genome.fa.s9643.2.7.7.80.10.50.1000.14.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   30   31   32   
          33   34   35   36   37   38   39   40   41   

This is table  14  of  41  ( 4862 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)
2940552--2940622	21	3.1	22	80	13	65	25	1	2	70	1.09
2940550--2940615	22	3.0	22	82	6	71	25	1	1	71	1.04
2940551--2940615	23	2.9	23	82	11	64	24	1	1	72	1.02
2940712--2940748	19	1.9	19	94	0	65	32	29	16	21	1.95
2940873--2940934	21	3.0	21	95	0	106	22	17	27	32	1.97
2941276--2941317	19	2.2	19	95	0	75	30	26	4	38	1.77
2941274--2941327	19	2.8	20	78	16	67	33	25	5	35	1.80
2946539--2946594	21	2.8	21	72	17	57	35	0	1	62	1.06
2951444--2951490	20	2.3	20	96	0	85	36	10	0	53	1.36
2955240--2955273	12	2.8	12	100	0	68	17	47	0	35	1.48
2960332--2960365	12	2.8	12	100	0	68	17	47	0	35	1.48
2964016--2964068	20	2.7	20	74	11	63	28	33	15	22	1.94
2964091--2964162	19	3.7	19	90	3	99	37	22	11	29	1.88
2965054--2965107	24	2.2	24	86	0	72	22	14	24	38	1.91
2968218--2968270	24	2.2	24	86	0	70	35	1	13	49	1.53
2968574--2968660	39	2.2	39	91	0	138	48	19	12	19	1.80
2968899--2968936	20	1.9	20	100	0	76	13	18	26	42	1.87
2968995--2969138	66	2.2	64	91	2	225	51	17	0	30	1.50
2969700--2969792	21	4.4	21	79	5	107	23	19	32	24	1.98
2972423--2972570	20	7.4	20	77	13	144	20	16	22	40	1.91
2972423--2972601	40	4.5	40	77	14	185	20	17	22	39	1.92
2972575--2972625	20	2.5	20	83	3	66	25	15	21	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2973729--2973864	67	2.0	68	95	1	247	50	11	4	33	1.59
2974210--2974237	2	14.0	2	100	0	56	50	0	0	50	1.00
2974274--2974303	2	15.0	2	100	0	60	50	0	0	50	1.00
2974210--2974335	66	1.9	66	98	0	243	52	10	2	34	1.49
2974351--2974448	49	2.0	47	92	3	160	50	14	10	25	1.74
2975476--2975533	3	19.7	3	89	3	91	62	1	0	36	1.06
2975660--2975953	105	2.8	105	82	4	322	24	18	16	40	1.90
2976005--2976172	92	1.9	90	92	3	284	23	22	14	38	1.92
2975873--2976310	225	2.0	223	90	3	693	25	21	16	35	1.94
2977185--2977279	8	12.5	8	76	20	89	10	12	0	76	1.01
2977191--2977281	13	6.2	13	79	18	74	9	12	0	78	0.98
2977203--2977283	24	3.4	24	84	10	112	11	12	0	76	1.02
2977177--2977264	31	2.9	32	80	12	98	10	13	0	76	1.03
2977185--2977270	7	11.6	7	77	19	77	11	11	0	76	1.02
2988702--2988838	68	2.0	68	97	0	256	51	11	4	32	1.58
2989184--2989221	2	19.0	2	100	0	76	50	0	0	50	1.00
2989206--2989299	45	2.1	45	97	0	179	52	12	3	31	1.55
2990448--2990520	3	24.7	3	88	2	112	61	2	0	35	1.10
2993288--2993328	16	2.6	17	81	14	52	65	0	0	34	0.93
2993297--2993328	17	1.9	17	93	6	57	71	0	0	28	0.86
2996241--2996320	39	2.1	39	100	0	160	38	16	2	42	1.61
2997007--2997078	30	2.4	30	81	6	76	52	13	6	26	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999090--2999140	27	1.9	27	88	4	77	29	1	19	49	1.60
3000975--3001154	66	2.7	63	76	16	166	38	13	19	28	1.90
3004999--3005148	59	2.5	60	81	2	185	34	20	4	40	1.73
3005274--3005396	60	2.0	60	83	9	153	39	7	21	31	1.80
3009988--3010071	20	4.1	20	89	3	105	15	3	1	79	0.92
3009988--3010054	7	9.6	7	93	4	109	16	1	0	82	0.75
3009991--3010071	14	6.1	13	79	12	67	14	3	1	80	0.92
3010725--3010774	18	2.8	18	96	3	93	64	0	32	4	1.12
3019654--3019774	60	2.0	60	95	3	217	38	9	14	37	1.78
3022483--3022524	21	2.0	21	90	0	66	30	16	16	35	1.92
3022629--3022669	20	2.0	20	85	0	55	65	0	0	34	0.93
3027931--3027990	29	2.0	31	90	6	97	36	6	15	41	1.73
3028078--3028116	21	1.9	21	89	5	62	28	15	25	30	1.96
3028147--3028186	20	1.9	21	85	10	55	37	37	10	15	1.80
3030791--3030832	21	2.0	21	95	0	75	23	21	28	26	1.99
