genome.fa.s7816.2.7.7.80.10.50.1000.10.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: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3994936

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

This is table  10  of  14  ( 1594 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)
2824880--2824931	23	2.3	23	80	6	72	21	40	21	17	1.91
2824912--2824951	21	1.9	21	89	0	62	25	40	25	10	1.86
2833568--2833639	22	3.4	21	80	16	78	45	0	1	52	1.09
2833557--2833621	19	3.4	19	85	8	87	46	0	1	52	1.10
2854531--2854555	12	2.1	12	100	0	50	84	0	0	16	0.63
2854538--2854562	10	2.5	10	100	0	50	84	0	0	16	0.63
2856043--2856216	91	1.9	91	83	4	226	21	20	15	41	1.89
2861533--2861614	23	3.6	23	81	6	85	32	18	24	24	1.97
2863635--2863983	46	7.5	46	88	1	466	22	21	12	43	1.86
2863635--2864085	139	3.3	139	85	4	558	24	21	12	41	1.87
2863831--2864103	45	6.0	45	83	5	232	25	22	11	40	1.88
2864702--2864755	22	2.5	22	96	0	99	22	22	14	40	1.90
2867210--2867258	4	12.2	4	91	0	71	24	6	26	42	1.78
2867216--2867277	12	5.1	12	82	3	61	29	8	27	35	1.85
2867275--2867308	15	2.3	15	94	0	59	23	23	35	17	1.95
2875432--2875574	48	3.0	47	87	5	198	32	6	29	31	1.84
2880017--2880071	25	2.2	25	90	0	83	36	3	18	41	1.68
2882784--2883268	178	2.8	172	76	8	437	34	17	12	34	1.88
2883399--2883445	16	2.8	17	83	6	60	10	6	8	74	1.22
2883417--2883455	18	2.2	18	90	0	60	12	5	2	79	1.00
2883577--2883610	16	2.1	16	100	0	68	23	23	11	41	1.87
2894204--2894389	46	4.1	45	92	2	302	39	6	22	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2895451--2895517	22	3.0	22	82	4	89	28	25	19	26	1.99
2895501--2895621	32	3.4	32	71	25	107	23	29	18	28	1.98
2895517--2895642	37	3.3	37	72	25	136	23	29	19	27	1.98
2895453--2895644	77	2.5	77	96	0	348	24	29	18	27	1.98
2895674--2895739	34	2.0	33	85	8	89	30	30	16	22	1.96
2895691--2895721	15	2.1	15	93	0	53	32	29	12	25	1.93
2897609--2897650	17	2.4	17	92	4	66	73	0	2	23	0.94
2898850--2898893	3	15.3	3	86	13	58	31	0	0	68	0.90
2899842--2899962	65	1.9	65	81	8	149	38	8	6	46	1.60
2900141--2900170	14	2.1	14	100	0	60	26	0	6	66	1.16
2900247--2900272	2	13.0	2	100	0	52	50	0	0	50	1.00
2908198--2908233	17	2.0	19	89	10	58	27	16	0	55	1.42
2913264--2913649	112	3.4	111	77	12	400	38	13	19	27	1.90
2913270--2913734	235	2.0	235	86	1	646	38	14	19	28	1.90
2913974--2914024	3	17.3	3	88	11	79	33	0	0	66	0.92
2922255--2922345	6	14.5	6	73	21	64	79	0	16	4	0.89
2922255--2922349	7	12.9	7	75	19	63	78	0	16	4	0.89
2922252--2922353	33	3.0	34	78	13	120	78	0	16	4	0.92
2922252--2922349	18	5.3	18	74	23	80	78	0	17	4	0.90
2923610--2924033	133	3.1	133	83	4	494	30	19	17	32	1.95
2923677--2924165	133	3.7	133	81	4	466	32	20	15	31	1.94
2923682--2924165	268	1.8	268	79	2	569	32	20	15	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2924194--2924249	3	19.3	3	92	7	98	32	0	0	67	0.91
2924872--2924915	22	2.0	22	82	8	54	15	9	36	38	1.80
2926142--2926485	132	2.6	132	83	4	435	34	11	15	39	1.83
2931076--2931348	122	2.2	121	88	4	388	35	14	14	35	1.87
2938812--2938839	2	14.0	2	100	0	56	50	0	0	50	1.00
2951802--2951872	23	3.1	23	93	0	115	15	21	28	35	1.94
2951862--2951908	24	2.0	24	86	0	67	14	25	23	36	1.93
2979021--2979061	2	20.5	2	94	0	73	53	0	0	46	1.00
2979014--2979064	10	5.0	10	90	2	66	52	0	1	45	1.12
2979187--2979227	2	20.5	2	100	0	82	51	0	0	48	1.00
2988479--2988528	21	2.4	21	90	6	75	10	18	24	48	1.78
2991629--2991660	13	2.3	15	89	10	50	75	0	9	15	1.05
2991637--2991675	20	1.9	21	84	5	53	74	2	10	12	1.17
2991941--2991984	22	1.9	23	86	9	63	70	0	4	25	1.06
