genome.fa.s8162.2.7.7.80.10.50.1000.14.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

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

This is table  14  of  16  ( 1865 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)
2968384--2968522	36	3.9	36	94	0	233	40	3	20	35	1.70
2969833--2969984	69	2.2	69	82	10	179	42	5	6	44	1.54
2970195--2970224	13	2.3	13	100	0	60	16	0	26	56	1.40
2973249--2973325	23	3.3	23	92	0	136	45	14	9	31	1.76
2977923--2977961	18	2.1	19	90	4	62	41	2	0	56	1.13
2978167--2978591	157	2.7	159	78	5	432	48	8	17	26	1.75
2980384--2980453	20	3.6	19	78	1	68	38	10	18	32	1.84
2984835--2984871	19	2.1	18	90	10	58	40	8	5	45	1.56
2988419--2988443	13	1.9	13	100	0	50	44	0	16	40	1.47
2991267--2991314	20	2.3	21	85	7	62	16	0	10	72	1.10
2991919--2991948	15	2.0	15	93	0	51	33	6	30	30	1.83
2993038--2993071	12	2.7	13	86	9	52	44	8	5	41	1.60
2993182--2993218	19	2.1	18	90	10	58	40	8	5	45	1.56
2993379--2993425	20	2.3	20	92	0	85	27	23	14	34	1.94
3001804--3001833	11	2.9	10	90	9	51	26	10	3	60	1.45
3004415--3004453	18	2.2	18	90	0	60	46	7	20	25	1.77
3009416--3009999	5	120.8	5	89	9	937	39	20	0	40	1.52
3010004--3010063	14	4.1	14	74	19	52	36	0	8	55	1.30
3010004--3010055	16	3.4	15	79	15	54	34	0	9	55	1.32
3010072--3010122	22	2.3	23	80	10	61	39	1	5	52	1.37
3009965--3010160	10	19.6	10	66	21	56	37	4	5	53	1.44
3010106--3010172	15	4.2	16	70	21	52	34	2	2	59	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3013389--3013455	7	9.9	7	76	11	59	41	4	0	53	1.21
3013458--3013496	5	7.6	5	85	2	51	2	2	35	58	1.25
3013455--3013483	15	1.9	15	100	0	58	6	0	31	62	1.22
3013502--3013620	9	13.2	9	70	23	65	39	2	4	53	1.34
3013527--3013629	38	2.8	38	77	16	94	38	2	3	54	1.34
3013557--3013587	16	2.0	15	93	6	53	32	3	6	58	1.40
3013510--3013640	11	11.2	12	70	21	75	37	3	3	56	1.30
3023242--3023288	23	2.0	24	95	4	87	12	29	12	44	1.80
3034187--3034226	21	1.9	21	89	0	62	10	25	40	25	1.86
3034209--3034269	20	2.9	21	87	7	79	18	26	34	21	1.96
3038061--3038100	21	1.9	21	85	10	55	35	10	2	52	1.48
3044751--3044808	3	19.3	3	100	0	116	32	0	0	67	0.91
3046818--3046862	21	2.1	21	91	0	72	22	20	4	53	1.63
3049776--3049852	36	2.1	37	85	4	102	49	1	3	45	1.28
3051186--3051612	44	9.7	44	90	1	640	34	18	6	40	1.77
3055270--3055310	21	2.0	21	95	0	73	31	24	17	26	1.97
3055663--3055963	44	6.8	44	86	4	392	35	19	6	38	1.77
3066338--3066868	44	12.0	44	93	1	839	34	18	6	41	1.76
3066974--3067629	59	11.1	59	82	9	567	30	20	10	38	1.87
3066986--3067625	176	3.6	173	78	9	618	30	20	10	38	1.86
3075177--3075266	23	3.9	23	82	4	92	35	27	20	16	1.94
3075189--3075277	23	3.9	23	80	5	92	34	28	22	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083793--3083856	3	20.3	3	78	15	67	39	1	1	57	1.17
3084141--3084211	29	2.4	29	79	13	74	39	7	22	30	1.81
3085752--3085788	18	2.1	18	100	0	74	29	5	16	48	1.68
3085909--3085963	3	18.3	3	78	14	60	40	1	0	58	1.09
3085905--3085961	11	5.3	11	81	8	55	40	1	0	57	1.09
3086262--3086319	31	1.9	29	83	13	73	39	5	22	32	1.76
3087857--3087893	18	2.1	18	100	0	74	29	5	16	48	1.68
3088014--3088068	3	18.3	3	78	14	60	40	1	0	58	1.09
3088010--3088066	11	5.3	11	81	8	55	40	1	0	57	1.09
3088367--3088424	31	1.9	29	83	13	73	39	5	22	32	1.76
3089254--3089322	30	2.3	31	85	7	88	31	7	23	37	1.82
3089966--3090002	18	2.1	18	100	0	74	29	5	16	48	1.68
3090123--3090177	3	18.3	3	78	14	60	40	1	0	58	1.09
3090119--3090175	11	5.3	11	81	8	55	40	1	0	57	1.09
3090476--3090533	31	1.9	29	83	13	73	39	5	22	32	1.76
