genome.fa.s7916.2.7.7.80.10.50.1000.15.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: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3725575

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  15  of  16  ( 1895 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)
3333585--3334031	201	2.2	207	86	6	651	22	25	19	32	1.97
3333585--3334030	102	4.4	102	81	8	498	22	25	19	32	1.97
3334405--3334666	36	7.3	36	86	2	312	20	20	23	35	1.96
3338848--3338872	6	4.2	6	100	0	50	52	16	16	16	1.76
3343313--3343385	28	2.6	28	100	0	146	24	12	43	19	1.85
3350021--3350064	3	15.0	3	85	4	63	29	2	2	65	1.16
3350021--3350070	26	1.9	26	83	0	64	30	4	2	64	1.23
3350504--3350558	26	2.0	26	82	6	65	41	5	30	21	1.76
3352291--3352601	155	2.0	155	94	0	550	27	20	14	36	1.92
3354814--3354981	84	2.0	84	100	0	336	35	16	22	25	1.95
3357515--3357649	36	3.8	36	83	3	164	31	16	12	39	1.86
3357521--3357654	71	1.9	71	88	0	205	28	15	12	43	1.84
3357720--3357829	36	3.1	35	83	6	141	33	17	10	38	1.85
3357867--3357924	31	1.9	31	89	3	91	25	13	18	41	1.88
3358054--3358160	36	2.9	37	78	10	119	36	13	12	38	1.81
3358120--3358210	32	2.8	32	91	1	146	37	10	12	39	1.78
3364162--3364210	25	2.0	25	84	8	64	44	6	10	38	1.63
3365454--3365510	23	2.5	23	91	0	87	49	1	31	17	1.57
3365476--3365639	26	6.2	26	70	18	108	50	1	29	18	1.57
3365476--3365545	35	2.0	35	97	0	131	52	0	32	14	1.41
3365511--3365662	26	6.4	23	82	8	146	48	2	28	21	1.63
3393789--3393818	15	2.0	15	100	0	60	26	6	0	66	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409319--3409343	3	8.3	3	100	0	50	32	0	0	68	0.90
3415767--3415796	15	2.0	15	100	0	60	20	46	20	13	1.83
3421304--3421348	18	2.5	19	86	10	60	31	0	0	68	0.89
3421612--3421647	11	3.5	11	82	17	51	61	0	0	38	0.96
3436801--3436833	15	2.1	16	88	5	50	54	9	0	36	1.32
3440139--3440595	229	2.0	229	94	0	808	30	16	21	32	1.95
3443670--3443738	22	3.1	21	78	13	59	52	4	4	39	1.41
3445135--3445179	19	2.4	19	88	7	65	51	11	8	28	1.68
3446003--3446139	37	4.0	31	89	9	125	35	22	16	24	1.95
3446036--3446174	37	3.8	37	93	0	224	35	18	17	28	1.94
3448134--3448160	2	13.5	2	100	0	54	51	0	0	48	1.00
3448465--3448506	2	21.0	2	100	0	84	50	0	0	50	1.00
3453327--3453789	226	2.1	225	94	2	806	31	15	10	42	1.81
3454348--3454517	60	2.9	59	79	9	159	31	24	4	40	1.74
3454430--3454517	30	3.0	29	69	9	70	31	26	3	38	1.73
3454387--3454521	59	2.3	61	79	8	154	32	27	3	36	1.75
3454639--3454778	60	2.3	59	81	11	160	35	6	22	35	1.80
3456040--3456096	21	2.7	21	76	18	64	75	3	3	17	1.09
3456032--3456095	26	2.4	26	82	7	67	76	4	3	15	1.08
3456427--3456476	26	1.9	26	88	8	75	66	6	2	26	1.26
3456497--3456529	15	2.2	15	89	10	50	81	3	9	6	0.95
3456606--3456662	9	5.9	9	75	15	51	71	0	5	22	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3456685--3456728	18	2.4	19	92	3	72	56	2	2	38	1.24
3456687--3456717	15	2.0	15	93	6	53	61	0	0	38	0.96
3457190--3457226	5	7.4	5	100	0	74	0	59	0	40	0.97
3457827--3457898	2	36.5	2	97	2	137	50	0	0	50	1.00
3458772--3458952	100	1.8	100	86	2	265	22	18	24	34	1.96
3465239--3465310	12	5.9	11	72	16	54	77	4	4	13	1.06
3465239--3465334	26	3.8	25	76	5	79	76	4	5	14	1.12
3465608--3465643	2	18.5	2	94	5	65	50	0	0	50	1.00
3465679--3465737	21	2.7	21	82	10	57	66	5	1	27	1.22
3465732--3465770	15	2.8	14	81	14	53	82	0	7	10	0.86
3465915--3465984	27	2.6	28	84	6	99	55	2	2	38	1.29
3465924--3465967	2	23.5	2	82	13	58	54	2	0	43	1.12
3466240--3466307	26	2.6	28	90	9	94	19	42	5	32	1.75
3466297--3466321	2	12.5	2	100	0	50	0	52	0	48	1.00
