genome.fa.s9081.2.7.7.80.10.50.1000.3.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: VEPZ01009081.1 Hibiscus syriacus cultivar Beakdansim tig00112523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1718667

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 838 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)
453702--453866	83	2.0	83	95	0	294	49	12	7	31	1.67
454567--454600	18	1.9	18	88	5	52	32	2	8	55	1.45
455080--455123	16	2.8	17	75	25	51	38	0	4	56	1.20
457524--457560	19	1.9	19	88	0	56	43	5	8	43	1.57
459832--459901	25	2.8	25	82	6	88	45	10	10	34	1.71
460389--460429	21	1.9	22	90	5	66	78	4	0	17	0.93
460526--460552	2	13.5	2	100	0	54	51	0	0	48	1.00
461073--461112	19	2.1	19	100	0	80	50	30	0	20	1.49
461895--462026	60	2.2	60	81	6	142	40	13	11	34	1.81
462470--462497	2	14.0	2	100	0	56	50	0	0	50	1.00
462525--462603	39	2.0	39	95	4	142	27	10	20	41	1.84
464701--464928	114	2.0	112	96	3	422	42	14	11	31	1.82
468174--468223	26	2.0	26	88	4	75	14	36	28	22	1.92
468270--468349	14	5.4	14	78	19	81	23	40	30	6	1.79
468266--468369	47	2.2	47	89	3	156	24	36	30	8	1.85
468331--468415	33	2.6	33	86	3	109	27	27	37	8	1.85
468474--468514	20	2.0	21	95	4	75	14	21	14	48	1.80
468550--468623	29	2.6	29	100	0	148	20	31	33	14	1.93
468951--468977	14	1.9	14	100	0	54	22	37	33	7	1.82
468951--468981	14	2.2	14	94	0	53	22	38	29	9	1.86
469691--469735	2	23.5	2	91	8	76	48	0	0	51	1.00
470270--470446	88	2.0	88	94	5	313	15	29	23	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500057--500159	32	3.1	36	84	13	116	47	0	4	47	1.23
500057--500159	33	3.1	31	78	17	100	47	0	4	47	1.23
500295--500334	20	2.1	20	90	9	66	22	22	5	50	1.68
500304--500341	20	1.9	20	88	0	58	26	26	5	42	1.76
500396--500434	20	2.0	20	84	0	51	35	7	0	56	1.28
504483--504509	13	2.1	13	100	0	54	7	7	14	70	1.32
510597--510658	20	3.0	20	73	2	61	46	1	1	50	1.20
510631--510674	23	1.9	23	81	9	54	45	0	0	54	0.99
518043--518074	2	16.0	2	100	0	64	50	0	0	50	1.00
519424--519569	60	2.4	60	81	8	147	43	3	19	32	1.68
529041--529085	15	3.0	15	96	0	81	48	0	0	51	1.00
529056--529138	33	2.4	36	90	8	127	43	0	6	50	1.26
529122--529242	22	5.5	22	97	0	215	35	2	12	49	1.54
529115--529349	44	5.0	44	79	13	254	36	1	12	49	1.49
529115--529349	66	3.3	66	80	11	254	36	1	12	49	1.49
529289--529349	22	2.8	22	94	0	104	39	0	11	49	1.39
529209--529376	76	2.2	79	87	6	245	34	0	12	52	1.39
529312--529456	58	2.6	54	85	8	227	33	0	13	53	1.40
529329--529439	32	3.7	32	75	18	137	33	0	13	53	1.40
529232--529551	134	2.4	138	90	5	487	33	0	13	52	1.40
529355--529482	26	4.8	25	70	21	91	30	0	16	53	1.44
529253--529487	80	3.0	79	81	11	236	34	0	13	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529361--529536	80	2.2	80	97	0	334	31	0	15	52	1.43
529499--529541	22	2.0	22	100	0	86	34	0	13	51	1.42
529565--529625	31	2.0	31	93	0	104	44	9	6	39	1.64
530317--530371	24	2.3	23	84	3	65	7	20	21	50	1.71
531180--531224	21	2.1	21	87	0	63	31	28	24	15	1.96
532052--532148	31	3.1	31	77	14	117	27	17	19	35	1.94
532140--532232	30	3.1	30	93	1	152	20	21	26	31	1.98
542830--542906	26	3.0	26	98	0	145	28	11	16	42	1.84
542882--543038	33	4.8	33	87	0	224	26	14	18	40	1.89
547672--547729	29	2.0	29	93	0	98	15	36	31	17	1.91
547740--547822	10	8.3	10	69	19	57	22	48	19	9	1.78
547736--547842	30	3.6	30	92	0	187	23	48	17	10	1.78
552695--552776	34	2.5	34	84	9	100	48	12	0	39	1.41
552817--552908	45	2.0	49	85	12	131	47	10	0	41	1.38