3091363--3091430	31	2.3	31	85	10	88	32	7	23	36	1.83
3098354--3098389	18	2.0	18	100	0	72	22	16	11	50	1.77
3098806--3098873	30	2.3	30	82	14	79	33	5	23	36	1.79
3099411--3099456	24	1.9	24	100	0	92	30	13	15	41	1.85
3110920--3111017	35	2.8	35	88	0	151	43	17	19	19	1.88
3113279--3113325	12	3.8	12	73	15	51	59	17	2	21	1.47
3113282--3113328	25	2.0	23	87	8	67	59	17	2	21	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127314--3127349	18	1.9	19	88	5	56	50	8	13	27	1.71
3132453--3132700	136	1.8	136	90	1	399	39	8	13	39	1.74
3132453--3132729	136	2.0	137	87	2	396	38	9	12	38	1.76
3134867--3134895	14	2.1	14	100	0	58	72	0	0	27	0.85
3136015--3136046	16	2.0	16	100	0	64	25	12	25	37	1.91
3136015--3136058	16	2.8	16	89	0	52	25	11	25	38	1.89
3141589--3141707	39	3.1	39	85	2	168	37	13	20	28	1.90
3143126--3143198	20	3.5	20	74	17	69	26	19	17	36	1.94
3143126--3143208	42	2.0	42	90	4	132	27	18	19	34	1.95
3143630--3143709	42	1.9	41	84	2	106	22	18	20	38	1.93
3143678--3143723	21	2.2	20	81	7	56	23	13	26	36	1.91
3143692--3143735	21	2.1	21	95	0	79	22	18	29	29	1.97
3147253--3147293	14	2.7	16	75	24	52	53	9	7	29	1.60
3174850--3174895	23	2.0	23	100	0	92	26	47	8	17	1.76
3182843--3182896	20	2.7	20	79	0	63	44	9	11	35	1.72
3184124--3184179	24	2.3	24	84	6	69	46	1	0	51	1.11
3185350--3185390	19	2.2	19	100	0	82	29	17	26	26	1.97
3186625--3186671	21	2.2	21	100	0	94	42	12	40	4	1.63
3188237--3188318	23	3.6	23	76	14	89	28	23	24	24	2.00
3192101--3192315	117	1.8	117	79	5	247	28	13	10	47	1.76
3199320--3199357	19	2.1	19	85	5	51	28	13	31	26	1.93
3199684--3199729	20	2.3	20	96	0	83	28	2	23	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3203813--3203880	23	3.2	21	75	17	59	35	1	0	63	1.04
3203986--3204053	25	2.7	25	86	2	91	54	0	5	39	1.25
3203992--3204061	25	2.8	25	82	8	88	52	0	7	40	1.29
3204243--3204941	350	2.0	348	96	3	1293	33	15	16	33	1.91
3216704--3216751	20	2.6	17	79	17	60	31	27	18	22	1.97
3216712--3216752	20	2.0	20	90	0	64	31	29	17	21	1.96
3223209--3224148	255	3.7	247	82	8	1075	34	15	16	32	1.91
3223917--3224344	196	2.2	196	89	3	650	32	16	17	33	1.93
3224180--3224259	42	1.9	42	85	10	110	25	20	20	35	1.96
3224730--3224765	3	12.0	3	93	0	63	33	2	0	63	1.08
3226028--3226149	53	2.3	54	86	1	165	24	30	22	22	1.99
3231977--3232016	21	1.9	21	89	0	62	25	40	25	10	1.86
3233935--3233982	17	2.9	17	80	17	57	14	0	27	58	1.37
3234562--3234773	76	2.8	75	84	4	259	26	32	21	20	1.97
3236488--3236967	130	3.9	123	84	5	508	32	12	16	39	1.86
3238790--3238815	2	13.0	2	100	0	52	50	0	0	50	1.00
3247595--3247641	21	2.2	21	96	0	85	25	4	34	36	1.76
3250969--3251004	2	18.0	2	100	0	72	50	0	0	50	1.00
3253802--3253913	3	38.0	3	77	13	99	57	0	3	38	1.22
3253802--3253913	26	4.3	26	82	12	117	57	0	3	38	1.22
3253821--3253909	18	5.1	18	86	4	119	57	1	2	39	1.19
3254056--3254109	20	2.7	20	88	0	63	27	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3254076--3254420	99	3.5	98	86	2	451	33	18	14	33	1.91
3256687--3256726	21	1.9	21	90	10	64	57	7	5	30	1.48
3260537--3260596	23	2.7	23	84	2	77	23	31	23	21	1.98
3261018--3261050	16	1.9	18	88	11	52	33	0	12	54	1.37
3262848--3262874	13	2.1	13	100	0	54	33	0	51	14	1.43
3272449--3272533	3	29.0	3	79	9	86	58	1	3	36	1.23
3272449--3272533	26	3.3	26	80	4	93	58	1	3	36	1.23
3272450--3272533	29	3.0	27	79	10	80	59	1	3	35	1.22
3278011--3278041	2	15.5	2	100	0	62	48	0	0	51	1.00
3279898--3279981	3	27.7	3	85	2	105	36	0	0	63	0.95

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