genome.fa.s8308.2.7.7.80.10.50.1000.3.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: VEPZ01008308.1 Hibiscus syriacus cultivar Beakdansim tig00110998_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1044366

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 552 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)
464760--464819	15	3.9	15	72	12	59	78	1	3	16	0.97
464788--464866	36	2.2	36	84	11	108	70	2	12	13	1.26
464923--464965	18	2.4	18	88	0	59	72	0	4	23	1.04
466772--466825	6	9.0	6	76	8	56	20	1	0	77	0.86
466781--466827	24	1.9	24	86	4	67	19	4	0	76	0.95
467000--467076	27	2.7	28	78	10	84	38	11	27	22	1.88
469133--469172	21	1.9	22	85	10	57	25	2	10	62	1.39
469138--469190	23	2.4	22	82	14	65	20	5	13	60	1.53
470038--470062	12	2.1	12	100	0	50	24	0	0	76	0.80
470566--470630	31	2.1	31	85	5	87	56	7	6	29	1.51
474322--474381	30	2.0	30	86	0	84	28	18	10	43	1.82
474338--474417	30	2.7	30	79	9	76	32	20	6	41	1.77
474412--474468	25	2.3	25	93	0	96	36	8	8	45	1.66
474667--474743	32	2.4	33	77	16	90	59	5	0	35	1.20
476889--476985	23	4.2	23	79	0	104	35	23	23	17	1.96
476889--476985	46	2.1	46	84	0	122	35	23	23	17	1.96
477069--477109	16	2.7	15	82	17	57	39	26	2	31	1.70
480644--480982	54	6.3	54	88	0	480	33	20	17	27	1.96
487496--487796	53	5.7	52	88	4	408	31	18	20	29	1.97
487624--487710	27	3.1	29	60	18	67	31	22	17	28	1.97
487496--487796	107	2.8	107	87	5	407	31	18	20	29	1.97
488136--488320	95	1.9	95	81	4	221	23	24	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494393--494666	53	5.1	53	91	0	413	32	19	19	28	1.96
494393--494666	107	2.6	107	90	1	424	32	19	19	28	1.96
499752--499800	24	2.0	24	88	0	71	36	22	18	22	1.95
499757--499808	24	2.2	24	85	0	68	44	19	15	21	1.87
499831--499885	23	2.4	23	81	0	74	30	21	25	21	1.98
501880--501912	2	16.5	2	100	0	66	51	0	0	48	1.00
503122--503165	22	2.0	22	86	8	63	61	9	2	27	1.38
504175--504613	217	2.0	220	98	1	857	37	19	6	36	1.79
508025--508083	31	1.9	31	92	0	100	16	11	16	54	1.71
509441--509509	31	2.2	31	81	0	84	53	20	11	14	1.71
511281--511320	20	2.0	21	90	5	64	17	22	25	35	1.95
525547--525707	81	2.0	81	97	0	304	40	11	22	25	1.87
531575--531622	20	2.2	21	85	14	62	60	12	8	18	1.57
536298--536672	184	2.0	184	91	2	610	42	3	8	45	1.53
538505--538578	23	3.1	23	69	17	62	52	25	10	10	1.68
540498--540560	33	1.9	33	90	3	101	17	9	30	42	1.81
544835--544924	20	4.5	20	98	0	162	38	23	18	18	1.93
544918--544963	20	2.3	20	88	0	65	45	21	13	19	1.84
544835--544944	40	2.7	39	87	5	123	40	23	17	19	1.91
545118--545168	22	2.3	22	93	0	84	19	43	15	21	1.88
545534--545587	20	2.8	20	88	2	83	12	16	22	48	1.80
547314--547363	21	2.4	21	80	6	57	22	12	36	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547670--547735	21	3.1	21	76	8	80	19	33	19	27	1.96
547678--547750	21	3.5	21	75	5	58	20	34	21	23	1.97
549058--549205	63	2.3	64	87	1	208	29	2	15	52	1.57
549306--549360	20	2.8	20	88	0	83	38	20	21	20	1.94
549358--549387	14	2.1	14	100	0	60	13	20	20	46	1.83
549621--549656	18	2.0	18	94	0	63	16	2	25	55	1.55
549623--549660	18	2.2	18	85	4	51	18	5	21	55	1.62
549861--549899	15	2.5	15	83	4	51	66	0	5	28	1.12
550056--550209	20	7.7	20	72	13	111	32	12	23	31	1.92
552144--552190	18	2.7	18	90	3	69	36	8	27	27	1.86
553547--553642	49	2.0	48	95	2	174	39	17	10	32	1.84
558204--558725	54	9.8	53	85	5	626	31	19	17	31	1.95
558204--558725	162	3.3	161	86	2	700	31	19	17	31	1.95
