genome.fa.s8310.2.7.7.80.10.50.1000.12.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: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3887810

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

This is table  12  of  15  ( 1695 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)
3063753--3063942	105	1.8	105	83	4	258	41	13	4	41	1.64
3065676--3065776	54	1.9	51	84	9	132	18	19	10	50	1.76
3068795--3069477	340	2.0	340	98	0	1321	33	16	13	37	1.87
3074899--3074936	2	18.5	2	94	5	67	50	2	0	47	1.15
3081942--3082041	35	2.9	35	85	5	139	48	4	8	40	1.51
3082008--3082064	24	2.4	24	90	0	87	40	3	8	47	1.52
3081978--3082096	59	2.1	56	89	7	177	46	4	7	42	1.51
3081929--3082133	94	2.2	93	85	4	279	45	2	8	42	1.49
3082032--3082161	36	3.8	35	83	9	160	43	3	7	45	1.48
3082186--3082235	9	5.7	9	77	17	52	22	4	0	74	0.99
3082186--3082235	4	11.5	4	83	12	55	22	4	0	74	0.99
3082302--3082375	31	2.4	31	93	0	121	28	33	28	9	1.88
3083427--3083479	18	3.0	18	76	10	56	16	7	0	75	1.02
3085542--3085602	18	3.7	17	74	14	56	65	3	8	22	1.34
3086757--3086796	16	2.4	17	84	16	57	75	0	2	22	0.93
3086754--3086806	16	3.6	15	80	12	56	75	0	1	22	0.90
3086865--3087047	35	5.3	34	78	8	147	41	13	3	41	1.62
3086865--3087047	70	2.6	69	83	7	219	41	13	3	41	1.62
3087015--3087086	38	1.9	37	88	2	108	50	5	4	40	1.45
3087492--3087517	13	2.0	13	100	0	52	46	23	0	30	1.53
3092740--3092820	33	2.5	33	91	2	137	11	11	38	39	1.76
3093760--3093810	2	25.5	2	100	0	102	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3093843--3093882	20	2.0	20	100	0	80	35	5	5	55	1.44
3093909--3093982	16	4.7	15	75	14	60	35	2	1	60	1.19
3093985--3094016	15	2.1	15	94	0	55	12	9	0	78	0.97
3093986--3094039	21	2.6	20	80	13	56	14	5	5	74	1.19
3094012--3094094	32	2.6	32	77	12	89	19	2	7	71	1.21
3096741--3096915	90	2.0	89	90	1	278	45	6	10	36	1.66
3107101--3107307	110	1.9	110	90	0	333	35	23	17	23	1.95
3108697--3108748	2	26.0	2	100	0	104	50	0	0	50	1.00
3108900--3108965	15	4.6	14	76	16	57	15	6	4	74	1.18
3108863--3108960	27	3.7	24	74	17	70	21	4	4	70	1.21
3108883--3109009	14	9.2	13	68	25	50	20	4	3	71	1.18
3108933--3109009	32	2.3	32	79	14	86	20	2	5	71	1.18
3112904--3113110	110	1.9	110	90	0	333	35	23	17	23	1.95
3114510--3114548	2	19.5	2	100	0	78	48	0	0	51	1.00
3114634--3114707	16	4.7	15	75	14	60	35	2	1	60	1.19
3114597--3114707	48	2.3	48	83	7	129	35	3	0	60	1.20
3114710--3114775	15	4.6	14	76	16	57	15	6	4	74	1.18
3114673--3114770	27	3.7	24	74	17	70	21	4	4	70	1.21
3114693--3114823	14	9.5	13	69	24	51	19	4	3	72	1.16
3114743--3114819	32	2.3	32	79	14	86	20	2	5	71	1.18
3119631--3119661	15	2.1	15	100	0	62	32	6	0	61	1.21
3123840--3123899	19	2.9	20	85	9	68	16	26	35	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142830--3142867	16	2.2	18	90	9	62	34	10	0	55	1.34
3147245--3147324	31	2.6	31	83	0	88	40	7	10	42	1.67
3148570--3148626	16	3.6	16	77	11	55	26	19	12	42	1.86
3148662--3148698	15	2.3	17	86	9	51	40	5	0	54	1.24
3148736--3148762	2	13.5	2	100	0	54	48	0	0	51	1.00
3149156--3149249	25	3.9	24	89	9	147	24	9	18	47	1.78
3149158--3149249	47	2.0	47	95	0	166	23	9	18	47	1.78
3149813--3150009	8	25.0	8	92	3	319	37	23	12	26	1.91
3150298--3150432	4	34.0	4	93	1	218	45	25	3	25	1.69
3152369--3152483	4	28.8	4	100	0	230	24	0	25	50	1.50
3155033--3155116	33	2.5	34	86	9	111	41	2	11	44	1.54
3155062--3155115	17	3.2	17	82	15	76	42	3	9	44	1.54
3155177--3155216	20	2.0	20	85	9	55	37	0	2	60	1.11
3155200--3155240	21	2.0	20	85	4	55	24	0	2	73	0.96
3156332--3156388	5	11.6	5	88	3	80	33	3	0	63	1.12
