AutoCloner

Multiple sequence alignment - TraesCS2B01G092900

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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	TraesCS2B01G092900	chr2B	100.000	3350	0	0	1	3350	53521842	53518493	0.000000e+00	6187.0
1	TraesCS2B01G092900	chr2B	88.082	1653	113	39	680	2303	53577119	53578716	0.000000e+00	1884.0
2	TraesCS2B01G092900	chr2A	94.303	1773	76	8	435	2192	35584944	35583182	0.000000e+00	2691.0
3	TraesCS2B01G092900	chr2A	90.824	1384	78	22	835	2191	35629972	35631333	0.000000e+00	1807.0
4	TraesCS2B01G092900	chr2A	98.049	410	5	3	44	451	35585787	35585379	0.000000e+00	710.0
5	TraesCS2B01G092900	chr2A	87.045	247	21	6	1	238	35525189	35524945	5.510000e-68	268.0
6	TraesCS2B01G092900	chr2A	90.395	177	14	3	2443	2618	35582781	35582607	2.600000e-56	230.0
7	TraesCS2B01G092900	chr2A	84.483	232	17	6	2239	2451	35583186	35582955	9.420000e-51	211.0
8	TraesCS2B01G092900	chr2A	90.141	71	2	4	518	586	66799998	66799931	1.660000e-13	87.9
9	TraesCS2B01G092900	chr2A	100.000	31	0	0	1	31	35585809	35585779	1.300000e-04	58.4
10	TraesCS2B01G092900	chr2D	90.567	1728	101	22	662	2351	32557609	32559312	0.000000e+00	2231.0
11	TraesCS2B01G092900	chr2D	86.511	1972	155	52	731	2619	32597916	32599859	0.000000e+00	2065.0
12	TraesCS2B01G092900	chr2D	89.952	1453	93	24	783	2192	32521800	32520358	0.000000e+00	1825.0
13	TraesCS2B01G092900	chr2D	86.763	1171	126	21	1065	2219	32595695	32594538	0.000000e+00	1277.0
14	TraesCS2B01G092900	chr2D	93.833	681	41	1	2671	3350	11788692	11788012	0.000000e+00	1024.0
15	TraesCS2B01G092900	chr2D	83.879	397	35	14	2239	2617	32520362	32519977	5.320000e-93	351.0
16	TraesCS2B01G092900	chr2D	89.091	220	23	1	2400	2618	32559317	32559536	4.260000e-69	272.0
17	TraesCS2B01G092900	chr2D	90.625	96	9	0	232	327	491380019	491379924	9.760000e-26	128.0
18	TraesCS2B01G092900	chr2D	91.429	70	3	3	518	586	67561134	67561201	3.560000e-15	93.5
19	TraesCS2B01G092900	chrUn	86.511	1972	155	54	731	2619	285396144	285394201	0.000000e+00	2065.0
20	TraesCS2B01G092900	chr5D	94.265	680	39	0	2671	3350	564763949	564764628	0.000000e+00	1040.0
21	TraesCS2B01G092900	chr5D	88.000	75	5	4	512	584	211983842	211983770	5.960000e-13	86.1
22	TraesCS2B01G092900	chr5D	88.889	72	3	4	515	584	204323387	204323319	2.140000e-12	84.2
23	TraesCS2B01G092900	chr4D	94.118	680	40	0	2671	3350	1870780	1870101	0.000000e+00	1035.0
24	TraesCS2B01G092900	chr3D	94.268	663	38	0	2688	3350	564934709	564934047	0.000000e+00	1014.0
25	TraesCS2B01G092900	chr3D	78.563	821	142	25	1376	2180	359092605	359093407	8.290000e-141	510.0
