genome.fa.s7838.2.7.7.80.10.50.1000.11.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: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3429202

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

This is table  11  of  13  ( 1485 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)
2646963--2647036	26	3.0	24	79	13	69	24	25	24	25	2.00
2647274--2647311	3	12.7	3	100	0	76	34	0	0	65	0.93
2649984--2650019	18	2.0	18	88	0	54	33	2	2	61	1.25
2651235--2651299	29	2.2	28	79	12	69	44	3	0	52	1.16
2658574--2658792	119	1.8	119	95	0	393	42	12	6	38	1.68
2669599--2669645	20	2.2	22	85	7	62	42	0	2	55	1.12
2670660--2670704	2	22.5	2	90	0	72	0	53	0	46	1.00
2672232--2672392	44	3.7	44	93	0	259	35	29	15	19	1.93
2672626--2672739	25	4.6	25	92	2	178	28	14	14	42	1.85
2673774--2673812	19	2.1	19	100	0	78	10	15	5	69	1.34
2688641--2688665	5	5.0	5	100	0	50	40	0	0	60	0.97
2692439--2692575	66	2.1	66	88	0	202	38	14	13	33	1.85
2693349--2693432	31	2.7	31	94	0	150	65	9	5	19	1.42
2698727--2698756	14	2.1	14	93	0	51	43	0	3	53	1.17
2705891--2705926	15	2.4	15	95	0	63	38	11	2	47	1.54
2708236--2708317	39	2.1	39	88	4	121	40	13	13	32	1.83
2714563--2714599	6	6.3	6	87	6	58	35	0	0	64	0.94
2714563--2714597	11	3.1	11	91	4	52	34	0	0	65	0.93
2714563--2714599	17	2.1	18	90	5	58	35	0	0	64	0.94
2714569--2714606	17	2.3	17	86	4	51	36	0	0	63	0.95
2716139--2716163	13	1.9	13	100	0	50	40	0	0	60	0.97
2717592--2717660	3	23.0	3	90	0	111	68	0	1	30	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2717917--2718555	113	5.6	113	96	0	1152	26	20	14	38	1.91
2719350--2720172	105	7.8	105	98	0	1565	34	21	12	31	1.91
2732001--2732038	17	2.2	17	86	9	51	65	2	2	28	1.19
2734180--2734254	3	25.0	3	97	0	141	68	0	0	32	0.90
2734629--2735030	200	2.0	200	99	0	786	34	15	20	28	1.94
2735949--2736269	164	2.0	165	88	1	484	33	21	13	31	1.92
2740779--2740870	31	2.9	30	74	7	94	33	5	10	50	1.61
2746826--2747769	321	2.8	334	86	8	1427	43	4	7	43	1.55
2747905--2747964	22	2.8	22	75	7	61	20	6	5	68	1.32
2749735--2749797	31	2.0	33	90	6	103	34	22	0	42	1.54
2752570--2752610	17	2.4	16	84	15	55	73	0	2	24	0.96
2752571--2752622	19	2.8	17	81	16	59	71	0	1	26	0.97
2754760--2754793	2	17.0	2	100	0	68	50	0	0	50	1.00
2755822--2755858	17	2.2	16	90	4	56	45	18	0	35	1.50
2756340--2756376	2	18.5	2	100	0	74	51	0	0	48	1.00
2759536--2759635	50	2.0	49	96	1	182	28	21	12	39	1.88
2760108--2760307	104	1.9	103	95	1	364	48	7	12	33	1.67
2764881--2764968	44	2.0	44	97	0	167	38	23	6	30	1.81
2778117--2778152	13	2.8	13	86	0	54	8	13	27	50	1.71
2779718--2779835	60	2.0	59	82	14	145	33	9	11	45	1.71
2781801--2781943	71	2.0	71	98	0	277	36	19	18	25	1.94
2783750--2783784	3	12.0	3	93	6	63	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2786144--2786224	24	3.5	24	81	6	112	45	13	17	23	1.84
2786613--2786689	32	2.4	33	91	6	122	11	11	37	38	1.78
2792575--2792599	8	3.1	8	100	0	50	52	0	36	12	1.39
2796886--2796939	22	2.4	23	75	12	58	48	1	1	48	1.23
2806855--2806940	39	2.2	39	91	4	138	53	5	4	36	1.46
2806864--2806941	39	2.0	39	97	0	147	53	6	2	37	1.40
2809765--2809803	17	2.2	17	86	4	51	35	10	7	46	1.67
2828580--2828604	12	2.1	12	100	0	50	40	24	16	20	1.91
2833430--2833463	2	17.0	2	100	0	68	50	0	0	50	1.00
2836717--2836741	2	12.5	2	100	0	50	52	0	0	48	1.00
2840123--2840180	24	2.4	25	78	21	70	63	1	0	34	1.04
2840469--2840520	21	2.4	21	81	9	52	34	0	21	44	1.52
2841015--2841119	31	3.4	31	82	2	131	44	10	5	39	1.63
2841597--2841655	31	1.9	30	86	3	82	30	10	8	50	1.66
