genome.fa.s7746.2.7.7.80.10.50.1000.13.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

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

This is table  13  of  15  ( 1700 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)
3118496--3118562	11	6.4	11	70	14	52	37	1	1	59	1.16
3126329--3126420	20	4.3	20	74	15	85	77	2	14	6	1.06
3126369--3126425	14	4.2	14	79	18	59	80	3	10	5	0.98
3126383--3126437	28	2.0	27	85	7	74	80	1	10	7	0.99
3128407--3128687	52	5.1	54	77	10	293	28	9	18	43	1.82
3128406--3128745	112	3.0	110	86	5	432	30	9	18	42	1.82
3128851--3129348	216	2.3	216	92	1	829	28	24	17	30	1.97
3129932--3129983	21	2.5	21	100	0	104	30	40	11	17	1.85
3131925--3132212	160	1.8	160	100	0	576	30	14	20	34	1.93
3144566--3144619	27	2.0	27	88	0	81	14	11	25	48	1.77
3145167--3145232	29	2.3	29	81	0	78	46	6	15	31	1.70
3148181--3148232	19	2.6	21	90	6	81	46	5	13	34	1.67
3152390--3152441	19	2.6	21	90	6	81	46	5	13	34	1.67
3155819--3155862	8	5.2	8	82	17	54	0	25	0	75	0.81
3156598--3156649	19	2.6	21	90	6	81	46	5	13	34	1.67
3157453--3157489	18	2.1	18	90	5	58	40	5	18	35	1.74
3160025--3160081	16	3.4	17	83	11	64	1	22	1	73	1.02
3169166--3169317	30	5.2	28	75	12	112	37	7	0	53	1.35
3169157--3169263	29	3.7	29	75	10	96	38	4	0	57	1.20
3169159--3169317	57	2.7	59	78	11	139	38	7	0	52	1.34
3169310--3169345	2	18.0	2	100	0	72	50	0	0	50	1.00
3169386--3169512	30	4.2	28	77	13	121	56	3	6	33	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3169399--3169512	59	1.9	61	84	10	155	56	3	5	35	1.39
3171629--3171688	21	2.9	21	100	0	120	28	38	15	18	1.91
3179220--3179284	34	1.9	34	96	0	121	38	16	13	30	1.88
3181359--3181731	131	2.8	131	80	2	410	32	10	15	40	1.82
3187717--3187749	14	2.4	14	95	5	59	54	0	0	45	0.99
3187734--3187796	11	5.9	11	69	14	51	57	1	3	38	1.24
3187827--3187864	20	1.9	20	88	0	58	55	18	0	26	1.43
3187821--3187886	27	2.4	27	82	9	80	51	24	0	24	1.48
3187827--3187886	14	4.4	13	75	23	52	51	23	0	25	1.48
3200433--3200479	24	2.0	24	91	0	76	31	23	21	23	1.98
3211772--3211803	14	2.3	14	100	0	64	71	0	12	15	1.14
3213978--3214095	32	3.7	32	83	1	137	27	30	26	15	1.96
3222475--3222557	22	3.3	26	77	16	86	39	6	3	50	1.44
3222536--3223237	2	353.5	2	64	22	166	41	6	3	48	1.46
3222681--3222754	25	3.1	26	81	14	81	39	6	0	54	1.27
3222825--3222884	29	2.0	29	87	6	84	51	0	8	40	1.32
3222842--3222930	29	3.0	28	78	15	74	43	5	5	44	1.51
3222897--3223059	47	3.5	46	72	17	131	38	7	3	50	1.46
3223537--3223582	24	1.9	24	82	8	58	34	13	2	50	1.53
3223689--3223722	6	5.7	6	96	0	50	41	0	8	50	1.34
3224100--3224145	24	1.9	24	82	8	58	34	13	2	50	1.53
3224266--3224457	22	8.8	22	78	13	168	52	1	9	36	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3224232--3224457	66	3.5	65	76	14	209	51	2	9	36	1.47
3224349--3224472	14	8.7	14	75	20	91	54	1	8	35	1.39
3224362--3224477	8	16.3	7	72	24	75	56	1	6	35	1.37
3224232--3224477	44	5.9	41	71	17	134	52	2	9	36	1.45
3224389--3224458	21	3.2	22	75	17	58	55	1	5	37	1.32
3224368--3224507	73	1.9	73	81	11	171	54	2	5	37	1.36
3224472--3224532	21	3.0	21	76	13	74	49	3	0	47	1.18
3224461--3224523	30	2.1	29	82	8	74	52	1	0	46	1.10
3225621--3225735	51	2.3	51	84	3	142	51	9	6	33	1.59
3226315--3226517	65	3.1	64	77	14	193	31	22	16	29	1.96
3226358--3226537	65	2.8	64	85	9	233	30	22	17	30	1.97
3229345--3229393	23	2.1	23	100	0	98	34	18	24	22	1.96
3234416--3234449	2	17.0	2	100	0	68	50	0	0	50	1.00
3235092--3235251	65	2.5	65	85	7	229	32	21	16	29	1.95
3239241--3239507	133	2.0	133	100	0	534	32	13	20	33	1.92