26	TraesCS2B01G092900	chr4B	93.529	680	41	3	2671	3350	654765043	654765719	0.000000e+00	1009.0
27	TraesCS2B01G092900	chr7A	92.320	651	48	2	2702	3350	634904625	634903975	0.000000e+00	924.0
28	TraesCS2B01G092900	chr7A	91.753	97	8	0	231	327	717840039	717839943	5.830000e-28	135.0
29	TraesCS2B01G092900	chr7B	91.311	679	53	4	2673	3347	582703958	582704634	0.000000e+00	922.0
30	TraesCS2B01G092900	chr5A	91.770	644	50	3	2709	3350	689661176	689660534	0.000000e+00	893.0
31	TraesCS2B01G092900	chr6B	90.045	673	58	7	2673	3338	611350031	611350701	0.000000e+00	863.0
32	TraesCS2B01G092900	chr6B	79.856	139	16	10	511	644	567542108	567541977	1.280000e-14	91.6
33	TraesCS2B01G092900	chr1D	92.391	92	7	0	232	323	11790158	11790067	7.540000e-27	132.0
34	TraesCS2B01G092900	chr4A	87.963	108	12	1	229	336	694884935	694884829	3.510000e-25	126.0
35	TraesCS2B01G092900	chr5B	90.323	93	9	0	232	324	665763139	665763231	4.540000e-24	122.0
36	TraesCS2B01G092900	chr5B	87.736	106	12	1	220	324	708327514	708327619	4.540000e-24	122.0
37	TraesCS2B01G092900	chr5B	90.278	72	2	3	515	584	208523454	208523386	4.600000e-14	89.8
38	TraesCS2B01G092900	chr3B	90.323	93	9	0	232	324	501121330	501121422	4.540000e-24	122.0
39	TraesCS2B01G092900	chr1B	87.500	104	12	1	233	336	646955262	646955160	5.870000e-23	119.0
40	TraesCS2B01G092900	chr6D	91.176	68	3	3	518	584	27511166	27511231	4.600000e-14	89.8
41	TraesCS2B01G092900	chr6A	89.706	68	3	4	518	584	117403519	117403455	2.140000e-12	84.2

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	TraesCS2B01G092900	chr2B	53518493	53521842	3349	True	6187.00	6187	100.0000	1	3350	1	chr2B.!!$R1	3349
1	TraesCS2B01G092900	chr2B	53577119	53578716	1597	False	1884.00	1884	88.0820	680	2303	1	chr2B.!!$F1	1623
2	TraesCS2B01G092900	chr2A	35629972	35631333	1361	False	1807.00	1807	90.8240	835	2191	1	chr2A.!!$F1	1356
3	TraesCS2B01G092900	chr2A	35582607	35585809	3202	True	780.08	2691	93.4460	1	2618	5	chr2A.!!$R3	2617
4	TraesCS2B01G092900	chr2D	32597916	32599859	1943	False	2065.00	2065	86.5110	731	2619	1	chr2D.!!$F1	1888
5	TraesCS2B01G092900	chr2D	32594538	32595695	1157	True	1277.00	1277	86.7630	1065	2219	1	chr2D.!!$R2	1154
6	TraesCS2B01G092900	chr2D	32557609	32559536	1927	False	1251.50	2231	89.8290	662	2618	2	chr2D.!!$F3	1956
7	TraesCS2B01G092900	chr2D	32519977	32521800	1823	True	1088.00	1825	86.9155	783	2617	2	chr2D.!!$R4	1834
8	TraesCS2B01G092900	chr2D	11788012	11788692	680	True	1024.00	1024	93.8330	2671	3350	1	chr2D.!!$R1	679
