genome.fa.s8554.2.7.7.80.10.50.1000.10.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: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3217407

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  10  of  10  ( 1197 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)
2830741--2830859	21	5.6	21	75	9	89	27	18	26	26	1.98
2836448--2836547	21	4.9	21	82	10	118	18	21	37	24	1.94
2836448--2836552	41	2.5	42	82	8	119	18	21	35	24	1.96
2845111--2845135	6	4.2	6	100	0	50	32	36	16	16	1.90
2847026--2847162	59	2.3	57	83	10	177	27	24	18	29	1.98
2854036--2854094	29	2.0	29	96	0	109	59	1	13	25	1.44
2855424--2855454	15	2.1	15	93	0	53	38	16	6	38	1.74
2856999--2857036	19	2.0	19	89	0	58	18	7	28	44	1.78
2859143--2859176	2	17.0	2	93	0	59	47	0	2	50	1.16
2859345--2859394	13	4.0	13	82	7	59	22	22	0	56	1.43
2859346--2859394	25	2.0	24	84	11	64	22	22	0	55	1.44
2859427--2859477	19	2.7	19	87	0	75	33	17	5	43	1.73
2859447--2859491	19	2.4	19	88	0	63	40	15	2	42	1.59
2864008--2864144	59	2.3	58	77	5	150	29	23	17	29	1.97
2866192--2866916	361	2.0	360	97	0	1369	30	19	9	39	1.84
2868401--2868442	13	3.4	12	78	15	50	7	23	0	69	1.13
2868416--2868477	28	2.2	28	81	16	76	4	20	1	72	1.12
2868396--2868512	26	4.3	27	75	17	93	5	18	1	74	1.09
2868395--2868474	22	3.4	23	77	16	76	7	18	1	72	1.15
2868396--2868505	31	3.3	34	80	16	108	5	18	1	74	1.10
2868448--2868508	12	4.9	13	75	20	51	3	18	3	75	1.08
2868444--2868512	18	3.8	18	81	7	86	2	17	2	76	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2874683--2874981	148	2.0	148	90	2	467	47	10	6	35	1.63
2877622--2878029	114	3.6	114	93	0	685	28	14	13	42	1.85
2878194--2878986	199	4.0	199	89	0	1221	38	15	15	31	1.88
2878995--2879044	23	2.2	23	88	0	73	32	16	12	40	1.84
2879072--2879113	21	2.0	21	90	0	66	35	16	9	38	1.81
2880067--2880327	139	1.9	140	85	4	366	47	16	8	27	1.75
2881289--2881334	21	2.2	21	100	0	92	60	13	4	21	1.49
2881861--2881899	20	2.0	20	89	0	60	23	17	23	35	1.95
2895217--2895246	15	1.9	16	93	6	53	76	0	23	0	0.78
2897720--2897761	2	21.0	2	100	0	84	50	0	0	50	1.00
2899465--2900012	275	2.0	275	95	0	997	30	21	15	33	1.94
2907400--2907553	75	2.0	76	92	1	256	42	17	16	23	1.88
2921050--2921103	11	4.8	11	84	4	63	0	7	5	87	0.68
2924606--2924664	17	3.5	17	68	13	50	28	15	8	47	1.74
2924655--2924700	18	2.6	18	96	0	83	34	6	13	45	1.69
2929635--2929942	137	2.3	137	93	0	528	38	5	22	32	1.77
2929635--2929942	91	3.4	92	91	2	498	38	5	22	32	1.77
2929635--2929942	46	6.8	46	92	1	498	38	5	22	32	1.77
2934326--2934373	17	2.9	17	81	3	62	77	2	10	10	1.09
2955988--2956071	41	2.0	42	97	2	161	51	14	13	21	1.76
2961824--2961857	3	11.3	3	100	0	68	35	0	0	64	0.94
2963949--2964183	131	1.8	130	86	0	344	31	11	15	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2978028--2978072	21	2.2	20	84	11	56	37	4	22	35	1.74
2979724--2979751	14	2.0	14	100	0	56	35	0	7	57	1.26
2980495--2980541	19	2.5	20	82	10	62	31	8	4	55	1.49
2990613--2990655	19	2.3	19	91	0	68	34	6	6	51	1.56
2990998--2991099	35	2.9	35	82	1	105	32	33	2	31	1.73
2991466--2991536	13	5.3	13	75	20	67	74	1	21	2	1.02
2991469--2991534	7	10.0	6	75	14	51	75	1	19	3	1.01
2991461--2991536	27	2.8	26	84	9	98	73	3	19	2	1.11
2992926--2992988	24	2.6	24	76	0	72	33	17	20	28	1.95
2994758--2994799	20	2.2	19	86	4	57	33	9	7	50	1.62
2995133--2995166	13	2.6	13	90	9	52	23	32	2	41	1.69
2995140--2995254	35	3.2	36	82	3	135	29	34	2	33	1.71
