genome.fa.s9587.2.7.7.80.10.50.1000.13.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  13  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)
3036168--3036229	3	20.7	3	93	6	108	66	0	0	33	0.92
3036383--3037006	45	14.1	45	86	5	822	34	20	22	22	1.97
3036612--3036939	171	1.9	169	93	2	568	35	21	21	21	1.96
3036657--3037006	126	2.7	124	84	7	396	35	20	21	22	1.96
3036530--3037006	261	1.8	261	92	0	801	35	20	21	22	1.96
3036580--3036984	216	1.9	216	94	0	720	35	20	21	21	1.96
3037660--3037723	22	3.0	21	81	2	65	39	10	10	39	1.76
3038088--3038192	51	2.0	54	83	5	135	25	20	15	38	1.92
3039068--3039208	75	1.9	75	83	2	185	31	17	16	34	1.92
3041083--3041127	14	3.4	14	87	6	67	0	17	0	82	0.68
3041080--3041140	17	3.6	17	82	4	79	0	18	0	81	0.68
3043671--3043716	21	2.2	21	92	3	76	65	6	10	17	1.45
3045525--3045612	46	1.9	46	88	4	133	28	21	12	37	1.90
3046606--3046640	2	18.0	2	94	5	63	48	0	0	51	1.00
3046967--3047286	152	2.1	150	80	11	350	48	7	6	37	1.57
3047113--3047167	17	3.1	18	76	10	60	67	0	3	29	1.08
3047115--3047179	34	1.9	35	84	6	89	66	0	6	27	1.15
3048670--3048728	3	19.7	3	86	6	84	62	1	0	35	1.05
3054909--3054945	17	2.2	17	90	0	56	37	10	16	35	1.83
3055611--3055682	15	4.7	15	77	6	81	25	34	23	16	1.95
3058095--3058287	63	3.1	63	99	0	377	41	15	3	40	1.62
3061502--3061553	20	2.6	20	96	0	95	38	26	13	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3061543--3061641	21	4.8	20	72	6	72	36	23	19	21	1.95
3061608--3061801	20	9.6	20	81	5	221	35	25	19	19	1.95
3061608--3061801	60	3.2	60	83	0	253	35	25	19	19	1.95
3062182--3062252	33	2.2	33	92	0	115	11	22	18	47	1.80
3062373--3062427	14	3.6	14	73	21	56	40	23	27	9	1.85
3062373--3062443	33	2.2	33	92	0	115	42	25	23	8	1.82
3062439--3062536	19	5.7	19	70	22	81	10	24	22	42	1.84
3062461--3062550	14	5.7	14	74	23	81	8	25	23	42	1.83
3062444--3062558	33	3.5	33	95	0	212	9	24	20	45	1.81
3064256--3064637	185	2.1	186	98	0	748	22	12	18	46	1.83
3064256--3064635	93	4.1	93	98	0	744	22	12	18	46	1.83
3064679--3064807	19	7.3	19	75	17	125	45	28	17	8	1.77
3064715--3064807	33	2.8	32	91	4	150	46	27	18	7	1.76
3064679--3064807	52	2.5	52	74	14	140	45	28	17	8	1.77
3064803--3064937	19	7.6	19	76	16	137	10	19	24	45	1.81
3064825--3064881	14	3.7	14	77	20	60	8	21	24	45	1.80
3064808--3064900	33	2.8	33	98	0	177	9	20	22	47	1.79
3066753--3066825	38	1.9	38	97	0	137	28	1	16	53	1.51
3066749--3066812	19	3.4	19	64	10	51	25	1	15	57	1.47
3066807--3066842	14	2.6	14	95	0	63	33	0	22	44	1.53
3066949--3067050	19	5.6	19	84	13	151	44	17	23	14	1.86
3067079--3067404	19	18.4	19	80	15	405	14	20	17	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067057--3067376	52	6.0	52	94	4	550	14	21	16	46	1.83
3067079--3067404	71	4.6	72	82	13	389	14	20	17	47	1.82
3067057--3067376	161	2.0	157	93	3	552	14	21	16	46	1.83
3067098--3067404	33	8.8	33	80	12	280	14	20	17	47	1.82
3069709--3069733	12	2.1	12	100	0	50	0	28	0	72	0.86
3069908--3069954	24	2.0	24	87	8	69	38	21	14	25	1.92
3070629--3070997	20	18.5	20	86	4	458	20	18	26	34	1.96
3072086--3072165	36	2.3	35	89	6	126	36	15	10	38	1.80
3076041--3076527	229	2.1	228	94	0	848	45	8	6	40	1.60
3076806--3076852	20	2.3	20	96	0	85	57	8	17	17	1.63
3076594--3077066	181	2.6	182	89	0	705	42	14	16	26	1.86
3076987--3077033	20	2.4	19	82	10	67	53	10	17	19	1.72
3076996--3077038	20	2.3	19	88	11	63	51	11	16	20	1.75
3079266--3079330	21	3.1	21	79	0	76	38	13	30	16	1.88
3079364--3079429	33	2.0	33	90	0	105	28	0	48	22	1.51
