genome.fa.s851.2.7.7.80.10.50.1000.12.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  12  of  31  ( 3618 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)
3010097--3010121	13	1.9	13	100	0	50	52	0	16	32	1.44
3014685--3014725	2	20.5	2	100	0	82	51	0	0	48	1.00
3020424--3020786	180	2.0	181	98	1	701	30	16	31	21	1.95
3026211--3026265	20	2.7	19	78	13	56	36	14	23	25	1.93
3026231--3026446	92	2.3	92	81	7	224	34	14	24	26	1.94
3026773--3027150	55	6.9	55	86	3	478	29	19	19	31	1.96
3028405--3028776	56	6.8	56	86	4	506	35	18	10	35	1.86
3028405--3028776	108	3.4	109	87	4	509	35	18	10	35	1.86
3028405--3028765	164	2.2	164	86	3	492	35	18	10	35	1.86
3029717--3029852	64	2.1	65	87	1	193	30	16	23	29	1.96
3034815--3034934	45	2.7	44	88	6	179	38	6	24	30	1.81
3040769--3040808	20	2.0	21	85	5	55	27	15	10	47	1.77
3042825--3042938	21	5.5	21	97	2	221	23	19	32	24	1.97
3043003--3043222	65	3.4	65	94	0	377	30	17	20	31	1.96
3043743--3043793	19	2.5	22	79	20	58	27	21	13	37	1.91
3049704--3049737	17	2.0	17	88	11	52	20	17	8	52	1.71
3049858--3050198	168	2.0	170	98	1	659	26	20	13	39	1.90
3051346--3051728	55	6.9	55	81	5	450	36	16	10	35	1.84
3051346--3051723	111	3.4	109	84	4	458	37	16	10	35	1.83
3057380--3057419	13	3.2	12	89	7	53	70	5	15	10	1.32
3058483--3058515	14	2.3	15	89	5	50	21	6	39	33	1.78
3060712--3060740	9	3.3	9	90	9	51	82	0	10	6	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3060706--3060740	17	2.1	17	94	0	61	80	0	11	8	0.92
3060856--3060990	65	2.0	69	94	5	242	53	11	3	31	1.55
3061193--3061229	16	2.2	18	90	9	60	54	10	5	29	1.57
3061659--3061703	23	2.0	23	82	8	56	20	2	6	71	1.20
3061740--3061775	18	1.9	18	88	5	54	2	13	5	77	1.05
3064445--3064502	25	2.3	25	100	0	116	48	12	3	36	1.57
3064813--3064888	36	2.1	36	97	0	143	43	14	10	31	1.79
3069269--3069344	36	2.1	36	97	0	143	43	14	10	31	1.79
3074094--3074287	45	4.3	45	88	1	284	40	6	22	31	1.78
3075404--3075466	31	2.0	31	100	0	126	42	3	22	31	1.69
3078682--3078784	54	1.9	54	85	0	143	35	19	20	24	1.95
3078835--3081482	885	3.0	885	99	0	5232	34	19	11	34	1.88
3085075--3085245	74	2.3	76	90	7	278	28	0	9	61	1.32
3085075--3085269	76	2.6	76	87	3	243	28	0	11	60	1.35
3094038--3094156	55	2.2	54	83	4	141	36	15	19	29	1.92
3096533--3096596	21	3.1	21	95	2	112	42	0	21	35	1.54
3101305--3101376	19	3.6	19	80	12	81	30	15	27	26	1.96
3101871--3101944	20	3.4	20	73	20	67	44	10	22	21	1.83
3101858--3102112	46	5.5	46	90	0	402	45	10	20	24	1.81
3101858--3102152	138	2.1	141	89	3	443	45	10	18	24	1.81
3102233--3102298	28	2.4	28	87	2	89	36	6	24	33	1.80
3108226--3108276	20	2.5	20	84	9	68	39	15	25	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3110008--3110045	16	2.4	16	86	8	51	26	2	15	55	1.54
3110881--3111094	33	6.2	33	69	14	135	34	9	16	39	1.81
3115905--3115949	19	2.4	19	96	0	81	26	28	15	28	1.96
3116176--3116228	6	8.8	6	82	0	52	66	13	0	20	1.25
3116413--3116491	30	2.6	30	83	2	104	17	25	18	37	1.93
3116504--3117048	36	15.2	36	84	4	640	24	16	18	40	1.90
3117047--3117250	89	2.3	89	82	5	252	28	19	19	32	1.96
3129470--3129495	3	8.7	3	100	0	52	65	0	0	34	0.93
3129494--3129542	3	16.0	3	95	4	89	32	0	0	67	0.91
3135780--3135823	22	2.0	22	81	0	52	22	18	18	40	1.91
3144416--3144456	17	2.4	17	80	15	57	17	0	4	78	0.93
3146459--3146521	31	2.1	29	85	5	81	17	17	9	55	1.67
3147393--3147471	19	3.9	19	70	20	63	74	3	21	0	0.97
3147388--3147426	11	3.6	11	79	6	53	76	0	23	0	0.78
3147391--3147479	18	4.6	18	71	22	65	75	3	20	1	1.01
