genome.fa.s9014.2.7.7.80.10.50.1000.12.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

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

This is table  12  of  13  ( 1552 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)
2857876--2857917	22	1.9	22	90	9	68	50	0	0	50	1.00
2857876--2857920	20	2.1	21	88	8	65	46	0	0	53	1.00
2858361--2858397	2	18.5	2	100	0	74	0	48	0	51	1.00
2859533--2859568	16	2.2	17	90	5	56	8	8	25	58	1.55
2861693--2861727	2	18.0	2	94	5	63	51	0	0	48	1.00
2863064--2863107	3	14.3	3	80	4	52	34	2	2	61	1.21
2863964--2864035	29	2.4	29	78	15	76	16	11	11	61	1.57
2867631--2867671	20	2.0	20	95	0	73	19	39	26	14	1.90
2869931--2869971	20	2.0	20	100	0	82	14	41	29	14	1.86
2870910--2870957	24	2.0	24	100	0	96	33	29	16	20	1.95
2872240--2872276	19	1.9	19	94	0	65	21	29	35	13	1.92
2874029--2874102	32	2.3	31	84	6	94	28	16	21	33	1.95
2874702--2875227	255	2.1	254	91	1	847	35	22	17	24	1.95
2875136--2875458	121	2.6	120	84	6	391	31	24	18	25	1.97
2875512--2875633	36	3.4	36	94	0	208	25	20	13	40	1.88
2875648--2875770	37	3.4	37	81	3	133	22	17	14	44	1.86
2875462--2875837	137	2.7	137	87	2	547	27	19	12	40	1.87
2875722--2875895	64	2.7	65	83	1	215	27	21	10	41	1.85
2875960--2876402	129	3.4	128	85	1	564	26	30	17	25	1.97
2876565--2876642	3	25.3	3	79	5	84	34	5	1	58	1.28
2876602--2876653	25	2.1	25	81	0	59	38	11	0	50	1.39
2880073--2880136	3	21.3	3	96	0	119	65	0	1	32	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2895680--2895714	2	18.0	2	94	5	63	51	0	0	48	1.00
2900687--2901043	116	3.1	116	84	2	448	26	21	16	35	1.95
2902994--2903040	20	2.3	20	82	7	60	2	6	8	82	0.90
2905528--2905620	30	3.2	29	76	10	82	53	8	13	23	1.67
2905683--2905715	15	2.3	14	94	5	57	36	6	21	36	1.78
2907647--2907687	21	2.0	21	85	9	57	56	2	2	39	1.26
2910208--2910232	13	1.9	13	100	0	50	44	16	16	24	1.86
2910342--2911340	340	3.0	332	87	4	1409	36	17	11	34	1.86
2913853--2913886	10	3.3	10	87	4	50	29	0	0	70	0.87
2916881--2916926	3	15.3	3	100	0	92	67	0	0	32	0.91
2917257--2917287	12	2.6	12	94	0	53	54	6	29	9	1.57
2917400--2917559	83	1.9	83	89	2	250	48	10	1	40	1.48
2917650--2917698	24	2.0	24	92	0	80	51	8	6	34	1.57
2921245--2921298	3	18.0	3	81	7	65	38	1	0	59	1.08
2921297--2921333	12	2.9	13	88	11	51	70	0	0	29	0.88
2922673--2922885	108	1.9	111	80	8	249	38	8	9	43	1.68
2922864--2922915	23	2.2	24	86	10	72	44	1	0	53	1.11
2925052--2925086	13	2.8	13	91	4	54	20	14	11	54	1.70
2928361--2928396	12	3.0	12	100	0	72	83	0	16	0	0.65
2933335--2933389	22	2.5	22	87	0	83	34	14	14	36	1.87
2933793--2934580	113	7.0	113	91	0	1200	37	15	18	28	1.91
2934810--2934860	3	17.0	3	80	8	59	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2934810--2934860	18	2.9	17	85	5	66	39	1	0	58	1.09
2936414--2936463	23	2.0	26	85	11	70	46	2	0	52	1.12
2941336--2941550	118	1.8	118	85	2	306	20	15	28	34	1.94
2944926--2945170	83	3.0	81	90	3	382	45	8	4	41	1.55
2945186--2945275	34	2.6	33	75	16	85	48	4	4	42	1.43
2949717--2949860	42	3.5	41	76	7	139	47	18	7	26	1.75
2953934--2953990	30	1.9	30	100	0	114	24	7	31	36	1.82
2964564--2964779	55	3.9	55	91	1	344	35	20	18	25	1.95
2970509--2970732	55	4.1	55	89	2	342	35	18	17	28	1.94
2971928--2971967	17	2.4	17	95	0	71	37	5	35	22	1.76
2974846--2974880	16	2.2	16	89	0	52	37	14	5	42	1.69
2986787--2986825	21	1.9	20	84	5	51	41	0	17	41	1.50
2986997--2987052	19	2.9	19	91	0	94	35	16	23	25	1.94
2987944--2988312	181	2.0	184	97	2	710	37	8	20	32	1.84
2988834--2988924	23	4.0	23	83	0	119	18	25	26	29	1.98