9	TraesCS2B01G092900	chrUn	285394201	285396144	1943	True	2065.00	2065	86.5110	731	2619	1	chrUn.!!$R1	1888
10	TraesCS2B01G092900	chr5D	564763949	564764628	679	False	1040.00	1040	94.2650	2671	3350	1	chr5D.!!$F1	679
11	TraesCS2B01G092900	chr4D	1870101	1870780	679	True	1035.00	1035	94.1180	2671	3350	1	chr4D.!!$R1	679
12	TraesCS2B01G092900	chr3D	564934047	564934709	662	True	1014.00	1014	94.2680	2688	3350	1	chr3D.!!$R1	662
13	TraesCS2B01G092900	chr3D	359092605	359093407	802	False	510.00	510	78.5630	1376	2180	1	chr3D.!!$F1	804
14	TraesCS2B01G092900	chr4B	654765043	654765719	676	False	1009.00	1009	93.5290	2671	3350	1	chr4B.!!$F1	679
15	TraesCS2B01G092900	chr7A	634903975	634904625	650	True	924.00	924	92.3200	2702	3350	1	chr7A.!!$R1	648
16	TraesCS2B01G092900	chr7B	582703958	582704634	676	False	922.00	922	91.3110	2673	3347	1	chr7B.!!$F1	674
17	TraesCS2B01G092900	chr5A	689660534	689661176	642	True	893.00	893	91.7700	2709	3350	1	chr5A.!!$R1	641
18	TraesCS2B01G092900	chr6B	611350031	611350701	670	False	863.00	863	90.0450	2673	3338	1	chr6B.!!$F1	665

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
832	1293	0.248784	GGAACCGACGGTCCTAATCG	60.249	60.0	22.0	0.0	33.12	3.34	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
2656	3470	0.108424	GCGGACTCAACTCATCTGCT	60.108	55.0	0.0	0.0	40.84	4.24	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
31	32	9.959749	TGTGTTCTCATTTTTACTAATTTGACC	57.040	29.630	0.00	0.00	0.00	4.02
32	33	9.959749	GTGTTCTCATTTTTACTAATTTGACCA	57.040	29.630	0.00	0.00	0.00	4.02
36	37	9.567776	TCTCATTTTTACTAATTTGACCAGTCA	57.432	29.630	0.00	0.00	37.91	3.41
97	98	7.944729	AATATTAACTGGTTTCAGAGCATGT	57.055	32.000	0.00	0.00	43.49	3.21
467	920	7.170658	GCCTATGTTTGCATAAGTTTTGAACAA	59.829	33.333	0.00	0.00	37.16	2.83
645	1098	7.179966	TCTTATATTTATCAGCGGAGGGAGTA	58.820	38.462	0.00	0.00	0.00	2.59
691	1144	4.537135	ACACAGAAGATACGGACATGTT	57.463	40.909	0.00	0.00	0.00	2.71
832	1293	0.248784	GGAACCGACGGTCCTAATCG	60.249	60.000	22.00	0.00	33.12	3.34
833	1294	0.453390	GAACCGACGGTCCTAATCGT	59.547	55.000	22.00	0.73	42.67	3.73
895	1364	2.157668	GTGACGCTGACCATTACAACTG	59.842	50.000	0.00	0.00	0.00	3.16
1129	1631	2.489285	CTGCTCGCTCTTCTCGCT	59.511	61.111	0.00	0.00	0.00	4.93
1183	1685	1.880819	TAAAGACCAGCCCGACGGAC	61.881	60.000	17.49	2.80	0.00	4.79
1276	1778	2.754658	CCCTACACCGGCGTCTCT	60.755	66.667	6.01	0.00	0.00	3.10
2197	2776	2.483889	GCCTAGTTGCCTAGTTGCCTAG	60.484	54.545	0.00	0.00	39.29	3.02
2198	2777	2.766828	CCTAGTTGCCTAGTTGCCTAGT	59.233	50.000	0.00	0.00	39.29	2.57
