AutoCloner

Multiple sequence alignment - TraesCS7A01G007100

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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	TraesCS7A01G007100	chr7A	100.000	2436	0	0	1	2436	3287097	3289532	0.000000e+00	4499
1	TraesCS7A01G007100	chr7A	96.228	2280	57	3	162	2436	698787504	698785249	0.000000e+00	3707
2	TraesCS7A01G007100	chr7A	86.585	164	20	1	1	162	2121359	2121196	1.920000e-41	180
3	TraesCS7A01G007100	chr6A	96.140	2280	52	4	162	2436	4407630	4405382	0.000000e+00	3690
4	TraesCS7A01G007100	chr6A	97.646	1742	36	2	700	2436	593939680	593941421	0.000000e+00	2985
5	TraesCS7A01G007100	chr6A	97.586	1740	37	2	702	2436	613923691	613921952	0.000000e+00	2976
6	TraesCS7A01G007100	chr6A	97.632	549	13	0	161	709	30415665	30415117	0.000000e+00	942
7	TraesCS7A01G007100	chr2A	95.616	2281	68	8	162	2436	2913531	2911277	0.000000e+00	3629
8	TraesCS7A01G007100	chr2A	97.751	1734	34	2	708	2436	732000803	731999070	0.000000e+00	2981
9	TraesCS7A01G007100	chr2A	96.768	557	18	0	159	715	687093429	687093985	0.000000e+00	929
10	TraesCS7A01G007100	chr1A	95.453	2287	62	8	162	2434	31174411	31172153	0.000000e+00	3609
11	TraesCS7A01G007100	chr3A	95.351	2280	80	4	162	2436	719554926	719552668	0.000000e+00	3600
12	TraesCS7A01G007100	chr3A	95.057	2286	67	9	162	2433	7903230	7905483	0.000000e+00	3554
13	TraesCS7A01G007100	chr3A	97.308	1746	41	3	696	2436	726376702	726374958	0.000000e+00	2959
14	TraesCS7A01G007100	chr3A	97.127	557	14	1	159	713	37455014	37454458	0.000000e+00	939
15	TraesCS7A01G007100	chr4A	97.806	1732	33	2	710	2436	433650956	433649225	0.000000e+00	2983
16	TraesCS7A01G007100	chr4A	97.445	548	14	0	162	709	593030252	593029705	0.000000e+00	935
17	TraesCS7A01G007100	chr4A	93.827	162	10	0	1	162	739862995	739863156	6.730000e-61	244
18	TraesCS7A01G007100	chr4A	93.269	104	7	0	1	104	740568914	740569017	1.170000e-33	154
19	TraesCS7A01G007100	chrUn	97.138	559	14	1	161	717	267682943	267683501	0.000000e+00	942
20	TraesCS7A01G007100	chr7D	93.038	158	11	0	5	162	3900999	3901156	5.240000e-57	231

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	TraesCS7A01G007100	chr7A	3287097	3289532	2435	False	4499	4499	100.000	1	2436	1	chr7A.!!$F1	2435
1	TraesCS7A01G007100	chr7A	698785249	698787504	2255	True	3707	3707	96.228	162	2436	1	chr7A.!!$R2	2274
2	TraesCS7A01G007100	chr6A	4405382	4407630	2248	True	3690	3690	96.140	162	2436	1	chr6A.!!$R1	2274
3	TraesCS7A01G007100	chr6A	593939680	593941421	1741	False	2985	2985	97.646	700	2436	1	chr6A.!!$F1	1736