3468929--3469075	60	2.5	60	79	10	142	36	16	12	34	1.87
3469283--3469403	60	2.0	60	83	3	154	35	16	18	29	1.93
3475262--3475386	41	3.0	41	88	4	198	18	16	17	47	1.83
3475262--3475386	42	3.0	42	91	1	207	18	16	17	47	1.83
3475608--3475665	21	2.7	22	79	12	59	44	1	0	53	1.10
3475649--3475730	26	3.2	26	71	10	78	48	0	1	50	1.08
3475663--3475702	20	2.1	19	86	13	55	52	0	2	45	1.14
3475836--3475880	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3475920--3475990	29	2.3	29	83	9	88	49	2	0	47	1.16
3475849--3476012	91	1.8	89	80	10	199	51	3	0	45	1.19
3476194--3476236	14	2.9	15	82	6	61	34	13	4	46	1.65
3476178--3476236	29	2.0	29	90	0	91	33	11	5	49	1.62
3476179--3476235	14	4.0	14	77	4	60	35	12	1	50	1.50
3485573--3485602	3	10.0	3	100	0	60	0	33	0	66	0.92
3491209--3491234	7	3.7	7	100	0	52	11	0	0	88	0.52
3493327--3493454	57	2.2	59	80	6	147	43	2	5	48	1.38
3493784--3493809	2	13.0	2	100	0	52	50	0	0	50	1.00
3493987--3494097	55	2.0	55	89	0	168	18	35	9	36	1.84
3494680--3494723	18	2.5	18	85	10	56	68	2	0	29	1.02
3494679--3494723	16	2.7	17	83	12	58	68	2	0	28	1.01
3494726--3494765	15	2.7	15	84	0	53	62	10	0	27	1.27
3496589--3496645	15	3.8	15	75	13	55	24	1	5	68	1.20
3496654--3496692	20	2.0	20	85	10	53	48	0	0	51	1.00
3496966--3497017	27	1.9	27	84	0	68	42	0	1	55	1.10
3500855--3500906	26	2.0	26	96	0	95	48	19	13	19	1.81
3506534--3506741	43	4.8	43	79	9	197	50	5	17	25	1.68
3506560--3506698	46	3.1	46	80	10	135	49	6	20	23	1.72
3506560--3506726	89	1.9	90	83	6	223	49	6	18	25	1.72
3516401--3516461	31	2.0	31	96	0	113	31	9	21	37	1.86
3516407--3516501	31	3.1	31	86	3	111	34	8	18	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3517984--3518018	18	2.0	18	88	5	54	54	5	2	37	1.39
3529121--3529488	183	2.0	183	100	0	736	30	28	15	25	1.96
3536863--3537220	179	2.0	178	97	2	682	17	18	20	43	1.89
3540752--3540850	21	4.8	20	73	13	74	38	22	18	21	1.93
3540817--3541008	20	9.8	20	78	10	191	35	25	19	19	1.95
3540870--3541008	56	2.4	56	81	10	156	32	25	19	23	1.97
3540859--3541001	76	1.9	76	86	5	209	32	25	19	21	1.97
3541376--3541446	33	2.2	33	89	0	106	11	21	18	49	1.78
3541519--3541627	19	5.8	20	73	19	99	45	17	23	12	1.83
3541517--3541627	40	3.0	38	83	12	142	45	17	24	12	1.82
3541519--3541593	21	3.7	21	82	7	100	46	16	24	13	1.82
3541578--3541634	14	3.7	14	75	20	60	43	22	24	8	1.81
3541570--3541650	33	2.5	33	95	0	144	46	22	22	8	1.78
3541646--3541718	19	4.1	19	74	16	84	12	21	20	45	1.84
3552290--3552328	17	2.3	17	95	0	69	7	46	10	35	1.67
3554830--3554920	40	2.4	38	80	9	105	21	20	10	46	1.82
3559556--3559671	42	2.8	42	98	0	223	16	19	19	43	1.87
3559869--3559942	28	2.5	30	83	12	93	50	1	0	48	1.09
3559936--3560028	28	3.2	28	80	13	84	44	1	2	52	1.20
3559952--3560027	28	2.7	28	82	10	93	42	1	1	55	1.16
3560194--3560263	20	3.5	20	96	0	131	35	14	10	40	1.79
3560194--3560272	40	2.0	40	89	0	122	35	15	8	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3560246--3560327	15	5.5	15	88	2	121	35	19	7	37	1.80
3560246--3560327	30	2.8	30	94	1	139	35	19	7	37	1.80
3560246--3560332	45	2.0	44	93	2	147	33	19	6	40	1.78
3563453--3563535	29	2.9	29	74	12	82	30	2	3	63	1.24
3564797--3564839	19	2.3	19	100	0	86	23	16	13	46	1.83
3569961--3570013	21	2.5	22	74	20	58	54	3	0	41	1.18
3571694--3571824	61	2.1	61	97	0	244	32	15	11	41	1.83
3573728--3573753	4	6.5	4	100	0	52	23	0	0	76	0.78
3575864--3575941	33	2.4	33	87	8	106	39	0	1	58	1.06
3576082--3576135	17	3.2	17	72	0	54	31	0	3	64	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16