genome.fa.s5546.2.7.7.80.10.50.1000.3.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: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1755203

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 904 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)
499053--499171	58	2.0	59	98	1	231	53	6	27	11	1.62
501808--501852	14	3.2	14	90	0	72	33	11	20	35	1.88
506925--506963	17	2.4	16	91	8	69	41	12	10	35	1.77
507023--507092	3	23.3	3	100	0	140	67	0	0	32	0.91
508968--509007	21	1.9	21	89	0	62	22	7	17	52	1.69
511313--511466	77	2.0	80	83	8	201	41	11	3	42	1.59
518285--518431	77	1.9	79	84	5	201	40	10	4	44	1.61
522526--522599	39	1.9	39	94	2	132	24	5	6	63	1.40
530632--530666	18	1.9	18	88	0	52	37	2	45	14	1.59
530930--530958	2	14.5	2	100	0	58	0	48	0	51	1.00
534830--534884	22	2.5	22	77	17	60	38	16	10	34	1.84
534777--535114	164	2.0	168	96	3	623	39	17	10	33	1.83
537135--537182	24	2.0	24	95	0	87	31	8	18	41	1.80
540013--540095	41	2.0	40	93	2	139	20	18	15	45	1.85
540365--540432	22	3.0	23	80	8	77	50	1	0	48	1.10
540328--540381	27	2.0	28	86	13	78	50	0	0	50	1.00
540363--540434	19	3.5	19	70	24	56	48	1	0	50	1.09
540441--540511	13	5.6	13	71	18	53	50	1	0	47	1.09
540436--540478	21	2.0	21	95	0	77	44	0	0	55	0.99
540343--540509	74	2.3	75	77	14	168	47	1	0	50	1.08
540441--540546	29	3.5	31	72	16	80	50	3	0	45	1.19
540496--540541	20	2.3	20	81	7	58	54	2	0	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540862--540926	15	4.4	15	86	1	96	35	20	6	38	1.77
543819--543861	21	2.0	21	90	0	68	44	0	32	23	1.54
544757--544904	64	2.3	64	89	4	219	28	20	18	31	1.97
546525--546607	41	2.0	42	97	2	159	43	24	19	13	1.86
546869--546908	21	1.9	21	90	10	64	57	7	5	30	1.48
554113--554142	2	15.0	2	100	0	60	50	0	0	50	1.00
556695--556739	22	2.0	22	95	0	81	57	11	26	4	1.52
557531--557570	16	2.5	15	84	11	53	42	12	7	37	1.71
558840--558880	3	14.0	3	87	5	57	2	26	0	70	0.99
558910--558958	27	1.9	27	88	12	77	14	6	18	61	1.53
559420--559472	20	2.7	20	82	11	65	39	11	26	22	1.88
568533--568573	20	2.0	21	85	4	57	24	21	9	43	1.83
573230--573460	48	5.0	48	87	6	268	23	21	12	41	1.88
573207--573515	96	3.4	91	81	7	306	24	22	12	40	1.89
573247--573523	44	6.1	43	86	4	259	24	21	12	41	1.87
575144--575204	24	2.6	24	81	2	88	24	21	22	31	1.98
576656--576697	20	2.1	20	86	8	59	40	9	4	45	1.58
577374--577496	27	4.6	27	84	1	158	19	13	0	65	1.31
580545--580876	52	5.9	60	74	13	169	36	12	21	29	1.90
580613--580880	52	5.0	52	80	6	250	37	12	22	27	1.90
589832--589863	2	16.0	2	100	0	64	50	0	0	50	1.00
595357--595404	18	2.6	18	86	6	60	37	12	22	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595913--596028	60	1.9	60	82	0	142	37	12	18	31	1.88
595981--596245	52	4.9	53	84	7	288	35	13	24	27	1.92
597513--597549	18	2.1	18	100	0	74	32	5	10	51	1.60
599468--599517	13	3.6	14	76	15	50	18	16	10	56	1.67
599511--599549	20	2.0	20	89	0	60	17	12	17	51	1.76
600934--601018	16	5.3	15	68	25	50	72	1	23	2	1.03
601335--601359	2	12.5	2	100	0	50	52	0	0	48	1.00
601592--601669	28	2.8	29	82	5	106	35	29	3	30	1.75
604432--604751	54	5.9	54	80	5	333	31	10	16	41	1.83
606675--607309	315	2.0	318	84	4	836	35	15	19	28	1.93
611784--611896	42	2.7	42	88	2	165	29	23	17	29	1.97
612181--612212	3	10.7	3	93	0	55	65	3	0	31	1.08
621959--621997	20	2.0	20	84	0	51	23	7	23	46	1.78
632620--632669	24	2.1	24	88	7	75	22	2	6	70	1.20