3156343--3156399	15	3.5	15	75	22	53	31	1	0	66	1.02
3156361--3156466	30	3.7	28	75	11	90	26	4	0	68	1.09
3156412--3156465	22	2.6	21	77	13	58	22	5	0	72	1.05
3156925--3156972	22	2.3	22	85	7	64	20	8	4	66	1.35
3162650--3162682	5	6.8	5	86	6	50	81	0	18	0	0.68
3162640--3162682	15	2.9	14	82	6	50	83	2	13	0	0.74
3166589--3166638	19	2.6	18	84	9	55	82	4	14	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3167199--3167582	202	1.9	203	95	0	689	36	17	15	29	1.91
3168350--3168395	17	2.6	18	82	6	58	28	32	0	39	1.57
3168649--3169436	201	3.9	201	94	1	1346	35	18	16	29	1.92
3168649--3169424	403	1.9	403	94	0	1383	35	18	15	29	1.92
3169697--3169735	6	6.7	6	91	2	62	12	30	0	56	1.37
3170536--3170927	201	1.9	202	94	0	696	36	17	16	29	1.92
3173463--3173825	201	1.8	201	92	0	618	36	16	16	30	1.91
3174896--3175289	203	1.9	202	93	1	673	36	17	16	28	1.92
3176369--3176757	201	1.9	202	93	0	672	35	17	16	29	1.92
3177835--3178226	201	1.9	202	91	0	642	35	18	16	29	1.93
3180550--3180941	201	1.9	202	93	0	678	36	17	16	28	1.92
3182022--3182410	201	1.9	202	94	0	681	35	17	16	29	1.93
3182967--3183006	17	2.4	17	82	0	53	72	0	22	5	1.04
3183489--3183880	201	1.9	202	88	1	590	36	17	16	29	1.91
3184966--3185344	201	1.9	201	91	1	616	35	16	16	30	1.92
3186388--3186779	201	1.9	202	94	0	687	35	17	16	29	1.93
3189352--3189713	196	1.8	196	95	0	652	35	17	16	29	1.93
3190795--3191183	201	1.9	202	92	0	654	35	17	16	29	1.92
3200724--3200848	47	2.8	45	84	7	164	40	7	20	32	1.79
3201248--3201582	167	2.0	168	95	0	600	40	9	8	41	1.68
3201933--3201957	10	2.5	10	100	0	50	20	8	20	52	1.71
3202138--3202187	20	2.5	20	96	0	91	26	20	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223625--3223673	22	2.2	22	78	7	55	4	10	40	44	1.57
3223700--3223738	3	13.0	3	84	10	53	66	0	2	30	1.05
3225111--3225222	56	2.0	56	89	0	170	47	4	12	35	1.62
3231476--3231527	23	2.3	23	100	0	104	26	26	17	28	1.97
3238239--3238314	24	3.2	24	79	3	73	25	6	15	52	1.67
3239556--3239600	10	4.4	10	85	2	63	68	0	28	2	1.01
3243309--3243346	20	1.9	20	88	0	58	13	26	36	23	1.91
3255394--3255485	38	2.5	38	85	3	134	32	15	10	41	1.82
3255537--3255582	23	2.0	22	83	4	56	21	15	15	47	1.81
3255560--3255838	37	7.9	36	65	16	109	27	18	11	42	1.85
3255565--3255818	71	3.6	71	76	10	193	27	19	11	42	1.85
3255559--3255807	68	3.6	69	75	12	195	27	19	11	41	1.85
3255789--3255865	34	2.1	37	81	9	88	28	15	9	46	1.76
3257645--3257711	29	2.3	29	79	7	73	23	16	0	59	1.37
3257669--3257711	15	2.9	15	77	16	54	23	16	0	60	1.35
3267438--3267524	18	4.6	18	78	9	84	29	26	13	29	1.94
3270729--3270780	25	2.1	25	85	7	70	67	1	5	25	1.23
3271261--3271295	15	2.3	15	95	0	61	54	0	2	42	1.15
3273901--3273947	22	2.2	22	85	11	62	68	0	4	27	1.08
3274711--3274759	20	2.5	20	96	0	89	8	32	16	42	1.77
3275161--3275220	4	13.8	4	89	6	66	66	0	0	33	0.92
3275191--3275322	2	71.0	2	66	24	58	50	4	2	42	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3275430--3275461	3	11.0	3	93	6	57	31	0	0	68	0.90
3276798--3276853	21	2.7	21	78	13	62	23	5	1	69	1.18
3281965--3282005	21	1.9	22	90	5	66	39	12	29	19	1.88
3282434--3282503	36	2.0	36	88	2	106	28	24	12	34	1.92
3282584--3282711	66	2.0	64	87	6	186	25	13	17	43	1.85
3282706--3282838	68	2.0	68	85	7	182	29	18	10	41	1.84
3284332--3285017	133	5.1	133	86	2	921	26	31	16	24	1.97
3285224--3285320	3	33.0	3	95	4	180	32	0	0	67	0.91
3285614--3285653	14	2.9	14	88	0	53	50	10	15	25	1.74
3289746--3290134	184	2.1	185	93	1	667	45	8	3	41	1.54

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