genome.fa.s8522.2.7.7.80.10.50.1000.3.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: VEPZ01008522.1 Hibiscus syriacus cultivar Beakdansim tig00111390_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1416293

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 906 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)
263252--263316	28	2.3	28	86	7	87	40	1	1	56	1.18
263283--263317	17	2.1	17	89	10	54	42	2	0	54	1.15
270363--270400	2	19.0	2	100	0	76	50	0	0	50	1.00
277478--277650	60	2.9	60	81	6	165	36	5	24	33	1.78
277859--277919	23	2.9	19	74	23	52	31	0	3	65	1.09
278228--278269	14	2.8	16	78	14	52	23	2	7	66	1.28
282516--282703	60	3.2	59	84	3	216	32	23	4	38	1.76
293731--293790	23	2.6	23	86	7	77	26	30	13	30	1.94
297042--297074	15	2.1	16	88	5	50	6	24	12	57	1.57
298289--298343	23	2.3	23	84	9	76	30	23	14	30	1.94
302079--302140	31	2.0	31	84	6	81	30	25	17	25	1.97
305044--305347	131	2.3	131	87	2	423	33	11	16	38	1.85
314084--314135	20	2.6	20	100	0	104	30	17	26	25	1.97
313990--314215	114	2.0	115	85	0	310	34	15	25	23	1.95
314620--314692	20	3.3	20	66	23	56	39	12	27	20	1.88
314599--314985	47	8.2	47	92	0	639	42	14	22	20	1.88
314795--314954	27	6.8	25	65	24	89	41	15	24	18	1.89
314800--314974	20	7.7	20	66	25	82	40	15	25	18	1.90
315438--315498	29	2.1	29	90	0	95	42	8	22	26	1.81
315637--315701	2	32.5	2	100	0	130	50	0	0	49	1.00
316729--317133	134	3.1	130	80	5	454	33	19	15	32	1.92
316735--317106	132	2.8	129	81	6	431	33	19	15	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317188--317989	134	6.0	134	81	2	759	33	22	13	30	1.93
318131--318168	3	12.7	3	100	0	76	65	0	0	34	0.93
321275--321311	2	18.5	2	100	0	74	51	0	0	48	1.00
322088--322121	3	10.7	3	87	12	50	32	0	2	64	1.08
323442--323577	69	2.0	69	94	0	236	25	5	16	53	1.63
323740--323797	2	29.5	2	96	3	109	50	0	0	50	1.00
323864--323954	8	11.0	9	76	12	65	46	2	1	50	1.20
323913--323952	2	20.0	2	100	0	80	50	0	0	50	1.00
324021--324223	80	2.5	79	88	5	291	32	8	9	49	1.66
332237--332267	2	15.5	2	100	0	62	48	0	0	51	1.00
336940--337391	111	4.1	111	90	0	688	31	23	15	29	1.95
337593--337633	3	13.0	3	90	10	64	34	0	2	63	1.08
338951--339086	69	2.0	69	95	2	247	25	5	14	53	1.63
339225--339270	2	24.5	2	87	12	71	50	0	0	50	1.00
339337--339363	13	2.1	13	100	0	54	37	0	0	62	0.95
339477--339675	80	2.5	79	87	6	274	33	8	9	49	1.64
343126--343215	23	3.9	23	72	5	74	27	12	17	42	1.85
344083--344121	19	2.1	19	90	4	62	38	2	2	56	1.27
344138--344188	19	2.7	18	80	14	59	27	5	0	66	1.14
344980--345049	24	2.9	24	89	0	104	30	34	10	25	1.89
345566--345592	10	2.7	10	100	0	54	29	0	22	48	1.51
345525--345612	28	3.1	27	70	23	83	25	3	26	45	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345932--345982	22	2.3	22	86	6	68	29	7	19	43	1.79
346694--346883	15	12.7	15	66	8	100	44	18	18	17	1.87
346694--346838	30	4.8	31	78	3	120	45	18	17	17	1.86
346661--346885	45	4.7	45	73	15	180	44	19	18	18	1.88
346694--346819	60	2.1	59	86	2	137	44	19	18	17	1.87
348773--348843	13	5.5	13	83	6	90	29	11	9	49	1.71
348758--348906	26	5.9	26	70	13	114	28	12	10	47	1.75
348758--348867	39	2.8	39	78	10	134	28	13	10	48	1.75
350074--350126	26	2.0	26	100	0	106	30	26	7	35	1.84
350538--350583	23	2.0	23	87	8	67	15	19	34	30	1.93
357296--357360	25	2.6	25	97	0	121	55	0	1	43	1.09
357364--357403	20	1.9	22	90	10	66	42	5	5	47	1.47
358121--358177	23	2.4	24	82	2	71	24	12	17	45	1.83