2201	2780	3.412386	AGTTGCCTAGTTGCCTAGTTTG	58.588	45.455	0.00	0.00	39.29	2.93
2202	2781	3.146847	GTTGCCTAGTTGCCTAGTTTGT	58.853	45.455	0.00	0.00	39.29	2.83
2204	2783	3.827722	TGCCTAGTTGCCTAGTTTGTTT	58.172	40.909	0.00	0.00	39.29	2.83
2205	2784	4.975631	TGCCTAGTTGCCTAGTTTGTTTA	58.024	39.130	0.00	0.00	39.29	2.01
2206	2785	4.758165	TGCCTAGTTGCCTAGTTTGTTTAC	59.242	41.667	0.00	0.00	39.29	2.01
2214	2793	7.383300	AGTTGCCTAGTTTGTTTACGTTACTAG	59.617	37.037	0.00	0.00	38.53	2.57
2218	2797	7.807907	GCCTAGTTTGTTTACGTTACTAGTACA	59.192	37.037	0.91	0.00	37.60	2.90
2219	2798	9.846248	CCTAGTTTGTTTACGTTACTAGTACAT	57.154	33.333	0.91	0.00	37.60	2.29
2225	2804	7.250569	TGTTTACGTTACTAGTACATACTGGC	58.749	38.462	0.91	0.00	38.22	4.85
2343	2940	9.394477	AGCTCGTTTTTAACATAAATTCAGAAC	57.606	29.630	0.00	0.00	0.00	3.01
2388	2991	5.047566	TCTTTGTTCTCAATCTTGGGTGA	57.952	39.130	0.00	0.00	33.32	4.02
2416	3030	4.208746	TCTTTGATGGCATGCACATATCA	58.791	39.130	21.36	18.60	0.00	2.15
2429	3043	3.354948	ACATATCATGTGGCAGTGTGT	57.645	42.857	0.00	0.00	43.01	3.72
2461	3258	7.043854	CGTCGTAAAACTTAATACACGGATCAT	60.044	37.037	0.00	0.00	0.00	2.45
2472	3269	2.478894	ACACGGATCATGTTCGTTCAAC	59.521	45.455	7.70	0.00	34.73	3.18
2513	3317	5.586243	TGGATCGAAATTCTCTCAATTCACC	59.414	40.000	0.00	0.00	0.00	4.02
2514	3318	5.277058	GGATCGAAATTCTCTCAATTCACCG	60.277	44.000	0.00	0.00	0.00	4.94
2520	3324	7.413438	CGAAATTCTCTCAATTCACCGAATCTT	60.413	37.037	0.00	0.00	30.29	2.40
2619	3433	3.949754	TCCAGCAAGGAATCAAATAGCTG	59.050	43.478	0.00	0.00	45.65	4.24
2620	3434	3.698040	CCAGCAAGGAATCAAATAGCTGT	59.302	43.478	10.16	0.00	44.65	4.40
2621	3435	4.439700	CCAGCAAGGAATCAAATAGCTGTG	60.440	45.833	10.16	0.00	44.65	3.66
2622	3436	3.698040	AGCAAGGAATCAAATAGCTGTGG	59.302	43.478	0.00	0.00	0.00	4.17
2623	3437	3.736126	GCAAGGAATCAAATAGCTGTGGC	60.736	47.826	0.00	0.00	39.06	5.01
2633	3447	4.058797	GCTGTGGCTAACCGTGTT	57.941	55.556	0.00	0.00	39.70	3.32
2634	3448	1.866925	GCTGTGGCTAACCGTGTTC	59.133	57.895	0.00	0.00	39.70	3.18
2635	3449	0.882927	GCTGTGGCTAACCGTGTTCA	60.883	55.000	0.00	0.00	39.70	3.18
2636	3450	1.808411	CTGTGGCTAACCGTGTTCAT	58.192	50.000	0.00	0.00	39.70	2.57
2637	3451	1.732259	CTGTGGCTAACCGTGTTCATC	59.268	52.381	0.00	0.00	39.70	2.92
2638	3452	1.070914	TGTGGCTAACCGTGTTCATCA	59.929	47.619	0.00	0.00	39.70	3.07
2639	3453	2.147958	GTGGCTAACCGTGTTCATCAA	58.852	47.619	0.00	0.00	39.70	2.57
2640	3454	2.159627	GTGGCTAACCGTGTTCATCAAG	59.840	50.000	0.00	0.00	39.70	3.02
2641	3455	1.130561	GGCTAACCGTGTTCATCAAGC	59.869	52.381	0.00	0.00	0.00	4.01
