genome.fa.s9587.2.7.7.80.10.50.1000.14.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  14  of  29  ( 3457 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)
3115754--3116068	55	5.7	55	83	0	362	34	9	14	41	1.79
3115751--3116068	165	1.9	164	86	0	447	34	10	14	41	1.79
3116349--3116586	73	3.2	73	85	3	291	31	18	10	39	1.84
3116393--3116586	37	5.3	36	67	11	106	32	18	9	39	1.83
3116456--3116586	34	3.6	34	69	18	102	33	16	9	40	1.81
3117012--3117660	139	4.7	139	92	0	1091	35	18	21	25	1.95
3117846--3117888	18	2.4	18	88	0	68	41	25	20	11	1.86
3118612--3118741	61	2.1	61	83	5	156	27	12	16	43	1.84
3119165--3119212	15	3.3	15	75	21	57	29	0	4	66	1.10
3119159--3119225	28	2.6	25	82	13	89	31	1	2	64	1.18
3119154--3119217	28	2.2	28	88	2	92	29	1	4	64	1.23
3119154--3119222	32	2.1	35	81	13	83	30	1	4	63	1.22
3122022--3122059	20	1.9	20	94	0	67	50	2	18	28	1.61
3122025--3122070	20	2.3	20	84	0	56	47	8	17	26	1.76
3127577--3127630	24	2.2	25	83	3	65	46	5	14	33	1.68
3127863--3127911	20	2.5	19	90	9	80	46	26	14	12	1.79
3128059--3128109	22	2.3	22	75	0	57	19	45	15	19	1.86
3128451--3128489	20	2.0	20	89	0	60	48	17	12	20	1.80
3130039--3130136	42	2.3	42	85	0	124	30	33	17	18	1.94
3130373--3130412	21	1.9	21	89	0	62	20	12	27	40	1.88
3130712--3130767	21	2.7	21	86	5	78	25	35	16	23	1.94
3132334--3132516	20	8.8	20	70	14	102	18	18	21	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3132718--3132753	18	2.0	18	88	0	54	19	2	22	55	1.56
3135021--3135074	24	2.2	24	93	0	90	40	20	18	20	1.91
3135021--3135088	24	2.8	24	84	0	64	38	20	17	23	1.93
3135795--3135832	16	2.5	15	84	12	51	65	0	5	28	1.14
3135966--3136017	18	2.7	20	82	11	72	34	7	21	36	1.82
3135970--3136056	20	4.4	20	77	9	90	37	10	21	29	1.87
3135970--3136079	40	2.8	40	81	8	127	39	10	20	30	1.85
3135990--3136067	40	2.0	40	92	0	129	38	11	20	29	1.88
3136071--3136117	20	2.3	20	78	7	51	38	12	25	23	1.90
3136151--3136259	20	5.4	21	80	6	102	26	12	29	31	1.93
3136268--3136309	19	2.2	19	86	0	57	28	21	23	26	1.99
3136275--3136321	19	2.5	19	96	0	85	25	14	27	31	1.95
3136435--3136482	18	2.8	18	79	17	57	54	4	0	41	1.20
3137209--3137240	16	2.0	16	100	0	64	50	12	12	25	1.75
3139914--3139948	18	1.9	18	88	0	52	57	0	0	42	0.99
3140814--3141155	170	2.0	171	99	0	677	31	18	21	28	1.97
3151995--3152282	46	6.3	46	79	13	267	45	11	24	19	1.83
3151995--3152184	72	2.6	72	92	1	319	46	11	23	18	1.81
3152042--3152097	26	2.2	26	90	0	85	53	7	19	19	1.68
3152081--3152275	20	8.9	20	78	14	140	43	12	26	17	1.84
3152099--3152164	26	2.5	26	100	0	132	43	12	25	18	1.84
3157121--3157192	29	2.5	29	81	0	90	33	18	19	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3157121--3157202	29	2.8	29	83	3	85	32	18	19	29	1.95
3161755--3161797	12	3.7	12	84	3	52	53	2	0	44	1.13
3162426--3162869	128	3.5	127	97	2	840	22	25	20	31	1.98
3164154--3164191	19	2.0	20	85	15	53	50	0	5	44	1.24
3164255--3164284	3	10.0	3	100	0	60	33	0	0	66	0.92
3167777--3167859	40	2.1	40	100	0	166	24	16	16	42	1.89
3170431--3170465	14	2.5	14	90	0	52	34	8	20	37	1.83
3170579--3170657	24	3.2	26	69	20	62	49	2	0	48	1.14
3170596--3170634	20	1.9	20	89	5	60	43	2	0	53	1.14
3170652--3170697	14	3.2	14	81	3	56	47	0	0	52	1.00
3170558--3170682	47	2.5	52	70	18	120	48	2	0	48	1.14
3170805--3170885	19	4.3	19	72	20	64	48	1	2	48	1.23
3172237--3172410	75	2.4	71	80	5	199	23	24	24	27	2.00
3175906--3176031	53	2.3	52	79	10	128	30	16	25	26	1.97
3176619--3176671	19	2.8	18	85	8	61	62	20	0	16	1.33
