genome.fa.s1838.2.7.7.80.10.50.1000.15.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

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  ( 2134 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)
2981097--2981473	113	3.4	112	88	5	539	37	14	18	29	1.90
2981730--2981825	3	32.0	3	95	0	174	34	1	0	64	1.01
2989182--2990250	134	8.0	133	83	4	1181	30	24	16	28	1.96
2989179--2990260	401	2.7	395	83	6	1354	30	24	15	28	1.96
2989184--2990246	535	2.0	536	84	5	1382	30	24	16	28	1.96
2993291--2993333	3	14.3	3	95	0	77	65	0	2	32	1.06
2993867--2993964	35	2.8	35	89	6	153	40	15	10	33	1.81
2994694--2994760	30	2.4	27	82	12	73	47	1	46	4	1.31
3001004--3001085	33	2.5	33	93	0	146	39	9	28	23	1.86
3001095--3001509	206	2.0	208	99	0	816	43	10	13	32	1.78
3001794--3001849	23	2.4	23	82	5	60	41	0	0	58	0.98
3001816--3001899	28	3.3	24	75	19	82	44	2	0	53	1.13
3002701--3002730	14	2.1	14	93	0	51	40	10	23	26	1.86
3008144--3008193	23	2.1	24	88	3	75	54	0	4	42	1.19
3008324--3008393	35	2.0	36	85	2	97	57	2	1	38	1.23
3008539--3008572	13	2.7	13	95	4	61	67	0	0	32	0.91
3008906--3008976	31	2.3	31	90	4	108	49	11	8	30	1.68
3016895--3017020	63	2.0	63	100	0	252	22	17	25	34	1.95
3029818--3029853	18	2.0	18	88	0	54	22	33	27	16	1.95
3029858--3029895	20	1.9	20	88	0	58	26	36	26	10	1.89
3030263--3030312	25	2.0	24	88	11	75	56	4	4	36	1.37
3034425--3034475	24	2.1	24	100	0	102	27	0	39	33	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3037397--3037445	24	2.0	24	92	0	80	30	2	36	30	1.69
3040036--3040123	42	2.1	42	91	0	140	44	11	22	21	1.84
3045660--3045706	20	2.3	20	85	3	58	55	0	23	21	1.44
3054051--3054090	20	2.0	20	100	0	80	35	25	15	25	1.94
3058564--3058613	25	2.0	25	88	7	75	26	32	12	30	1.92
3058925--3058958	16	2.1	16	100	0	68	26	32	11	29	1.92
3059199--3059260	28	2.2	28	85	0	79	32	1	8	58	1.37
3070982--3071024	21	2.0	21	95	0	77	20	23	16	39	1.92
3071019--3071152	40	3.3	40	84	4	119	38	22	17	22	1.93
3071047--3071154	20	5.4	20	86	0	153	37	22	19	20	1.94
3072043--3072094	23	2.3	23	83	6	61	23	19	15	42	1.89
3074132--3074167	18	2.0	18	94	0	63	55	25	2	16	1.55
3074989--3075025	18	2.1	18	89	0	56	32	5	10	51	1.60
3074981--3075033	24	2.2	24	86	0	70	35	3	13	47	1.61
3075337--3075462	39	3.2	39	98	0	243	46	20	15	17	1.83
3075735--3075781	20	2.3	20	88	0	76	19	21	21	38	1.94
3075703--3075826	54	2.3	54	94	0	212	19	20	21	38	1.93
3075883--3076023	66	2.2	60	87	7	192	51	16	0	31	1.49
3077381--3077448	21	3.2	20	76	12	57	17	22	36	23	1.94
3077401--3077503	42	2.5	42	76	6	118	24	16	33	26	1.96
3077401--3077499	21	4.7	22	77	13	82	24	17	32	26	1.97
3077913--3077957	21	2.1	21	91	0	72	42	22	17	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3077920--3077970	21	2.4	21	86	0	66	37	31	15	15	1.89
3079618--3079671	20	2.7	19	83	8	72	46	22	16	14	1.84
3080167--3080314	20	7.4	20	72	13	126	20	17	20	40	1.91
3080167--3080313	40	3.7	40	74	15	160	21	17	21	40	1.92
3080243--3080325	20	4.2	20	85	11	125	16	16	25	40	1.90
3080167--3080346	40	4.5	40	74	14	124	21	17	21	39	1.92
3080243--3080390	60	2.5	60	79	10	151	20	15	26	37	1.93
3080333--3080386	20	2.7	19	75	8	63	25	14	31	27	1.95
3081089--3081156	30	2.3	28	80	7	73	48	8	11	30	1.70
3081333--3081422	44	2.0	48	80	12	109	48	2	1	47	1.21
3081560--3081613	19	2.8	19	77	8	65	55	0	1	42	1.10
3087976--3088016	21	2.0	21	90	0	64	41	14	0	43	1.45
3088382--3088419	19	2.1	18	90	5	58	44	0	0	55	0.99
3104642--3104712	3	23.7	3	78	16	76	63	0	0	36	0.95
3104854--3105936	116	9.3	123	78	11	527	27	18	14	39	1.90
