genome.fa.s8685.2.7.7.80.10.50.1000.16.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

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

This is table  16  of  19  ( 2244 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)
3025202--3025265	25	2.6	26	85	9	82	71	0	1	26	0.94
3025204--3025258	11	4.2	13	76	19	53	74	0	1	23	0.91
3025831--3025868	14	2.6	15	83	4	51	73	0	2	23	0.95
3026657--3026700	2	22.0	2	100	0	88	50	0	0	50	1.00
3026698--3026752	8	6.8	8	76	15	51	69	0	0	30	0.89
3026698--3026752	3	20.0	3	75	17	57	69	0	0	30	0.89
3026710--3026745	11	3.5	11	92	7	58	66	0	0	33	0.92
3026698--3026750	11	4.6	11	86	9	54	69	0	0	30	0.88
3028070--3028109	2	20.0	2	100	0	80	50	0	0	50	1.00
3028100--3028157	23	2.5	23	88	8	82	51	0	0	48	1.00
3037104--3037129	9	2.9	9	100	0	52	11	23	23	42	1.86
3041395--3041435	6	6.5	6	86	8	55	31	2	0	65	1.05
3041387--3041431	13	3.6	12	82	11	54	35	2	2	60	1.22
3044133--3044184	20	2.9	18	75	13	54	28	19	26	25	1.98
3044111--3044183	36	2.0	37	86	10	105	28	20	27	23	1.99
3044421--3044456	18	2.0	18	88	0	54	41	8	19	30	1.81
3048943--3048975	17	1.9	17	100	0	66	18	24	36	21	1.95
3050874--3050921	19	2.5	20	89	3	71	29	12	6	52	1.63
3057782--3057821	19	2.0	20	90	4	64	25	5	2	67	1.23
3059172--3059216	22	2.1	21	84	12	56	44	4	0	51	1.21
3059190--3059271	42	2.0	42	85	4	112	51	2	1	45	1.22
3063242--3063268	6	4.5	6	100	0	54	70	0	29	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3064690--3064785	39	2.4	40	83	10	117	53	1	0	45	1.07
3064728--3064816	13	6.5	13	73	16	56	51	0	0	48	1.00
3064769--3064809	15	2.8	15	92	3	66	51	0	0	48	1.00
3064690--3064789	38	2.5	38	82	9	103	54	1	0	45	1.06
3066234--3066263	14	2.1	14	93	0	51	46	0	0	53	1.00
3067427--3067515	32	2.7	32	79	10	81	51	10	4	33	1.56
3067472--3067540	31	2.2	32	84	2	86	55	10	7	27	1.60
3075785--3075824	13	3.0	13	82	7	53	60	0	2	37	1.11
3076161--3076235	36	2.1	37	94	2	134	22	36	4	37	1.73
3076767--3076858	41	2.3	40	88	3	141	52	11	14	21	1.73
3081938--3081989	26	2.0	26	82	14	63	34	0	0	65	0.93
3082567--3082606	18	2.3	18	86	4	55	57	0	2	40	1.12
3082577--3082630	18	3.0	18	81	10	65	51	1	1	44	1.22
3082683--3082753	17	4.1	17	73	12	63	52	0	2	45	1.15
3082772--3082800	2	14.5	2	100	0	58	51	0	0	48	1.00
3088417--3088524	54	2.0	54	100	0	216	38	18	12	29	1.88
3090986--3091040	25	2.2	25	93	0	92	29	7	5	58	1.48
3101292--3101346	25	2.2	24	84	9	76	0	5	14	80	0.89
3101299--3101345	11	4.0	11	80	20	51	0	4	10	85	0.74
3101299--3101342	9	4.7	9	79	20	54	0	4	9	86	0.70
3105284--3105342	14	4.1	14	78	4	64	40	5	18	35	1.73
3105504--3105572	22	3.1	23	81	6	79	47	1	0	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3105674--3105741	35	1.9	35	85	11	95	42	1	2	52	1.25
3105845--3105893	21	2.3	20	80	13	53	53	0	0	46	1.00
3105813--3105885	26	2.6	29	72	20	73	52	0	0	47	1.00
3116157--3116235	31	2.5	31	87	0	104	45	12	5	36	1.64
3121970--3122315	173	2.0	173	100	0	692	27	21	26	24	2.00
3122912--3122975	32	2.0	32	100	0	128	31	15	9	43	1.78
3123410--3123501	32	2.9	32	88	4	132	18	16	8	56	1.65
3123415--3123512	32	3.1	32	85	4	99	22	15	7	55	1.64
3129262--3129308	20	2.3	20	88	0	67	42	25	14	17	1.87
3129273--3129310	20	1.9	20	100	0	76	42	26	15	15	1.87
3129424--3129474	22	2.3	22	96	0	93	21	43	13	21	1.87
3129815--3129865	20	2.5	20	90	0	84	47	21	19	11	1.81
3129862--3129913	20	2.7	20	91	8	81	11	19	21	48	1.80
3131341--3131375	16	2.2	16	100	0	70	31	34	25	8	1.86
3131817--3131909	21	4.4	20	70	8	60	25	31	20	22	1.98
