genome.fa.s9463.2.7.7.80.10.50.1000.15.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  15  of  20  ( 2327 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)
2863379--2864037	36	18.4	36	87	1	896	25	24	11	38	1.89
2863595--2863659	21	3.4	21	68	24	70	26	29	9	35	1.87
2863845--2863909	21	3.4	20	70	24	59	26	26	10	36	1.89
2864568--2864593	5	5.2	5	100	0	52	38	0	0	61	0.96
2865652--2865739	32	2.8	32	68	17	78	25	5	0	69	1.10
2865841--2865892	14	3.6	14	76	10	52	19	3	0	76	0.93
2866177--2866266	42	2.1	42	84	11	114	13	12	3	71	1.27
2866188--2866299	50	2.2	50	83	9	131	16	8	3	71	1.25
2871236--2871316	40	2.0	40	97	0	153	28	32	3	35	1.75
2877718--2877768	25	2.0	25	100	0	102	37	19	7	35	1.81
2877794--2877859	25	2.6	25	72	9	62	66	9	1	22	1.28
2877793--2877860	26	2.7	26	76	17	70	67	8	1	22	1.26
2877833--2877880	17	3.0	16	73	8	53	68	4	4	22	1.24
2878009--2878068	12	5.0	12	83	0	66	16	48	0	35	1.47
2878009--2878068	6	10.0	6	87	0	57	16	48	0	35	1.47
2888677--2888717	19	2.2	19	86	0	55	34	0	26	39	1.57
2890266--2890443	64	2.8	63	80	9	191	28	16	26	29	1.97
2892873--2893092	44	5.0	43	83	6	273	42	10	20	25	1.85
2892873--2893092	87	2.5	88	91	0	352	42	10	20	25	1.85
2893953--2894029	31	2.6	30	84	11	90	19	23	18	38	1.93
2895844--2895949	23	4.7	23	86	4	137	21	19	27	31	1.98
2896998--2897053	21	2.8	20	83	2	76	35	26	12	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2899609--2899678	22	3.3	20	70	20	61	47	5	0	47	1.26
2899609--2899678	20	3.3	21	72	16	63	47	5	0	47	1.26
2903739--2903876	43	3.4	42	76	13	162	31	15	12	41	1.84
2903775--2903913	36	3.6	37	73	14	129	30	13	13	41	1.83
2903723--2903924	43	5.1	37	71	17	111	32	13	12	41	1.83
2903723--2903949	79	2.8	79	88	5	314	31	14	12	41	1.83
2911074--2911297	42	5.5	42	72	12	207	31	13	13	41	1.84
2911117--2911257	37	3.6	38	73	11	142	31	13	14	40	1.85
2911075--2911297	80	2.8	80	93	0	376	30	13	13	41	1.84
2911399--2911639	130	1.9	130	87	1	358	28	10	11	49	1.72
2913016--2913065	19	2.5	20	80	6	57	34	22	20	24	1.97
2920781--2921096	160	2.0	158	98	1	614	30	30	6	32	1.84
2926144--2926191	18	2.5	18	80	10	51	27	12	22	37	1.90
2933903--2933984	42	1.9	43	97	2	157	28	15	17	39	1.90
2936938--2936969	15	2.1	15	100	0	64	25	31	0	43	1.55
2939775--2939843	25	2.8	25	76	8	68	55	11	1	31	1.45
2941006--2941068	24	2.7	24	80	2	74	31	22	22	23	1.98
2941056--2941128	24	3.1	24	76	3	69	30	26	23	20	1.99
2941289--2941339	15	3.4	16	78	13	63	43	17	3	35	1.68
2941934--2941999	28	2.4	28	87	2	98	40	34	9	15	1.78
2942207--2942298	37	2.5	37	82	7	107	38	36	14	10	1.81
2947379--2947476	23	4.2	23	71	7	81	30	20	24	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2948828--2949132	45	6.8	45	91	1	481	33	21	6	38	1.79
2952210--2952254	23	2.0	23	86	0	63	42	0	17	40	1.50
2954892--2954941	2	25.0	2	100	0	100	50	0	0	50	1.00
2958440--2958490	23	2.3	22	82	3	57	58	3	3	33	1.35
2958459--2958501	22	2.1	22	87	12	65	60	0	4	34	1.17
2959632--2959666	2	17.5	2	100	0	70	48	0	0	51	1.00
2960415--2960468	28	1.9	28	88	0	81	27	11	5	55	1.57
2962481--2962640	42	3.8	43	84	6	220	31	21	21	25	1.98
2962481--2962637	85	1.9	84	91	1	260	31	20	21	26	1.98
2962724--2962799	21	3.6	21	83	3	89	50	17	6	26	1.70
2964427--2964462	15	2.4	15	95	0	63	61	25	5	8	1.46
2977253--2977293	14	2.9	14	92	3	64	21	31	24	21	1.98
2983226--2983263	19	2.0	19	100	0	76	31	5	26	36	1.79
2984595--2984636	16	2.3	18	76	23	52	23	4	2	69	1.20
2984605--2984636	16	2.0	16	93	0	55	25	6	3	65	1.31