4	TraesCS7A01G007100	chr6A	613921952	613923691	1739	True	2976	2976	97.586	702	2436	1	chr6A.!!$R3	1734
5	TraesCS7A01G007100	chr6A	30415117	30415665	548	True	942	942	97.632	161	709	1	chr6A.!!$R2	548
6	TraesCS7A01G007100	chr2A	2911277	2913531	2254	True	3629	3629	95.616	162	2436	1	chr2A.!!$R1	2274
7	TraesCS7A01G007100	chr2A	731999070	732000803	1733	True	2981	2981	97.751	708	2436	1	chr2A.!!$R2	1728
8	TraesCS7A01G007100	chr2A	687093429	687093985	556	False	929	929	96.768	159	715	1	chr2A.!!$F1	556
9	TraesCS7A01G007100	chr1A	31172153	31174411	2258	True	3609	3609	95.453	162	2434	1	chr1A.!!$R1	2272
10	TraesCS7A01G007100	chr3A	719552668	719554926	2258	True	3600	3600	95.351	162	2436	1	chr3A.!!$R2	2274
11	TraesCS7A01G007100	chr3A	7903230	7905483	2253	False	3554	3554	95.057	162	2433	1	chr3A.!!$F1	2271
12	TraesCS7A01G007100	chr3A	726374958	726376702	1744	True	2959	2959	97.308	696	2436	1	chr3A.!!$R3	1740
13	TraesCS7A01G007100	chr3A	37454458	37455014	556	True	939	939	97.127	159	713	1	chr3A.!!$R1	554
14	TraesCS7A01G007100	chr4A	433649225	433650956	1731	True	2983	2983	97.806	710	2436	1	chr4A.!!$R1	1726
15	TraesCS7A01G007100	chr4A	593029705	593030252	547	True	935	935	97.445	162	709	1	chr4A.!!$R2	547
16	TraesCS7A01G007100	chrUn	267682943	267683501	558	False	942	942	97.138	161	717	1	chrUn.!!$F1	556

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
92	93	0.03467	AAGGCAGTGATGAAGAGGGC	60.035	55.0	0.0	0.0	0.0	5.19	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1624	1692	1.040339	GGCATAAAACCATCCGCCCA	61.04	55.0	0.0	0.0	33.31	5.36	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
17	18	4.802051	CTCCATGGTGGGTGGCGG	62.802	72.222	12.58	0.00	38.32	6.13
36	37	3.706373	GGGGCTTGCCTCTGACGA	61.706	66.667	11.71	0.00	0.00	4.20
37	38	2.125350	GGGCTTGCCTCTGACGAG	60.125	66.667	11.71	0.00	37.01	4.18
57	58	3.231298	GCGTGGAAGGCCCTATCT	58.769	61.111	0.00	0.00	43.00	1.98
58	59	1.527370	GCGTGGAAGGCCCTATCTT	59.473	57.895	0.00	0.00	43.00	2.40
59	60	0.533085	GCGTGGAAGGCCCTATCTTC	60.533	60.000	0.00	0.00	43.00	2.87
60	61	0.249489	CGTGGAAGGCCCTATCTTCG	60.249	60.000	0.00	1.86	40.95	3.79
61	62	0.831307	GTGGAAGGCCCTATCTTCGT	59.169	55.000	0.00	0.00	40.95	3.85
62	63	0.830648	TGGAAGGCCCTATCTTCGTG	59.169	55.000	0.00	0.00	40.95	4.35
63	64	0.106894	GGAAGGCCCTATCTTCGTGG	59.893	60.000	0.00	0.00	40.95	4.94
64	65	0.106894	GAAGGCCCTATCTTCGTGGG	59.893	60.000	0.00	0.00	43.62	4.61
65	66	1.345715	AAGGCCCTATCTTCGTGGGG	61.346	60.000	0.00	0.00	41.19	4.96
