genome.fa.s8162.2.7.7.80.10.50.1000.15.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

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

This is table  15  of  16  ( 1865 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)
3284684--3284742	20	2.9	20	75	5	55	16	10	11	61	1.57
3287299--3287359	7	9.6	7	89	10	64	80	0	19	0	0.72
3287290--3287359	14	4.8	14	76	13	70	78	0	20	1	0.83
3287274--3287345	35	2.0	35	84	7	92	80	1	13	4	0.92
3287272--3287338	29	2.2	28	84	12	80	80	1	13	4	0.93
3289777--3289949	79	2.3	75	84	4	220	34	14	18	32	1.91
3290830--3290981	54	2.8	54	87	2	207	37	15	20	26	1.92
3291348--3291448	22	4.6	22	89	0	148	32	14	12	39	1.85
3292109--3292277	74	2.3	74	93	0	284	27	18	21	31	1.97
3292183--3292443	116	2.3	116	91	0	425	31	20	19	28	1.97
3292688--3292770	3	28.0	3	92	2	141	36	0	0	63	0.94
3293811--3293910	45	2.2	45	83	3	121	37	1	2	60	1.15
3294011--3294062	20	2.5	20	84	3	59	23	5	1	69	1.20
3294109--3294176	35	1.9	36	81	3	84	48	1	1	48	1.19
3298085--3298124	20	2.0	20	100	0	80	30	5	30	35	1.79
3306804--3306828	10	2.5	10	100	0	50	32	0	16	52	1.44
3307297--3307325	14	2.1	14	100	0	58	65	0	6	27	1.18
3307779--3307933	67	2.3	67	83	6	197	25	20	17	36	1.94
3311930--3311960	14	2.2	14	100	0	62	45	0	12	41	1.42
3312996--3313060	22	3.0	21	86	8	94	26	1	24	47	1.61
3312996--3313051	23	2.5	22	94	5	96	26	0	28	44	1.54
3312996--3313060	23	3.0	21	86	6	85	26	1	24	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3318830--3318944	40	2.9	40	88	0	149	11	15	33	39	1.83
3319648--3319700	3	17.3	3	92	3	88	32	0	1	66	1.03
3320544--3320608	18	3.7	18	87	6	89	27	7	40	24	1.82
3327216--3327268	1	53.0	1	76	0	52	88	0	11	0	0.51
3327207--3327277	7	10.9	7	76	14	80	84	0	15	0	0.62
3327207--3327277	18	3.8	19	82	14	78	84	0	15	0	0.62
3327210--3327277	13	5.3	13	84	15	81	85	0	14	0	0.60
3327207--3327266	26	2.3	26	91	5	95	85	0	15	0	0.61
3327216--3327277	32	2.0	30	87	12	90	87	0	12	0	0.55
3329267--3330222	258	3.7	258	84	3	1209	34	13	16	35	1.88
3330357--3330391	3	11.3	3	93	6	61	34	0	0	65	0.93
3343167--3343299	70	1.9	71	86	7	191	27	18	0	53	1.50
3347204--3347259	5	11.0	5	78	14	53	80	1	16	1	0.88
3347200--3347253	6	9.2	6	81	18	69	81	1	16	0	0.78
3368566--3368693	23	5.5	23	68	18	79	39	0	6	53	1.31
3368581--3368682	27	3.9	27	72	11	77	37	0	7	53	1.36
3368680--3368754	24	3.3	22	75	22	66	50	1	2	45	1.24
3368566--3368693	2	67.5	2	71	18	69	39	0	6	53	1.31
3368677--3368735	25	2.3	26	80	16	70	50	1	3	44	1.28
3368682--3368760	22	3.3	24	76	16	74	50	1	2	45	1.23
3368787--3368833	2	24.5	2	87	8	71	48	0	2	48	1.13
3371655--3371757	2	54.5	2	74	21	80	44	1	1	51	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371636--3371755	28	4.1	28	70	14	75	43	1	2	52	1.24
3371649--3371689	20	2.0	22	85	9	59	36	0	2	60	1.10
3371639--3371699	31	1.9	33	83	12	83	40	0	3	55	1.16
3371652--3371747	51	1.9	49	83	8	122	44	2	2	51	1.25
3371652--3371747	17	5.9	15	77	13	68	44	2	2	51	1.25
3371654--3371757	15	7.7	14	70	23	73	44	1	1	51	1.23
3371654--3371759	17	6.1	16	72	19	63	43	1	1	52	1.23
3371731--3371821	38	2.5	36	74	20	91	43	3	5	47	1.42
3371915--3371978	2	32.5	2	96	3	121	51	0	0	48	1.00
3375098--3375260	15	10.5	15	86	9	220	46	0	1	51	1.11
3375240--3375391	32	5.4	31	71	28	151	36	0	11	52	1.37
3375158--3375315	69	2.3	67	88	6	230	42	0	5	51	1.25
3375240--3375408	54	3.1	54	99	0	329	35	0	11	52	1.38
3375317--3375359	22	2.0	22	100	0	86	34	0	13	51	1.42
3375339--3375488	80	1.9	80	95	0	273	30	0	14	54	1.41
