145	63.158	0.73	0.00	40.58	4.30
70	71	1.489560	GGCAGGCTATACCCCGGAAT	61.490	60.000	0.73	0.00	40.58	3.01
71	72	0.321653	GCAGGCTATACCCCGGAATG	60.322	60.000	0.73	0.00	40.58	2.67
72	73	0.324943	CAGGCTATACCCCGGAATGG	59.675	60.000	0.73	0.00	40.58	3.16
83	84	2.513897	GGAATGGGCCGAACCGAG	60.514	66.667	0.00	0.00	40.62	4.63
84	85	2.267961	GAATGGGCCGAACCGAGT	59.732	61.111	0.00	0.00	40.62	4.18
85	86	2.046314	AATGGGCCGAACCGAGTG	60.046	61.111	0.00	0.00	40.62	3.51
86	87	4.778143	ATGGGCCGAACCGAGTGC	62.778	66.667	0.00	0.00	40.62	4.40
89	90	2.975799	GGCCGAACCGAGTGCAAA	60.976	61.111	0.00	0.00	0.00	3.68
90	91	2.548295	GGCCGAACCGAGTGCAAAA	61.548	57.895	0.00	0.00	0.00	2.44
91	92	1.370051	GCCGAACCGAGTGCAAAAC	60.370	57.895	0.00	0.00	0.00	2.43
92	93	2.018544	CCGAACCGAGTGCAAAACA	58.981	52.632	0.00	0.00	0.00	2.83
93	94	0.378962	CCGAACCGAGTGCAAAACAA	59.621	50.000	0.00	0.00	0.00	2.83
94	95	1.202200	CCGAACCGAGTGCAAAACAAA	60.202	47.619	0.00	0.00	0.00	2.83
95	96	2.520979	CGAACCGAGTGCAAAACAAAA	58.479	42.857	0.00	0.00	0.00	2.44
96	97	2.277834	CGAACCGAGTGCAAAACAAAAC	59.722	45.455	0.00	0.00	0.00	2.43
97	98	3.246619	GAACCGAGTGCAAAACAAAACA	58.753	40.909	0.00	0.00	0.00	2.83
98	99	3.305398	ACCGAGTGCAAAACAAAACAA	57.695	38.095	0.00	0.00	0.00	2.83
99	100	3.654414	ACCGAGTGCAAAACAAAACAAA	58.346	36.364	0.00	0.00	0.00	2.83
100	101	4.058817	ACCGAGTGCAAAACAAAACAAAA	58.941	34.783	0.00	0.00	0.00	2.44
101	102	4.511826	ACCGAGTGCAAAACAAAACAAAAA	59.488	33.333	0.00	0.00	0.00	1.94
121	122	6.544928	AAAAAGAAAGAAAGAAGGGAAGCA	57.455	33.333	0.00	0.00	0.00	3.91
122	123	5.781210	AAAGAAAGAAAGAAGGGAAGCAG	57.219	39.130	0.00	0.00	0.00	4.24
123	124	4.713792	AGAAAGAAAGAAGGGAAGCAGA	57.286	40.909	0.00	0.00	0.00	4.26
124	125	4.650734	AGAAAGAAAGAAGGGAAGCAGAG	58.349	43.478	0.00	0.00	0.00	3.35
125	126	3.431673	AAGAAAGAAGGGAAGCAGAGG	57.568	47.619	0.00	0.00	0.00	3.69
126	127	1.632920	AGAAAGAAGGGAAGCAGAGGG	59.367	52.381	0.00	0.00	0.00	4.30
191	193	4.811557	GCGTCTCAACTGCCTTATTTCTAT	59.188	41.667	0.00	0.00	0.00	1.98
529	724	2.169769	TCCAGTTATTAGTGCGGGAAGG	59.830	50.000	0.00	0.00	0.00	3.46
531	726	3.606687	CAGTTATTAGTGCGGGAAGGTT	58.393	45.455	0.00	0.00	0.00	3.50
537	732	0.541863	AGTGCGGGAAGGTTGATAGG	59.458	55.000	0.00	0.00	0.00	2.57
538	733	0.539986	GTGCGGGAAGGTTGATAGGA	59.460	55.000	0.00	0.00	0.00	2.94