66	67	2.819284	GGCCCTATCTTCGTGGGGG	61.819	68.421	0.00	0.00	41.19	5.40
67	68	2.829592	CCCTATCTTCGTGGGGGC	59.170	66.667	0.00	0.00	37.37	5.80
68	69	2.819284	CCCTATCTTCGTGGGGGCC	61.819	68.421	0.00	0.00	37.37	5.80
69	70	2.070039	CCTATCTTCGTGGGGGCCA	61.070	63.158	4.39	0.00	0.00	5.36
70	71	1.447643	CTATCTTCGTGGGGGCCAG	59.552	63.158	4.39	0.00	32.34	4.85
71	72	2.044806	CTATCTTCGTGGGGGCCAGG	62.045	65.000	4.39	0.00	40.34	4.45
84	85	3.599584	CCAGGCAAGGCAGTGATG	58.400	61.111	0.00	0.00	0.00	3.07
85	86	1.001764	CCAGGCAAGGCAGTGATGA	60.002	57.895	0.00	0.00	0.00	2.92
86	87	0.609957	CCAGGCAAGGCAGTGATGAA	60.610	55.000	0.00	0.00	0.00	2.57
87	88	0.809385	CAGGCAAGGCAGTGATGAAG	59.191	55.000	0.00	0.00	0.00	3.02
88	89	0.694771	AGGCAAGGCAGTGATGAAGA	59.305	50.000	0.00	0.00	0.00	2.87
89	90	1.093159	GGCAAGGCAGTGATGAAGAG	58.907	55.000	0.00	0.00	0.00	2.85
90	91	1.093159	GCAAGGCAGTGATGAAGAGG	58.907	55.000	0.00	0.00	0.00	3.69
91	92	1.747709	CAAGGCAGTGATGAAGAGGG	58.252	55.000	0.00	0.00	0.00	4.30
92	93	0.034670	AAGGCAGTGATGAAGAGGGC	60.035	55.000	0.00	0.00	0.00	5.19
93	94	1.203441	AGGCAGTGATGAAGAGGGCA	61.203	55.000	0.00	0.00	0.00	5.36
94	95	0.747283	GGCAGTGATGAAGAGGGCAG	60.747	60.000	0.00	0.00	0.00	4.85
95	96	0.035630	GCAGTGATGAAGAGGGCAGT	60.036	55.000	0.00	0.00	0.00	4.40
96	97	1.735386	CAGTGATGAAGAGGGCAGTG	58.265	55.000	0.00	0.00	0.00	3.66
97	98	0.617413	AGTGATGAAGAGGGCAGTGG	59.383	55.000	0.00	0.00	0.00	4.00
98	99	1.028868	GTGATGAAGAGGGCAGTGGC	61.029	60.000	8.47	8.47	40.13	5.01
116	117	2.266055	CCTCGGTGGGCTTCTGAC	59.734	66.667	0.00	0.00	0.00	3.51
117	118	2.286523	CCTCGGTGGGCTTCTGACT	61.287	63.158	0.00	0.00	0.00	3.41
118	119	0.970937	CCTCGGTGGGCTTCTGACTA	60.971	60.000	0.00	0.00	0.00	2.59
119	120	0.457851	CTCGGTGGGCTTCTGACTAG	59.542	60.000	0.00	0.00	0.00	2.57
120	121	0.251653	TCGGTGGGCTTCTGACTAGT	60.252	55.000	0.00	0.00	0.00	2.57
121	122	0.108615	CGGTGGGCTTCTGACTAGTG	60.109	60.000	0.00	0.00	0.00	2.74
122	123	0.391793	GGTGGGCTTCTGACTAGTGC	60.392	60.000	0.00	0.00	0.00	4.40
123	124	0.321671	GTGGGCTTCTGACTAGTGCA	59.678	55.000	0.00	0.00	0.00	4.57
124	125	0.321671	TGGGCTTCTGACTAGTGCAC	59.678	55.000	9.40	9.40	0.00	4.57
125	126	0.391793	GGGCTTCTGACTAGTGCACC	60.392	60.000	14.63	0.00	0.00	5.01
126	127	0.737715	GGCTTCTGACTAGTGCACCG	60.738	60.000	14.63	7.78	0.00	4.94
127	128	0.038159	GCTTCTGACTAGTGCACCGT	60.038	55.000	14.63	11.42	0.00	4.83
128	129	1.201647	GCTTCTGACTAGTGCACCGTA	59.798	52.381	14.63	0.00	0.00	4.02