2997194--2997388	100	2.0	99	96	3	365	36	14	13	35	1.85
2997409--2997467	23	2.7	23	81	5	77	28	20	15	35	1.93
2997426--2997485	23	2.7	23	84	5	79	28	23	18	30	1.98
2998947--2998980	12	2.7	13	86	9	52	44	8	5	41	1.60
2999399--2999448	19	2.7	19	96	3	93	30	28	20	22	1.98
3006487--3006531	18	2.5	18	92	0	81	28	31	11	28	1.91
3018985--3019131	35	4.1	35	82	8	186	40	20	17	21	1.91
3018985--3019125	75	1.9	75	90	0	228	40	20	17	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3020686--3020732	14	3.2	14	93	6	76	46	0	2	51	1.13
3025133--3025437	45	6.8	45	93	1	497	40	7	20	31	1.79
3031902--3032029	59	2.2	59	79	0	139	30	21	16	32	1.95
3039001--3039049	24	2.0	24	92	0	80	42	10	12	34	1.76
3039905--3039962	30	1.9	31	89	3	91	39	32	3	24	1.72
3042311--3042481	85	2.0	85	100	0	342	34	17	12	35	1.88
3050064--3050117	27	2.0	27	100	0	108	14	7	33	44	1.73
3053418--3053545	68	1.9	67	83	1	166	32	14	22	30	1.94
3057561--3057597	19	1.9	19	89	10	58	27	5	24	43	1.76
3059313--3059404	26	3.6	26	85	5	125	36	14	21	27	1.92
3069205--3069229	13	1.9	13	100	0	50	52	0	24	24	1.48
3106470--3106642	90	1.9	89	94	1	301	38	10	7	43	1.68
3113422--3113447	13	2.0	13	100	0	52	69	0	0	30	0.89
3114519--3114912	54	7.3	54	82	6	442	27	20	19	32	1.97
3114519--3114912	108	3.6	108	85	2	515	27	20	19	32	1.97
3114519--3114909	162	2.4	162	88	2	563	27	20	19	32	1.97
3115240--3115289	20	2.5	20	100	0	100	26	32	16	26	1.96
3115235--3115330	20	4.8	19	82	8	84	28	26	14	31	1.95
3119543--3119603	28	2.1	30	84	6	81	36	18	0	45	1.49
3121783--3122074	162	1.8	162	98	1	568	32	14	26	26	1.94
3122616--3122647	15	2.1	15	94	0	55	53	12	25	9	1.68
3127981--3128594	307	2.0	307	99	0	1201	33	10	16	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3129785--3129818	12	2.8	12	86	0	50	58	2	0	38	1.13
3129941--3130011	22	3.3	21	73	15	65	71	4	7	16	1.24
3129920--3130010	43	2.1	44	89	8	141	71	5	5	17	1.25
3131291--3131346	3	20.0	3	76	20	59	62	0	0	37	0.95
3131290--3131347	5	11.6	5	85	14	68	60	0	0	39	0.97
3135254--3135295	22	1.9	22	90	0	66	52	19	9	19	1.72
3138591--3138655	34	1.9	34	90	0	103	23	26	18	32	1.97
3140062--3140106	20	2.3	20	85	11	58	37	26	0	35	1.57
3144648--3144729	42	2.0	42	85	4	112	23	15	2	58	1.49
3150850--3151344	272	1.8	272	88	1	769	36	17	16	29	1.92
3151663--3152206	272	2.0	271	97	1	1027	31	6	14	46	1.71
3158480--3158534	3	18.3	3	77	7	58	40	0	0	60	0.97
3158480--3158534	24	2.4	24	85	8	71	40	0	0	60	0.97
3159816--3159858	6	6.5	6	80	19	50	30	2	2	65	1.18
3159889--3159959	26	2.8	25	74	12	65	35	1	0	63	1.03
3165822--3165875	8	6.8	8	97	0	99	79	0	20	0	0.73
3168220--3169433	45	26.8	45	92	0	1870	23	22	18	35	1.96
3169554--3169582	15	1.9	15	100	0	58	34	0	0	65	0.93
3169546--3169625	24	3.5	24	78	8	69	43	0	0	56	0.99
3169559--3169618	21	3.1	19	81	13	68	41	0	0	58	0.98
3176853--3176892	21	1.9	21	89	0	62	25	40	25	10	1.86
3186771--3186817	21	2.2	22	92	3	78	53	8	10	27	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3189008--3189079	29	2.4	29	88	6	101	47	16	13	22	1.82
3189114--3189202	35	2.5	35	85	0	124	34	14	12	38	1.84
3189175--3189384	65	3.4	63	78	11	227	43	14	14	27	1.84
3194963--3195009	21	2.2	22	92	3	78	53	8	10	27	1.64
3196780--3196814	3	11.7	3	88	11	54	62	0	2	34	1.10
3198864--3198975	46	2.4	48	82	5	131	30	19	7	42	1.78
3199079--3199199	40	3.0	40	95	1	217	33	27	15	23	1.95
3201835--3201882	18	2.6	19	80	12	55	50	8	0	41	1.33
3202415--3202545	47	2.8	49	81	7	146	29	21	6	42	1.78
3202649--3202770	40	3.0	40	97	0	235	32	26	17	23	1.96

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