539	734	0.830648	TGCGGGAAGGTTGATAGGAG	59.169	55.000	0.00	0.00	0.00	3.69
540	735	0.106894	GCGGGAAGGTTGATAGGAGG	59.893	60.000	0.00	0.00	0.00	4.30
541	736	1.789523	CGGGAAGGTTGATAGGAGGA	58.210	55.000	0.00	0.00	0.00	3.71
542	737	1.689273	CGGGAAGGTTGATAGGAGGAG	59.311	57.143	0.00	0.00	0.00	3.69
543	738	2.765502	GGGAAGGTTGATAGGAGGAGT	58.234	52.381	0.00	0.00	0.00	3.85
544	739	2.701423	GGGAAGGTTGATAGGAGGAGTC	59.299	54.545	0.00	0.00	0.00	3.36
636	831	2.376109	CCGAAGAAGCACCTCTACCTA	58.624	52.381	0.00	0.00	0.00	3.08
699	894	1.470098	GATGCCGACACTTTGCAAGAT	59.530	47.619	0.00	0.00	38.69	2.40
700	895	2.177394	TGCCGACACTTTGCAAGATA	57.823	45.000	0.00	0.00	30.85	1.98
701	896	1.804151	TGCCGACACTTTGCAAGATAC	59.196	47.619	0.00	0.00	30.85	2.24
802	997	1.578206	GAGCTTCACGGCCTTTGGTC	61.578	60.000	0.00	0.00	0.00	4.02
1439	2946	3.233231	GGCAGCAACAAGGGCCAA	61.233	61.111	6.18	0.00	45.70	4.52
1601	3120	3.181967	CACGCGCCACTGCTCTAC	61.182	66.667	5.73	0.00	34.43	2.59
1682	3205	4.342092	AGAGGTGCTTTGCTTGTTTTATGT	59.658	37.500	0.00	0.00	0.00	2.29
1799	3332	0.548682	AACCTGAGCCCAGAGATGGT	60.549	55.000	0.00	0.00	43.02	3.55
1800	3333	1.270414	ACCTGAGCCCAGAGATGGTG	61.270	60.000	0.00	0.00	43.02	4.17
1801	3334	0.979709	CCTGAGCCCAGAGATGGTGA	60.980	60.000	0.00	0.00	43.02	4.02
1802	3335	0.177604	CTGAGCCCAGAGATGGTGAC	59.822	60.000	0.00	0.00	43.02	3.67
1803	3336	2.512016	CTGAGCCCAGAGATGGTGACA	61.512	57.143	0.00	0.00	44.02	3.58
1829	3362	4.452455	ACATGTTTCAAGAACTAGAAGCGG	59.548	41.667	0.00	0.00	0.00	5.52
2096	3669	2.005370	AGCAGGATTAATGGCATGGG	57.995	50.000	0.00	0.00	0.00	4.00
2151	3725	6.694447	ACCTGTGTTATACGTGACTAACATT	58.306	36.000	17.50	6.09	39.34	2.71
2261	3855	6.319911	GCAGATCTCTTTTTGGTATAAAGCCT	59.680	38.462	0.00	0.00	33.61	4.58
2651	4307	6.207417	TGAGAAGGGCATTTTAACTCTTTCTG	59.793	38.462	0.00	0.00	0.00	3.02
2652	4308	5.478332	AGAAGGGCATTTTAACTCTTTCTGG	59.522	40.000	0.00	0.00	0.00	3.86
2653	4309	4.089361	AGGGCATTTTAACTCTTTCTGGG	58.911	43.478	0.00	0.00	0.00	4.45
2654	4310	3.368427	GGGCATTTTAACTCTTTCTGGGC	60.368	47.826	0.00	0.00	0.00	5.36
2655	4311	3.258123	GGCATTTTAACTCTTTCTGGGCA	59.742	43.478	0.00	0.00	0.00	5.36
2656	4312	4.488879	GCATTTTAACTCTTTCTGGGCAG	58.511	43.478	0.00	0.00	0.00	4.85
2657	4313	4.488879	CATTTTAACTCTTTCTGGGCAGC	58.511	43.478	0.00	0.00	0.00	5.25
2658	4314	2.949177	TTAACTCTTTCTGGGCAGCA	57.051	45.000	0.00	0.00	0.00	4.41
