genome.fa.s8424.2.7.7.80.10.50.1000.12.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

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

This is table  12  of  16  ( 1819 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)
2918764--2918888	41	3.0	43	91	4	218	20	32	2	44	1.65
2921168--2921251	23	3.7	23	82	9	118	19	26	34	20	1.96
2921167--2921252	45	1.9	45	97	0	163	18	25	34	20	1.96
2930009--2930381	54	6.9	54	88	0	532	25	16	21	36	1.94
2935670--2936054	107	3.6	106	80	7	431	27	16	20	34	1.95
2935659--2936043	161	2.4	160	80	3	443	27	17	20	35	1.95
2935669--2936053	54	7.2	54	80	6	399	27	16	20	35	1.94
2938925--2938954	3	9.7	3	92	7	51	63	0	36	0	0.95
2946178--2946219	21	2.0	21	85	4	57	40	7	9	42	1.65
2952184--2952280	41	2.3	43	81	10	103	31	1	13	53	1.46
2953127--2953171	17	2.6	17	83	10	56	44	0	4	51	1.21
2956971--2957028	24	2.4	24	85	0	80	5	15	25	53	1.63
2958525--2958649	42	3.0	42	91	0	205	36	21	7	35	1.81
2964509--2964536	14	2.0	14	100	0	56	28	21	21	28	1.99
2965679--2965705	4	6.8	4	100	0	54	77	0	0	22	0.76
2966385--2966414	14	2.1	15	93	6	53	30	20	6	43	1.77
2967143--2967176	14	2.4	14	90	0	50	38	11	5	44	1.65
2979147--2979384	129	1.8	130	84	4	329	31	17	16	34	1.92
2979755--2979969	102	2.1	102	80	3	227	38	13	18	29	1.89
2983725--2983754	9	3.2	9	90	9	51	56	0	20	23	1.42
2983711--2983754	19	2.3	18	88	7	61	59	2	15	22	1.48
2986270--2986331	29	2.2	29	80	13	67	61	1	6	30	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2987480--2987524	22	2.0	22	82	0	54	31	13	17	37	1.89
2987522--2987567	3	14.7	3	86	4	56	60	0	0	39	0.97
2987510--2987563	17	3.3	16	82	12	58	55	0	0	44	0.99
2987722--2988207	76	6.4	76	97	0	900	35	22	19	23	1.96
2989056--2989106	22	2.3	22	93	0	93	41	13	11	33	1.81
2991600--2991819	114	1.9	114	93	0	377	29	21	15	33	1.95
2993944--2993992	7	7.4	7	81	9	50	4	20	0	75	0.96
2993944--2993990	13	3.6	13	80	8	60	4	19	0	76	0.95
2993946--2993982	19	1.9	19	88	0	56	5	10	0	83	0.79
2993946--2994009	26	2.5	26	84	5	76	6	17	0	76	0.98
2996876--2996965	36	2.5	36	78	7	94	55	10	16	17	1.68
2998666--2998692	10	2.7	10	100	0	54	81	0	11	7	0.87
3000163--3000224	29	2.2	28	81	16	76	62	3	4	29	1.31
3000241--3000302	14	4.4	14	76	15	56	62	1	4	30	1.25
3000241--3000283	15	3.1	13	81	15	50	65	0	2	32	1.06
3000241--3000302	29	2.2	29	80	13	67	62	1	4	30	1.25
3001498--3001558	3	19.7	3	89	3	86	62	0	0	37	0.96
3011426--3011470	17	2.4	18	82	14	56	2	8	11	77	1.07
3016251--3016298	13	3.7	13	82	0	60	33	16	20	29	1.95
3024353--3024406	3	18.0	3	100	0	108	66	0	0	33	0.92
3026435--3026468	15	2.4	14	90	5	50	17	0	0	82	0.67
3026435--3026459	7	3.6	7	100	0	50	12	0	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3026648--3026688	21	2.0	21	90	0	64	9	7	7	75	1.18
3026699--3026746	15	3.2	15	74	11	53	25	2	6	66	1.26
3026703--3026762	26	2.3	26	80	8	68	26	1	8	63	1.32
3027646--3028340	139	5.0	138	84	5	897	42	14	13	28	1.84
3033734--3033918	29	6.4	29	79	6	180	48	12	7	31	1.67
3033749--3033919	85	2.0	85	84	4	220	47	13	6	32	1.68
3033809--3033860	27	1.9	27	84	0	68	51	13	3	30	1.58
3033734--3033900	56	2.9	57	80	5	185	47	13	7	31	1.70
3033734--3033946	29	7.4	29	77	8	161	49	12	6	31	1.65
3033734--3033946	114	1.9	114	81	5	261	49	12	6	31	1.65
3036835--3037063	118	1.9	120	86	3	329	27	22	13	36	1.92
3036991--3037139	76	2.0	76	89	2	228	26	23	13	36	1.92
3036873--3037258	194	2.0	195	86	2	535	26	23	13	36	1.92
3037067--3037601	119	4.5	119	76	4	506	26	20	15	38	1.92
3037069--3037601	238	2.2	237	81	3	615	26	19	15	38	1.91