3256745--3256780	12	3.0	12	87	0	54	11	2	52	33	1.51
3257433--3257514	42	2.0	41	87	2	119	29	15	26	28	1.96
3264982--3265085	3	33.7	3	74	11	77	59	3	1	34	1.27
3265915--3265990	39	1.9	39	84	5	100	34	6	30	28	1.83
3265914--3266246	36	9.2	36	76	8	257	34	10	24	30	1.89
3265954--3266246	107	2.7	107	81	4	333	34	10	24	30	1.90
3265914--3266232	143	2.2	143	76	8	299	35	10	24	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3266454--3266497	14	2.8	17	74	22	51	72	0	4	22	1.02
3269601--3269641	16	2.6	16	96	0	73	14	26	9	48	1.75
3270878--3270923	21	2.2	21	96	3	85	8	23	0	67	1.18
3272753--3272781	15	1.9	15	100	0	58	55	13	6	24	1.63
3274390--3274445	2	28.5	2	96	3	105	50	0	0	50	1.00
3275386--3275422	19	1.9	19	88	0	56	5	18	5	70	1.27
3282374--3282399	12	2.2	12	100	0	52	30	26	23	19	1.98
3283353--3283415	31	2.1	30	85	8	83	38	15	1	44	1.57
3283371--3283458	39	2.2	39	85	6	122	34	12	1	52	1.47
3284983--3285111	46	2.8	48	77	13	135	23	17	26	33	1.96
3285047--3285431	46	8.4	45	69	12	146	24	16	29	30	1.96
3285077--3285289	91	2.3	92	81	7	238	22	16	31	29	1.96
3292750--3292789	21	1.9	21	89	0	62	17	30	5	47	1.69
3294929--3294972	3	15.0	3	81	13	56	34	0	0	65	0.93
3294933--3294965	16	2.1	15	94	5	57	30	0	0	69	0.88
3295009--3295040	11	2.9	11	95	0	55	37	40	18	3	1.67
3298798--3298859	32	2.0	32	93	3	108	14	16	9	59	1.60
3300247--3300323	26	3.2	25	71	19	74	25	24	10	38	1.87
3300927--3300999	12	6.5	11	75	19	62	72	8	15	4	1.23
3300924--3300992	32	2.2	33	84	7	90	72	7	15	4	1.23
3300958--3301004	12	3.8	12	83	11	51	72	10	12	4	1.25
3302645--3302878	105	2.3	102	82	6	276	30	18	12	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3302846--3302913	36	1.9	36	87	3	102	33	22	10	33	1.88
3303196--3303267	29	2.5	29	90	0	117	29	9	16	44	1.80
3303302--3303406	52	2.0	54	90	3	169	33	13	17	36	1.88
3303391--3303530	74	1.9	74	94	2	246	35	10	10	43	1.74
3303467--3303596	66	2.0	67	79	1	145	27	13	12	46	1.79
3303776--3303895	64	1.9	66	82	6	158	27	16	11	44	1.83
3303883--3303961	40	2.0	40	85	2	106	31	17	11	39	1.85
3304368--3304442	35	2.1	36	85	7	100	36	20	12	32	1.89
3304505--3304535	1	31.0	1	100	0	62	100	0	0	0	0.00
3304740--3304793	28	1.9	28	85	7	74	22	16	16	44	1.86
3304805--3305099	46	6.8	44	74	11	218	26	31	19	23	1.98
3304805--3305188	130	3.0	129	93	1	635	26	29	19	24	1.98
3305389--3305432	3	15.0	3	81	13	56	34	0	0	65	0.93
3305393--3305425	16	2.1	15	94	5	57	30	0	0	69	0.88
3305469--3305500	11	2.9	11	95	0	55	37	40	18	3	1.67
3309471--3309583	56	2.0	56	94	0	199	41	3	20	34	1.69
3314759--3314802	12	3.7	11	85	8	52	2	27	2	68	1.14
3321456--3321489	2	17.0	2	100	0	68	50	0	0	50	1.00
3321657--3321690	17	2.1	15	89	10	50	76	8	14	0	1.01
3321662--3321714	21	2.4	23	81	15	67	73	7	18	0	1.06
3321677--3321751	12	6.5	12	70	13	50	76	5	16	2	1.09
3322787--3322936	32	4.7	32	83	0	174	30	15	20	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3323315--3324225	61	14.8	61	85	4	1134	37	19	17	25	1.93
3324952--3324987	17	2.1	17	90	10	56	55	0	41	2	1.14
3325717--3325822	3	35.3	3	94	0	185	63	0	2	33	1.09
3326919--3326959	21	1.9	21	85	5	55	36	19	19	24	1.95
3328576--3328619	19	2.3	20	84	7	56	47	2	15	34	1.58
3332042--3332107	2	33.0	2	96	0	123	48	0	1	50	1.10
3332567--3332597	2	16.0	2	93	6	55	48	0	0	51	1.00
3340587--3340631	3	15.0	3	90	0	72	62	2	0	35	1.08
3340760--3342839	76	27.5	76	98	0	3967	35	22	21	21	1.96
3340760--3342839	227	9.2	228	98	0	3967	35	22	21	21	1.96

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