genome.fa.s9592.2.7.7.80.10.50.1000.19.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  19  of  39  ( 4673 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3877394--3877445	10	5.0	10	72	9	50	46	9	13	30	1.75
3881472--3881532	27	2.2	28	82	11	72	34	4	1	59	1.29
3881538--3881599	26	2.4	25	84	10	72	17	9	6	66	1.42
3881632--3881834	5	39.6	5	66	20	57	16	7	3	72	1.22
3881635--3881696	23	2.7	23	81	13	67	12	6	4	75	1.15
3881789--3881819	11	2.8	11	95	0	53	25	0	0	74	0.82
3881789--3881819	14	2.2	14	94	0	53	25	0	0	74	0.82
3886995--3887055	20	3.1	19	77	13	61	54	9	14	21	1.69
3886797--3887268	180	2.6	180	88	2	676	42	13	16	27	1.85
3887198--3887240	20	2.3	19	88	11	63	51	11	16	20	1.75
3889356--3889384	15	1.9	15	100	0	58	20	6	55	17	1.65
3889469--3889516	21	2.3	21	96	0	87	41	10	31	16	1.82
3889569--3889632	33	1.9	33	87	0	92	28	1	46	23	1.61
3891422--3891470	19	2.6	19	96	0	89	32	2	10	55	1.45
3891704--3892144	200	2.2	200	97	0	837	36	14	19	29	1.92
3891972--3892416	170	2.6	173	91	5	711	34	14	19	32	1.91
3892892--3892937	12	3.8	12	85	0	56	39	6	32	21	1.79
3892892--3892937	18	2.6	18	85	0	56	39	6	32	21	1.79
3894148--3894732	183	3.2	183	95	0	1037	35	14	16	33	1.90
3894614--3894852	120	2.0	120	94	0	424	31	13	15	39	1.86
3894431--3895019	303	1.9	303	97	0	1106	34	14	16	34	1.89
3896568--3896730	87	1.9	87	93	0	281	33	14	10	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3896652--3896696	23	2.0	23	86	0	63	37	15	8	37	1.79
3897925--3897968	20	2.3	19	84	7	54	47	6	22	22	1.75
3904927--3904986	31	1.9	31	93	0	102	43	3	10	43	1.54
3905525--3905573	14	3.8	14	69	20	52	57	0	0	42	0.99
3905505--3905569	24	2.5	24	85	12	76	55	1	0	43	1.09
3905558--3905608	12	4.3	12	76	18	54	66	1	0	31	1.03
3905792--3905821	15	2.0	15	100	0	60	33	40	6	20	1.78
3907829--3907860	2	16.0	2	100	0	64	50	0	0	50	1.00
3908916--3908958	20	2.2	20	83	8	52	67	0	23	9	1.19
3908925--3908988	21	3.0	21	80	15	62	73	0	9	17	1.08
3908945--3908993	20	2.5	20	83	12	57	77	0	4	18	0.92
3908966--3909029	21	3.3	19	79	10	58	70	3	4	21	1.20
3908954--3909029	9	8.2	9	76	12	57	72	2	3	21	1.13
3908975--3909029	21	2.8	20	82	12	71	70	3	3	21	1.18
3909082--3909140	3	20.3	3	77	10	52	69	0	3	27	1.04
3909512--3909583	34	2.1	34	97	0	135	8	41	33	16	1.78
3910333--3910385	2	27.5	2	84	7	74	50	0	1	47	1.12
3910333--3910387	19	2.9	19	91	0	92	49	0	3	47	1.19
3910915--3911190	36	8.0	36	64	16	111	37	15	18	27	1.92
3910887--3911473	102	5.8	101	89	2	854	37	13	19	30	1.89
3911055--3911176	65	1.9	65	86	3	174	38	17	17	27	1.91
3911224--3911305	37	2.2	36	89	2	119	42	13	20	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3912635--3912860	95	2.6	88	78	16	252	32	19	17	29	1.95
3912693--3912868	95	1.9	95	90	3	284	30	19	17	31	1.95
3916953--3917023	34	2.2	32	82	10	81	71	1	11	15	1.20
3917095--3917168	20	3.8	20	77	13	73	74	1	10	13	1.14
3917103--3917168	19	3.4	18	75	20	62	74	0	12	13	1.08
3917136--3917227	21	4.3	22	78	9	84	72	2	5	19	1.14
3917194--3917262	35	1.9	36	85	2	95	66	0	4	28	1.10
3917375--3917490	21	5.6	21	67	10	51	31	28	18	21	1.97
3917478--3917670	20	9.6	20	81	5	219	35	26	18	19	1.94
3918050--3918120	33	2.2	33	94	0	124	11	23	16	47	1.79
3918240--3918296	14	3.7	14	75	20	60	43	22	24	8	1.81
3918233--3918312	33	2.4	33	95	0	142	47	22	21	8	1.78
3918330--3918385	14	3.7	14	78	17	67	8	25	23	42	1.82
3918313--3918435	32	3.5	33	83	12	149	12	24	17	45	1.83
3918370--3918434	21	3.1	21	82	4	96	10	26	15	47	1.78
