genome.fa.s8275.2.7.7.80.10.50.1000.3.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: VEPZ01008275.1 Hibiscus syriacus cultivar Beakdansim tig00110933_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991061

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 944 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)
578159--578219	27	2.5	24	79	12	70	45	1	6	45	1.39
578169--578358	36	5.1	37	77	14	176	45	4	6	43	1.48
578051--578291	117	2.0	119	91	7	389	45	4	6	43	1.49
578270--578353	42	2.0	41	86	2	114	51	3	4	40	1.40
581503--581548	19	2.4	19	92	0	74	13	13	6	67	1.41
584878--585745	165	5.3	164	88	2	885	29	25	21	23	1.99
584906--585745	249	3.4	246	83	4	973	29	25	21	23	1.99
586362--586536	36	5.0	36	76	13	134	45	3	6	44	1.47
586336--586491	72	2.2	72	78	10	169	42	3	7	46	1.49
586542--586570	14	2.0	15	93	6	51	41	0	6	51	1.28
586541--586604	25	2.6	22	75	20	65	43	1	7	46	1.42
586556--586734	34	5.1	35	76	12	145	44	4	6	44	1.50
586431--586673	122	2.0	119	93	5	420	45	4	6	42	1.51
586556--586723	36	4.8	34	79	11	126	45	4	5	44	1.47
586746--586778	17	2.0	17	88	5	50	24	0	0	75	0.80
588834--588888	29	1.9	28	85	3	74	32	10	10	45	1.74
589811--589848	18	2.1	18	100	0	76	44	28	5	21	1.73
590321--590368	20	2.3	21	79	17	55	45	0	2	52	1.12
590535--590588	25	2.0	25	82	10	63	29	1	3	64	1.21
590801--590884	40	2.1	40	84	0	105	55	4	7	32	1.48
592397--592490	2	48.0	2	81	4	84	45	2	3	48	1.30
592409--592517	52	2.1	52	87	3	155	42	2	5	49	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594022--594081	29	2.1	29	100	0	120	13	31	36	18	1.89
594120--594190	17	4.4	16	82	7	90	21	9	52	16	1.73
594130--594196	16	4.2	16	81	7	82	20	7	56	14	1.62
594120--594190	33	2.2	32	92	2	115	21	9	52	16	1.73
594128--594191	15	4.1	15	82	9	83	20	7	54	17	1.67
594756--594799	21	2.1	21	91	0	70	29	0	15	54	1.42
594776--594837	28	2.2	29	94	2	108	30	0	11	58	1.33
594800--594901	49	2.1	48	82	12	131	42	0	6	50	1.36
595340--595384	21	2.2	21	84	4	56	35	0	8	55	1.31
595638--595696	26	2.3	25	75	18	66	47	8	3	40	1.51
596789--597120	26	13.3	26	79	12	297	43	2	9	43	1.51
596789--597177	124	3.2	124	95	2	696	43	2	9	44	1.50
597106--597160	16	3.0	20	75	22	66	41	0	10	47	1.39
597376--597408	17	1.9	17	93	0	57	36	6	12	45	1.66
597322--597401	24	3.3	23	71	21	67	38	3	8	48	1.52
599557--599587	15	2.1	14	94	5	53	54	6	0	38	1.26
600054--600106	21	2.5	21	96	0	97	1	35	0	62	1.06
600077--600108	17	1.9	16	93	6	55	0	37	0	62	0.95
600111--600156	23	2.0	23	100	0	92	8	39	4	47	1.54
600169--600220	25	2.1	25	100	0	104	26	34	11	26	1.91
600392--600423	13	2.5	13	100	0	64	31	0	46	21	1.52
600522--600581	17	3.6	17	65	4	50	18	26	35	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600497--600610	26	4.1	26	85	14	165	18	26	35	20	1.95
600497--600662	26	5.5	32	80	18	157	19	24	34	21	1.96
600495--600627	59	2.3	59	96	3	245	20	25	34	19	1.96
600598--600685	35	2.5	35	98	0	167	18	21	32	27	1.96
600680--600709	12	2.5	12	100	0	60	16	36	20	26	1.93
602612--602659	23	2.1	23	96	0	87	39	35	20	4	1.72
603363--603402	20	2.0	20	95	0	71	35	7	30	27	1.84
608407--608470	29	2.2	30	88	8	96	32	7	1	57	1.37
608610--608686	28	2.6	29	69	16	68	48	2	6	42	1.42
612362--612405	4	11.0	4	95	0	79	72	2	0	25	0.96
613247--613288	22	1.9	23	85	9	61	26	11	0	61	1.30
629826--629905	41	2.0	40	83	11	101	67	1	6	25	1.21
629854--630181	109	3.1	101	68	21	251	57	4	8	29	1.48
629943--629990	14	3.6	13	77	11	53	50	8	2	39	1.44