3149031--3149561	44	12.1	44	69	3	192	31	20	16	30	1.95
3149075--3149238	87	1.9	88	83	6	217	31	20	17	31	1.95
3149024--3149560	132	4.1	132	85	0	664	31	21	16	30	1.95
3154886--3154943	14	4.4	14	77	16	70	12	12	18	56	1.65
3154893--3154943	24	2.1	24	88	0	75	11	11	19	56	1.65
3156142--3156237	3	32.0	3	100	0	192	33	0	0	66	0.92
3160050--3160079	6	5.0	6	100	0	60	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3160265--3160331	33	2.0	33	94	0	116	35	17	13	32	1.89
3161758--3161793	18	2.0	18	100	0	72	50	0	33	16	1.46
3164818--3164859	19	2.2	19	95	0	75	45	7	35	11	1.69
3170527--3170593	26	2.5	26	95	2	116	61	1	17	19	1.43
3171341--3171406	31	2.1	31	83	5	80	57	3	18	21	1.53
3171522--3171628	33	3.2	33	67	15	94	54	17	3	24	1.59
3172508--3172588	39	2.0	40	83	6	103	24	14	8	51	1.70
3175516--3175541	5	5.2	5	100	0	52	80	0	0	19	0.71
3175563--3175606	23	1.9	23	90	9	72	70	4	9	15	1.30
3182121--3182253	68	1.9	69	93	3	232	56	15	2	25	1.51
3194029--3194133	32	3.3	32	97	0	192	31	10	39	19	1.85
3194603--3194881	139	2.0	140	95	2	508	50	9	17	22	1.74
3209566--3210194	57	10.9	57	89	4	895	37	10	17	35	1.83
3209566--3210194	294	2.2	284	86	7	904	37	10	17	35	1.83
3209909--3210194	113	2.5	113	93	2	468	37	10	18	34	1.84
3216322--3216374	20	2.7	19	82	5	61	39	15	24	20	1.91
3216788--3216849	30	2.0	31	96	3	117	19	12	25	41	1.87
3216818--3217226	57	7.2	56	84	6	484	35	10	16	38	1.82
3216818--3217226	169	2.4	170	85	4	524	35	10	16	38	1.82
3223950--3223988	21	1.9	21	89	5	62	41	0	2	56	1.13
3233992--3234048	24	2.4	24	90	0	87	21	5	21	52	1.66
3238389--3238491	50	2.0	51	94	5	181	51	11	9	27	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3238550--3238579	15	2.0	15	93	0	51	60	16	20	3	1.50
3241089--3241152	2	31.5	2	96	3	119	50	1	0	48	1.10
3245903--3246188	141	2.0	143	92	6	483	30	15	15	38	1.88
3251260--3251315	23	2.4	23	87	0	76	30	26	23	19	1.98
3261265--3261343	31	2.6	30	80	6	95	31	21	15	31	1.94
3267004--3267046	20	2.2	20	86	0	59	34	20	9	34	1.85
3275572--3275614	20	2.2	20	86	0	59	34	18	11	34	1.87
3281467--3281506	21	1.9	21	94	0	71	25	15	25	35	1.94
3287024--3287066	20	2.2	20	87	8	61	25	16	4	53	1.62
3290568--3290768	101	2.0	100	89	0	303	29	27	16	26	1.97
3305062--3305108	21	2.2	21	96	0	85	36	34	14	14	1.88
3317522--3317553	15	2.1	16	94	5	57	12	37	28	21	1.90
3319106--3319140	17	2.1	17	100	0	70	42	11	17	28	1.83
3321827--3322025	94	2.1	94	81	7	235	37	14	23	25	1.92
3322183--3322219	19	1.9	19	88	0	56	35	29	10	24	1.89
3323075--3323128	24	2.2	24	86	0	72	20	16	22	40	1.91
3323588--3323634	19	2.5	19	96	0	85	46	6	29	17	1.72
3325457--3325879	140	3.0	140	97	0	783	28	13	15	43	1.84
3325850--3326000	20	7.8	20	81	8	161	33	21	19	24	1.97
3325850--3326034	94	2.0	94	82	2	228	35	21	18	23	1.96
3326040--3326102	20	3.2	20	88	4	92	17	17	20	44	1.87
3326051--3326114	20	3.2	20	88	0	74	15	17	21	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3326236--3326272	14	2.6	14	91	0	65	48	18	0	32	1.49
3328088--3328263	90	2.0	90	91	2	291	44	6	11	36	1.68
3335907--3336009	21	4.9	21	72	4	82	25	19	34	20	1.96
3335914--3336009	42	2.3	42	75	0	102	27	16	37	18	1.92
3336480--3336523	20	2.2	20	91	0	70	50	20	13	15	1.78
3336513--3336573	20	3.0	20	76	9	70	37	22	21	18	1.94
3336583--3336636	19	2.8	19	85	0	63	48	24	14	12	1.79
3336600--3336636	19	1.9	19	94	0	65	48	27	16	8	1.74
3336658--3336690	14	2.4	14	94	0	57	18	18	15	48	1.81
3336645--3336709	33	1.9	33	87	3	94	16	18	15	49	1.80

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