2642	3456	2.076863	GCTAACCGTGTTCATCAAGCT	58.923	47.619	0.00	0.00	0.00	3.74
2643	3457	2.094417	GCTAACCGTGTTCATCAAGCTC	59.906	50.000	0.00	0.00	0.00	4.09
2644	3458	2.550830	AACCGTGTTCATCAAGCTCT	57.449	45.000	0.00	0.00	0.00	4.09
2645	3459	2.086054	ACCGTGTTCATCAAGCTCTC	57.914	50.000	0.00	0.00	0.00	3.20
2646	3460	1.620819	ACCGTGTTCATCAAGCTCTCT	59.379	47.619	0.00	0.00	0.00	3.10
2647	3461	2.266554	CCGTGTTCATCAAGCTCTCTC	58.733	52.381	0.00	0.00	0.00	3.20
2648	3462	1.916651	CGTGTTCATCAAGCTCTCTCG	59.083	52.381	0.00	0.00	0.00	4.04
2649	3463	2.414691	CGTGTTCATCAAGCTCTCTCGA	60.415	50.000	0.00	0.00	0.00	4.04
2650	3464	3.579709	GTGTTCATCAAGCTCTCTCGAA	58.420	45.455	0.00	0.00	0.00	3.71
2651	3465	4.180057	GTGTTCATCAAGCTCTCTCGAAT	58.820	43.478	0.00	0.00	0.00	3.34
2652	3466	5.344066	GTGTTCATCAAGCTCTCTCGAATA	58.656	41.667	0.00	0.00	0.00	1.75
2653	3467	5.807520	GTGTTCATCAAGCTCTCTCGAATAA	59.192	40.000	0.00	0.00	0.00	1.40
2654	3468	5.807520	TGTTCATCAAGCTCTCTCGAATAAC	59.192	40.000	0.00	0.00	0.00	1.89
2655	3469	5.582689	TCATCAAGCTCTCTCGAATAACA	57.417	39.130	0.00	0.00	0.00	2.41
2656	3470	5.965922	TCATCAAGCTCTCTCGAATAACAA	58.034	37.500	0.00	0.00	0.00	2.83
2657	3471	6.038985	TCATCAAGCTCTCTCGAATAACAAG	58.961	40.000	0.00	0.00	0.00	3.16
2658	3472	4.177026	TCAAGCTCTCTCGAATAACAAGC	58.823	43.478	0.00	0.00	0.00	4.01
2659	3473	3.876274	AGCTCTCTCGAATAACAAGCA	57.124	42.857	0.00	0.00	0.00	3.91
2660	3474	3.779759	AGCTCTCTCGAATAACAAGCAG	58.220	45.455	0.00	0.00	0.00	4.24
2661	3475	3.445450	AGCTCTCTCGAATAACAAGCAGA	59.555	43.478	0.00	0.00	0.00	4.26
2662	3476	4.099266	AGCTCTCTCGAATAACAAGCAGAT	59.901	41.667	0.00	0.00	0.00	2.90
2663	3477	4.208873	GCTCTCTCGAATAACAAGCAGATG	59.791	45.833	0.00	0.00	0.00	2.90
2664	3478	5.582689	TCTCTCGAATAACAAGCAGATGA	57.417	39.130	0.00	0.00	0.00	2.92
2665	3479	5.586339	TCTCTCGAATAACAAGCAGATGAG	58.414	41.667	0.00	0.00	0.00	2.90
2666	3480	5.126222	TCTCTCGAATAACAAGCAGATGAGT	59.874	40.000	0.00	0.00	0.00	3.41
2667	3481	5.724328	TCTCGAATAACAAGCAGATGAGTT	58.276	37.500	0.00	0.00	0.00	3.01
2668	3482	5.578336	TCTCGAATAACAAGCAGATGAGTTG	59.422	40.000	0.00	0.00	0.00	3.16
2669	3483	5.478407	TCGAATAACAAGCAGATGAGTTGA	58.522	37.500	3.24	0.00	0.00	3.18
2700	3514	2.829458	ACTCGGGAGGCGACTAGC	60.829	66.667	0.00	0.00	44.43	3.42
2955	3777	4.626081	GTGGCGAGTGGTGGCTGT	62.626	66.667	0.00	0.00	0.00	4.40
3114	3937	2.212900	GAAACCATTGGTCGGCTGGC	62.213	60.000	9.22	0.00	33.12	4.85
3196	4019	3.272042	CAACCCCATCCACCCCCA	61.272	66.667	0.00	0.00	0.00	4.96