3049094--3049157	21	3.1	21	78	10	78	0	12	10	76	1.02
3049101--3049149	12	4.3	12	76	23	52	0	12	10	77	0.99
3052053--3052200	77	1.9	79	82	10	189	41	8	5	45	1.57
3052248--3052284	15	2.5	15	100	0	74	40	10	5	43	1.63
3058837--3059629	139	5.8	137	78	8	771	44	14	11	30	1.80
3058854--3059629	267	2.8	275	81	7	854	43	14	11	30	1.81
3061152--3061220	20	3.3	20	79	6	66	78	5	14	1	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3061828--3061878	22	2.3	22	93	0	84	35	25	11	27	1.91
3062738--3062842	36	2.9	36	88	2	156	24	23	12	39	1.89
3062738--3062847	37	3.0	37	87	2	159	26	23	11	38	1.89
3062756--3063213	102	4.5	102	92	1	756	30	20	12	36	1.89
3062874--3063148	37	7.9	37	65	21	148	29	20	12	37	1.90
3063113--3063255	65	2.2	65	93	0	241	31	20	11	37	1.88
3064126--3064502	109	3.5	109	83	8	423	32	24	20	22	1.98
3063801--3064658	98	8.3	104	79	8	625	32	24	21	21	1.98
3065119--3065217	35	2.7	35	86	7	119	37	15	16	31	1.89
3065889--3065922	16	2.1	16	88	0	50	32	5	0	61	1.20
3080718--3080748	9	3.6	9	95	4	55	0	6	22	70	1.09
3083159--3083393	80	2.9	80	96	0	416	44	11	7	37	1.69
3086502--3086602	31	3.1	30	70	18	85	19	20	20	38	1.93
3086503--3086629	67	1.9	67	88	0	191	21	21	19	37	1.94
3100672--3100728	18	3.4	17	83	11	73	15	12	7	64	1.47
3103616--3103642	13	2.1	13	100	0	54	74	0	0	25	0.83
3114856--3115666	47	17.2	47	82	5	908	45	12	19	22	1.83
3114856--3115666	141	5.7	141	85	2	1018	45	12	19	22	1.83
3130975--3131062	5	17.2	5	73	21	67	4	18	0	77	0.94
3130958--3131035	22	3.6	22	72	27	69	3	19	0	76	0.93
3130958--3131045	32	2.8	32	85	10	103	4	19	0	76	0.96
3130958--3131059	10	9.8	10	74	22	61	4	17	0	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3130959--3131039	18	3.6	22	70	29	64	3	19	0	76	0.93
3138045--3138411	131	2.8	131	84	2	461	40	15	12	31	1.85
3146672--3146706	16	2.2	16	94	0	61	22	5	57	14	1.59
3146639--3146742	52	2.0	52	88	0	154	23	9	50	17	1.75
3147770--3147802	16	2.1	16	100	0	66	48	21	6	24	1.72
3150267--3150302	15	2.4	15	90	0	54	5	16	66	11	1.40
3153377--3153611	42	5.5	42	82	5	249	26	21	18	33	1.96
3153356--3153597	85	2.8	84	82	6	265	28	19	17	34	1.95
3158362--3158407	13	3.6	13	85	5	67	41	23	15	19	1.89
3158734--3158796	3	21.3	3	93	3	110	33	1	0	65	1.03
3177109--3177165	23	2.6	21	71	15	53	28	17	19	35	1.94
3185371--3185419	23	2.1	23	81	7	55	4	10	10	75	1.17
3187014--3187193	29	6.2	29	79	7	177	48	15	3	32	1.61
3187203--3187228	13	2.0	13	100	0	52	15	23	46	15	1.83
3187942--3187973	2	16.0	2	100	0	64	50	0	0	50	1.00
3188452--3188478	10	2.7	10	100	0	54	51	11	18	18	1.74
3194735--3194787	18	2.9	18	86	13	81	81	9	7	1	0.96
3194756--3194809	24	2.2	25	83	9	76	79	9	5	5	1.04
3194736--3194808	8	8.5	8	74	18	58	80	9	6	2	0.98
3194735--3194802	18	3.9	18	80	14	72	80	8	7	2	0.98
3201908--3201952	12	3.5	13	85	14	58	73	8	17	0	1.08
3201908--3201988	14	6.1	14	74	22	61	75	4	17	2	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3201923--3202007	26	3.1	26	76	19	84	77	2	17	2	0.98
3201923--3201998	17	3.8	19	71	22	59	77	2	17	2	1.00
3201916--3202008	18	5.4	17	75	7	71	78	3	16	2	0.98
3201924--3202031	18	5.6	19	72	17	64	76	2	17	2	1.02
3201971--3202037	21	3.2	21	76	16	68	79	2	16	1	0.94
3203211--3203292	36	2.2	36	80	2	92	34	18	8	39	1.81
3203345--3203401	27	2.1	27	83	0	69	29	14	14	42	1.84
3203303--3203620	66	4.9	66	80	3	232	26	21	14	38	1.91
3203370--3203627	66	3.9	66	83	0	282	24	22	14	37	1.92
3203653--3203990	131	2.6	130	78	5	345	27	29	15	26	1.96

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