genome.fa.s8654.2.7.7.80.10.50.1000.17.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2052 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)
3388292--3388329	20	1.9	20	94	0	67	31	39	10	18	1.85
3390234--3390302	30	2.2	30	80	15	77	34	5	15	43	1.71
3390392--3390466	19	4.2	19	72	19	79	21	38	26	13	1.90
3390417--3390444	14	2.0	14	100	0	56	28	28	28	14	1.95
3390492--3390533	21	2.0	21	100	0	84	14	42	28	14	1.84
3390569--3390611	21	2.0	21	95	0	77	23	20	27	27	1.99
3390639--3390678	20	1.9	22	90	10	66	37	37	10	15	1.80
3390893--3390962	34	2.1	32	89	5	104	31	15	31	21	1.95
3392919--3392965	22	2.1	22	96	0	85	55	8	2	34	1.42
3393269--3393346	20	4.1	20	67	18	67	20	38	25	15	1.92
3393275--3393345	36	2.0	36	83	2	90	21	36	25	16	1.94
3393493--3393531	21	1.9	21	89	5	62	41	38	10	10	1.73
3393745--3393814	34	2.1	32	89	5	104	31	15	31	21	1.95
3394738--3394768	11	2.7	12	90	10	55	41	0	0	58	0.98
3401396--3401462	2	35.0	2	88	8	104	49	0	1	49	1.10
3401732--3401889	9	17.7	9	83	9	85	84	3	12	0	0.73
3401737--3401819	8	10.4	8	82	13	57	77	6	16	0	0.97
3401730--3401889	16	8.3	19	80	15	111	85	3	11	0	0.72
3401730--3401891	7	23.1	7	79	14	108	84	3	12	0	0.73
3401743--3401891	15	9.5	15	80	15	90	85	2	12	0	0.70
3401772--3401819	8	5.9	8	88	11	71	75	2	22	0	0.91
3401814--3401881	1	68.0	1	97	0	118	97	0	2	0	0.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3403705--3403837	55	2.5	54	85	3	169	35	15	27	21	1.94
3403867--3403946	20	3.9	19	73	13	70	25	21	23	30	1.99
3403862--3403976	42	2.7	42	85	2	151	25	20	25	29	1.99
3403888--3403956	22	3.2	22	66	15	63	26	17	26	30	1.97
3404132--3404222	42	2.2	42	87	0	128	23	23	24	29	1.99
3404163--3404238	20	3.7	20	72	16	57	22	26	25	26	2.00
3404163--3404245	42	2.0	42	85	4	114	22	24	25	27	2.00
3403812--3404513	252	2.8	253	86	3	971	27	18	22	31	1.97
3404930--3404958	10	2.7	11	89	10	51	65	34	0	0	0.93
3409109--3409507	45	9.8	43	69	24	235	36	11	24	27	1.89
3409154--3409455	34	7.9	34	71	21	190	36	11	24	27	1.90
3409097--3409464	79	4.7	79	93	1	603	37	10	24	27	1.89
3409437--3409612	93	1.9	93	86	2	255	43	10	21	25	1.84
3409437--3409612	46	3.8	47	91	0	257	43	10	21	25	1.84
3409567--3409604	20	1.9	20	88	0	58	39	13	26	21	1.89
3410103--3410142	2	20.0	2	100	0	80	50	0	0	50	1.00
3412483--3412521	3	13.0	3	94	0	60	38	0	0	61	0.96
3413284--3413399	38	3.1	36	79	10	126	37	16	12	34	1.86
3413276--3413393	37	3.2	37	83	8	134	37	15	11	36	1.83
3413435--3413672	131	1.8	130	84	8	331	28	30	16	25	1.97
3413954--3414055	3	35.3	3	94	5	176	33	0	0	66	0.92
3415532--3415658	30	4.3	31	74	4	111	18	12	9	59	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3415526--3415658	60	2.2	59	83	1	167	18	12	9	58	1.61
3417324--3417384	16	3.4	16	70	23	50	37	6	18	37	1.76
3417334--3417396	19	3.3	19	70	24	60	30	9	17	42	1.81
3417321--3417403	38	2.2	38	97	0	157	37	7	16	38	1.77
3417340--3417403	22	3.2	22	66	25	68	35	7	18	37	1.80
3420162--3420202	21	2.0	21	85	0	55	39	17	17	26	1.91
3420623--3420663	16	2.6	15	88	7	55	51	26	0	21	1.48
3421327--3421480	67	2.3	66	81	6	177	25	16	14	42	1.87
3421430--3421473	21	2.2	20	83	4	52	18	18	15	47	1.83
3421374--3421509	67	2.1	65	84	10	183	27	16	14	41	1.87
3421482--3421617	36	3.7	38	87	5	174	36	16	11	35	1.86
3422039--3422109	3	24.0	3	97	2	135	33	0	0	66	0.92
3429079--3429401	160	2.0	161	97	1	614	36	14	15	33	1.88
3429603--3429634	16	1.9	17	93	6	57	21	37	0	40	1.54
3429860--3429921	23	2.8	21	81	13	72	77	3	11	8	1.09