359223--359612	185	2.1	185	92	2	651	42	3	8	45	1.52
360150--360367	84	2.6	86	84	5	273	33	5	15	46	1.68
360148--360367	29	7.8	29	88	4	270	32	5	15	46	1.69
363117--363174	27	2.1	27	100	0	116	32	8	22	36	1.85
366278--366317	16	2.5	16	95	0	71	27	20	15	37	1.92
368160--368189	3	9.7	3	92	7	51	3	0	30	66	1.07
370136--370187	22	2.4	22	100	0	104	19	17	9	53	1.70
376541--376582	22	2.0	21	90	4	66	38	35	2	23	1.68
376546--376595	22	2.2	22	85	7	64	34	38	4	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376891--376955	28	2.3	27	84	7	76	72	3	15	9	1.23
376899--376955	28	2.1	26	87	6	78	71	3	14	10	1.25
379788--379830	20	2.2	20	86	0	59	30	11	20	37	1.89
387846--387870	10	2.5	10	100	0	50	84	0	16	0	0.63
388498--388550	27	2.0	27	100	0	106	30	24	22	22	1.99
389732--389783	20	2.7	19	83	16	63	21	26	5	46	1.74
389732--389784	18	2.7	19	78	18	56	20	26	7	45	1.78
390853--390894	22	2.0	21	90	4	66	38	35	2	23	1.68
399512--399550	21	1.9	20	84	5	51	25	5	20	48	1.70
405348--405386	20	2.0	20	84	0	51	25	20	17	35	1.95
405471--405541	23	3.2	21	77	14	79	19	21	22	36	1.95
409793--409931	59	2.3	59	85	8	176	33	18	16	30	1.93
413048--413166	60	2.0	60	83	0	148	34	21	5	37	1.78
413380--413419	19	2.1	19	86	9	55	40	0	22	37	1.54
413303--413460	60	2.6	60	78	11	155	41	5	18	34	1.73
415415--415451	20	1.9	19	89	10	58	45	10	24	18	1.81
422039--422153	43	2.7	43	89	2	160	43	6	26	23	1.77
424095--424259	54	3.1	54	98	0	312	35	15	9	40	1.79
425273--425323	24	2.1	24	88	0	75	15	11	13	58	1.63
425533--425623	23	3.9	23	78	8	94	12	10	18	58	1.62
428164--428201	20	1.9	20	100	0	76	34	10	21	34	1.87
430768--430838	19	3.7	19	100	0	142	16	21	35	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430862--430914	19	2.8	19	97	0	97	28	16	24	30	1.97
431987--432035	23	2.1	23	88	0	71	18	22	28	30	1.97
437946--437982	19	1.9	19	100	0	74	27	16	24	32	1.96
439666--439717	21	2.3	23	83	6	63	57	1	5	34	1.33
440489--440528	2	20.0	2	100	0	80	50	0	0	50	1.00
444181--444232	26	2.0	26	88	3	77	34	15	1	48	1.56
452107--452232	62	2.0	62	100	0	252	50	6	7	35	1.57
457211--457268	30	2.0	30	93	3	100	37	3	17	41	1.66
465875--465914	19	2.1	19	90	0	62	10	22	35	32	1.87
472218--472267	16	3.1	16	76	0	55	20	2	16	62	1.43
476253--476288	2	18.0	2	100	0	72	50	0	0	50	1.00
484668--484983	43	7.4	43	75	8	209	33	19	21	24	1.97
484676--484983	85	3.6	85	74	9	270	34	20	21	23	1.96
486350--486513	80	2.1	79	90	1	256	40	17	12	30	1.86
488630--488819	41	4.6	41	89	3	267	32	20	17	29	1.96
488629--488853	82	2.7	82	84	6	269	32	20	18	29	1.96
488630--488853	123	1.8	122	82	9	285	31	20	18	29	1.96
500209--500264	9	6.0	9	80	15	60	80	0	14	5	0.88
501495--501753	91	2.9	91	90	2	389	40	13	19	26	1.89
501598--501662	20	3.3	20	67	18	55	46	12	20	21	1.83
501689--501752	20	3.3	20	72	18	64	43	12	18	25	1.85
501882--501973	3	30.7	3	86	4	114	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501882--501977	33	2.9	33	85	1	129	37	0	0	62	0.95
501882--501981	36	2.8	36	90	6	150	38	0	0	62	0.96
504139--504182	18	2.5	18	88	3	63	15	11	18	54	1.70
510458--510494	15	2.5	15	100	0	74	27	10	18	43	1.83
511464--511501	17	2.2	17	86	9	51	31	0	0	68	0.90
512213--512366	65	2.4	63	86	7	177	28	21	17	32	1.96
515417--515464	19	2.6	17	75	15	51	14	4	2	79	0.98
515468--515520	25	2.1	25	89	3	79	22	3	5	67	1.28
515579--515622	3	14.7	3	90	0	70	29	2	2	65	1.16
518158--518193	2	18.0	2	100	0	72	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8