564001--564068	6	11.5	6	90	7	88	69	10	16	4	1.33
577747--577793	24	2.0	23	88	12	69	68	4	8	19	1.33
577787--577820	4	8.5	4	90	9	52	79	0	20	0	0.73
580444--580699	45	5.7	45	86	3	211	23	21	11	43	1.85
580465--580699	90	2.6	90	91	2	375	21	22	12	42	1.87
581040--581085	20	2.3	20	100	0	92	19	32	21	26	1.97
581119--581238	54	2.2	54	96	0	222	27	19	10	42	1.84
586108--586490	137	2.8	135	88	3	549	34	16	20	28	1.94
586399--586579	91	2.0	91	86	0	254	35	15	21	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586800--586841	12	3.6	12	80	6	50	57	30	0	11	1.35
589585--589671	24	3.7	24	90	3	124	22	26	20	29	1.99
593461--593489	3	9.7	3	100	0	58	31	0	0	68	0.89
594496--594544	19	2.4	19	83	10	53	42	8	8	40	1.64
594627--594893	5	53.6	5	93	0	401	35	0	24	40	1.56
603005--603040	17	2.1	17	90	10	56	52	2	16	27	1.57
605055--605133	25	3.2	25	87	7	117	34	18	0	46	1.50
605999--606075	40	1.9	40	83	0	100	32	24	15	27	1.95
606831--606856	3	8.7	3	100	0	52	30	0	0	69	0.89
608308--608333	2	13.0	2	100	0	52	50	0	0	50	1.00
608990--609041	21	2.5	21	81	9	70	36	7	7	48	1.61
612660--612690	2	15.5	2	100	0	62	51	0	0	48	1.00
619811--619895	30	2.8	30	81	0	107	62	9	9	18	1.52
624206--624294	33	2.7	33	92	0	142	37	20	12	30	1.89
626252--626439	55	3.6	54	83	7	251	32	22	18	26	1.97
631810--631848	3	12.7	3	89	5	60	38	0	0	61	0.96
633196--633251	2	28.0	2	100	0	112	50	0	0	50	1.00
633249--633641	158	2.6	156	78	9	418	40	7	7	44	1.62
633246--633668	149	2.8	148	74	14	394	40	8	7	43	1.62
635646--635715	35	2.0	34	86	2	95	17	11	8	62	1.52
643126--643177	22	2.4	22	90	0	77	38	15	15	30	1.88
643849--644341	116	4.2	116	91	1	738	29	20	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644090--644152	21	3.0	22	66	17	60	34	22	20	22	1.96
643894--644341	231	1.9	232	94	0	781	30	20	20	29	1.98
644247--644475	74	3.1	74	92	0	359	27	20	19	33	1.96
644662--644700	3	13.0	3	100	0	78	33	0	0	66	0.92
646085--646493	147	2.7	148	77	12	390	41	8	7	43	1.61
648140--648290	55	2.8	55	85	1	151	32	19	16	31	1.94
648172--648290	55	2.2	54	92	1	193	32	22	17	26	1.96
652028--652079	9	5.8	9	78	14	54	40	1	0	57	1.10
652099--652158	18	3.4	17	76	17	50	51	0	3	45	1.17
652531--652593	28	2.2	30	82	5	76	34	15	9	39	1.80
660840--660924	24	3.6	23	79	6	89	52	15	11	20	1.73
664348--664392	20	2.2	20	96	0	81	28	4	31	35	1.77
664991--665048	27	2.1	27	90	0	89	43	22	17	17	1.88
669740--669881	70	2.0	70	88	0	212	35	19	16	27	1.94
669814--669897	27	3.1	26	65	21	64	33	20	17	28	1.95
669819--669901	26	3.1	26	64	21	62	36	18	16	28	1.93
669810--670161	55	6.5	55	86	3	453	34	18	18	28	1.95
669691--669936	125	2.0	125	86	1	350	35	19	18	26	1.94
669810--670158	108	3.2	108	85	6	436	34	18	18	28	1.95
669810--670161	163	2.2	164	87	3	505	34	18	18	28	1.95
673457--673690	55	4.3	55	80	3	249	31	20	20	28	1.97
674193--674466	55	5.0	55	85	1	286	33	20	18	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674681--674710	10	3.0	10	95	0	51	30	23	26	20	1.98
676992--677164	92	1.9	92	90	2	276	32	9	24	34	1.87
677339--677377	18	2.2	18	95	0	69	33	23	17	25	1.96
683358--683404	3	15.7	3	95	0	85	31	0	2	65	1.04
684706--684759	9	6.2	9	72	23	53	33	3	0	62	1.12
684691--684755	29	2.3	27	82	10	76	33	6	0	60	1.22
687823--687880	23	2.5	22	78	8	62	15	17	12	55	1.70
689060--689124	2	32.5	2	100	0	130	49	0	0	50	1.00
689974--690015	21	2.0	21	85	0	57	42	21	16	19	1.89
694248--694350	10	10.0	10	68	23	63	45	10	39	3	1.57

Tables:   1   2   3   4   5