3031671--3031845	91	1.9	91	84	2	235	24	20	15	39	1.91
3032141--3032470	66	4.9	66	80	8	267	37	13	20	27	1.91
3032243--3032354	31	3.5	30	71	13	89	39	13	18	28	1.89
3032141--3032390	66	3.8	66	82	4	279	38	13	20	27	1.91
3032340--3032613	36	7.8	36	78	11	241	38	14	20	26	1.91
3032141--3032390	133	1.9	133	84	3	333	38	13	20	27	1.91
3032511--3032581	37	1.9	37	82	0	88	38	14	22	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3033903--3033939	2	18.5	2	88	0	56	48	5	0	45	1.25
3035007--3035447	149	3.0	149	84	0	542	21	22	18	37	1.94
3043589--3043642	28	1.9	28	88	0	81	27	14	24	33	1.94
3045734--3045783	25	2.0	25	88	0	73	28	44	10	18	1.81
3046487--3046546	27	2.3	27	91	2	95	60	16	6	16	1.56
3048359--3048407	12	4.0	12	83	2	62	12	18	48	20	1.79
3048359--3048407	24	2.0	25	88	4	73	12	18	48	20	1.79
3048418--3048452	6	5.8	6	96	0	61	0	62	17	20	1.32
3049741--3049785	19	2.3	20	85	11	58	8	2	11	77	1.07
3049664--3049878	115	1.9	112	84	4	288	37	4	7	50	1.51
3051140--3051191	21	2.5	21	81	3	61	38	19	25	17	1.93
3051180--3051233	20	2.7	20	94	0	90	33	22	18	25	1.97
3051180--3051272	40	2.3	40	81	3	98	35	22	18	23	1.96
3051812--3051857	19	2.3	20	85	7	67	54	21	15	8	1.68
3051858--3051920	18	3.4	18	87	8	99	11	19	23	46	1.82
3051858--3051920	19	3.4	18	91	6	99	11	19	23	46	1.82
3051858--3051930	38	1.9	37	83	8	94	9	20	27	42	1.83
3051943--3051979	14	2.6	14	91	0	56	10	21	24	43	1.84
3051972--3052025	20	2.8	20	82	2	56	14	22	20	42	1.88
3053949--3054013	21	3.2	21	65	6	53	24	36	18	20	1.94
3053897--3054013	42	2.8	42	79	2	112	23	36	17	23	1.94
3055352--3055387	14	2.6	14	95	0	63	30	0	25	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3055489--3055538	19	2.6	19	83	0	64	42	20	18	20	1.90
3055527--3055657	19	7.7	19	66	23	94	14	22	19	42	1.88
3055533--3055657	33	3.8	32	86	8	180	14	22	20	43	1.87
3055524--3055656	66	2.0	66	94	0	230	16	22	19	41	1.90
3057904--3057928	12	2.1	12	100	0	50	0	28	0	72	0.86
3059181--3059237	20	2.8	20	94	0	96	40	21	22	15	1.91
3059405--3059441	14	2.6	14	86	0	56	48	21	0	29	1.50
3061229--3061295	19	3.5	19	83	4	89	37	23	23	14	1.93
3061284--3061341	14	3.9	14	75	16	62	48	24	17	10	1.78
3061268--3061346	32	2.4	33	93	2	133	46	22	18	11	1.81
3061353--3061486	18	7.6	18	73	17	86	12	20	23	43	1.86
3061374--3061431	14	3.9	14	79	16	71	8	17	25	48	1.75
3061358--3061447	32	2.8	32	94	1	153	11	18	22	47	1.80
3061432--3061486	20	2.8	19	83	8	65	16	23	23	36	1.94
3061956--3062000	18	2.5	18	88	0	72	13	15	44	26	1.83
3063305--3063363	20	3.0	20	87	0	73	42	22	18	16	1.89
3063626--3063669	22	2.0	22	95	0	79	18	15	45	20	1.85
3063857--3063929	20	3.7	20	92	0	119	26	19	28	26	1.98
3063940--3064032	20	4.6	20	78	4	96	17	24	18	39	1.91
3063940--3064032	41	2.3	41	100	0	186	17	24	18	39	1.91
3065465--3065501	17	2.2	17	100	0	74	32	24	5	37	1.78
3066297--3066392	30	3.2	30	94	1	167	32	30	25	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3066811--3066861	22	2.3	22	93	0	84	27	19	37	15	1.92
3066878--3066921	23	1.9	23	100	0	88	9	25	40	25	1.84
3067360--3067712	169	2.1	170	89	2	532	40	5	18	36	1.72
3068873--3068906	15	2.3	15	94	0	59	32	17	23	26	1.97
3071187--3071233	18	2.6	18	100	0	94	23	36	14	25	1.93
3071493--3071713	112	2.0	106	86	11	302	28	29	24	16	1.97
3073352--3073385	2	17.0	2	100	0	68	50	0	0	50	1.00
3074128--3074195	17	4.1	16	83	9	75	39	0	1	58	1.07
3075412--3075479	33	2.1	33	83	5	84	19	42	16	22	1.89
3077501--3077561	2	32.0	2	90	9	101	50	0	0	49	1.00

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   30   31   32   
          33   34   35   36   37   38   39   40   41