629880--630313	211	2.0	210	93	3	735	57	4	7	30	1.47
630158--630187	10	3.0	10	95	0	51	50	6	0	43	1.28
630161--630199	12	3.2	12	85	7	53	53	5	0	41	1.23
631637--632306	105	6.4	105	97	0	1259	23	18	25	32	1.97
633052--633152	53	1.9	53	85	4	141	13	22	13	49	1.78
642536--642579	20	2.2	20	88	8	63	75	2	4	18	1.09
643683--643762	41	2.0	40	83	11	101	67	1	6	25	1.21
643800--643845	8	6.0	8	82	7	60	50	8	2	39	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644013--644050	10	3.8	10	82	10	51	52	7	0	39	1.31
643737--644164	207	2.0	209	92	4	711	57	4	7	29	1.47
647859--647894	2	18.0	2	100	0	72	50	0	0	50	1.00
652573--652661	40	2.2	40	97	0	169	24	43	6	24	1.78
652967--653539	283	2.0	290	97	2	1097	37	12	14	35	1.84
657877--657927	22	2.5	20	73	20	52	15	0	31	52	1.43
658204--658282	31	2.5	31	88	8	108	54	0	6	39	1.26
660193--660291	49	2.0	49	100	0	198	26	25	20	28	1.99
663485--663518	15	2.3	15	94	0	59	44	20	5	29	1.75
667135--667196	31	2.0	31	96	0	115	22	14	38	24	1.91
667201--667251	22	2.4	22	96	3	95	21	29	35	13	1.92
667249--667292	22	2.0	23	86	4	63	25	20	47	6	1.74
667297--667384	29	3.0	29	81	0	113	21	32	30	14	1.94
687468--687520	24	2.2	25	80	10	65	9	15	26	49	1.74
687477--687532	14	4.3	14	80	17	75	7	14	25	53	1.66
687478--687539	24	2.6	24	92	0	97	6	12	25	54	1.62
687478--687552	24	3.1	24	88	0	87	9	12	22	56	1.64
687477--687552	38	2.0	38	85	10	102	9	13	22	55	1.66
688622--688688	16	4.3	16	84	3	84	10	11	20	56	1.64
688616--688680	32	2.0	32	87	0	94	7	12	24	55	1.63
688749--688779	16	1.9	16	100	0	62	6	12	22	58	1.58
695385--695497	60	1.9	59	87	5	165	35	13	17	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699575--699706	44	3.0	44	87	1	165	25	18	7	49	1.73
699575--699640	22	3.0	22	64	16	55	25	13	7	53	1.66
702040--702076	2	19.0	2	94	5	67	48	0	0	51	1.00
702984--703023	2	20.0	2	100	0	80	50	0	0	50	1.00
704152--704208	25	2.4	24	85	5	71	57	0	5	36	1.21
715544--715571	14	2.0	14	100	0	56	28	0	21	50	1.49
717785--717811	3	9.0	3	100	0	54	66	0	0	33	0.92
717901--717946	20	2.3	20	78	10	51	30	2	2	65	1.16
721935--721959	3	8.3	3	100	0	50	64	0	0	36	0.94
726348--726398	22	2.5	20	73	20	52	15	0	31	52	1.43
727384--727421	20	1.9	20	88	0	58	10	31	34	23	1.89
727449--727491	21	2.0	21	81	0	50	16	25	30	27	1.97
733594--733914	103	3.1	103	96	1	608	36	24	13	25	1.92
734459--734501	21	2.0	21	81	0	50	16	25	30	27	1.97
734950--734993	3	13.7	3	81	13	52	61	0	38	0	0.96
734953--734992	10	4.0	10	93	0	62	60	0	40	0	0.97
740653--740719	35	1.9	35	96	0	125	47	17	10	23	1.79
744726--744766	21	2.0	21	95	0	73	31	14	4	48	1.65
744762--744860	33	3.0	33	91	1	155	33	6	14	46	1.69
744846--744900	13	4.2	13	75	13	58	34	3	12	49	1.59
745096--745152	21	2.7	21	88	0	87	22	24	26	26	2.00
745742--745773	16	2.0	17	88	11	50	43	21	21	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750313--750357	21	2.2	20	84	8	54	2	57	0	40	1.11
750936--750967	2	16.5	2	93	6	57	53	0	0	46	1.00
756157--756204	21	2.3	20	79	6	60	22	18	18	39	1.92
756168--756213	21	2.1	23	88	8	69	21	17	15	45	1.85
756209--756272	21	3.2	19	71	16	56	31	15	17	35	1.91
756185--756272	42	2.1	42	89	0	131	28	17	17	37	1.92
757085--757151	19	3.3	19	71	15	62	32	19	22	25	1.97
757093--757159	21	3.3	19	69	19	55	37	20	20	20	1.95
757155--757207	21	2.5	21	87	6	81	20	20	28	30	1.98
760975--761099	60	2.1	60	80	5	137	32	13	14	39	1.85

Tables:   1   2   3   4   5   6   7   8