genome.fa.s7746.2.7.7.80.10.50.1000.12.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

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

This is table  12  of  15  ( 1700 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)
2980962--2980996	16	2.1	18	89	10	56	22	5	0	71	1.07
2980962--2980996	17	2.1	16	89	5	52	22	5	0	71	1.07
2981615--2982009	199	2.0	199	97	2	758	23	21	21	33	1.97
2982361--2982398	20	1.9	20	89	10	60	7	21	0	71	1.11
2985541--2985608	16	4.8	14	77	16	77	82	5	11	0	0.83
2985541--2985609	13	4.9	13	80	18	68	81	5	13	0	0.87
2985547--2985605	18	3.4	17	81	9	59	81	5	13	0	0.85
2985570--2985618	23	2.1	24	84	3	64	79	6	14	0	0.91
2986618--2986659	21	2.0	21	95	0	75	26	28	21	23	1.99
2986860--2986950	31	3.0	30	92	6	148	41	18	6	32	1.76
2988451--2988489	21	1.9	21	89	5	62	25	38	25	10	1.87
2991998--2992052	22	2.5	22	100	0	110	36	27	12	23	1.91
2993017--2994713	106	16.0	106	92	0	2637	34	25	18	22	1.96
2996028--2996080	25	2.1	25	82	6	63	33	3	0	62	1.13
2996025--2996074	16	3.2	16	75	25	54	36	4	0	60	1.16
2996264--2996321	15	4.0	15	76	19	61	25	1	1	70	1.06
2996193--2996314	28	4.5	26	69	24	69	28	3	2	65	1.21
2996257--2996306	11	4.5	11	82	5	64	28	0	0	72	0.86
2996206--2996308	16	6.4	16	67	20	56	29	1	2	66	1.17
2996263--2996321	27	2.2	26	80	14	66	25	1	1	71	1.05
2996369--2996434	15	4.6	14	74	18	55	16	4	1	77	1.01
2996406--2996434	5	6.0	5	92	8	51	17	0	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998721--2998765	18	2.5	20	75	20	53	75	2	2	20	1.01
2998721--2998757	13	2.9	12	92	8	56	78	2	0	18	0.87
2999973--3000279	133	2.3	132	79	6	334	29	14	20	34	1.93
3000364--3000790	133	3.2	132	82	2	509	28	16	22	33	1.96
3003554--3003709	78	2.0	78	100	0	312	16	28	16	38	1.91
3006983--3007007	10	2.5	10	100	0	50	8	8	0	84	0.79
3011299--3011384	41	2.2	40	89	8	133	62	12	1	23	1.37
3012696--3012823	55	2.3	55	98	0	247	25	25	17	32	1.97
3020889--3020930	17	2.5	17	77	11	50	38	0	0	61	0.96
3026625--3026660	14	2.6	14	95	0	63	61	0	13	25	1.33
3026709--3026740	17	1.9	17	93	6	57	81	6	3	9	0.97
3027155--3027210	29	1.9	29	96	0	103	46	3	19	30	1.67
3027158--3027221	29	2.2	29	88	5	94	50	3	17	29	1.61
3028768--3029937	139	8.4	139	90	0	1777	26	21	17	34	1.95
3028786--3029937	417	2.8	417	93	0	1973	26	21	17	34	1.95
3029913--3029954	17	2.5	17	100	0	84	19	26	4	50	1.67
3030021--3030077	19	2.9	21	70	21	59	21	21	10	47	1.80
3029930--3030095	91	1.8	91	89	0	260	24	22	13	39	1.91
3030633--3030719	41	2.1	42	84	2	113	33	16	18	32	1.93
3030458--3030918	240	1.9	236	81	9	560	34	16	16	32	1.91
3030688--3031127	198	2.2	193	86	4	603	35	14	17	32	1.90
3031079--3031180	42	2.4	41	77	7	107	30	21	20	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3031251--3031320	34	2.1	33	89	2	104	40	11	14	34	1.82
3031283--3031639	53	6.8	53	80	9	290	41	18	10	29	1.83
3031419--3031512	46	2.0	46	89	0	143	39	23	9	27	1.86
3031466--3031667	52	3.8	53	80	6	207	42	16	9	30	1.81
3031837--3031897	2	30.5	2	100	0	122	49	0	0	50	1.00
3033647--3033719	27	2.8	26	75	20	64	4	20	0	75	0.97
3033954--3034039	2	43.0	2	100	0	172	50	0	0	50	1.00
3037431--3037487	7	8.0	7	78	7	53	75	1	1	21	0.98
3037414--3037485	36	2.1	34	82	12	85	70	2	2	23	1.13
3037501--3037536	14	2.6	14	90	0	54	58	2	13	25	1.49
3038033--3038088	29	1.9	29	88	0	85	44	3	19	32	1.68
3038036--3038099	29	2.2	29	83	5	76	48	3	17	31	1.62
3040973--3041092	27	4.5	25	73	14	73	48	24	2	25	1.64
3040966--3041092	54	2.4	54	85	5	168	49	23	2	24	1.62