3375263--3375491	22	12.0	19	64	31	84	32	0	13	53	1.40
3375451--3375493	22	2.0	22	100	0	86	34	0	13	51	1.42
3378351--3378427	30	2.5	31	87	8	113	53	12	11	22	1.71
3380049--3380146	51	1.9	51	93	0	169	48	12	7	31	1.67
3386820--3386857	4	9.8	4	88	5	60	23	0	2	73	0.95
3386815--3386884	24	2.8	23	77	14	59	27	4	1	67	1.18
3386807--3386924	28	4.1	29	70	13	84	25	5	1	66	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386921--3386974	22	2.5	22	85	8	74	22	11	0	66	1.22
3386923--3386977	25	2.3	23	85	14	69	23	10	0	65	1.24
3387183--3387215	2	16.5	2	100	0	66	48	0	0	51	1.00
3387308--3387352	17	2.6	17	75	0	54	20	4	2	73	1.11
3387309--3387358	25	2.0	26	88	4	75	20	6	2	72	1.16
3396022--3396067	21	2.2	21	96	0	83	43	17	17	21	1.88
3396028--3396073	21	2.4	19	85	10	58	39	19	17	23	1.92
3398679--3398710	10	3.1	10	91	8	55	87	0	12	0	0.54
3398680--3398709	11	2.7	11	100	0	60	93	0	6	0	0.35
3401437--3401485	3	15.7	3	87	8	55	36	2	0	61	1.08
3401481--3401529	21	2.3	21	83	13	64	10	8	4	77	1.10
3401518--3401565	18	2.6	18	79	20	55	12	4	10	72	1.24
3401866--3401903	17	2.2	17	90	0	58	18	7	2	71	1.23
3402558--3402602	22	2.0	22	82	0	54	33	28	15	22	1.95
3416554--3416594	20	2.1	19	86	9	55	29	17	14	39	1.89
3424725--3424776	15	3.6	15	75	17	56	51	5	5	36	1.50
3446043--3446119	39	2.0	39	84	0	100	37	10	23	28	1.88
3447854--3447954	42	2.4	42	85	1	123	22	19	21	35	1.96
3447477--3448486	259	3.9	259	86	1	1299	30	16	17	35	1.92
3457198--3457281	41	2.0	42	82	11	102	19	15	20	45	1.86
3457684--3457779	42	2.3	41	82	7	113	23	18	20	36	1.95
3457063--3458068	259	3.9	258	81	4	1128	32	15	16	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3458205--3458246	3	13.7	3	85	5	57	35	0	2	61	1.09
3461454--3461488	14	2.4	14	90	9	52	0	20	0	80	0.72
3461452--3461490	16	2.5	15	84	12	51	0	17	0	82	0.68
3470074--3470114	20	2.0	20	85	0	55	29	21	19	29	1.98
3472937--3472997	31	2.0	31	90	0	95	31	13	19	36	1.90
3474310--3474388	34	2.3	34	84	2	95	20	18	16	44	1.87
3481530--3481589	14	4.1	14	77	14	50	76	3	1	18	1.00
3483128--3483377	59	4.2	59	85	0	320	31	14	26	28	1.95
3483393--3483759	77	4.8	76	84	5	422	36	14	16	32	1.90
3483393--3483759	113	3.2	115	85	4	451	36	14	16	32	1.90
3483393--3483759	190	1.9	189	90	0	581	36	14	16	32	1.90
3483467--3483795	113	2.9	112	86	4	428	35	15	16	32	1.90
3497530--3497580	9	5.7	9	77	9	50	52	9	0	37	1.34
3504429--3504497	31	2.2	31	82	10	79	47	1	0	50	1.09
3509057--3509157	32	3.2	31	80	5	105	23	27	30	17	1.97
3514426--3514482	18	3.2	18	76	0	60	70	1	1	26	1.07
3514477--3514543	19	3.5	19	77	6	64	50	7	5	35	1.55
3515358--3515448	44	2.1	44	93	4	157	36	15	4	43	1.67
3520055--3520096	22	2.0	21	90	4	66	38	35	2	23	1.68
3520060--3520109	22	2.2	22	85	7	64	34	38	4	24	1.74
3525139--3525523	47	8.1	48	90	2	548	25	19	23	30	1.98
3525491--3525555	32	2.0	32	90	0	103	24	13	30	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3525444--3525600	80	2.0	79	87	1	224	24	17	25	32	1.97
3525523--3526163	48	13.6	48	86	3	858	27	19	21	30	1.98
3525523--3526163	95	6.8	95	86	3	850	27	19	21	30	1.98
3527646--3527735	39	2.3	39	82	1	99	23	24	16	35	1.95
3532606--3532645	21	1.9	21	94	0	71	55	7	20	17	1.66
3532567--3532643	27	2.9	26	75	5	82	51	7	20	19	1.71
3532724--3532804	43	1.9	43	90	7	130	37	20	9	32	1.86
3533274--3533376	36	2.9	36	95	0	179	27	15	18	38	1.91
3534926--3534956	2	15.5	2	100	0	62	48	0	0	51	1.00
3535080--3535105	2	13.0	2	100	0	52	50	0	0	50	1.00

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