2659	4315	2.185004	TAACTCTTTCTGGGCAGCAC	57.815	50.000	0.00	0.00	0.00	4.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
8	9	1.256812	CGGGGTTGAGCCAGATTTTT	58.743	50.000	1.23	0.00	39.65	1.94
9	10	0.611896	CCGGGGTTGAGCCAGATTTT	60.612	55.000	0.00	0.00	39.65	1.82
10	11	1.000896	CCGGGGTTGAGCCAGATTT	60.001	57.895	0.00	0.00	39.65	2.17
11	12	1.497309	TTCCGGGGTTGAGCCAGATT	61.497	55.000	0.00	0.00	39.65	2.40
12	13	1.281925	ATTCCGGGGTTGAGCCAGAT	61.282	55.000	0.00	0.00	39.65	2.90
13	14	1.923395	ATTCCGGGGTTGAGCCAGA	60.923	57.895	0.00	0.00	39.65	3.86
14	15	1.750399	CATTCCGGGGTTGAGCCAG	60.750	63.158	0.00	0.00	39.65	4.85
15	16	2.354729	CATTCCGGGGTTGAGCCA	59.645	61.111	0.00	0.00	39.65	4.75
16	17	2.440247	CCATTCCGGGGTTGAGCC	60.440	66.667	0.00	0.00	0.00	4.70
25	26	0.895100	CATACATGGGCCCATTCCGG	60.895	60.000	35.69	25.04	33.90	5.14
26	27	1.526575	GCATACATGGGCCCATTCCG	61.527	60.000	35.69	25.42	33.90	4.30
27	28	1.526575	CGCATACATGGGCCCATTCC	61.527	60.000	35.69	18.71	33.90	3.01
28	29	1.959085	CGCATACATGGGCCCATTC	59.041	57.895	35.69	18.93	33.90	2.67
29	30	4.179361	CGCATACATGGGCCCATT	57.821	55.556	35.69	25.92	33.90	3.16
35	36	1.672356	GCCTAGGCGCATACATGGG	60.672	63.158	20.16	5.08	42.88	4.00
36	37	0.952497	CTGCCTAGGCGCATACATGG	60.952	60.000	28.28	5.50	45.51	3.66
37	38	0.952497	CCTGCCTAGGCGCATACATG	60.952	60.000	28.28	10.31	45.51	3.21
38	39	1.372683	CCTGCCTAGGCGCATACAT	59.627	57.895	28.28	0.00	45.51	2.29
39	40	2.821685	CCTGCCTAGGCGCATACA	59.178	61.111	28.28	9.18	45.51	2.29
48	49	1.258445	CCGGGGTATAGCCTGCCTAG	61.258	65.000	22.28	6.80	37.43	3.02
49	50	1.229082	CCGGGGTATAGCCTGCCTA	60.229	63.158	22.28	0.00	37.43	3.93
50	51	2.526873	CCGGGGTATAGCCTGCCT	60.527	66.667	22.28	0.00	37.43	4.75
51	52	1.489560	ATTCCGGGGTATAGCCTGCC	61.490	60.000	22.28	5.08	37.43	4.85
52	53	0.321653	CATTCCGGGGTATAGCCTGC	60.322	60.000	22.28	5.78	37.43	4.85
53	54	0.324943	CCATTCCGGGGTATAGCCTG	59.675	60.000	21.00	21.00	37.43	4.85
54	55	2.773458	CCATTCCGGGGTATAGCCT	58.227	57.895	20.03	0.00	37.43	4.58
66	67	2.513897	CTCGGTTCGGCCCATTCC	60.514	66.667	0.00	0.00	0.00	3.01
67	68	2.106683	CACTCGGTTCGGCCCATTC	61.107	63.158	0.00	0.00	0.00	2.67
68	69	2.046314	CACTCGGTTCGGCCCATT	60.046	61.111	0.00	0.00	0.00	3.16
69	70	4.778143	GCACTCGGTTCGGCCCAT	62.778	66.667	0.00	0.00	0.00	4.00