3131811--3131913	42	2.5	42	73	12	104	25	33	18	23	1.97
3133258--3133435	66	2.6	65	86	9	234	28	2	15	53	1.54
3133511--3133549	13	2.9	14	82	17	55	7	20	30	41	1.80
3133511--3133553	14	3.1	14	78	18	54	9	18	27	44	1.80
3133852--3133887	18	2.0	18	94	0	63	16	2	25	55	1.55
3134837--3134873	18	2.1	18	89	0	56	51	10	5	32	1.60
3138030--3138083	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3138030--3138097	24	2.8	24	84	0	64	38	20	17	23	1.93
3138826--3138863	16	2.5	15	84	12	51	65	0	5	28	1.14
3139058--3139207	20	7.6	20	74	6	135	20	14	22	43	1.87
3139037--3139227	40	4.8	40	80	10	207	21	14	21	41	1.89
3139058--3139227	80	2.1	80	92	1	279	21	15	21	42	1.89
3139199--3139262	20	3.2	20	84	0	83	25	17	15	42	1.88
3140338--3140653	43	7.3	41	76	12	210	51	6	17	24	1.69
3140338--3140653	87	3.7	85	76	10	293	51	6	17	24	1.69
3140356--3140603	129	1.9	130	81	8	301	49	7	18	24	1.73
3140866--3140970	30	3.5	30	80	2	111	53	5	14	26	1.63
3141361--3141420	30	1.9	32	90	6	97	35	6	16	41	1.75
3141499--3141597	21	4.7	21	77	14	105	22	33	20	24	1.97
3141499--3141597	42	2.4	42	88	6	139	22	33	20	24	1.97
3141614--3141690	20	3.9	20	93	5	122	19	25	20	33	1.96
3142642--3142691	24	2.1	24	85	3	66	36	4	0	60	1.16
3143567--3143726	65	2.5	65	86	5	209	25	19	24	30	1.98
3143567--3143776	65	3.2	64	79	12	182	25	18	24	31	1.98
3144242--3144266	2	12.5	2	100	0	50	52	0	0	48	1.00
3150278--3150317	21	1.9	21	85	10	55	35	10	2	52	1.48
3151417--3151483	20	3.3	20	68	12	64	31	8	7	52	1.61
3151437--3151509	20	3.6	21	67	12	62	34	8	5	52	1.55
3151407--3151503	41	2.4	41	96	1	178	30	7	7	54	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153462--3153511	19	2.7	19	84	9	59	28	16	28	28	1.97
3153482--3153641	65	2.5	64	83	7	182	28	18	22	30	1.97
3153526--3153691	65	2.6	63	80	11	185	26	19	22	31	1.98
3154532--3154593	29	2.1	30	85	8	83	17	12	19	50	1.78
3156362--3156402	3	14.3	3	85	10	59	29	0	2	68	1.03
3156946--3157662	394	1.8	391	87	2	1060	35	19	25	18	1.95
3158155--3158275	29	4.1	29	81	11	115	27	17	13	42	1.86
3161239--3161265	14	1.9	14	100	0	54	22	22	22	33	1.97
3164481--3164595	41	2.8	41	94	1	194	15	19	17	47	1.82
3164770--3164847	22	3.4	22	77	15	70	46	0	1	52	1.08
3164807--3164849	19	2.2	20	87	8	61	48	0	0	51	1.00
3164808--3164853	21	2.2	21	84	7	58	52	0	0	47	1.00
3164860--3164963	29	3.5	28	75	19	88	47	0	2	50	1.16
3165164--3165218	19	3.2	17	73	16	51	40	0	1	58	1.09
3165298--3165356	20	3.0	20	94	0	109	38	13	5	42	1.66
3165342--3165444	30	3.5	29	86	4	145	35	18	5	39	1.75
3165342--3165438	15	6.5	15	83	2	124	38	17	6	38	1.75
3167723--3167804	2	43.0	2	69	9	55	52	0	0	47	1.00
3167724--3167785	17	3.4	17	73	16	61	53	0	0	46	1.00
3167723--3167804	38	2.2	38	95	0	146	52	0	0	47	1.00
3171346--3171422	21	3.7	21	96	0	127	38	7	24	28	1.83
3177508--3177571	17	3.5	17	75	14	56	76	4	12	6	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3177508--3177622	19	6.1	18	74	17	83	80	2	13	4	0.97
3177545--3177617	9	7.6	10	76	23	61	83	0	13	2	0.75
3177560--3177622	7	9.1	7	80	16	78	84	0	14	1	0.71
3177531--3177610	22	3.8	21	83	6	90	81	1	13	3	0.89
3177580--3177622	13	3.3	13	93	0	77	88	0	11	0	0.52
3177533--3177622	16	5.4	16	75	18	69	82	1	13	3	0.86
3177530--3177622	22	4.3	21	78	8	89	81	1	13	3	0.86
3178365--3178423	28	2.1	28	81	6	66	40	35	5	18	1.73
3179804--3180013	57	3.6	58	79	7	201	30	10	19	40	1.84
3180082--3180235	41	3.7	41	81	9	161	27	19	19	33	1.96

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