3004672--3004709	17	2.2	17	90	0	58	10	23	47	18	1.79
3004711--3004775	9	6.9	9	80	13	51	30	27	26	15	1.96
3004737--3004774	10	3.8	10	86	10	51	36	26	21	15	1.93
3011413--3011465	19	2.8	19	85	5	72	18	28	26	26	1.98
3011430--3011469	9	4.3	9	81	6	53	17	32	27	22	1.96
3015861--3015894	18	1.9	17	88	5	50	50	0	11	38	1.39
3029596--3029675	40	2.0	40	82	0	97	26	23	21	28	1.99
3029918--3029966	24	2.0	24	92	0	80	44	12	12	30	1.78
3031164--3031188	11	2.3	11	100	0	50	32	16	0	52	1.44
3031586--3031672	29	2.9	29	73	15	79	35	10	6	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3032223--3032255	10	3.4	10	87	4	50	66	6	24	3	1.28
3036797--3036842	20	2.2	20	92	3	74	80	15	4	0	0.86
3046436--3046473	19	2.0	19	89	0	58	68	5	7	18	1.34
3051887--3052064	90	2.0	90	93	0	302	45	6	11	36	1.66
3053292--3053339	24	2.0	24	95	0	87	41	14	12	31	1.83
3056803--3056827	10	2.5	10	100	0	50	28	0	24	48	1.52
3074780--3074824	23	2.0	23	82	8	56	20	11	26	42	1.85
3093033--3093097	33	2.0	33	90	0	103	46	20	6	27	1.74
3118625--3118680	19	2.9	19	76	10	60	30	21	3	44	1.69
3118741--3118819	34	2.3	34	88	0	122	41	20	11	26	1.86
3119104--3119145	12	3.6	12	80	3	50	57	16	0	26	1.40
3124871--3124913	2	21.5	2	100	0	86	48	0	0	51	1.00
3125780--3125862	34	2.4	34	81	0	94	37	22	12	27	1.90
3128771--3128839	28	2.4	29	95	2	122	44	33	8	13	1.74
3128850--3128907	30	1.9	30	89	0	89	37	25	10	25	1.88
3128891--3128993	48	2.1	49	85	5	138	35	39	12	11	1.80
3128999--3129065	32	2.1	32	82	2	80	50	19	4	25	1.66
3142550--3142608	31	1.9	31	89	0	91	20	10	13	55	1.66
3142952--3142997	24	1.9	24	86	0	65	60	13	13	13	1.59
3142951--3143004	24	2.3	23	81	9	63	61	12	11	14	1.58
3143202--3143234	10	3.4	10	83	8	50	60	15	9	15	1.58
3149534--3149610	31	2.5	31	82	2	84	54	15	10	19	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3150397--3150557	45	3.6	45	92	0	252	32	21	6	39	1.80
3150534--3150577	23	1.9	23	90	0	70	34	25	6	34	1.82
3150490--3150623	67	2.0	66	89	1	205	32	23	8	35	1.85
3154235--3154269	14	2.6	13	86	8	52	28	0	0	71	0.86
3154505--3154563	27	2.3	27	82	5	77	38	1	1	57	1.19
3155538--3155577	17	2.4	17	86	0	53	32	15	12	40	1.84
3159076--3159128	7	7.6	7	86	0	70	18	0	32	49	1.48
3159181--3159233	14	3.8	14	87	0	70	15	1	26	56	1.49
3159181--3159233	7	7.6	7	82	0	61	15	1	26	56	1.49
3159181--3159233	21	2.5	21	78	0	70	15	1	26	56	1.49
3159291--3159322	11	2.9	11	90	0	55	40	0	0	59	0.97
3160421--3160473	14	3.7	14	76	2	52	43	0	0	56	0.99
3160497--3160530	16	2.1	16	88	0	50	50	0	0	50	1.00
3160495--3160546	21	2.5	21	79	17	63	50	0	1	48	1.12
3161690--3161752	11	5.9	11	69	14	51	57	3	1	38	1.24
3161795--3161855	7	8.7	7	83	7	79	55	27	0	16	1.41
3161908--3161964	14	4.2	13	74	12	53	49	28	0	22	1.50
3178563--3178617	23	2.3	25	81	6	69	61	10	16	10	1.55
3182676--3182715	21	1.9	21	84	0	53	37	20	7	35	1.81
3183568--3183717	45	3.4	44	92	2	228	30	21	6	42	1.77
3184780--3184842	30	2.1	30	82	2	74	39	20	6	33	1.78
3187685--3187804	14	8.5	13	76	19	73	4	15	3	77	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187735--3187771	9	4.2	9	86	13	51	0	13	8	78	0.96
3187718--3187804	23	3.7	23	73	14	70	3	14	4	77	1.07
3187735--3187771	17	2.2	17	90	9	58	0	13	8	78	0.96
3187699--3187795	14	6.7	14	76	11	88	3	14	4	78	1.02
3190536--3190710	44	3.9	45	91	2	264	29	22	8	40	1.83
3190536--3190710	89	2.0	88	89	1	269	29	22	8	40	1.83
3214223--3214273	22	2.5	20	87	9	68	37	11	5	45	1.65

Tables:   1   2   3   4   5   6   7   8   9   10

The End!