genome.fa.s1111.2.7.7.80.10.50.1000.13.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  13  of  17  ( 1987 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)
2810925--2811201	141	2.0	141	97	0	518	46	12	12	28	1.78
2812193--2812230	17	2.2	18	85	4	51	36	18	5	39	1.73
2820241--2820282	13	3.1	14	80	6	52	21	4	21	52	1.65
2820273--2820455	44	4.1	44	87	2	260	37	7	22	31	1.83
2820801--2820866	22	3.0	22	79	0	69	27	13	24	34	1.93
2825875--2825905	15	2.1	15	94	5	55	70	0	0	29	0.87
2828799--2828848	23	2.2	23	96	0	91	44	4	22	30	1.71
2829601--2829842	38	6.4	37	88	5	326	42	3	10	43	1.55
2831411--2831516	55	1.9	55	92	3	178	38	10	14	36	1.80
2831428--2831561	55	2.4	55	83	9	150	35	11	15	36	1.85
2831765--2832166	45	8.9	45	88	0	590	44	11	21	22	1.84
2831776--2831845	21	3.2	21	70	18	52	45	11	21	21	1.83
2833632--2833671	21	1.9	21	84	0	53	32	5	0	62	1.17
2840397--2840518	44	2.8	44	92	2	192	17	16	6	59	1.57
2840437--2840506	22	3.2	22	67	15	63	14	17	8	60	1.58
2853160--2853313	36	4.6	35	85	11	186	44	3	9	42	1.53
2853294--2853345	10	4.8	10	76	17	50	42	3	11	42	1.59
2853290--2853359	11	6.3	11	76	15	72	42	2	12	41	1.58
2853299--2853360	24	2.7	23	90	5	90	45	3	11	40	1.56
2853382--2853457	36	2.2	34	83	9	91	46	5	7	40	1.56
2869630--2869692	1	63.0	1	88	0	72	0	6	3	90	0.54
2869630--2869682	15	3.7	15	90	5	83	0	7	1	90	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2870039--2870077	15	2.5	15	87	4	51	66	5	12	15	1.41
2881312--2881345	15	2.3	15	94	0	59	76	0	8	14	1.01
2881320--2881427	23	4.7	23	71	20	66	74	0	17	8	1.06
2881331--2881379	18	2.6	19	83	6	55	71	0	20	8	1.11
2882751--2883225	55	8.7	54	85	6	540	27	17	24	30	1.97
2882758--2883225	108	4.3	110	84	7	559	27	17	24	30	1.97
2895952--2895986	18	1.9	18	88	0	52	5	5	17	71	1.25
2896790--2896901	50	2.3	49	83	7	138	52	7	4	35	1.49
2901877--2901994	24	4.9	25	84	7	138	40	19	13	26	1.89
2901853--2902008	48	3.2	49	77	7	149	44	19	10	25	1.82
2904379--2904426	23	2.1	22	88	11	71	8	22	47	20	1.77
2906468--2906601	24	5.5	24	80	9	94	43	17	13	25	1.86
2906485--2906599	48	2.4	48	82	5	135	42	17	15	24	1.88
2908998--2909034	13	2.8	13	91	0	56	10	24	48	16	1.77
2908987--2909040	18	3.3	18	73	24	55	14	22	46	16	1.84
2911567--2911597	16	1.9	16	93	0	53	35	3	25	35	1.72
2913659--2913813	21	7.4	21	74	16	133	18	20	23	37	1.94
2913665--2913887	42	5.3	42	89	3	331	20	19	22	37	1.94
2913665--2913887	86	2.6	84	91	2	340	20	19	22	37	1.94
2913640--2913890	42	6.0	42	85	5	303	21	20	21	37	1.95
2913980--2914004	6	4.2	6	100	0	50	36	48	16	0	1.46
2914640--2914846	21	9.9	21	83	8	253	31	22	22	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2914643--2914840	62	3.2	62	81	11	199	32	22	21	23	1.98
2914836--2915032	21	9.6	20	73	16	129	24	21	19	34	1.96
2914693--2914846	83	1.9	83	95	0	281	31	23	22	23	1.99
2914836--2915094	41	6.3	41	78	12	262	23	21	21	33	1.97
2914859--2915094	21	11.4	21	77	9	243	23	21	22	33	1.98
2914859--2915074	62	3.5	62	89	2	344	23	21	21	33	1.97
2914810--2915045	124	1.9	124	87	6	345	25	22	20	32	1.98
2914836--2915087	83	3.0	82	79	12	282	23	21	21	33	1.97
2915839--2915992	83	1.9	83	87	0	227	31	20	18	29	1.96
2917081--2917157	33	2.3	35	93	4	131	53	19	18	9	1.71
2917274--2917366	48	1.9	49	91	2	152	49	9	9	31	1.68
2917275--2917474	46	4.3	46	79	10	167	48	9	10	32	1.69
2917298--2917471	93	1.9	94	84	6	237	49	9	8	32	1.66
2917275--2917474	47	4.3	46	79	9	192	48	9	10	32	1.69
2920046--2920099	20	2.7	20	94	0	90	24	29	18	27	1.98