3201	4025	2.323758	CCCATCCACCCCCATTCCA	61.324	63.158	0.00	0.00	0.00	3.53
3205	4029	0.253820	ATCCACCCCCATTCCACTCT	60.254	55.000	0.00	0.00	0.00	3.24
3246	4070	1.002134	CTTGGATTGGGCGGTGACT	60.002	57.895	0.00	0.00	0.00	3.41

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
39	40	9.685276	TGATGGATAAGAGTGTCAAATTATGTT	57.315	29.630	0.00	0.00	0.00	2.71
40	41	9.685276	TTGATGGATAAGAGTGTCAAATTATGT	57.315	29.630	0.00	0.00	0.00	2.29
41	42	9.941664	GTTGATGGATAAGAGTGTCAAATTATG	57.058	33.333	0.00	0.00	0.00	1.90
42	43	9.685276	TGTTGATGGATAAGAGTGTCAAATTAT	57.315	29.630	0.00	0.00	0.00	1.28
43	44	9.513906	TTGTTGATGGATAAGAGTGTCAAATTA	57.486	29.630	0.00	0.00	0.00	1.40
44	45	8.408043	TTGTTGATGGATAAGAGTGTCAAATT	57.592	30.769	0.00	0.00	0.00	1.82
45	46	7.121759	CCTTGTTGATGGATAAGAGTGTCAAAT	59.878	37.037	0.00	0.00	0.00	2.32
46	47	6.430925	CCTTGTTGATGGATAAGAGTGTCAAA	59.569	38.462	0.00	0.00	0.00	2.69
47	48	5.939883	CCTTGTTGATGGATAAGAGTGTCAA	59.060	40.000	0.00	0.00	0.00	3.18
48	49	5.248248	TCCTTGTTGATGGATAAGAGTGTCA	59.752	40.000	0.00	0.00	0.00	3.58
49	50	5.734720	TCCTTGTTGATGGATAAGAGTGTC	58.265	41.667	0.00	0.00	0.00	3.67
50	51	5.762179	TCCTTGTTGATGGATAAGAGTGT	57.238	39.130	0.00	0.00	0.00	3.55
51	52	7.636150	ATTTCCTTGTTGATGGATAAGAGTG	57.364	36.000	0.00	0.00	31.76	3.51
420	421	6.721318	AGGCAGATGTCTATGAAGGTTTTTA	58.279	36.000	0.00	0.00	0.00	1.52
1057	1535	1.405526	CCCATGATCGTCGGAACAAGT	60.406	52.381	0.00	0.00	0.00	3.16
1129	1631	1.674651	CGACGGGACCAGAGAGACA	60.675	63.158	0.00	0.00	0.00	3.41
1160	1662	0.323957	GTCGGGCTGGTCTTTACCTT	59.676	55.000	0.00	0.00	46.91	3.50
1258	1760	2.753043	GAGACGCCGGTGTAGGGA	60.753	66.667	23.00	0.00	0.00	4.20
1282	1784	4.003788	CCCCACTTGAGGACGCGT	62.004	66.667	13.85	13.85	0.00	6.01
1967	2531	4.772231	TAGCCGCCCTTCCCGTCT	62.772	66.667	0.00	0.00	0.00	4.18
2192	2771	7.807907	TGTACTAGTAACGTAAACAAACTAGGC	59.192	37.037	3.61	11.40	42.46	3.93
2198	2777	9.624697	CCAGTATGTACTAGTAACGTAAACAAA	57.375	33.333	3.61	0.00	34.13	2.83
2201	2780	6.693113	GGCCAGTATGTACTAGTAACGTAAAC	59.307	42.308	3.61	0.00	34.13	2.01
2202	2781	6.603201	AGGCCAGTATGTACTAGTAACGTAAA	59.397	38.462	5.01	0.00	34.13	2.01
2204	2783	5.684704	AGGCCAGTATGTACTAGTAACGTA	58.315	41.667	5.01	2.74	34.13	3.57
2205	2784	4.530875	AGGCCAGTATGTACTAGTAACGT	58.469	43.478	5.01	3.66	34.13	3.99
2206	2785	5.511234	AAGGCCAGTATGTACTAGTAACG	57.489	43.478	5.01	0.00	34.13	3.18
2262	2851	7.116948	CGACTGACCACATTATGATAATCTTCC	59.883	40.741	0.00	0.00	0.00	3.46
2270	2860	4.649674	ACCTACGACTGACCACATTATGAT	59.350	41.667	0.00	0.00	0.00	2.45