553013--553051	16	2.3	18	86	8	55	56	5	0	38	1.22
553264--553372	50	2.2	50	91	6	179	22	18	38	21	1.93
553407--553501	29	3.3	29	95	0	163	23	32	30	13	1.93
553488--553559	32	2.2	32	90	0	117	8	30	30	30	1.87
553574--553611	19	2.0	19	100	0	76	10	21	36	31	1.87
553632--553663	11	2.9	11	95	0	55	12	28	18	40	1.87
575171--575210	19	2.0	20	86	13	57	35	5	7	52	1.51
575176--575217	19	2.2	19	83	8	50	33	7	7	52	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579129--579202	37	2.0	37	97	0	139	43	6	10	39	1.66
580033--580083	14	3.7	14	73	2	50	68	3	1	25	1.17
580893--581017	59	2.1	59	81	10	139	38	10	13	37	1.79
586263--586288	2	13.0	2	100	0	52	50	0	0	50	1.00
586621--586669	21	2.3	22	79	13	57	34	16	10	38	1.82
588585--588636	20	2.6	20	100	0	104	38	17	21	23	1.93
588523--588671	20	7.3	20	75	8	79	26	22	20	30	1.98
589486--589545	24	2.5	24	83	0	84	25	18	18	38	1.93
590422--590460	17	2.4	17	95	4	71	43	0	5	51	1.24
592375--592414	18	2.2	18	90	0	62	52	27	2	17	1.57
592469--592738	140	1.9	140	99	0	531	28	13	15	42	1.85
592709--592945	20	12.8	20	74	15	186	34	22	17	25	1.96
592709--592852	54	2.7	54	90	0	225	36	24	15	23	1.93
592751--592985	74	3.2	74	90	1	283	34	22	19	23	1.96
592709--592945	34	6.4	40	73	16	186	34	22	17	25	1.96
593122--593183	14	4.3	14	77	6	61	46	14	0	38	1.45
594636--594679	21	2.3	19	88	11	63	27	13	31	27	1.94
595175--595230	20	2.8	20	83	0	67	41	23	14	21	1.89
595270--595328	20	3.0	20	80	9	68	27	13	23	35	1.92
595516--595583	20	3.4	20	85	0	91	33	25	20	20	1.97
595844--595911	20	3.4	20	85	0	91	33	25	20	20	1.97
595294--596132	328	2.5	329	97	0	1572	34	18	16	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597891--598016	20	6.4	20	82	4	132	47	22	15	14	1.81
598391--598437	22	2.2	21	85	7	60	23	12	40	23	1.89
598402--598444	22	2.0	22	95	0	77	18	16	41	23	1.89
598620--598713	20	4.7	20	85	0	116	25	19	24	30	1.98
600334--600369	15	2.4	15	90	9	56	44	5	11	38	1.63
599902--600932	521	2.0	513	94	1	1830	41	12	10	36	1.77
606862--606922	23	2.7	23	84	0	95	29	26	26	18	1.98
608155--608313	65	2.5	65	85	5	198	30	23	18	28	1.97
608372--608427	21	2.7	21	97	0	103	25	26	26	21	1.99
612026--612132	45	2.4	45	85	4	135	28	20	20	29	1.98
615828--615853	2	13.0	2	100	0	52	50	50	0	0	1.00
615853--615882	2	15.0	2	100	0	60	50	0	0	50	1.00
617310--617447	57	2.4	55	77	14	145	34	2	18	44	1.62
617310--617457	29	5.1	29	81	9	137	33	2	19	44	1.65
624553--624701	29	5.1	29	87	3	203	31	5	22	40	1.76
635003--635054	24	2.2	24	100	0	104	21	28	26	23	1.99
636365--636412	23	2.0	24	96	4	89	58	0	4	37	1.18
650725--650822	33	3.0	33	96	0	178	24	20	17	37	1.93
658325--658372	19	2.5	19	93	0	87	16	20	31	31	1.95
658392--658496	29	3.6	28	78	6	102	39	4	20	35	1.74
659817--659866	21	2.4	21	96	0	91	14	14	22	50	1.77
670491--670540	19	2.7	19	81	3	57	24	26	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670570--670727	29	5.4	30	83	6	139	39	5	20	34	1.75
670570--670710	60	2.4	60	84	2	169	41	4	19	34	1.73
671812--671860	21	2.3	21	96	0	89	44	10	10	34	1.72
674932--674974	19	2.3	19	84	8	52	9	6	9	74	1.22
675554--675593	20	2.1	19	86	9	55	62	2	0	35	1.09
678131--678177	23	2.0	23	100	0	94	10	12	4	72	1.25
678134--678182	23	2.2	23	92	3	82	10	12	6	71	1.30
678580--678607	14	2.0	14	100	0	56	21	42	28	7	1.79
678577--678622	24	1.9	24	90	0	74	23	36	28	10	1.89
678595--678688	33	2.8	33	82	3	100	26	25	37	10	1.89

Tables:   1   2   3   4   5   6   7