genome.fa.s8750.2.7.7.80.10.50.1000.15.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

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

This is table  15  of  18  ( 2144 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)
2892849--2893101	86	2.9	86	93	1	427	43	8	23	24	1.81
2893048--2893142	49	1.9	49	97	0	181	34	7	27	30	1.84
2904567--2904608	18	2.3	18	87	0	66	16	35	19	28	1.93
2905818--2905851	5	6.8	5	86	0	50	79	5	0	14	0.91
2906360--2906385	4	6.5	4	100	0	52	76	0	0	23	0.78
2908093--2908175	3	27.7	3	97	0	157	66	0	1	32	1.00
2913111--2913197	22	3.9	22	87	3	120	25	19	25	29	1.98
2913410--2913450	21	2.0	21	95	0	73	51	12	12	24	1.73
2913410--2913467	21	3.1	18	83	11	71	48	10	13	27	1.75
2915095--2915133	19	2.1	19	95	0	69	20	38	15	25	1.92
2915032--2915240	65	3.2	63	83	8	217	29	25	17	27	1.97
2915081--2915241	65	2.5	65	86	3	218	30	26	16	27	1.96
2915032--2915261	64	3.6	64	81	6	225	29	26	17	26	1.98
2921013--2921068	22	2.7	21	83	10	62	30	23	17	28	1.97
2922603--2922646	21	2.1	21	86	0	61	9	36	15	38	1.80
2923676--2923714	19	2.1	19	95	0	69	20	38	15	25	1.92
2923613--2923821	65	3.2	63	83	8	217	29	25	17	27	1.97
2923662--2923822	65	2.5	65	86	3	218	30	26	16	27	1.96
2923613--2923842	64	3.6	64	81	6	225	29	26	17	26	1.98
2925893--2925962	33	2.1	33	83	0	86	22	28	15	32	1.95
2926343--2926379	19	1.9	19	94	0	65	24	21	16	37	1.93
2926417--2926488	23	3.2	23	86	9	112	23	23	26	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2930553--2931473	149	6.2	150	79	6	854	38	16	11	32	1.85
2939938--2939983	24	1.9	24	100	0	92	34	8	6	50	1.59
2939942--2939999	24	2.5	24	85	2	73	37	3	6	51	1.46
2940802--2940866	13	5.0	13	82	0	76	24	18	21	35	1.96
2954268--2954308	19	2.2	19	83	16	50	12	14	0	73	1.11
2958791--2958849	21	2.8	21	81	2	73	38	25	22	13	1.90
2960931--2961005	35	2.1	35	92	0	123	44	25	0	30	1.55
2962375--2962413	15	2.8	13	85	14	60	35	2	0	61	1.10
2963077--2963132	22	2.4	25	88	8	82	75	1	10	12	1.14
2963192--2963232	11	3.6	11	86	3	55	80	4	2	12	0.97
2963148--2963366	19	11.3	19	71	16	137	73	1	9	14	1.16
2963104--2963382	14	20.5	13	68	15	79	73	1	10	14	1.16
2963156--2963366	41	5.5	37	75	13	137	74	1	8	14	1.13
2963309--2963460	6	24.0	6	67	19	51	72	1	6	19	1.16
2963320--2963382	24	2.6	24	87	5	92	74	0	9	15	1.06
2963309--2963445	13	10.0	13	67	18	66	72	2	7	18	1.18
2963423--2963454	16	1.9	17	93	6	57	81	0	0	18	0.70
2965304--2965469	65	2.6	64	81	8	207	27	12	21	38	1.90
2966343--2966388	19	2.3	19	85	7	56	0	23	0	76	0.79
2975671--2975711	21	2.0	20	85	4	55	75	0	12	12	1.05
2976591--2976634	18	2.4	19	85	11	56	79	0	9	11	0.93
2976589--2976851	14	19.7	13	69	18	100	73	1	9	15	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2976599--2976822	9	25.8	9	65	23	63	72	1	9	16	1.19
2976640--2976694	19	2.9	19	81	13	60	69	0	14	16	1.20
2976680--2976734	24	2.3	24	84	3	76	76	3	5	14	1.10
2976706--2976793	33	2.6	34	75	18	103	76	0	9	14	1.02
2976710--2976789	19	4.3	18	77	17	67	76	0	8	15	1.02
2976777--2976833	4	13.2	4	76	20	53	71	3	3	21	1.15
2976781--2976832	18	2.9	18	81	13	63	71	3	3	21	1.18
2976759--2976833	22	3.4	22	80	10	82	73	2	5	18	1.15
2976748--2976833	18	4.9	17	72	16	52	72	2	6	18	1.19
2978823--2978848	2	13.0	2	100	0	52	50	0	0	50	1.00
2980914--2980939	2	13.0	2	100	0	52	50	0	0	50	1.00
2983289--2983337	23	2.3	20	86	10	62	61	0	4	34	1.15
2984646--2984684	11	3.5	11	80	13	53	38	12	0	48	1.42
2984631--2984717	30	3.2	30	81	15	100	42	13	0	43	1.44
2984639--2984687	22	2.2	22	100	0	98	38	14	0	46	1.44