2388	2991	4.060205	GTGCATGCCATCAAAGAAACTTT	58.940	39.130	16.68	0.00	0.00	2.66
2416	3030	1.453562	TGCACACACACTGCCACAT	60.454	52.632	0.00	0.00	33.36	3.21
2429	3043	5.461407	TGTATTAAGTTTTACGACGTGCACA	59.539	36.000	18.64	0.00	0.00	4.57
2461	3258	6.483385	TTTAACTGAACTGTTGAACGAACA	57.517	33.333	0.00	0.00	42.55	3.18
2472	3269	6.042777	TCGATCCAGCTATTTAACTGAACTG	58.957	40.000	0.00	0.00	35.90	3.16
2476	3273	7.987458	AGAATTTCGATCCAGCTATTTAACTGA	59.013	33.333	0.00	0.00	35.90	3.41
2513	3317	3.425193	CCTTTGTTCGCCAAAAAGATTCG	59.575	43.478	0.00	0.00	42.31	3.34
2514	3318	3.184379	GCCTTTGTTCGCCAAAAAGATTC	59.816	43.478	0.00	0.00	42.31	2.52
2520	3324	1.107114	TCAGCCTTTGTTCGCCAAAA	58.893	45.000	2.47	0.00	42.31	2.44
2584	3397	1.398692	TGCTGGAGCGGTTTTTCTTT	58.601	45.000	0.00	0.00	45.83	2.52
2619	3433	1.803334	TGATGAACACGGTTAGCCAC	58.197	50.000	0.00	0.00	34.09	5.01
2620	3434	2.422597	CTTGATGAACACGGTTAGCCA	58.577	47.619	0.00	0.00	34.09	4.75
2621	3435	1.130561	GCTTGATGAACACGGTTAGCC	59.869	52.381	0.00	0.00	0.00	3.93
2622	3436	2.076863	AGCTTGATGAACACGGTTAGC	58.923	47.619	0.00	0.00	0.00	3.09
2623	3437	3.589988	AGAGCTTGATGAACACGGTTAG	58.410	45.455	0.00	0.00	0.00	2.34
2624	3438	3.258372	AGAGAGCTTGATGAACACGGTTA	59.742	43.478	0.00	0.00	0.00	2.85
2625	3439	2.037772	AGAGAGCTTGATGAACACGGTT	59.962	45.455	0.00	0.00	0.00	4.44
2626	3440	1.620819	AGAGAGCTTGATGAACACGGT	59.379	47.619	0.00	0.00	0.00	4.83
2627	3441	2.266554	GAGAGAGCTTGATGAACACGG	58.733	52.381	0.00	0.00	0.00	4.94
2628	3442	1.916651	CGAGAGAGCTTGATGAACACG	59.083	52.381	0.00	0.00	0.00	4.49
2629	3443	3.223423	TCGAGAGAGCTTGATGAACAC	57.777	47.619	0.00	0.00	34.84	3.32
2630	3444	3.942130	TTCGAGAGAGCTTGATGAACA	57.058	42.857	0.00	0.00	43.69	3.18
2631	3445	5.807520	TGTTATTCGAGAGAGCTTGATGAAC	59.192	40.000	0.00	0.00	43.69	3.18
2632	3446	5.965922	TGTTATTCGAGAGAGCTTGATGAA	58.034	37.500	0.00	0.00	43.69	2.57
2633	3447	5.582689	TGTTATTCGAGAGAGCTTGATGA	57.417	39.130	0.00	0.00	43.69	2.92
2634	3448	5.276773	GCTTGTTATTCGAGAGAGCTTGATG	60.277	44.000	0.00	0.00	43.69	3.07
2635	3449	4.808364	GCTTGTTATTCGAGAGAGCTTGAT	59.192	41.667	0.00	0.00	43.69	2.57
2636	3450	4.177026	GCTTGTTATTCGAGAGAGCTTGA	58.823	43.478	0.00	0.00	43.69	3.02
2637	3451	3.928992	TGCTTGTTATTCGAGAGAGCTTG	59.071	43.478	0.00	0.00	43.69	4.01
2638	3452	4.081972	TCTGCTTGTTATTCGAGAGAGCTT	60.082	41.667	0.00	0.00	43.69	3.74
2639	3453	3.445450	TCTGCTTGTTATTCGAGAGAGCT	59.555	43.478	0.00	0.00	43.69	4.09
2640	3454	3.775202	TCTGCTTGTTATTCGAGAGAGC	58.225	45.455	0.00	0.00	43.69	4.09