632624--632666	12	3.6	12	78	12	52	20	2	4	72	1.14
650927--651009	43	1.9	43	82	4	105	16	10	32	39	1.84
651200--651267	27	2.5	28	85	2	93	44	7	23	25	1.79
651200--651319	30	4.2	30	75	10	83	44	6	21	27	1.77
651525--651574	24	2.1	24	96	0	91	20	4	4	72	1.18
651529--651572	12	3.7	12	85	11	63	18	4	2	75	1.09
654383--654416	17	2.0	17	94	0	59	29	8	5	55	1.54
662579--662634	21	2.5	23	85	8	80	19	16	32	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663737--663775	2	19.0	2	94	5	69	48	2	0	48	1.15
667670--667757	7	12.7	7	81	13	94	2	18	0	79	0.83
667664--667759	6	15.0	6	79	14	70	3	17	0	79	0.87
680440--680564	47	2.8	45	83	7	164	32	19	8	40	1.82
680554--680604	24	2.1	25	96	3	95	27	19	7	45	1.78
682841--682884	21	2.1	21	91	0	70	52	11	2	34	1.50
682870--682899	15	1.9	16	93	6	53	43	13	10	33	1.77
684380--684439	31	1.9	31	96	0	111	28	5	20	46	1.71
685498--685584	42	2.1	42	86	2	122	32	19	22	25	1.98
685331--686550	260	4.7	259	83	5	1391	34	15	15	34	1.90
686250--686350	41	2.4	42	81	4	125	30	19	21	27	1.98
686335--686373	20	2.0	19	90	5	60	28	25	20	25	1.99
690086--690145	28	2.2	27	81	3	66	50	20	10	20	1.76
692810--692855	21	2.2	21	88	7	67	28	47	8	15	1.74
695684--695828	73	2.0	72	98	1	281	31	20	16	31	1.95
700703--700734	15	2.2	15	94	5	57	65	0	3	31	1.08
703283--703342	27	2.2	27	87	0	84	35	6	13	45	1.70
705813--705869	20	2.8	20	86	0	87	33	19	17	29	1.95
707759--707847	38	2.2	42	80	7	105	30	12	15	41	1.84
708174--708208	16	2.2	16	94	0	61	37	0	22	40	1.55
709274--709298	4	6.2	4	100	0	50	76	0	0	24	0.80
709515--709553	14	2.9	14	88	3	53	66	2	10	20	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720856--721293	216	2.0	216	95	0	786	41	18	15	24	1.89
721469--721529	22	2.8	22	80	9	63	36	18	18	27	1.94
722494--722958	139	3.3	138	86	2	583	43	15	11	30	1.81
723443--723477	16	2.2	16	90	10	54	57	8	5	28	1.52
725680--725739	26	2.4	25	83	10	77	10	15	1	73	1.17
726167--726388	118	1.9	115	87	4	329	23	21	14	40	1.90
726629--726831	102	2.0	101	87	0	289	38	9	19	32	1.83
734231--734707	139	3.4	139	85	2	627	42	15	11	30	1.82
734819--734887	33	2.1	34	97	2	131	49	15	11	23	1.77
739426--739481	29	1.9	29	81	0	67	19	16	5	58	1.56
740147--740218	20	3.6	20	86	3	101	25	29	19	26	1.99
740100--740191	49	1.9	47	88	4	139	29	27	19	23	1.98
740406--740449	22	2.0	22	95	0	79	20	45	15	18	1.85
740728--740770	20	2.2	20	95	0	77	9	18	18	53	1.70
742087--742131	18	2.5	18	85	0	63	26	44	13	15	1.83
742612--742678	20	3.4	20	81	2	73	38	23	22	14	1.92
742667--742724	14	3.9	14	79	16	71	48	25	17	8	1.75
742651--742741	32	2.8	33	94	3	166	47	23	18	10	1.80
742612--742746	19	7.6	19	71	19	85	42	23	20	12	1.86
742753--742830	32	2.4	32	91	4	122	10	17	23	48	1.78
742758--742814	13	3.9	13	77	22	60	8	17	24	49	1.75
742824--742869	20	2.3	20	88	3	67	15	21	26	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
745166--745213	19	2.5	20	79	3	62	47	25	16	10	1.78
745209--745392	19	10.1	19	73	15	138	11	21	22	44	1.84
745209--745298	39	2.3	39	92	1	146	10	17	23	48	1.77
745281--745368	33	2.6	33	92	1	140	11	25	25	38	1.89
745336--745392	20	2.9	19	78	17	62	14	24	19	42	1.88
747385--747476	41	2.2	42	82	1	114	21	39	16	22	1.92
748833--748867	14	2.6	14	95	4	63	31	0	22	45	1.53
749006--749045	20	2.0	20	95	0	71	52	20	15	12	1.74
749050--749176	33	3.9	32	87	8	193	14	22	20	41	1.89
749043--749175	66	2.0	66	97	0	248	16	22	20	40	1.91

Tables:   1   2   3   4   5   6   7   8