72	73	2.548295	TTTTGCACTCGGTTCGGCC	61.548	57.895	0.00	0.00	0.00	6.13
73	74	1.370051	GTTTTGCACTCGGTTCGGC	60.370	57.895	0.00	0.00	0.00	5.54
74	75	0.378962	TTGTTTTGCACTCGGTTCGG	59.621	50.000	0.00	0.00	0.00	4.30
75	76	2.181426	TTTGTTTTGCACTCGGTTCG	57.819	45.000	0.00	0.00	0.00	3.95
76	77	3.246619	TGTTTTGTTTTGCACTCGGTTC	58.753	40.909	0.00	0.00	0.00	3.62
77	78	3.305398	TGTTTTGTTTTGCACTCGGTT	57.695	38.095	0.00	0.00	0.00	4.44
78	79	3.305398	TTGTTTTGTTTTGCACTCGGT	57.695	38.095	0.00	0.00	0.00	4.69
79	80	4.653806	TTTTGTTTTGTTTTGCACTCGG	57.346	36.364	0.00	0.00	0.00	4.63
98	99	6.381133	TCTGCTTCCCTTCTTTCTTTCTTTTT	59.619	34.615	0.00	0.00	0.00	1.94
99	100	5.893824	TCTGCTTCCCTTCTTTCTTTCTTTT	59.106	36.000	0.00	0.00	0.00	2.27
100	101	5.449553	TCTGCTTCCCTTCTTTCTTTCTTT	58.550	37.500	0.00	0.00	0.00	2.52
101	102	5.053978	TCTGCTTCCCTTCTTTCTTTCTT	57.946	39.130	0.00	0.00	0.00	2.52
102	103	4.506448	CCTCTGCTTCCCTTCTTTCTTTCT	60.506	45.833	0.00	0.00	0.00	2.52
103	104	3.755905	CCTCTGCTTCCCTTCTTTCTTTC	59.244	47.826	0.00	0.00	0.00	2.62
104	105	3.499382	CCCTCTGCTTCCCTTCTTTCTTT	60.499	47.826	0.00	0.00	0.00	2.52
105	106	2.040947	CCCTCTGCTTCCCTTCTTTCTT	59.959	50.000	0.00	0.00	0.00	2.52
106	107	1.632920	CCCTCTGCTTCCCTTCTTTCT	59.367	52.381	0.00	0.00	0.00	2.52
107	108	1.952839	GCCCTCTGCTTCCCTTCTTTC	60.953	57.143	0.00	0.00	36.87	2.62
108	109	0.038890	GCCCTCTGCTTCCCTTCTTT	59.961	55.000	0.00	0.00	36.87	2.52
109	110	1.688211	GCCCTCTGCTTCCCTTCTT	59.312	57.895	0.00	0.00	36.87	2.52
110	111	2.664081	CGCCCTCTGCTTCCCTTCT	61.664	63.158	0.00	0.00	38.05	2.85
111	112	2.124942	CGCCCTCTGCTTCCCTTC	60.125	66.667	0.00	0.00	38.05	3.46
112	113	3.721706	CCGCCCTCTGCTTCCCTT	61.722	66.667	0.00	0.00	38.05	3.95
506	701	4.039973	CCTTCCCGCACTAATAACTGGATA	59.960	45.833	0.00	0.00	0.00	2.59
516	711	2.169769	CCTATCAACCTTCCCGCACTAA	59.830	50.000	0.00	0.00	0.00	2.24
517	712	1.760613	CCTATCAACCTTCCCGCACTA	59.239	52.381	0.00	0.00	0.00	2.74
518	713	0.541863	CCTATCAACCTTCCCGCACT	59.458	55.000	0.00	0.00	0.00	4.40
529	724	2.882137	CTCCTCGACTCCTCCTATCAAC	59.118	54.545	0.00	0.00	0.00	3.18
531	726	2.105134	GTCTCCTCGACTCCTCCTATCA	59.895	54.545	0.00	0.00	39.61	2.15
537	732	1.673920	GACATGTCTCCTCGACTCCTC	59.326	57.143	18.83	0.00	43.25	3.71
538	733	1.683629	GGACATGTCTCCTCGACTCCT	60.684	57.143	24.50	0.00	43.25	3.69
539	734	0.741915	GGACATGTCTCCTCGACTCC	59.258	60.000	24.50	1.40	43.25	3.85