2641	3455	5.586339	TCATCTGCTTGTTATTCGAGAGAG	58.414	41.667	0.00	0.00	43.69	3.20
2642	3456	5.126222	ACTCATCTGCTTGTTATTCGAGAGA	59.874	40.000	0.00	0.00	39.20	3.10
2643	3457	5.347342	ACTCATCTGCTTGTTATTCGAGAG	58.653	41.667	0.00	0.00	0.00	3.20
2644	3458	5.330455	ACTCATCTGCTTGTTATTCGAGA	57.670	39.130	0.00	0.00	0.00	4.04
2645	3459	5.578336	TCAACTCATCTGCTTGTTATTCGAG	59.422	40.000	0.00	0.00	0.00	4.04
2646	3460	5.478407	TCAACTCATCTGCTTGTTATTCGA	58.522	37.500	0.00	0.00	0.00	3.71
2647	3461	5.349817	ACTCAACTCATCTGCTTGTTATTCG	59.650	40.000	0.00	0.00	0.00	3.34
2648	3462	6.183360	GGACTCAACTCATCTGCTTGTTATTC	60.183	42.308	0.00	0.00	0.00	1.75
2649	3463	5.645497	GGACTCAACTCATCTGCTTGTTATT	59.355	40.000	0.00	0.00	0.00	1.40
2650	3464	5.181748	GGACTCAACTCATCTGCTTGTTAT	58.818	41.667	0.00	0.00	0.00	1.89
2651	3465	4.569943	GGACTCAACTCATCTGCTTGTTA	58.430	43.478	0.00	0.00	0.00	2.41
2652	3466	3.406764	GGACTCAACTCATCTGCTTGTT	58.593	45.455	0.00	0.00	0.00	2.83
2653	3467	2.611473	CGGACTCAACTCATCTGCTTGT	60.611	50.000	0.00	0.00	0.00	3.16
2654	3468	1.998315	CGGACTCAACTCATCTGCTTG	59.002	52.381	0.00	0.00	0.00	4.01
2655	3469	1.674221	GCGGACTCAACTCATCTGCTT	60.674	52.381	0.00	0.00	40.84	3.91
2656	3470	0.108424	GCGGACTCAACTCATCTGCT	60.108	55.000	0.00	0.00	40.84	4.24
2657	3471	0.108424	AGCGGACTCAACTCATCTGC	60.108	55.000	0.00	0.00	43.74	4.26
2658	3472	1.796982	CGAGCGGACTCAACTCATCTG	60.797	57.143	0.00	0.00	43.66	2.90
2659	3473	0.453793	CGAGCGGACTCAACTCATCT	59.546	55.000	0.00	0.00	43.66	2.90
2660	3474	0.526524	CCGAGCGGACTCAACTCATC	60.527	60.000	2.00	0.00	43.66	2.92
2661	3475	1.513158	CCGAGCGGACTCAACTCAT	59.487	57.895	2.00	0.00	43.66	2.90
2662	3476	2.636412	CCCGAGCGGACTCAACTCA	61.636	63.158	11.05	0.00	43.66	3.41
2663	3477	2.182030	CCCGAGCGGACTCAACTC	59.818	66.667	11.05	0.00	43.66	3.01
2664	3478	4.070552	GCCCGAGCGGACTCAACT	62.071	66.667	11.05	0.00	43.66	3.16
2944	3766	4.935495	CACGCCACAGCCACCACT	62.935	66.667	0.00	0.00	34.57	4.00
2955	3777	4.414956	AGGGGGATCTCCACGCCA	62.415	66.667	15.23	0.00	45.91	5.69
3050	3872	0.395173	GGCACCCATCCATACCGTTT	60.395	55.000	0.00	0.00	0.00	3.60
3144	3967	3.330720	CCAAGGAGGAAGGGCGGT	61.331	66.667	0.00	0.00	41.22	5.68
3196	4019	1.339151	GCTTTCACCCGAGAGTGGAAT	60.339	52.381	0.00	0.00	34.72	3.01
3201	4025	3.069778	GGGCTTTCACCCGAGAGT	58.930	61.111	0.00	0.00	40.98	3.24
3257	4081	2.351777	CTCCAAGGAGGACACGACA	58.648	57.895	8.28	0.00	43.07	4.35
3311	4136	1.413118	CCCAAAACTCCACCTTTGCT	58.587	50.000	0.00	0.00	32.31	3.91

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.