3429846--3429904	28	2.1	29	83	3	75	74	3	13	8	1.17
3438565--3438610	23	2.0	24	91	4	76	23	23	28	23	2.00
3438569--3438625	23	2.5	22	80	2	60	21	24	28	26	1.99
3442092--3442134	18	2.4	18	100	0	86	30	6	16	46	1.73
3444396--3444450	21	2.6	21	97	2	101	14	21	45	18	1.85
3447219--3447278	21	2.9	21	73	9	59	51	10	35	3	1.52
3451446--3451480	16	2.2	16	90	5	54	42	0	2	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3452844--3452886	21	2.0	21	100	0	86	32	20	9	37	1.85
3453978--3454010	12	2.6	13	85	9	50	36	15	12	36	1.84
3456688--3456735	18	2.6	19	83	9	64	41	2	0	56	1.11
3456689--3456728	15	2.7	14	88	7	53	42	2	0	55	1.13
3458218--3458249	2	16.0	2	100	0	64	50	0	0	50	1.00
3464298--3464884	259	2.3	258	86	2	840	30	17	17	33	1.94
3465006--3465057	3	17.0	3	92	4	86	32	1	0	65	1.04
3465607--3465673	33	2.0	33	83	11	84	55	13	16	14	1.70
3468984--3469340	98	3.7	96	84	5	425	34	13	22	28	1.92
3468959--3469340	49	7.8	48	77	7	295	34	13	23	29	1.92
3471122--3471168	24	2.0	24	86	0	67	36	12	8	42	1.74
3471594--3471661	2	35.0	2	92	5	113	51	0	0	48	1.00
3473005--3473075	34	2.1	34	91	0	115	50	7	19	22	1.71
3476999--3477043	23	2.0	23	90	0	72	44	0	17	37	1.49
3477788--3477835	23	2.3	20	82	13	53	20	8	12	58	1.60
3479411--3479483	20	3.6	20	75	15	69	52	2	2	42	1.30
3480447--3480556	51	2.2	51	84	0	139	21	30	32	15	1.94
3480537--3480614	40	2.0	40	87	5	113	16	26	35	20	1.94
3480762--3480807	23	2.0	24	86	4	67	32	2	2	63	1.19
3486660--3486729	30	2.3	30	97	0	131	22	5	38	32	1.78
3500860--3500893	17	2.1	17	88	5	52	38	8	0	52	1.33
3501806--3501906	31	3.2	32	79	5	107	39	28	10	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3502625--3502676	20	2.5	21	81	3	61	40	19	23	17	1.91
3503294--3503335	19	2.2	19	86	0	57	50	28	16	4	1.66
3503331--3503474	19	8.1	19	75	17	148	11	22	20	45	1.83
3503380--3503446	32	2.1	32	91	0	107	11	20	23	43	1.85
3503331--3503467	52	2.6	51	91	2	211	11	22	21	44	1.84
3504926--3505056	63	2.1	63	98	0	253	20	18	36	24	1.95
3505680--3505746	21	3.2	21	66	6	55	23	35	20	19	1.95
3505628--3505746	42	2.8	42	81	5	107	22	36	18	22	1.95
3507102--3507138	14	2.6	14	88	12	58	29	0	21	48	1.50
3507245--3507291	19	2.5	19	96	0	85	44	21	21	12	1.85
3507320--3507446	33	3.9	32	86	8	184	14	22	19	43	1.88
3507316--3507446	19	7.7	19	64	23	85	14	22	19	43	1.87
3507313--3507445	66	2.0	66	95	0	239	16	21	19	42	1.89
3509738--3509762	12	2.1	12	100	0	50	0	28	0	72	0.86
3509868--3509921	24	2.2	24	90	0	81	38	20	16	24	1.92
3510976--3511013	20	1.9	20	94	0	67	39	23	21	15	1.92
3511032--3511098	19	3.8	19	86	13	99	13	20	17	47	1.81
3511013--3511127	52	2.2	52	80	0	122	19	20	21	38	1.94
3511216--3511252	14	2.6	14	86	0	56	48	21	0	29	1.50
3513122--3513186	19	3.5	19	82	4	87	38	23	23	15	1.92
3513175--3513232	14	3.9	14	79	16	71	48	25	17	8	1.75
3513119--3513237	32	3.5	32	80	13	141	44	23	20	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3513260--3513323	14	4.4	14	80	16	76	10	15	23	50	1.76
3513249--3513339	32	2.8	33	93	3	157	12	17	21	48	1.80
3513326--3513396	20	3.5	20	94	0	115	14	22	23	39	1.91
3513879--3513923	18	2.5	18	88	0	72	13	15	44	26	1.83
3515241--3515278	20	1.9	20	88	0	58	50	21	15	13	1.78
3515542--3515585	22	2.0	22	90	0	70	20	15	43	20	1.88
3515753--3515850	41	2.4	41	82	0	133	22	15	22	39	1.91
3515836--3515928	20	4.5	21	78	4	100	17	24	18	39	1.91
3515836--3515928	41	2.3	41	100	0	150	17	24	18	39	1.91
3516617--3516752	68	2.0	68	100	0	272	33	10	10	45	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18