genome.fa.s7721.2.7.7.80.10.50.1000.14.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

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

This is table  14  of  16  ( 1904 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)
3075158--3075183	4	6.5	4	100	0	52	0	0	26	73	0.84
3076405--3076451	16	2.9	16	81	12	60	36	4	0	59	1.17
3076346--3076437	25	3.6	25	72	12	64	35	6	3	54	1.43
3076575--3076632	20	2.9	20	92	0	98	39	12	24	24	1.89
3078547--3078609	24	2.6	25	72	7	67	44	11	11	33	1.75
3079298--3079347	26	1.9	26	84	8	66	32	4	4	60	1.34
3081924--3081960	14	2.4	16	78	21	51	37	8	8	45	1.63
3081932--3081960	14	2.1	14	100	0	58	37	6	6	48	1.57
3082487--3082513	12	2.2	12	100	0	54	22	37	0	40	1.54
3082781--3083180	203	2.0	203	87	1	577	46	11	13	29	1.78
3082973--3083644	182	3.7	182	84	1	862	45	12	13	28	1.80
3082964--3083644	364	1.9	364	87	3	1021	46	12	13	28	1.79
3084085--3084129	23	2.0	23	90	0	72	40	20	6	33	1.78
3084001--3084163	87	1.9	87	96	0	299	32	15	11	39	1.84
3084827--3084865	18	2.0	20	90	9	64	43	0	0	56	0.99
3084891--3084940	23	2.2	23	89	7	75	44	0	0	56	0.99
3088169--3088226	20	2.9	20	100	0	116	39	10	25	24	1.87
3089187--3089279	39	2.4	39	85	1	125	33	18	2	46	1.61
3090092--3090132	21	2.0	21	90	0	64	26	31	12	29	1.92
3090678--3090717	19	2.0	21	90	9	66	57	0	32	10	1.32
3094223--3094260	20	1.9	20	89	10	60	21	2	26	50	1.62
3101126--3101172	16	2.9	16	76	14	51	23	21	0	55	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3102586--3102695	39	2.8	39	91	1	168	43	15	6	34	1.72
3102661--3102808	57	2.6	56	90	4	226	44	15	4	35	1.65
3102586--3102993	190	2.2	185	83	9	497	43	13	6	36	1.70
3103008--3103090	43	1.9	44	83	11	109	40	8	4	45	1.56
3103051--3103280	58	3.9	58	82	4	241	40	12	7	40	1.72
3102893--3103190	159	1.9	155	81	8	361	42	11	7	38	1.69
3103047--3103269	117	1.9	116	83	4	288	39	12	7	39	1.72
3103457--3103646	45	4.2	45	77	6	170	39	15	9	35	1.80
3103469--3103648	90	2.0	90	82	2	218	39	16	8	36	1.78
3105891--3105918	2	14.0	2	100	0	56	50	0	0	50	1.00
3106135--3106166	2	16.5	2	93	6	57	53	0	0	46	1.00
3110084--3110130	9	5.4	9	82	7	62	44	34	0	21	1.52
3110086--3110130	17	2.6	17	96	3	81	42	35	0	22	1.54
3111933--3111980	23	2.1	23	88	7	71	29	25	22	22	1.99
3115598--3115636	20	2.0	20	85	10	53	28	15	10	46	1.78
3115746--3115786	21	1.9	22	90	5	66	29	4	7	58	1.46
3122554--3122601	22	2.2	22	100	0	96	35	29	12	22	1.91
3132310--3132353	21	2.1	21	86	0	61	54	13	11	20	1.69
3153315--3153355	21	2.0	21	100	0	82	34	14	31	19	1.92
3153315--3153363	21	2.3	21	92	0	80	30	18	32	18	1.95
3158736--3158796	14	4.6	13	72	15	54	78	3	16	1	0.96
3158741--3158796	13	4.4	12	78	13	51	78	3	16	1	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3159862--3159977	32	3.7	30	76	13	119	29	13	19	37	1.91
3159880--3159959	28	2.7	29	86	7	108	30	12	18	38	1.88
3160555--3160875	106	3.0	105	88	1	455	34	23	18	22	1.96
3161245--3161331	37	2.4	37	84	1	104	25	20	14	39	1.91
3161134--3161312	87	2.1	87	94	0	313	32	18	12	35	1.89
3161221--3161460	102	2.4	102	89	0	363	32	17	12	37	1.87
3161361--3161433	37	2.0	37	88	0	110	27	15	12	45	1.81
3161505--3161599	34	2.7	36	88	8	149	28	21	11	38	1.88
3161613--3161727	36	3.2	35	85	7	149	26	18	14	40	1.89
3162892--3162937	23	2.0	23	82	4	56	17	8	4	69	1.31
3162916--3162950	18	1.9	18	88	0	52	20	2	2	74	1.08
3162991--3163031	2	20.5	2	94	0	73	46	0	0	53	1.00
3163059--3163104	23	2.0	23	83	8	58	13	10	0	76	1.03
3165980--3166033	21	2.7	20	82	8	65	35	20	18	25	1.95
3180422--3180467	20	2.3	19	85	14	58	50	8	15	26	1.73
