genome.fa.s8138.2.7.7.80.10.50.1000.15.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

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

This is table  15  of  18  ( 2117 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)
3098030--3098117	46	1.9	46	88	4	133	61	9	2	27	1.38
3098991--3099057	2	33.5	2	96	0	125	49	0	0	50	1.00
3099563--3099649	26	3.5	23	69	25	61	8	13	0	78	0.96
3099552--3099635	32	2.7	32	80	10	104	8	14	0	77	0.99
3099576--3099650	23	3.3	23	80	19	86	9	13	0	77	0.99
3106211--3106253	22	2.0	22	95	0	77	37	11	4	46	1.61
3109695--3109744	21	2.4	21	89	0	73	16	2	46	36	1.58
3109692--3109744	24	2.2	24	93	0	88	15	1	47	35	1.56
3109689--3109740	27	1.9	27	92	0	86	15	1	46	36	1.57
3114629--3114671	8	5.0	8	84	15	59	83	11	4	0	0.78
3114630--3114672	9	4.8	9	83	11	61	86	9	4	0	0.71
3114639--3114680	19	2.2	19	91	8	68	78	11	9	0	0.96
3129082--3129131	25	2.0	25	96	0	91	52	10	12	26	1.70
3135935--3136073	36	3.9	36	91	0	215	41	13	17	27	1.87
3141195--3141224	3	9.7	3	92	7	51	66	0	0	33	0.92
3141262--3141362	14	7.2	14	69	18	68	59	3	0	36	1.16
3141257--3141323	23	3.0	22	75	14	66	58	1	0	40	1.07
3141259--3141421	35	4.7	33	75	12	125	57	3	1	37	1.25
3141195--3141364	15	12.4	14	67	23	71	55	4	2	38	1.32
3141274--3141385	56	2.0	57	80	5	129	60	3	0	34	1.20
3150161--3150194	15	2.3	15	100	0	68	20	23	23	32	1.98
3151783--3152356	81	7.1	81	89	0	815	35	11	20	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3156355--3156395	21	2.0	21	85	9	57	17	12	9	60	1.57
3160874--3160910	3	12.3	3	94	0	56	35	5	0	59	1.20
3162303--3162492	101	1.9	101	84	6	262	36	15	10	37	1.82
3162303--3162564	95	2.7	97	78	10	250	34	15	12	37	1.85
3163804--3163857	22	2.6	21	88	8	83	27	11	33	27	1.91
3164292--3164503	45	4.7	45	81	2	264	37	9	21	31	1.85
3164292--3164549	45	5.7	45	78	4	225	38	8	20	31	1.84
3164296--3164549	135	1.9	135	81	1	312	38	9	20	31	1.84
3165309--3165336	2	14.0	2	100	0	56	50	0	0	50	1.00
3167690--3167805	45	2.5	46	88	4	173	30	17	18	34	1.93
3169717--3169741	10	2.5	10	100	0	50	52	8	8	32	1.60
3169830--3170041	45	4.7	45	85	0	253	38	10	21	29	1.87
3169830--3170080	45	5.6	45	81	3	231	38	10	20	30	1.86
3169830--3170080	135	1.9	134	81	6	310	38	10	20	30	1.86
3170578--3170706	68	1.9	68	80	0	150	30	10	26	33	1.89
3171483--3171877	139	2.8	139	88	0	583	35	17	20	26	1.95
3171857--3171958	42	2.5	42	85	7	129	27	22	20	29	1.99
3173521--3173579	29	2.0	29	87	9	84	27	16	0	55	1.41
3175257--3175281	12	2.1	12	100	0	50	28	32	24	16	1.96
3177191--3177310	28	4.3	28	94	4	199	40	0	18	41	1.50
3177191--3177339	56	2.6	56	86	7	203	40	0	16	42	1.53
3177293--3177455	29	5.6	29	82	7	165	38	4	9	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3177319--3177455	58	2.4	58	85	4	188	37	5	8	48	1.57
3179434--3179537	11	9.5	11	67	23	51	58	1	0	38	1.16
3179431--3179470	15	2.7	15	88	7	55	62	0	0	37	0.95
3179429--3179499	26	2.6	27	82	12	76	56	1	1	40	1.17
3179431--3179617	7	25.7	7	70	18	82	56	3	0	39	1.21
3179426--3179582	50	3.1	52	81	11	159	56	3	0	38	1.22
3179505--3179604	39	2.6	40	76	13	111	58	4	0	38	1.17
3179432--3179560	2	69.5	2	68	24	61	55	3	0	40	1.21
3179441--3179617	19	10.3	17	70	22	77	55	3	0	39	1.22
3181287--3181317	2	15.5	2	100	0	62	48	0	0	51	1.00
3185079--3185171	21	4.5	21	78	4	100	39	18	24	17	1.91
3185079--3185171	41	2.3	41	100	0	186	39	18	24	17	1.91
3185098--3185232	41	3.3	41	84	4	148	37	21	20	20	1.94
3185160--3185253	20	4.7	20	80	7	91	32	25	17	24	1.96
3185441--3185484	22	2.0	22	95	0	79	20	45	15	18	1.85