2993841--2993931	23	4.0	23	79	0	110	18	25	25	30	1.98
3001028--3001057	8	3.6	8	91	8	51	46	0	0	53	1.00
3002916--3003001	40	2.2	39	82	2	109	36	25	16	22	1.94
3007639--3007728	40	2.3	39	86	1	126	36	23	17	22	1.95
3019748--3019945	82	2.5	78	80	8	236	65	9	16	9	1.47
3019903--3019945	18	2.4	18	81	11	54	83	4	9	2	0.87
3021058--3021265	111	1.9	111	85	0	290	35	22	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3023106--3023145	2	20.0	2	94	0	71	50	2	0	47	1.14
3023302--3023340	20	2.0	20	89	0	60	15	7	7	69	1.35
3023538--3023580	12	3.6	12	83	0	59	13	20	46	18	1.83
3023578--3023673	4	26.0	4	69	16	64	50	0	1	48	1.07
3023578--3023673	6	17.3	6	76	16	64	50	0	1	48	1.07
3023578--3023656	36	2.3	35	91	4	124	49	0	1	49	1.09
3027238--3027265	1	28.0	1	100	0	56	0	0	0	100	0.00
3030360--3030482	43	2.9	43	85	3	160	23	17	19	39	1.93
3032341--3032496	65	2.4	64	90	1	231	29	22	18	29	1.97
3042643--3042992	194	1.8	193	87	1	531	37	11	10	40	1.76
3042638--3043116	194	2.5	193	81	3	496	36	11	11	39	1.78
3044631--3044785	65	2.4	65	84	1	204	29	20	19	31	1.97
3046903--3046952	20	2.5	20	80	0	55	52	10	16	22	1.73
3046942--3047101	52	3.3	52	74	20	200	48	10	11	30	1.73
3046967--3047148	20	9.5	20	67	9	101	48	10	12	28	1.74
3046895--3047146	92	2.7	91	92	4	384	47	10	13	29	1.75
3046975--3047141	40	3.9	40	76	17	181	48	11	12	27	1.75
3053797--3053899	44	2.3	44	88	1	152	37	6	11	43	1.68
3059990--3060022	4	8.0	4	93	6	57	27	0	0	72	0.85
3065114--3065187	22	3.4	22	73	3	69	32	20	16	31	1.94
3067441--3067500	2	30.0	2	100	0	120	50	0	0	50	1.00
3085688--3085722	18	1.9	18	88	0	52	51	14	11	22	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3085858--3085887	13	2.3	13	94	0	51	40	13	20	26	1.89
3088267--3088319	23	2.3	23	93	0	88	18	7	18	54	1.67
3088335--3088613	54	5.2	54	89	1	400	34	12	15	37	1.85
3088331--3088676	54	6.4	53	84	3	271	34	13	15	36	1.88
3088335--3088667	108	3.1	108	85	1	337	33	13	16	36	1.87
3088331--3088667	162	2.1	162	84	2	444	33	13	16	36	1.87
3089648--3089980	54	6.1	54	89	1	427	31	13	17	37	1.89
3092811--3092841	11	2.8	11	90	0	53	16	9	58	16	1.63
3097486--3097819	54	6.2	54	86	3	406	32	12	17	37	1.88
3097482--3097819	162	2.1	163	84	2	448	32	12	17	36	1.88
3100006--3100199	97	2.0	97	92	0	325	28	20	12	38	1.90
3100870--3100903	18	1.9	18	88	5	52	38	5	11	44	1.65
3102223--3102260	20	1.9	20	89	10	60	42	15	13	28	1.85
3106308--3106444	59	2.3	59	83	2	195	27	18	25	28	1.98
3112951--3113013	29	2.1	30	82	8	76	38	6	22	33	1.79
3113702--3113838	59	2.3	59	81	2	177	28	17	24	29	1.97
3121577--3121643	29	2.3	30	82	10	84	37	5	22	34	1.79
3122331--3122459	59	2.2	59	90	0	195	27	17	26	28	1.98
3129867--3129950	36	2.4	34	80	7	87	28	15	26	29	1.96
3143203--3143353	37	4.1	37	81	2	162	44	25	3	27	1.69
3143203--3143359	73	2.2	73	84	4	201	44	24	4	26	1.72
3153031--3153085	27	2.0	27	82	6	67	67	3	5	23	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3160780--3160819	21	1.9	21	89	0	62	25	40	25	10	1.86
3163493--3163534	21	2.0	22	90	4	68	21	33	28	16	1.95
3167404--3167583	90	2.0	90	96	0	333	35	17	16	31	1.92
3170745--3170812	24	2.8	24	80	6	75	72	2	13	11	1.24
3170975--3171008	12	2.8	12	100	0	68	32	17	8	41	1.80
3171625--3171674	2	26.0	2	92	8	86	50	0	0	50	1.00
3171699--3171751	20	2.6	19	83	13	70	56	1	0	41	1.10
3171699--3171841	22	6.6	22	71	13	91	48	4	1	45	1.30
3171782--3171817	2	18.0	2	100	0	72	50	0	0	50	1.00
3173737--3173822	41	2.2	40	85	6	120	13	20	17	47	1.82

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