3918369--3918432	20	3.2	20	82	4	92	12	25	15	46	1.81
3920098--3920413	93	3.4	93	99	0	623	22	13	18	45	1.85
3920543--3920601	19	3.4	19	77	22	83	47	30	15	6	1.71
3920511--3920601	33	2.7	33	91	1	137	46	28	16	8	1.77
3920527--3920585	14	3.9	14	74	20	55	47	27	18	6	1.74
3920597--3920769	19	9.6	19	75	12	150	10	19	23	46	1.81
3920597--3920769	33	4.8	38	79	8	159	10	19	23	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3922205--3922240	14	2.6	14	95	0	63	33	0	22	44	1.53
3922347--3922444	19	5.4	19	83	13	134	45	16	22	15	1.84
3922347--3922463	53	2.2	53	96	1	218	44	17	23	14	1.85
3922497--3922551	14	3.6	14	73	21	56	10	23	20	45	1.82
3922439--3922615	86	2.1	86	90	0	273	16	24	18	41	1.90
3922477--3922570	33	2.8	33	98	1	179	12	23	18	45	1.83
3922459--3922667	86	2.3	89	94	4	361	13	23	16	45	1.83
3922462--3922695	72	3.3	72	81	10	297	14	22	17	46	1.84
3922563--3922709	33	4.2	33	81	13	188	13	21	18	46	1.83
3922459--3922728	53	5.1	52	82	10	282	13	22	18	45	1.84
3924994--3925018	12	2.1	12	100	0	50	0	28	0	72	0.86
3925193--3925239	24	2.0	24	87	8	69	38	21	14	25	1.92
3925932--3926161	20	11.5	20	84	1	228	19	17	25	37	1.93
3930791--3930844	20	2.8	19	81	10	56	70	1	12	14	1.25
3930942--3931015	20	3.8	20	75	13	64	72	1	12	13	1.18
3930983--3931032	21	2.4	21	83	10	66	78	2	4	16	1.00
3931021--3931067	10	4.7	10	78	17	53	68	8	2	21	1.27
3931088--3931195	35	3.1	34	81	12	107	66	0	3	29	1.09
3931131--3931196	3	22.3	3	80	11	66	68	0	3	28	1.05
3932103--3932325	105	2.1	106	84	2	279	39	21	15	23	1.92
3937373--3937597	105	2.1	105	85	0	297	38	22	16	23	1.93
3940804--3940842	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3943605--3943660	20	2.8	21	78	10	64	30	30	14	25	1.95
3943677--3943722	20	2.3	20	96	0	83	43	21	21	13	1.86
3943835--3943882	22	2.2	22	92	0	78	16	45	16	20	1.85
3944273--3944323	20	2.5	20	77	0	57	13	17	19	49	1.80
3946022--3946067	21	2.2	21	92	0	74	17	17	30	34	1.93
3946479--3946597	42	2.8	42	81	5	132	21	35	19	23	1.96
3946530--3946600	21	3.4	21	69	9	56	21	40	19	18	1.91
3947784--3947927	66	2.2	65	95	2	254	29	1	18	50	1.55
3947953--3947996	19	2.3	19	100	0	88	45	9	29	15	1.77
3949300--3949336	18	2.1	18	89	0	56	54	8	5	32	1.53
3949722--3949771	25	2.0	25	92	0	82	44	20	8	28	1.79
3949721--3949770	14	3.8	13	72	17	50	44	22	8	26	1.80
3950244--3950278	6	5.8	6	86	0	52	17	2	20	60	1.49
3950237--3950277	18	2.3	18	95	0	73	17	2	24	56	1.53
3952553--3952604	24	2.2	24	82	0	59	36	21	19	23	1.95
3953332--3953369	16	2.5	15	84	12	51	65	0	5	28	1.14
3953526--3953716	20	9.6	20	76	12	126	24	14	26	35	1.94
3953526--3953634	39	2.8	40	80	8	107	27	14	22	34	1.94
3953526--3953637	60	1.9	58	83	3	143	27	14	23	34	1.93
3953806--3953838	14	2.4	14	90	5	50	45	0	0	54	0.99
3957887--3957915	2	14.5	2	100	0	58	48	0	0	51	1.00
3960553--3960710	59	2.7	59	85	2	210	46	6	18	27	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961368--3961500	60	2.2	60	82	7	173	30	21	5	42	1.74
3964671--3965119	166	2.8	162	85	5	567	35	20	21	22	1.96
3971028--3971085	25	2.3	25	96	0	107	17	37	8	36	1.80
3974502--3974568	33	2.1	32	97	2	125	37	2	11	47	1.56
3974622--3974888	3	90.0	3	82	9	244	7	29	1	61	1.33
3975012--3975051	3	13.3	3	94	0	71	65	0	0	35	0.93
3975427--3975510	3	28.3	3	97	2	161	66	0	0	33	0.92
3977836--3977887	25	2.1	25	96	0	95	7	30	11	50	1.67
3983060--3983109	25	2.0	25	100	0	100	40	12	8	40	1.72
3986452--3986795	171	2.0	172	99	0	681	31	17	20	29	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39