3183449--3183606	79	2.0	79	100	0	316	37	8	25	27	1.86
3184370--3184581	38	5.6	38	93	1	325	24	24	26	25	2.00
3184482--3184550	23	3.3	23	66	26	71	26	20	30	23	1.98
3184370--3184581	115	1.9	114	89	1	334	24	24	26	25	2.00
3186750--3186895	55	2.7	55	81	2	168	28	18	25	28	1.98
3189725--3189814	45	2.0	45	100	0	180	28	28	8	33	1.87
3191815--3191859	23	2.0	23	86	0	63	24	24	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191827--3192147	155	2.1	149	94	4	554	33	21	18	26	1.97
3193012--3193046	18	1.9	18	88	11	54	22	17	5	54	1.64
3196986--3197030	23	2.0	23	90	0	72	24	26	26	22	2.00
3197006--3197318	155	2.1	149	95	3	554	33	22	17	27	1.96
3198193--3198227	18	1.9	18	88	11	54	22	17	5	54	1.64
3198808--3198852	21	2.1	21	87	0	63	15	24	28	31	1.96
3201746--3201863	58	2.0	58	100	0	236	34	10	22	33	1.87
3201756--3201876	58	2.1	58	90	3	190	37	12	19	30	1.89
3202277--3202314	20	1.9	19	89	5	58	71	5	2	21	1.19
3205276--3205309	17	2.1	16	88	5	50	76	0	8	14	1.01
3205785--3205831	24	2.0	24	83	8	60	57	12	2	27	1.47
3209099--3209142	20	2.2	20	84	4	63	65	2	15	15	1.36
3209603--3209901	150	2.0	146	96	3	546	27	22	20	28	1.99
3214674--3214716	21	2.0	21	100	0	86	27	27	25	18	1.98
3215186--3215220	18	2.0	18	94	5	63	80	8	0	11	0.92
3215601--3215634	17	2.1	16	88	5	50	76	0	8	14	1.01
3216109--3216155	24	2.0	24	83	8	60	57	12	2	27	1.47
3216608--3216658	24	2.1	24	100	0	102	11	27	39	21	1.88
3223393--3223438	12	3.6	12	81	16	56	45	17	19	17	1.85
3223399--3223439	12	3.1	13	80	19	57	46	14	17	21	1.84
3225613--3225652	21	1.9	21	94	0	71	30	15	7	47	1.72
3225647--3225745	33	3.0	33	94	1	164	32	7	15	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3225731--3225785	13	4.2	13	75	13	58	34	3	12	49	1.59
3225981--3226037	21	2.7	21	91	0	96	19	26	26	28	1.99
3234965--3235044	29	2.7	30	86	7	94	36	20	3	40	1.70
3234988--3235044	29	2.0	29	96	0	105	36	21	5	36	1.76
3236144--3236211	20	3.4	19	81	16	75	26	35	16	22	1.94
3251983--3252292	140	2.2	139	85	6	405	31	12	12	43	1.80
3252361--3252616	138	1.9	135	84	2	307	30	11	15	43	1.81
3255759--3255793	7	5.1	7	86	6	54	40	2	17	40	1.64
3257140--3257203	33	1.9	33	90	0	101	1	23	28	46	1.61
3260019--3260080	33	1.9	32	83	9	81	33	8	1	56	1.38
3267762--3268154	37	11.0	37	74	16	273	46	3	5	44	1.44
3267850--3267910	27	2.4	25	81	10	77	45	1	4	47	1.34
3267861--3267975	27	3.9	27	73	22	104	46	2	5	45	1.39
3267824--3268092	65	4.0	64	86	10	351	47	2	4	44	1.39
3267926--3267994	27	2.5	27	81	9	68	47	2	5	43	1.42
3268136--3268163	2	14.0	2	100	0	56	50	0	0	50	1.00
3268062--3268333	90	3.1	88	86	9	369	45	3	3	47	1.38
3268226--3268257	2	16.5	2	93	6	57	50	0	0	50	1.00
3268350--3268401	26	2.0	27	84	3	70	26	0	3	69	1.06
3272573--3273727	85	13.6	85	82	2	1286	35	20	18	25	1.95
3272423--3273727	256	5.2	255	83	3	1474	35	20	18	25	1.96
3272423--3273727	171	7.7	169	84	3	1418	35	20	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3274265--3274744	38	12.6	38	80	11	461	45	3	5	45	1.43
3274239--3274767	37	13.7	38	78	16	472	44	3	5	45	1.44
3275930--3275967	17	2.2	17	86	9	51	23	0	0	76	0.79
3276781--3276846	27	2.4	27	97	0	123	33	0	3	63	1.10
3277918--3277943	10	2.6	10	100	0	52	11	61	11	15	1.57
3278475--3278516	22	1.9	22	90	0	66	19	19	23	38	1.93
3278536--3278571	18	2.0	18	89	10	56	44	11	11	33	1.75
3280420--3280524	31	3.2	30	69	21	86	18	19	24	38	1.93
3280413--3280546	67	2.0	67	91	0	214	19	20	23	37	1.94
3281694--3281742	18	2.7	18	81	12	55	28	4	0	67	1.09

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