3105181--3105936	113	6.7	113	83	5	968	29	18	14	37	1.90
3105181--3105936	229	3.3	229	96	0	1360	29	18	14	37	1.90
3106675--3107122	114	3.9	114	93	0	734	31	19	14	34	1.91
3107454--3107502	16	2.8	17	78	12	55	46	6	10	36	1.63
3107888--3107936	25	2.0	25	88	11	75	12	14	0	73	1.10
3107852--3107930	32	2.5	33	84	13	96	6	17	0	75	1.00
3107886--3107930	16	2.8	17	90	10	76	11	11	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3118610--3118665	26	2.0	29	83	16	75	44	1	3	50	1.29
3119450--3119538	40	2.2	40	81	0	106	14	46	23	15	1.83
3132732--3133433	137	5.3	128	85	5	762	34	25	15	24	1.95
3132774--3133433	274	2.5	264	85	2	890	34	25	15	25	1.94
3135027--3135055	3	9.7	3	100	0	58	68	31	0	0	0.89
3138831--3138904	3	24.7	3	79	15	73	62	0	0	37	0.96
3140770--3140803	17	2.0	17	88	11	52	70	0	2	26	1.01
3140993--3141041	2	24.5	2	100	0	98	51	0	0	48	1.00
3144247--3144282	17	2.1	17	100	0	72	19	22	13	44	1.86
3146192--3146238	24	2.0	24	83	8	60	12	27	29	29	1.93
3155599--3155638	21	1.9	21	89	0	62	52	7	10	30	1.62
3158840--3158898	23	2.5	24	83	8	77	20	30	20	28	1.97
3160913--3160939	2	13.5	2	100	0	54	48	0	0	51	1.00
3167327--3167354	2	14.0	2	100	0	56	50	0	0	50	1.00
3169190--3169223	12	2.7	13	86	9	52	47	8	2	41	1.50
3173679--3173721	20	2.2	20	91	0	68	34	20	11	32	1.89
3185550--3185710	80	2.0	80	93	0	277	30	15	24	29	1.96
3188726--3188784	30	2.0	30	100	0	118	20	18	23	37	1.94
3193898--3193945	19	2.6	18	77	9	51	45	2	0	52	1.12
3203917--3204003	19	4.4	19	71	16	68	35	25	5	33	1.80
3203887--3203991	42	2.6	39	86	7	131	36	21	6	35	1.80
3205602--3205724	64	1.9	64	88	6	187	30	21	16	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3211085--3211141	24	2.6	21	74	15	60	29	22	19	28	1.98
3211085--3211182	45	2.2	44	85	12	130	28	23	21	26	1.99
3217456--3217621	65	2.6	65	80	10	162	28	16	22	32	1.96
3220369--3220452	30	2.8	30	98	0	159	33	25	17	23	1.97
3220369--3220488	30	4.0	30	87	0	150	33	22	19	25	1.97
3220992--3221320	164	2.0	164	100	0	658	32	18	10	37	1.86
3227946--3228347	201	2.0	201	96	0	741	27	19	19	33	1.96
3231755--3231798	20	2.2	21	92	8	74	0	4	15	79	0.89
3237958--3238031	33	2.3	32	83	4	96	17	27	22	32	1.97
3238089--3238146	19	3.0	19	87	7	73	37	24	8	29	1.85
3238099--3238155	19	3.0	19	87	5	71	40	22	5	31	1.76
3238089--3238193	19	5.4	19	77	5	68	37	23	7	31	1.83
3240467--3240494	2	14.0	2	100	0	56	50	0	0	50	1.00
3241841--3241982	21	7.0	21	84	7	170	28	8	21	41	1.82
3241840--3241982	41	3.5	40	81	10	182	27	8	21	41	1.82
3241842--3242017	20	8.8	20	79	10	92	29	10	19	40	1.84
3241932--3242014	19	4.2	19	81	9	60	28	12	18	40	1.86
3241834--3241995	60	2.7	58	80	12	182	28	9	20	41	1.83
3242048--3242168	40	3.0	40	72	9	120	38	15	18	27	1.91
3242048--3242276	80	2.9	80	89	0	341	38	14	19	27	1.91
3242063--3242297	40	5.9	40	73	11	194	38	15	19	27	1.91
3244366--3244392	14	1.9	14	100	0	54	44	7	0	48	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3250865--3250924	31	2.0	30	84	12	79	65	1	0	33	1.03
3251308--3251346	2	19.5	2	94	0	69	48	2	0	48	1.15
3253359--3253416	24	2.4	24	91	0	89	22	18	15	43	1.88
3254849--3254882	15	2.2	15	89	5	50	0	17	0	82	0.67
3254849--3254891	16	2.8	15	86	10	52	2	16	0	81	0.79
3254864--3254922	15	3.8	15	82	12	66	10	10	0	79	0.93
3258833--3258905	18	3.9	18	80	7	83	28	30	19	21	1.98
3260878--3260903	10	2.6	10	100	0	52	50	0	7	42	1.31
3261685--3263628	971	2.0	971	100	0	3888	37	17	7	36	1.79
3270933--3271007	26	2.7	27	78	15	80	66	1	1	30	1.08

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