2984660--2984710	15	3.3	16	72	10	61	41	13	0	45	1.44
2984661--2984725	30	2.2	30	94	0	112	47	13	0	38	1.43
2984631--2984732	52	2.0	52	82	3	125	45	13	0	41	1.44
2984903--2984942	21	1.9	21	100	0	80	57	15	0	27	1.38
2984966--2985008	21	2.0	21	95	0	77	55	6	0	37	1.27
2985031--2985102	38	2.0	37	84	13	96	48	8	1	41	1.42
2985273--2985310	9	4.2	9	83	10	51	65	2	0	31	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2995282--2995337	29	1.9	29	92	0	94	19	32	32	16	1.94
2999678--2999716	15	2.6	15	87	0	60	48	7	20	23	1.75
3001223--3001431	100	2.1	100	99	0	409	30	17	13	38	1.88
3002863--3002905	15	2.8	15	80	13	52	44	0	4	51	1.22
3002553--3003170	311	2.0	314	92	6	1044	38	11	12	38	1.79
3006731--3006762	13	2.5	13	100	0	64	28	31	9	31	1.88
3006790--3006909	60	2.0	60	96	0	222	37	15	15	30	1.90
3013540--3013713	2	92.0	2	73	15	84	50	3	1	45	1.26
3013531--3013674	21	6.6	22	73	17	90	52	2	0	45	1.15
3013536--3013655	34	3.6	33	83	6	161	50	3	0	45	1.18
3014558--3014900	74	4.6	73	74	6	226	23	21	20	34	1.97
3023183--3023227	15	3.2	15	69	18	51	40	20	13	26	1.89
3023166--3023234	27	2.6	27	86	8	90	40	20	14	24	1.90
3024500--3024575	11	7.1	11	71	13	52	19	22	34	23	1.97
3025127--3025187	32	1.9	32	93	0	104	44	11	22	21	1.84
3026807--3026850	15	2.9	15	89	3	61	29	2	0	68	1.02
3032738--3032897	65	2.5	63	83	8	189	31	21	16	29	1.96
3038664--3038758	21	4.4	21	77	9	77	27	25	22	25	2.00
3038683--3038758	21	3.5	22	80	5	91	25	23	25	26	2.00
3038683--3038761	23	3.6	22	81	5	106	25	24	25	25	2.00
3038664--3038758	44	2.2	42	88	7	138	27	25	22	25	2.00
3038682--3038783	44	2.4	42	80	9	125	26	23	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3040938--3040968	2	15.5	2	93	0	53	45	0	3	51	1.17
3041433--3041619	65	2.9	63	82	10	218	32	21	17	27	1.96
3041460--3041619	65	2.5	63	86	6	223	32	22	16	28	1.96
3041868--3041908	14	2.9	14	92	0	64	58	9	24	7	1.55
3043114--3043153	17	2.4	17	91	0	62	10	27	12	50	1.72
3053088--3053172	35	2.4	32	78	17	89	28	5	9	56	1.54
3055099--3055124	13	2.0	13	100	0	52	69	0	0	30	0.89
3057833--3057873	21	2.0	21	95	0	73	56	0	2	41	1.13
3061144--3061198	3	18.3	3	100	0	110	67	0	0	32	0.91
3062080--3062122	18	2.3	19	88	8	70	30	11	30	27	1.92
3066080--3066150	20	3.6	19	75	9	63	39	30	8	21	1.83
3066755--3066785	14	2.2	14	100	0	62	32	12	16	38	1.86
3067781--3067821	18	2.3	18	91	4	66	29	4	2	63	1.28
3069495--3069530	18	2.0	18	94	0	63	30	27	16	25	1.97
3070121--3070205	35	2.5	33	78	14	91	25	8	10	55	1.62
3077562--3077610	21	2.3	21	100	0	98	48	26	0	24	1.51
3083727--3083796	34	2.1	32	86	5	95	22	30	15	31	1.95
3084154--3084247	20	4.7	20	95	0	170	29	23	29	17	1.97
3084154--3084266	60	1.9	60	88	0	172	31	23	26	18	1.97
3084585--3084624	21	1.9	21	89	0	62	50	10	10	30	1.69
3085742--3085788	19	2.4	20	85	3	60	29	10	6	53	1.60
3087042--3087154	20	5.7	20	90	2	156	35	20	26	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3087174--3087314	42	3.4	42	93	3	223	20	18	36	24	1.95
3087174--3087314	21	6.7	21	76	17	141	20	18	36	24	1.95
3092802--3093091	48	6.0	47	85	6	375	40	13	18	27	1.89
3092802--3093072	144	1.9	144	89	3	420	40	12	18	28	1.87
3094356--3094445	14	7.3	14	72	27	96	7	13	25	53	1.66
3094362--3094465	48	2.2	48	94	0	181	10	11	22	55	1.65
3094356--3094452	24	4.0	24	100	0	194	8	13	24	53	1.67
3095537--3095611	10	7.7	10	67	21	52	10	12	20	57	1.64
3095543--3095615	16	4.7	16	91	3	114	10	10	19	58	1.61
3101242--3101510	48	5.6	48	92	0	421	39	12	19	28	1.88

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