3184954--3185004	18	2.6	20	78	9	52	29	17	25	27	1.98
3185863--3185910	24	2.0	24	83	0	60	37	20	20	20	1.95
3185900--3185943	21	2.0	22	86	4	63	34	27	20	18	1.96
3186850--3186918	20	3.5	20	95	0	129	24	20	15	39	1.92
3192731--3192778	24	2.0	24	100	0	96	37	25	20	16	1.93
3212803--3212918	18	6.4	18	88	0	169	27	28	23	20	1.99
3212803--3212918	54	2.1	54	93	0	205	27	28	23	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223859--3223973	6	19.3	6	70	14	69	2	18	3	75	1.06
3223867--3223920	22	2.4	23	87	12	85	3	18	3	74	1.12
3223853--3223971	34	3.6	32	80	17	111	3	18	3	74	1.09
3223855--3223951	18	5.6	18	72	11	76	4	16	3	76	1.07
3223856--3223962	17	5.9	19	74	17	79	2	16	3	76	1.05
3223890--3223973	18	4.8	17	80	13	100	2	16	3	77	1.02
3232627--3232741	60	1.9	60	82	3	142	32	17	5	45	1.71
3238849--3238893	22	2.0	24	86	8	67	57	6	2	33	1.37
3240955--3241074	43	2.8	43	81	0	141	30	18	25	25	1.98
3241059--3241210	43	3.5	42	79	4	151	24	20	20	34	1.96
3241606--3241714	21	5.2	21	79	2	94	3	41	15	39	1.65
3245317--3245404	41	2.1	41	85	0	113	31	18	14	35	1.91
3246805--3246923	41	2.9	42	85	3	154	31	17	14	36	1.90
3246805--3246942	41	3.4	39	81	7	143	34	17	13	34	1.89
3246929--3247061	42	3.2	42	73	11	139	27	15	18	38	1.91
3249298--3249326	13	2.1	14	93	6	51	75	0	3	20	0.94
3251210--3251248	19	2.2	18	86	9	53	71	5	2	20	1.17
3254689--3254889	103	2.0	103	87	2	296	23	13	19	43	1.86
3257021--3257075	22	2.6	21	85	2	74	74	3	1	20	1.06
3257021--3257077	5	10.8	5	75	17	53	73	3	1	21	1.07
3277344--3277424	24	3.4	25	80	8	98	37	17	1	44	1.57
3278147--3278343	108	1.8	108	88	0	304	38	23	11	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278247--3279062	122	6.7	121	80	2	657	34	21	14	29	1.93
3278247--3279062	244	3.3	242	79	3	807	34	21	14	29	1.93
3278355--3279061	366	1.9	365	79	2	783	33	21	15	29	1.94
3279808--3279855	3	16.7	3	80	8	55	35	2	0	62	1.07
3289099--3289151	18	2.9	18	88	5	81	32	33	16	16	1.92
3289403--3289431	2	14.5	2	100	0	58	51	48	0	0	1.00
3289431--3289456	2	13.0	2	100	0	52	50	0	0	50	1.00
3293202--3293282	23	3.6	22	76	8	83	24	22	25	27	2.00
3293202--3293263	21	2.8	22	80	4	72	22	24	24	29	1.99
3293205--3293302	44	2.2	44	82	10	112	26	20	24	28	1.99
3299081--3299288	65	3.2	65	82	9	230	25	18	24	31	1.97
3302660--3302725	23	2.9	23	75	8	80	31	21	25	21	1.98
3302828--3302911	15	5.7	15	85	2	116	45	21	3	29	1.69
3304391--3304420	2	15.0	2	100	0	60	50	0	0	50	1.00
3304584--3305223	81	7.9	81	91	2	977	29	21	11	37	1.89
3304584--3305220	323	2.0	324	90	1	1019	29	21	11	38	1.88
3305211--3305359	68	2.2	68	91	0	244	28	24	16	29	1.97
3305575--3305713	56	2.5	53	80	9	154	33	19	12	34	1.90
3306185--3306226	21	2.0	21	95	0	75	23	21	28	26	1.99
3306255--3306294	20	1.9	21	85	10	55	37	37	10	15	1.80
3307092--3307136	22	2.1	21	84	8	56	33	22	13	31	1.92
3314041--3314118	27	2.8	27	76	7	77	37	2	3	56	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3314310--3314389	26	3.0	27	80	14	94	53	1	3	41	1.27
3314289--3314378	25	3.6	25	80	15	89	55	1	3	40	1.24
3314332--3314392	25	2.5	24	86	5	77	52	1	4	40	1.33
3329639--3329668	5	5.8	5	92	7	51	83	0	0	16	0.65
3329636--3329668	11	3.1	11	91	8	59	81	0	0	18	0.68
3331764--3331789	13	2.0	13	100	0	52	23	0	30	46	1.53
3342241--3342400	65	2.5	63	82	6	187	31	24	16	27	1.96
3345515--3345547	17	2.0	17	88	5	50	36	6	15	42	1.71
3346015--3346073	25	2.4	25	94	2	102	16	20	38	23	1.92
3346260--3346284	2	12.5	2	100	0	50	48	0	0	52	1.00

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