129	130	2.732597	GCTTCTGACTAGTGCACCGTAG	60.733	54.545	14.63	12.28	0.00	3.51
130	131	0.809385	TCTGACTAGTGCACCGTAGC	59.191	55.000	14.63	6.87	0.00	3.58
131	132	0.526211	CTGACTAGTGCACCGTAGCA	59.474	55.000	14.63	10.69	43.35	3.49
139	140	0.595588	TGCACCGTAGCAACAAATGG	59.404	50.000	0.00	0.00	42.46	3.16
140	141	0.596082	GCACCGTAGCAACAAATGGT	59.404	50.000	0.00	0.00	43.54	3.55
141	142	1.807742	GCACCGTAGCAACAAATGGTA	59.192	47.619	0.00	0.00	40.93	3.25
142	143	2.159572	GCACCGTAGCAACAAATGGTAG	60.160	50.000	0.00	0.00	42.38	3.18
143	144	2.081462	ACCGTAGCAACAAATGGTAGC	58.919	47.619	0.00	0.00	42.38	3.58
144	145	2.290071	ACCGTAGCAACAAATGGTAGCT	60.290	45.455	0.00	0.00	42.38	3.32
145	146	2.351726	CCGTAGCAACAAATGGTAGCTC	59.648	50.000	0.00	0.00	42.38	4.09
146	147	3.000041	CGTAGCAACAAATGGTAGCTCA	59.000	45.455	0.00	0.00	42.38	4.26
147	148	3.181520	CGTAGCAACAAATGGTAGCTCAC	60.182	47.826	0.00	0.00	42.38	3.51
156	157	3.609798	GGTAGCTCACCCTACTCCA	57.390	57.895	0.00	0.00	42.07	3.86
157	158	2.089600	GGTAGCTCACCCTACTCCAT	57.910	55.000	0.00	0.00	42.07	3.41
280	281	0.103572	GCCGCCTTCATTAGTACCGA	59.896	55.000	0.00	0.00	0.00	4.69
337	338	1.755380	ACCGGTACTAATGAGAGTGGC	59.245	52.381	4.49	0.00	0.00	5.01
340	341	1.755380	GGTACTAATGAGAGTGGCGGT	59.245	52.381	0.00	0.00	0.00	5.68
518	528	2.490903	GAGCTCATCACACATTTTGCCT	59.509	45.455	9.40	0.00	0.00	4.75
540	550	8.203485	TGCCTAAAATTTGTCAAGATTTGAAGT	58.797	29.630	0.00	0.00	42.15	3.01
548	558	4.089361	GTCAAGATTTGAAGTCCCCCATT	58.911	43.478	0.00	0.00	42.15	3.16
553	563	4.713321	AGATTTGAAGTCCCCCATTCATTG	59.287	41.667	0.00	0.00	35.47	2.82
825	879	3.849563	AGGTGTGGTTTACTTAGTGCA	57.150	42.857	0.00	0.00	0.00	4.57
974	1033	9.899226	GTTACTCGTATAATTATCTTACCCGTT	57.101	33.333	0.00	0.00	0.00	4.44
996	1055	7.790673	CCGTTCGTTGTTTGTTATACATATAGC	59.209	37.037	0.00	0.00	0.00	2.97
1019	1078	3.820557	CCATGGTTTTGATATCCGTCCT	58.179	45.455	2.57	0.00	0.00	3.85
1047	1106	4.141482	GGCCCTAGTCCTTGTTATGATTCA	60.141	45.833	0.00	0.00	0.00	2.57
1313	1372	6.944290	TCACAAGATGAAGATGGAGAAAATGT	59.056	34.615	0.00	0.00	33.02	2.71
1435	1503	8.803201	TCGTATTTGTTGTTGCATTTAAATGA	57.197	26.923	28.33	12.85	38.70	2.57
1624	1692	2.555547	GCGGCTGAGGCAAACAAGT	61.556	57.895	6.86	0.00	40.87	3.16
1672	1740	2.232696	TGTGCTCGCTGTAAGAATGGTA	59.767	45.455	0.00	0.00	34.07	3.25
1722	1790	0.035739	TCCACCTGTTTAAGTCCGGC	59.964	55.000	0.00	0.00	0.00	6.13
1752	1820	5.104735	GCCCCATTATAATGTTTGGACCAAA	60.105	40.000	21.20	15.89	34.60	3.28
2261	2331	4.823442	CAGAAGATACATGCATGCCCTAAA	59.177	41.667	26.53	5.81	0.00	1.85