2841715--2841793	31	2.6	30	79	4	86	37	16	10	35	1.82
2849377--2849405	2	14.5	2	100	0	58	51	0	0	48	1.00
2855180--2855239	27	2.1	29	85	14	81	28	0	15	56	1.39
2857176--2857224	12	4.2	12	75	19	50	30	0	0	69	0.89
2857456--2857496	20	2.0	20	95	0	73	31	14	2	51	1.56
2867621--2868129	254	2.0	254	100	0	1018	40	14	11	33	1.83
2868164--2868201	18	2.1	19	85	5	51	44	2	2	50	1.30
2871573--2871659	41	2.1	41	80	4	95	31	17	26	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2871772--2871928	58	2.8	56	76	12	169	33	15	6	45	1.71
2876342--2876418	37	2.1	37	90	4	120	23	10	2	63	1.38
2876904--2876943	17	2.3	18	86	4	55	75	0	2	22	0.93
2884616--2884683	34	2.0	34	83	13	86	20	11	20	47	1.81
2885540--2885564	2	12.5	2	100	0	50	48	0	0	52	1.00
2892752--2892796	21	2.1	21	100	0	90	11	33	20	35	1.88
2896575--2896616	2	21.0	2	100	0	84	50	0	0	50	1.00
2903007--2903109	47	2.2	47	94	0	179	54	8	9	27	1.62
2903017--2903136	47	2.7	43	86	7	154	54	10	10	25	1.65
2913017--2913151	66	2.0	66	98	0	261	17	40	4	37	1.69
2914640--2914695	2	28.5	2	96	3	105	51	0	0	48	1.00
2920630--2920660	2	15.5	2	100	0	62	51	0	0	48	1.00
2932574--2932629	25	2.2	25	83	0	67	32	7	17	42	1.77
2932816--2932973	29	5.2	30	78	7	101	38	17	12	31	1.87
2932795--2932973	91	2.0	91	82	2	216	39	17	11	31	1.86
2936724--2937279	291	1.9	295	86	3	791	27	14	20	37	1.92
2940901--2940977	32	2.4	32	82	0	91	20	19	22	37	1.94
2940990--2941100	32	3.5	32	90	4	163	26	15	17	41	1.88
2941010--2941141	32	4.2	32	83	0	131	29	18	15	36	1.92
2944281--2944310	15	2.0	15	93	0	51	63	0	0	36	0.95
2945437--2945491	26	2.2	24	81	12	58	41	7	0	50	1.30
2959962--2960013	23	2.2	24	82	3	61	25	19	36	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2960801--2960843	19	2.3	19	80	11	54	13	16	0	69	1.19
2967321--2967392	35	2.0	36	89	2	110	38	9	6	44	1.64
2967604--2967648	22	2.0	23	86	4	65	53	0	2	44	1.13
2970886--2970926	22	1.9	22	90	5	66	34	14	7	43	1.73
2978377--2978424	21	2.3	21	92	0	78	39	16	2	41	1.60
2983568--2983760	29	6.7	29	77	10	164	34	5	13	46	1.67
2983573--2983742	58	2.9	57	83	6	191	35	5	12	46	1.66
2983571--2983763	58	3.3	56	76	14	185	33	5	12	48	1.64
2990664--2990838	29	6.1	29	82	5	203	33	6	14	45	1.71
2992456--2992545	19	4.3	20	74	16	76	37	5	26	30	1.79
2992934--2993106	20	8.5	20	71	11	136	21	19	27	32	1.97
2992910--2993066	21	7.6	21	66	12	101	19	17	25	36	1.94
2992916--2993086	41	4.2	41	95	0	306	19	17	26	36	1.94
2996376--2996418	20	2.2	20	100	0	86	30	27	18	23	1.98
2999863--3000092	115	2.0	115	100	0	460	46	17	13	23	1.83
3000864--3000893	2	15.0	2	100	0	60	50	0	0	50	1.00
3009104--3009128	12	2.1	12	100	0	50	60	0	24	16	1.36
3009928--3010099	21	8.6	21	72	13	130	19	38	13	27	1.90
3009945--3010053	18	5.7	18	74	9	83	22	40	12	24	1.89
3009946--3010053	39	2.8	39	86	4	141	22	39	12	25	1.89
3009928--3010077	57	2.6	57	84	3	183	20	39	14	26	1.90
3014417--3014484	31	2.2	30	87	7	100	27	13	8	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016533--3016560	3	9.3	3	100	0	56	32	0	0	67	0.91
3016872--3016915	23	1.9	23	85	0	61	11	18	15	54	1.70
3033214--3033294	24	3.4	24	94	0	144	61	8	2	27	1.38
3041830--3041862	2	16.5	2	100	0	66	51	0	0	48	1.00
3042101--3042160	23	2.6	23	100	0	120	53	21	16	8	1.69
3042876--3042968	47	2.0	47	91	0	150	16	25	17	40	1.89
3057021--3057133	42	2.7	42	87	2	156	17	15	18	48	1.81
3057330--3057410	22	3.5	22	71	15	65	51	1	1	45	1.16
3057383--3057486	29	3.6	29	79	18	110	44	0	1	53	1.11
3057442--3057494	20	2.7	19	73	18	54	49	0	1	49	1.12

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