3187020--3187064	18	2.5	18	85	0	63	26	46	15	11	1.79
3187537--3187590	20	2.8	20	81	13	67	38	25	20	14	1.91
3187575--3187629	14	3.6	14	77	17	65	45	27	18	9	1.79
3187555--3187646	32	2.8	32	91	5	139	43	25	20	10	1.84
3187586--3187651	19	3.8	19	71	22	72	46	22	19	10	1.80
3187663--3187720	14	3.9	14	79	16	71	8	17	25	48	1.75
3187658--3187736	32	2.4	33	95	2	142	10	18	24	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187677--3187794	20	6.4	19	77	11	95	13	20	24	41	1.88
3189764--3189917	19	8.6	19	86	12	220	46	18	22	13	1.84
3189764--3189917	52	2.9	52	93	4	245	46	18	22	13	1.84
3189781--3189912	71	1.9	69	92	7	225	48	17	20	13	1.81
3191009--3191062	24	2.2	24	90	0	81	24	16	20	38	1.92
3191237--3191261	12	2.1	12	100	0	50	72	0	28	0	0.86
3193550--3193679	19	7.7	19	65	24	85	43	20	22	14	1.88
3193550--3193675	33	3.8	33	87	5	193	42	19	22	15	1.88
3193551--3193682	66	2.0	65	95	1	237	41	19	21	16	1.90
3193859--3193895	14	2.6	14	91	0	65	45	24	0	29	1.53
3195252--3195318	21	3.2	21	68	4	55	19	20	35	23	1.95
3195252--3195374	42	2.9	41	80	7	113	22	17	36	22	1.95
3197378--3197470	19	5.1	19	71	15	70	43	20	22	13	1.87
3198041--3198134	20	4.7	20	80	7	91	24	17	25	32	1.96
3198123--3198215	20	4.5	21	78	4	100	17	24	18	39	1.91
3198062--3198196	41	3.3	41	84	4	148	20	20	21	37	1.94
3198123--3198215	41	2.3	41	100	0	186	17	24	18	39	1.91
3203407--3203433	11	2.5	11	100	0	54	7	11	0	81	0.87
3203511--3203538	12	2.3	12	100	0	56	7	32	14	46	1.71
3204117--3204156	20	2.0	20	85	9	55	25	0	7	67	1.16
3205045--3205164	60	2.0	60	85	3	161	28	24	21	25	1.99
3207500--3207560	26	2.3	26	83	11	70	67	4	3	24	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3211449--3211497	22	2.2	22	85	0	62	59	14	6	20	1.56
3215343--3215384	16	2.6	16	81	11	50	28	4	2	64	1.26
3215354--3215383	15	1.9	16	93	6	53	23	6	0	70	1.11
3215569--3215604	16	2.2	17	90	5	56	47	5	0	47	1.25
3215568--3215606	17	2.3	18	82	13	55	48	5	0	46	1.24
3215751--3215807	30	1.9	30	88	0	87	21	7	28	43	1.78
3222385--3222419	16	2.1	17	89	5	54	42	22	0	34	1.54
3222850--3222949	34	2.9	34	84	4	119	49	16	4	31	1.64
3224531--3224561	6	5.2	6	100	0	62	48	51	0	0	1.00
3231938--3231997	31	1.9	31	82	0	75	41	13	25	20	1.88
3232798--3232858	32	1.9	32	86	0	86	36	1	26	36	1.66
3234778--3234839	29	2.1	29	82	5	72	17	9	6	66	1.42
3237210--3237275	26	2.6	26	73	4	64	74	0	9	16	1.06
3237238--3237284	15	2.7	18	75	18	55	72	0	2	25	0.96
3237258--3237364	17	6.2	17	65	13	51	71	1	3	23	1.13
3237311--3237378	23	2.9	22	75	16	57	75	1	5	17	1.08
3238756--3238841	34	2.6	34	92	3	149	29	6	20	43	1.78
3238829--3239022	37	5.2	37	96	0	352	34	13	23	28	1.93
3239448--3239651	110	1.9	110	88	0	309	22	18	23	35	1.95
3240962--3241188	95	2.6	85	74	18	219	31	19	18	30	1.95
3241020--3241201	95	1.9	95	89	2	285	31	19	17	32	1.94
3243264--3243351	45	1.9	46	90	2	142	29	18	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3249804--3249841	15	2.5	15	100	0	76	23	5	13	57	1.56
3251916--3251985	20	3.5	20	100	0	140	17	20	28	34	1.95
3254758--3254812	27	1.9	27	85	10	74	74	1	3	20	1.06
3254725--3254812	38	2.5	36	82	15	112	72	3	5	18	1.18
3254836--3254998	6	25.3	6	71	17	55	73	0	3	23	1.00
3254837--3254914	23	3.4	23	71	11	61	75	0	6	17	1.00
3254900--3254959	3	20.7	3	80	19	58	68	0	0	31	0.90
3254877--3254998	17	6.8	19	68	15	73	72	0	0	27	0.91
3256060--3256180	38	3.5	37	67	23	109	56	12	6	24	1.60
3256021--3256200	65	2.7	65	81	4	218	53	13	6	26	1.63

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