2926323--2926489	90	1.9	89	93	1	289	38	10	6	44	1.66
2941308--2941499	75	2.5	75	90	2	287	30	25	19	25	1.98
2941461--2941536	20	3.6	21	74	11	66	26	31	17	25	1.97
2947302--2947401	21	4.5	22	78	13	100	28	25	18	29	1.98
2947276--2947378	21	4.7	21	80	12	93	31	21	17	30	1.96
2947276--2947378	44	2.3	45	83	8	131	31	21	17	30	1.96
2947276--2947402	44	2.9	44	81	10	127	29	24	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2949635--2949688	27	2.0	27	96	0	99	37	0	42	20	1.52
2950042--2950190	77	1.9	77	91	2	246	29	24	20	25	1.99
2952268--2952314	17	2.8	17	80	6	51	38	0	2	59	1.09
2953502--2953527	4	6.5	4	100	0	52	23	0	0	76	0.78
2956290--2956321	11	2.8	11	95	4	55	65	0	25	9	1.22
2962294--2962327	7	4.9	7	100	0	68	88	11	0	0	0.52
2963522--2963756	109	2.2	109	84	3	307	34	24	17	22	1.96
2965812--2965858	17	2.8	17	80	6	51	36	0	2	61	1.08
2965805--2965848	23	2.0	22	81	4	52	36	0	2	61	1.09
2965894--2965958	2	34.5	2	77	11	66	43	3	0	53	1.16
2966175--2966246	35	2.0	36	81	7	85	12	6	6	73	1.23
2969865--2970057	95	2.0	95	95	0	350	39	14	10	35	1.81
2975752--2975787	15	2.4	15	90	0	63	44	13	8	33	1.74
2977402--2977447	23	2.0	23	86	0	65	4	15	2	78	1.01
2977406--2977455	16	3.1	16	75	16	50	2	18	2	78	0.95
2977407--2977471	33	2.0	34	85	11	91	3	20	1	75	1.02
2977406--2977471	17	3.5	20	75	19	63	3	19	1	75	1.01
2992383--2992718	162	2.1	161	89	1	512	28	15	13	42	1.85
2992549--2992960	182	2.3	183	89	2	623	27	15	13	42	1.85
2995903--2995929	13	2.1	13	100	0	54	37	14	7	40	1.74
2998428--2998760	44	7.5	44	70	7	147	31	18	18	30	1.95
2998471--2998890	132	3.2	132	83	3	533	32	17	19	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998722--2998805	44	1.9	44	87	0	123	32	15	20	32	1.94
2998905--2999445	139	3.9	139	85	2	719	25	19	17	36	1.94
2999969--3000015	20	2.3	20	85	7	60	31	19	29	19	1.96
3000130--3000912	53	14.4	53	71	15	326	40	16	11	31	1.84
3000130--3000722	53	10.8	53	74	11	410	40	17	10	31	1.84
3000308--3000604	120	2.6	113	81	8	329	40	17	10	32	1.83
3000478--3000510	12	2.8	12	100	0	66	42	6	9	42	1.61
3000386--3000617	120	1.9	120	88	6	355	42	15	9	32	1.79
3000721--3000892	55	3.1	56	85	1	204	41	13	12	32	1.82
3000740--3000912	55	3.1	56	83	3	163	39	13	12	34	1.82
3002868--3002922	23	2.4	21	80	19	58	3	20	0	76	0.94
3004334--3004384	20	2.4	22	80	9	61	54	9	19	15	1.68
3006523--3006624	35	2.9	35	80	1	114	34	3	35	26	1.75
3006534--3006634	35	2.9	35	85	2	132	32	2	37	26	1.72
3009566--3009607	11	3.8	11	87	0	66	14	2	42	40	1.58
3009562--3009609	22	2.2	22	100	0	96	12	6	39	41	1.68
3011878--3012039	65	2.5	65	88	1	236	29	16	21	32	1.95
3014705--3014784	23	3.5	22	75	14	74	28	21	23	26	1.99
3020558--3020701	64	2.2	64	85	8	186	27	15	23	33	1.95
3033216--3033468	138	1.8	138	83	1	337	30	13	16	39	1.87
3033422--3033684	54	4.9	54	88	3	370	34	18	17	30	1.94
3037171--3037353	90	2.0	90	96	0	339	44	2	26	26	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3041113--3041151	2	19.5	2	89	0	60	48	0	46	5	1.24
3041113--3041151	12	3.2	12	96	0	69	48	0	46	5	1.24
3041471--3041516	19	2.4	19	96	0	83	19	26	13	41	1.88
3041883--3041930	23	2.0	24	84	4	62	12	16	35	35	1.87
3042023--3042073	3	16.7	3	87	4	75	62	0	1	35	1.06
3042296--3042983	139	4.9	139	79	2	603	25	17	26	30	1.97
3042283--3042970	278	2.5	278	79	1	689	25	17	26	30	1.97
3042911--3043044	56	2.4	56	86	2	171	27	20	22	29	1.99
3042771--3043159	195	2.0	195	85	0	517	27	19	23	29	1.98
3042632--3043322	334	2.1	334	81	3	784	27	18	25	29	1.98

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