2262	2332	5.475909	CAGAAGATACATGCATGCCCTAAAT	59.524	40.000	26.53	7.76	0.00	1.40

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	4.802051	CCGCCACCCACCATGGAG	62.802	72.222	21.47	11.19	40.96	3.86
19	20	3.672295	CTCGTCAGAGGCAAGCCCC	62.672	68.421	7.62	0.00	40.75	5.80
20	21	2.125350	CTCGTCAGAGGCAAGCCC	60.125	66.667	7.62	0.00	40.75	5.19
39	40	1.984288	AAGATAGGGCCTTCCACGCC	61.984	60.000	13.45	0.00	46.29	5.68
40	41	0.533085	GAAGATAGGGCCTTCCACGC	60.533	60.000	13.45	0.00	38.24	5.34
41	42	0.249489	CGAAGATAGGGCCTTCCACG	60.249	60.000	13.45	13.12	37.36	4.94
42	43	0.831307	ACGAAGATAGGGCCTTCCAC	59.169	55.000	13.45	0.69	37.36	4.02
43	44	0.830648	CACGAAGATAGGGCCTTCCA	59.169	55.000	13.45	0.00	37.36	3.53
44	45	0.106894	CCACGAAGATAGGGCCTTCC	59.893	60.000	13.45	3.69	37.36	3.46
45	46	0.106894	CCCACGAAGATAGGGCCTTC	59.893	60.000	13.45	9.57	35.44	3.46
46	47	1.345715	CCCCACGAAGATAGGGCCTT	61.346	60.000	13.45	0.00	41.42	4.35
47	48	1.766461	CCCCACGAAGATAGGGCCT	60.766	63.158	12.58	12.58	41.42	5.19
48	49	2.819284	CCCCCACGAAGATAGGGCC	61.819	68.421	0.00	0.00	41.42	5.80
49	50	2.829592	CCCCCACGAAGATAGGGC	59.170	66.667	0.00	0.00	41.42	5.19
50	51	2.819284	GGCCCCCACGAAGATAGGG	61.819	68.421	0.00	0.00	42.44	3.53
51	52	2.044806	CTGGCCCCCACGAAGATAGG	62.045	65.000	0.00	0.00	0.00	2.57
52	53	1.447643	CTGGCCCCCACGAAGATAG	59.552	63.158	0.00	0.00	0.00	2.08
53	54	2.070039	CCTGGCCCCCACGAAGATA	61.070	63.158	0.00	0.00	0.00	1.98
54	55	3.411517	CCTGGCCCCCACGAAGAT	61.412	66.667	0.00	0.00	0.00	2.40
67	68	0.609957	TTCATCACTGCCTTGCCTGG	60.610	55.000	0.00	0.00	0.00	4.45
68	69	0.809385	CTTCATCACTGCCTTGCCTG	59.191	55.000	0.00	0.00	0.00	4.85
69	70	0.694771	TCTTCATCACTGCCTTGCCT	59.305	50.000	0.00	0.00	0.00	4.75
70	71	1.093159	CTCTTCATCACTGCCTTGCC	58.907	55.000	0.00	0.00	0.00	4.52
71	72	1.093159	CCTCTTCATCACTGCCTTGC	58.907	55.000	0.00	0.00	0.00	4.01
72	73	1.747709	CCCTCTTCATCACTGCCTTG	58.252	55.000	0.00	0.00	0.00	3.61
73	74	0.034670	GCCCTCTTCATCACTGCCTT	60.035	55.000	0.00	0.00	0.00	4.35
74	75	1.203441	TGCCCTCTTCATCACTGCCT	61.203	55.000	0.00	0.00	0.00	4.75
75	76	0.747283	CTGCCCTCTTCATCACTGCC	60.747	60.000	0.00	0.00	0.00	4.85
76	77	0.035630	ACTGCCCTCTTCATCACTGC	60.036	55.000	0.00	0.00	0.00	4.40
77	78	1.678123	CCACTGCCCTCTTCATCACTG	60.678	57.143	0.00	0.00	0.00	3.66
78	79	0.617413	CCACTGCCCTCTTCATCACT	59.383	55.000	0.00	0.00	0.00	3.41
79	80	1.028868	GCCACTGCCCTCTTCATCAC	61.029	60.000	0.00	0.00	0.00	3.06