2990271--2990312	18	2.3	18	92	8	68	16	9	0	73	1.08
2990260--2990313	12	4.5	12	86	4	65	14	9	0	75	1.03
2994873--2994959	32	2.8	32	87	3	115	21	22	21	33	1.97
2998135--2998173	20	2.0	20	89	0	60	35	28	7	28	1.85
3003029--3003087	29	2.0	29	90	0	91	27	8	13	50	1.70
3007588--3007642	3	17.7	3	88	7	83	30	1	0	67	1.01
3007588--3007661	6	11.3	7	86	13	81	28	1	0	70	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3010943--3010969	13	2.1	13	100	0	54	22	0	29	48	1.51
3011542--3011609	31	2.2	31	86	5	93	36	17	13	32	1.89
3014777--3014814	13	3.0	13	88	3	60	18	15	13	52	1.74
3015582--3015627	18	2.6	18	83	13	60	60	0	6	32	1.22
3016214--3016259	24	1.9	24	90	0	74	69	4	8	17	1.31
3017299--3017351	22	2.3	24	80	6	65	9	15	3	71	1.26
3021090--3021138	17	2.8	17	85	14	73	61	0	8	30	1.25
3021090--3021139	18	2.8	19	82	17	72	62	0	8	30	1.24
3026230--3026261	15	2.1	16	94	5	57	34	25	0	40	1.56
3026546--3026644	42	2.4	42	81	3	119	25	19	23	32	1.97
3026981--3027320	134	2.5	135	86	1	477	30	19	17	32	1.95
3030219--3030285	31	2.2	32	84	10	86	28	19	11	40	1.87
3036803--3036864	30	2.0	31	84	3	81	41	16	4	37	1.69
3041215--3041301	35	2.5	34	80	12	97	54	10	8	27	1.62
3043577--3043615	18	2.2	18	95	4	71	64	0	0	35	0.94
3050528--3050595	33	2.1	33	86	5	93	44	27	1	26	1.63
3052356--3052389	16	2.1	16	88	0	50	11	26	20	41	1.87
3061759--3062001	42	5.7	43	81	1	258	21	21	15	41	1.90
3061755--3062001	84	2.9	85	87	1	325	21	21	15	40	1.90
3062459--3062514	28	2.0	28	89	0	85	30	21	23	25	1.99
3064600--3064798	81	2.4	83	79	3	224	36	15	16	32	1.90
3064765--3064894	40	3.2	41	80	5	129	30	19	21	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3064765--3064900	42	3.3	42	74	5	143	29	18	21	30	1.97
3071364--3071409	22	2.1	22	100	0	92	58	13	0	28	1.35
3072662--3072703	15	2.6	16	82	17	52	61	0	4	33	1.17
3074711--3074772	2	31.0	2	100	0	124	50	0	0	50	1.00
3077158--3077190	15	2.1	16	88	5	50	51	3	0	45	1.16
3077855--3077919	17	3.6	17	71	15	58	36	9	1	52	1.43
3077846--3077921	38	2.0	37	97	2	143	38	7	2	51	1.45
3077851--3077913	21	3.2	21	60	17	53	31	7	1	58	1.36
3079139--3079206	3	22.7	3	100	0	136	33	0	66	0	0.92
3082527--3082565	20	1.9	21	85	15	55	38	2	2	56	1.27
3082998--3083037	16	2.5	16	100	0	80	50	5	7	37	1.53
3084067--3084114	21	2.2	22	77	7	53	56	6	12	25	1.59
3084983--3085065	38	2.2	38	91	4	132	50	21	3	24	1.64
3086357--3086411	29	1.9	28	88	3	83	52	16	9	21	1.71
3086730--3086789	3	20.0	3	89	0	93	38	0	0	61	0.96
3086735--3086801	12	6.2	11	78	16	61	43	0	0	56	0.99
3089400--3089424	9	2.8	9	100	0	50	48	0	0	52	1.00
3099535--3099569	9	3.7	9	85	14	52	88	0	11	0	0.51
3099536--3099563	11	2.5	11	100	0	56	92	0	7	0	0.37
3103430--3103463	17	2.1	16	88	5	50	76	0	8	14	1.01
3105566--3105596	15	2.1	15	100	0	62	45	16	0	38	1.47
3106407--3106477	31	2.3	31	95	0	124	38	4	16	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3106684--3106937	45	5.6	45	88	0	330	26	24	12	37	1.90
3106683--3106937	135	1.9	135	89	3	397	26	23	12	37	1.90
3110588--3110658	34	2.1	33	86	2	97	32	15	28	23	1.95
3113282--3113342	21	3.1	19	88	9	88	34	11	6	47	1.66
3114000--3114070	34	2.1	33	84	2	88	33	14	28	23	1.94
3114540--3114777	120	2.0	120	96	0	440	38	7	15	39	1.74
3122186--3122230	2	22.5	2	100	0	90	51	0	0	48	1.00
3122358--3122422	13	5.0	13	88	0	76	32	15	23	29	1.95
3122358--3122422	26	2.5	26	82	0	85	32	15	23	29	1.95
3127323--3127355	16	2.0	17	94	5	59	30	0	15	54	1.41

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20