540	735	1.464734	TGGACATGTCTCCTCGACTC	58.535	55.000	24.50	5.96	43.25	3.36
541	736	1.821753	CTTGGACATGTCTCCTCGACT	59.178	52.381	24.50	0.00	43.25	4.18
542	737	1.737363	GCTTGGACATGTCTCCTCGAC	60.737	57.143	24.50	7.38	43.14	4.20
543	738	0.532573	GCTTGGACATGTCTCCTCGA	59.467	55.000	24.50	7.59	0.00	4.04
544	739	0.803768	CGCTTGGACATGTCTCCTCG	60.804	60.000	24.50	18.00	0.00	4.63
636	831	0.994247	TGTCCCAATCATCCAGCACT	59.006	50.000	0.00	0.00	0.00	4.40
699	894	1.888018	GTCGCTGGTGCAGGTAGTA	59.112	57.895	0.00	0.00	39.64	1.82
700	895	2.657237	GTCGCTGGTGCAGGTAGT	59.343	61.111	0.00	0.00	39.64	2.73
701	896	2.507102	CGTCGCTGGTGCAGGTAG	60.507	66.667	0.00	0.00	39.64	3.18
802	997	0.376152	GTGGCGATGAAGATGCTGTG	59.624	55.000	0.00	0.00	0.00	3.66
982	1186	2.040278	ACATGGCCTCAAAAGAGTGCTA	59.960	45.455	3.32	0.00	0.00	3.49
1197	1403	2.948979	AGAACGCTTGGTGTCAAATGAA	59.051	40.909	0.00	0.00	31.77	2.57
1439	2946	0.810031	GTTGCCCATGTACGCGAGAT	60.810	55.000	15.93	0.00	0.00	2.75
1601	3120	4.521130	TGCTTAGACACTACACAAGAGG	57.479	45.455	0.00	0.00	0.00	3.69
1682	3205	5.738619	TCAAGATTACACAGCAGGTCTTA	57.261	39.130	0.00	0.00	0.00	2.10
1799	3332	7.216494	TCTAGTTCTTGAAACATGTGATGTCA	58.784	34.615	0.00	0.00	44.07	3.58
1800	3333	7.658179	TCTAGTTCTTGAAACATGTGATGTC	57.342	36.000	0.00	0.00	44.07	3.06
1802	3335	7.020010	GCTTCTAGTTCTTGAAACATGTGATG	58.980	38.462	0.00	0.00	0.00	3.07
1803	3336	6.128445	CGCTTCTAGTTCTTGAAACATGTGAT	60.128	38.462	0.00	0.00	0.00	3.06
2096	3669	9.460906	CGTTCAAGGTTTATTCTACCTATCTAC	57.539	37.037	0.00	0.00	45.17	2.59
2151	3725	8.822805	AGGTAGTACATGAGGACTTGATAAAAA	58.177	33.333	0.00	0.00	0.00	1.94
2156	3730	9.830186	ATATAAGGTAGTACATGAGGACTTGAT	57.170	33.333	0.00	0.00	0.00	2.57
2261	3855	2.191680	CCATCCGCTGGCAATTTCA	58.808	52.632	0.00	0.00	38.47	2.69
2304	3901	1.626686	AGAGGAGAGCATATGACCCG	58.373	55.000	6.97	0.00	0.00	5.28
2456	4055	0.818296	CTGGTCTACTGTTCCTCCGG	59.182	60.000	0.00	0.00	0.00	5.14
2458	4057	2.233305	TCCTGGTCTACTGTTCCTCC	57.767	55.000	0.00	0.00	0.00	4.30
2519	4118	3.877508	GTGTGTGGTTCTATCTTATGGGC	59.122	47.826	0.00	0.00	0.00	5.36
2534	4133	5.219633	GCTGTTATAACTTTTGGTGTGTGG	58.780	41.667	16.33	0.00	0.00	4.17
2622	4278	8.650143	AAGAGTTAAAATGCCCTTCTCAAATA	57.350	30.769	0.00	0.00	0.00	1.40

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.