80	81	1.300963	GCCACTGCCCTCTTCATCA	59.699	57.895	0.00	0.00	0.00	3.07
81	82	4.232310	GCCACTGCCCTCTTCATC	57.768	61.111	0.00	0.00	0.00	2.92
99	100	0.970937	TAGTCAGAAGCCCACCGAGG	60.971	60.000	0.00	0.00	37.03	4.63
100	101	0.457851	CTAGTCAGAAGCCCACCGAG	59.542	60.000	0.00	0.00	0.00	4.63
101	102	0.251653	ACTAGTCAGAAGCCCACCGA	60.252	55.000	0.00	0.00	0.00	4.69
102	103	0.108615	CACTAGTCAGAAGCCCACCG	60.109	60.000	0.00	0.00	0.00	4.94
103	104	0.391793	GCACTAGTCAGAAGCCCACC	60.392	60.000	0.00	0.00	0.00	4.61
104	105	0.321671	TGCACTAGTCAGAAGCCCAC	59.678	55.000	0.00	0.00	0.00	4.61
105	106	0.321671	GTGCACTAGTCAGAAGCCCA	59.678	55.000	10.32	0.00	0.00	5.36
106	107	0.391793	GGTGCACTAGTCAGAAGCCC	60.392	60.000	17.98	0.00	0.00	5.19
107	108	0.737715	CGGTGCACTAGTCAGAAGCC	60.738	60.000	17.98	0.00	0.00	4.35
108	109	0.038159	ACGGTGCACTAGTCAGAAGC	60.038	55.000	17.98	0.00	0.00	3.86
109	110	2.732597	GCTACGGTGCACTAGTCAGAAG	60.733	54.545	17.98	11.83	0.00	2.85
110	111	1.201647	GCTACGGTGCACTAGTCAGAA	59.798	52.381	17.98	1.86	0.00	3.02
111	112	0.809385	GCTACGGTGCACTAGTCAGA	59.191	55.000	17.98	2.20	0.00	3.27
112	113	0.526211	TGCTACGGTGCACTAGTCAG	59.474	55.000	17.98	14.48	38.12	3.51
113	114	0.963225	TTGCTACGGTGCACTAGTCA	59.037	50.000	17.98	10.61	43.20	3.41
114	115	1.336517	TGTTGCTACGGTGCACTAGTC	60.337	52.381	17.98	8.35	43.20	2.59
115	116	0.677288	TGTTGCTACGGTGCACTAGT	59.323	50.000	17.98	18.64	43.20	2.57
116	117	1.790755	TTGTTGCTACGGTGCACTAG	58.209	50.000	17.98	12.52	43.20	2.57
117	118	2.242047	TTTGTTGCTACGGTGCACTA	57.758	45.000	17.98	0.74	43.20	2.74
118	119	1.266718	CATTTGTTGCTACGGTGCACT	59.733	47.619	17.98	0.00	43.20	4.40
119	120	1.665735	CCATTTGTTGCTACGGTGCAC	60.666	52.381	8.80	8.80	43.20	4.57
120	121	0.595588	CCATTTGTTGCTACGGTGCA	59.404	50.000	0.45	0.45	41.65	4.57
121	122	0.596082	ACCATTTGTTGCTACGGTGC	59.404	50.000	0.00	0.00	0.00	5.01
122	123	2.159572	GCTACCATTTGTTGCTACGGTG	60.160	50.000	6.00	0.00	41.68	4.94
123	124	2.081462	GCTACCATTTGTTGCTACGGT	58.919	47.619	1.81	1.81	41.68	4.83
124	125	2.825086	GCTACCATTTGTTGCTACGG	57.175	50.000	0.00	0.00	41.68	4.02
139	140	2.766828	ACAATGGAGTAGGGTGAGCTAC	59.233	50.000	0.00	0.00	0.00	3.58
140	141	3.031736	GACAATGGAGTAGGGTGAGCTA	58.968	50.000	0.00	0.00	0.00	3.32
141	142	1.834263	GACAATGGAGTAGGGTGAGCT	59.166	52.381	0.00	0.00	0.00	4.09
142	143	1.555075	TGACAATGGAGTAGGGTGAGC	59.445	52.381	0.00	0.00	0.00	4.26
143	144	2.834549	AGTGACAATGGAGTAGGGTGAG	59.165	50.000	0.00	0.00	0.00	3.51
144	145	2.902608	AGTGACAATGGAGTAGGGTGA	58.097	47.619	0.00	0.00	0.00	4.02