3042445--3042479	2	17.0	2	94	5	61	48	0	2	48	1.16
3044999--3045075	3	26.7	3	77	12	72	63	1	1	33	1.11
3044999--3045079	11	7.6	11	67	16	55	64	1	1	33	1.10
3045558--3046006	113	4.0	114	92	2	719	29	18	13	38	1.89
3047149--3047204	19	3.1	17	78	14	58	58	3	7	30	1.42
3054914--3054945	15	2.1	15	94	0	55	46	9	18	25	1.79
3058245--3058326	18	4.6	18	73	20	57	67	1	1	30	1.06
3058301--3058338	8	4.9	8	87	6	51	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3058300--3058341	16	2.7	16	88	3	59	71	0	0	28	0.86
3059364--3059400	13	2.8	13	91	0	56	40	8	8	43	1.64
3061345--3061402	18	3.4	18	73	17	52	65	6	1	25	1.27
3062690--3062762	3	25.3	3	76	13	73	64	1	1	32	1.11
3062690--3062755	11	6.3	11	70	16	59	65	0	1	33	1.02
3062692--3062753	31	2.0	32	87	3	90	64	0	1	33	1.03
3062690--3062778	21	4.4	20	73	17	71	65	1	1	32	1.08
3067769--3067800	15	2.1	15	94	0	55	43	6	12	37	1.68
3077965--3078166	96	2.1	96	92	3	336	35	14	17	32	1.91
3078968--3079314	84	4.1	83	84	3	424	36	22	17	24	1.95
3078968--3079314	168	2.1	169	87	2	500	36	22	17	24	1.95
3087785--3087821	5	7.4	5	100	0	74	40	0	0	59	0.97
3088783--3088807	13	1.9	13	100	0	50	16	4	0	80	0.87
3088777--3088837	32	1.9	32	86	6	88	22	3	3	70	1.17
3088860--3088911	2	26.0	2	90	0	77	44	0	3	51	1.19
3089013--3089046	14	2.2	16	90	10	54	11	17	0	70	1.16
3089040--3089080	21	1.9	22	85	5	57	19	17	2	60	1.46
3089235--3089259	4	6.2	4	100	0	50	24	0	0	76	0.80
3090708--3090741	17	2.0	17	88	11	52	64	0	2	32	1.08
3090744--3090773	16	1.9	16	93	6	53	63	0	0	36	0.95
3090743--3090796	27	2.0	28	85	10	76	61	0	3	35	1.14
3092031--3092083	3	19.0	3	81	14	60	66	1	0	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3092031--3092083	19	2.8	19	85	0	70	66	1	0	32	1.03
3092009--3092088	22	3.6	21	78	9	70	61	2	0	36	1.10
3092031--3092094	22	2.9	21	81	9	74	65	4	0	29	1.13
3092328--3092391	20	3.4	20	68	24	66	21	20	7	50	1.73
3092329--3092418	36	2.5	36	100	0	180	22	20	10	47	1.79
3092340--3092399	20	3.2	20	65	26	58	25	18	11	45	1.83
3092468--3092890	113	3.7	113	80	4	456	27	19	14	38	1.91
3092713--3092757	24	1.9	23	82	13	56	15	24	6	53	1.66
3092690--3092927	123	1.9	123	86	1	334	25	19	15	39	1.90
3093207--3093523	73	4.3	73	88	2	447	30	20	21	27	1.98
3094157--3094216	22	2.7	22	84	0	84	43	10	11	35	1.75
3098547--3098602	8	6.5	8	84	15	76	0	25	0	75	0.81
3098547--3098602	17	3.2	17	85	9	78	0	25	0	75	0.81
3098547--3098602	27	2.2	25	90	6	85	0	25	0	75	0.81
3101459--3101500	7	6.0	7	78	10	50	54	14	16	14	1.71
3102975--3103022	8	5.6	8	80	9	51	79	0	0	20	0.74
3102993--3103032	14	2.7	14	88	7	53	75	0	2	22	0.93
3102994--3103034	17	2.4	18	88	11	61	73	0	2	24	0.96
3103771--3103822	2	26.0	2	100	0	104	50	0	0	50	1.00
3103832--3103865	17	2.0	17	88	11	52	64	0	5	29	1.17
3103868--3103903	16	2.2	16	100	0	72	63	0	0	36	0.94
3103867--3103920	27	2.0	28	88	3	83	61	1	1	35	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109405--3109432	7	4.0	7	100	0	56	42	0	0	57	0.99
3109458--3109482	13	1.9	13	100	0	50	16	16	28	40	1.89
3110299--3110330	16	2.0	16	93	0	55	34	6	25	34	1.81
3116040--3116190	75	2.0	75	100	0	302	38	3	16	41	1.67
3116541--3116620	11	7.0	11	83	8	79	41	23	7	27	1.81
3116540--3116596	22	2.6	22	94	0	96	45	24	3	26	1.69
3118267--3118334	7	9.7	7	73	0	55	19	0	27	52	1.46
3118267--3118334	28	2.4	28	76	9	75	19	0	27	52	1.46
3118374--3118424	14	3.6	14	83	0	57	27	0	23	49	1.51
3118379--3118447	21	3.3	20	76	13	61	23	0	27	49	1.50

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