3081221--3081269	19	2.6	19	93	0	80	30	2	10	57	1.43
3081388--3082749	199	6.9	199	96	1	2470	37	15	15	31	1.89
3082710--3082761	21	2.3	23	70	12	54	38	9	13	38	1.77
3083566--3083654	6	14.3	6	74	6	61	37	7	34	20	1.82
3083581--3083658	3	26.0	3	74	0	66	35	6	34	23	1.80
3083569--3083650	39	2.2	39	89	6	125	35	8	35	20	1.83
3083569--3083654	12	6.9	12	79	7	91	36	8	34	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083569--3083658	18	4.8	18	76	8	81	35	7	34	22	1.83
3085129--3085614	183	2.7	182	95	1	864	34	14	16	33	1.90
3086757--3086805	22	2.2	22	89	10	73	67	4	2	26	1.19
3086757--3086803	21	2.3	19	85	10	58	68	4	2	25	1.19
3087978--3088021	14	3.0	14	81	18	54	65	0	0	34	0.93
3087978--3088020	17	2.6	18	85	14	65	67	0	0	32	0.91
3090442--3090490	22	2.2	22	89	10	73	67	4	2	26	1.19
3090442--3090488	21	2.3	19	85	10	58	68	4	2	25	1.19
3091662--3091705	14	3.0	14	81	18	54	65	0	0	34	0.93
3091662--3091704	17	2.6	18	85	14	65	67	0	0	32	0.91
3093437--3093501	25	2.6	25	80	0	85	35	9	13	41	1.77
3093848--3093920	23	3.2	23	88	0	101	34	4	21	39	1.73
3094345--3094381	18	2.1	18	89	0	56	32	5	10	51	1.60
3094337--3094383	24	2.0	24	86	0	67	34	4	14	46	1.64
3094640--3094726	39	2.2	39	91	0	147	48	19	13	18	1.81
3095110--3095182	23	3.2	23	88	0	101	34	4	21	39	1.73
3096863--3096943	29	2.8	29	92	0	126	30	34	23	11	1.90
3097722--3097761	21	1.9	21	89	0	62	25	0	17	57	1.40
3098248--3098308	17	3.4	17	72	12	59	39	0	11	49	1.39
3098270--3098312	22	2.0	22	81	4	52	39	0	9	51	1.34
3101551--3101583	13	2.4	14	90	5	50	45	0	15	39	1.46
3101542--3101877	49	6.9	49	95	0	602	41	2	12	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3101773--3101849	22	3.3	22	65	28	59	41	2	10	45	1.52
3101964--3102006	12	3.7	11	90	9	68	55	0	0	44	0.99
3101956--3102004	23	2.1	23	88	7	73	57	0	2	40	1.10
3102028--3102209	26	7.1	26	85	7	176	46	2	7	43	1.44
3102039--3102143	12	8.6	12	71	11	70	46	2	7	42	1.47
3102040--3102266	26	9.0	24	79	12	156	44	2	7	44	1.47
3102064--3102158	3	32.7	3	72	6	52	51	2	6	40	1.39
3102116--3102161	9	5.2	9	84	5	67	54	0	8	36	1.32
3102065--3102172	49	2.2	49	89	0	162	50	1	7	40	1.41
3102120--3102152	17	1.9	17	93	0	57	51	0	9	39	1.34
3101955--3102281	14	25.1	14	69	20	158	45	1	7	44	1.42
3102076--3102269	49	3.9	48	78	10	174	45	2	7	44	1.44
3102244--3102285	17	2.5	17	80	0	57	40	0	2	57	1.12
3104558--3104683	30	4.4	29	75	19	99	44	11	2	42	1.53
3104864--3104903	21	1.9	21	100	0	80	57	15	0	27	1.38
3104931--3104985	18	3.4	18	65	31	52	52	9	0	38	1.33
3105005--3105076	38	2.0	37	86	13	105	48	9	0	41	1.36
3105101--3105165	28	2.3	29	82	10	82	46	15	1	36	1.55
3105249--3105286	9	4.2	9	83	10	51	65	2	0	31	1.06
3105600--3105678	29	2.7	28	92	7	131	16	31	29	22	1.96
3105711--3105832	60	2.0	60	95	0	217	24	41	19	13	1.88
3105807--3105871	29	2.2	28	84	10	85	20	36	27	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3107185--3107237	12	4.4	12	82	15	65	32	0	5	62	1.19
3107174--3107253	25	3.2	25	89	5	108	31	2	5	61	1.31
3110989--3111051	30	2.1	30	90	0	99	38	4	23	33	1.76
3113741--3113823	15	5.9	14	72	18	66	81	1	14	2	0.85
3113753--3113831	7	11.6	7	74	17	60	82	1	15	1	0.80
3113741--3113831	19	4.6	18	77	18	83	81	1	15	2	0.85
3113741--3113831	28	3.2	27	76	15	85	81	1	15	2	0.85
3113711--3113815	40	2.6	42	80	8	112	79	4	13	2	1.01
3113760--3113823	12	6.1	11	72	22	57	82	1	14	1	0.81
3115533--3115572	2	20.0	2	100	0	80	50	50	0	0	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