145	146	3.769844	ACTAGTGACAATGGAGTAGGGTG	59.230	47.826	0.00	0.00	0.00	4.61
146	147	4.062490	ACTAGTGACAATGGAGTAGGGT	57.938	45.455	0.00	0.00	0.00	4.34
147	148	5.446860	TCTACTAGTGACAATGGAGTAGGG	58.553	45.833	5.39	0.00	39.92	3.53
148	149	7.406031	TTTCTACTAGTGACAATGGAGTAGG	57.594	40.000	5.39	0.00	39.92	3.18
149	150	9.360093	CTTTTTCTACTAGTGACAATGGAGTAG	57.640	37.037	5.39	6.54	40.54	2.57
150	151	8.311836	CCTTTTTCTACTAGTGACAATGGAGTA	58.688	37.037	5.39	0.00	0.00	2.59
151	152	7.162082	CCTTTTTCTACTAGTGACAATGGAGT	58.838	38.462	5.39	0.00	0.00	3.85
152	153	6.595716	CCCTTTTTCTACTAGTGACAATGGAG	59.404	42.308	5.39	0.00	0.00	3.86
153	154	6.043938	ACCCTTTTTCTACTAGTGACAATGGA	59.956	38.462	5.39	0.00	0.00	3.41
154	155	6.238648	ACCCTTTTTCTACTAGTGACAATGG	58.761	40.000	5.39	10.99	0.00	3.16
155	156	6.934645	TGACCCTTTTTCTACTAGTGACAATG	59.065	38.462	5.39	3.59	0.00	2.82
156	157	7.074653	TGACCCTTTTTCTACTAGTGACAAT	57.925	36.000	5.39	0.00	0.00	2.71
157	158	6.488769	TGACCCTTTTTCTACTAGTGACAA	57.511	37.500	5.39	0.00	0.00	3.18
266	267	3.489785	GCCACGAATCGGTACTAATGAAG	59.510	47.826	7.80	0.00	0.00	3.02
337	338	3.198068	CCATTCTGACAACATCCTACCG	58.802	50.000	0.00	0.00	0.00	4.02
340	341	2.092429	GCCCCATTCTGACAACATCCTA	60.092	50.000	0.00	0.00	0.00	2.94
518	528	8.147704	GGGGACTTCAAATCTTGACAAATTTTA	58.852	33.333	0.00	0.00	39.87	1.52
548	558	5.867903	AACCTTTGTGACCATTTCAATGA	57.132	34.783	0.81	0.00	38.70	2.57
553	563	4.846779	TGCTAACCTTTGTGACCATTTC	57.153	40.909	0.00	0.00	0.00	2.17
559	569	4.993905	ACAAAGTTGCTAACCTTTGTGAC	58.006	39.130	14.84	0.00	44.90	3.67
825	879	5.511545	GGTGGCTACGATGGAGATTTAGAAT	60.512	44.000	0.00	0.00	0.00	2.40
974	1033	6.074195	GGCGCTATATGTATAACAAACAACGA	60.074	38.462	7.64	0.00	0.00	3.85
996	1055	1.946768	ACGGATATCAAAACCATGGCG	59.053	47.619	13.04	5.55	0.00	5.69
1019	1078	2.050350	CAAGGACTAGGGCCGACGA	61.050	63.158	0.00	0.00	0.00	4.20
1088	1147	6.596309	TGGGCATAATTTGTCATAAACACA	57.404	33.333	0.00	0.00	37.70	3.72
1624	1692	1.040339	GGCATAAAACCATCCGCCCA	61.040	55.000	0.00	0.00	33.31	5.36
1672	1740	6.518493	TGGTTCTTGACGTAGAGTAATTGTT	58.482	36.000	0.00	0.00	0.00	2.83
1722	1790	6.041865	TCCAAACATTATAATGGGGCATGAAG	59.958	38.462	25.45	7.79	40.70	3.02
1752	1820	2.019807	TAACCCCTCTTTCTCCGTGT	57.980	50.000	0.00	0.00	0.00	4.49
2261	2331	1.066858	CCGCGGTAGAGGATGCAATAT	60.067	52.381	19.50	0.00	39.96	1.28
2262	2332	0.317160	CCGCGGTAGAGGATGCAATA	59.683	55.000	19.50	0.00	39.96	1.90

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.