genome.fa.s521.2.7.7.80.10.50.1000.2.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: VEPZ01000521.1 Hibiscus syriacus cultivar Beakdansim tig00000999_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1347562

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 591 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)
334454--334491	19	2.0	20	89	5	60	47	0	0	52	1.00
334478--334572	22	4.2	22	75	7	91	47	1	0	51	1.07
334511--334550	18	2.3	17	91	4	62	50	2	0	47	1.14
334469--334596	25	5.0	26	71	12	77	45	0	0	53	1.11
334526--334622	26	3.7	26	78	15	94	41	0	1	57	1.05
334527--334664	27	5.5	25	70	21	67	43	0	2	53	1.18
334761--334817	20	2.9	19	75	12	53	57	0	0	42	0.98
334978--335069	29	3.1	29	85	1	130	36	16	3	43	1.64
334990--335075	15	5.8	15	73	2	84	38	17	3	40	1.67
335315--335353	18	2.2	18	90	0	60	48	2	12	35	1.55
338029--338080	23	2.3	23	78	15	63	53	13	21	11	1.70
338031--338078	22	2.2	22	85	7	62	54	12	20	12	1.70
338044--338092	23	2.1	23	85	7	64	53	16	18	12	1.73
339402--339679	139	2.0	139	86	0	385	41	16	13	28	1.86
345293--345373	32	2.6	30	79	9	90	28	18	23	29	1.98
345356--345428	30	2.4	30	88	4	103	26	20	23	30	1.99
350288--350387	30	3.3	30	84	1	110	26	19	22	33	1.97
356346--356582	78	3.1	78	93	0	395	40	16	8	35	1.77
359590--359628	2	20.0	2	94	5	71	51	0	0	48	1.00
361101--361167	34	1.9	34	82	14	84	22	13	17	46	1.83
362039--362924	444	2.0	444	89	0	1371	36	15	19	28	1.93
379996--380045	23	2.2	23	82	3	66	58	2	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381613--381660	22	2.1	23	85	11	64	39	8	0	52	1.32
387632--387657	13	2.0	13	100	0	52	46	0	7	46	1.31
390404--390437	2	17.0	2	93	0	59	0	52	0	47	1.00
398793--398834	2	21.0	2	100	0	84	50	0	0	50	1.00
399982--400045	3	21.3	3	100	0	128	67	0	0	32	0.91
402944--403031	23	3.8	23	78	14	90	29	23	26	20	1.99
403145--403188	23	1.9	23	90	0	70	27	25	29	18	1.98
409426--409502	23	3.3	23	71	16	68	32	22	24	20	1.98
409644--409680	18	2.1	18	100	0	74	37	10	16	35	1.83
428418--428464	2	23.5	2	100	0	94	51	0	0	48	1.00
434355--434456	51	2.0	51	100	0	204	23	21	27	27	1.99
436738--436803	28	2.4	28	92	0	105	27	13	19	39	1.89
442148--442173	2	13.0	2	100	0	52	50	0	0	50	1.00
443642--443686	21	2.1	21	87	0	63	31	28	24	15	1.96
445132--445176	22	2.0	22	95	0	81	20	24	26	28	1.99
445140--445184	22	2.0	22	91	0	72	17	24	28	28	1.97
445182--445708	262	2.0	262	94	5	922	35	11	20	33	1.88
445625--445658	16	2.1	17	88	5	52	32	0	23	44	1.54
447402--447570	84	2.0	84	100	0	338	21	21	11	45	1.83
449159--449306	31	5.0	31	86	8	202	37	20	18	22	1.95
450163--450207	21	2.1	21	87	0	63	15	24	28	31	1.96
450483--450528	22	2.1	22	100	0	92	56	17	0	26	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
453214--453367	31	5.0	31	91	1	247	37	20	19	22	1.94
454235--454279	21	2.1	21	87	0	63	15	24	28	31	1.96
459622--459873	36	7.0	36	76	13	232	47	6	1	44	1.37
459623--459873	37	7.0	35	76	10	165	47	6	1	44	1.37
459793--459842	26	1.9	26	84	8	66	46	6	2	46	1.39
460156--460180	5	5.0	5	100	0	50	40	40	0	20	1.52
460345--460386	20	2.1	20	82	8	50	61	11	11	14	1.56
460830--460871	14	3.1	14	96	3	77	59	7	11	21	1.56
465944--465972	2	14.5	2	100	0	58	48	0	51	0	1.00
466688--466734	8	6.4	8	81	18	57	29	0	0	70	0.88
466701--466744	21	2.2	20	91	4	70	25	0	0	75	0.81
467005--467043	17	2.3	17	86	0	51	30	0	0	69	0.89
479541--479569	12	2.5	12	94	5	51	41	0	0	58	0.98
501076--501175	31	3.3	31	73	8	89	41	6	10	43	1.63
502378--502471	29	3.2	28	70	16	82	34	27	4	34	1.77
502309--502474	60	2.8	60	83	1	172	34	21	7	37	1.81
504132--504167	7	5.1	7	100	0	72	27	44	0	27	1.55
510350--510397	21	2.3	21	96	0	87	41	12	18	27	1.86
512095--512146	23	2.3	23	86	0	68	51	15	5	26	1.65
516484--516516	2	16.5	2	100	0	66	48	0	0	51	1.00
524497--524550	23	2.4	24	84	9	69	16	7	3	72	1.22
524609--524666	10	5.6	10	78	8	53	68	5	5	20	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524609--524666	21	2.8	20	71	7	53	68	5	5	20	1.28
524821--524877	28	2.0	29	83	10	73	66	7	3	22	1.31
525605--525781	36	4.9	36	88	2	248	18	24	22	34	1.96
530865--530892	10	2.8	10	100	0	56	57	21	21	0	1.41
532647--532685	19	2.0	20	90	5	62	30	0	0	69	0.89
545972--545999	2	14.0	2	100	0	56	50	0	0	50	1.00
555555--555784	114	2.0	115	89	0	354	25	15	20	38	1.92
556889--556930	20	2.0	21	86	4	59	45	2	2	50	1.27
563055--563098	18	2.4	19	88	3	63	50	0	2	47	1.13
563303--563349	24	2.0	23	88	12	69	6	46	4	42	1.48
570549--570602	15	3.4	15	72	22	56	24	16	24	35	1.95
570537--570606	33	2.1	33	100	0	140	28	14	24	32	1.94
570537--570592	18	3.3	18	69	23	57	28	14	25	32	1.94
575976--576025	24	2.1	24	100	0	100	24	18	18	40	1.91
578355--578380	3	8.7	3	100	0	52	69	0	0	30	0.89
585479--585643	64	2.6	64	83	7	194	31	20	22	26	1.98
586139--586298	31	5.2	31	89	0	257	38	11	14	35	1.82
586174--586227	16	3.4	16	67	23	51	38	12	16	31	1.87
589358--589521	64	2.6	64	85	5	199	31	21	21	25	1.98
590095--590179	16	5.4	16	64	25	56	38	12	16	31	1.87
590091--590312	31	7.2	31	93	0	390	38	11	15	34	1.83
590252--590303	16	3.3	16	70	24	56	38	11	17	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595986--596015	12	2.5	12	88	0	51	6	36	30	26	1.82
603978--604019	20	2.0	21	86	9	59	16	19	7	57	1.62
609249--609380	41	3.2	41	66	23	112	37	3	8	50	1.50
609242--609410	84	2.0	84	97	0	320	39	4	8	47	1.53
609270--609400	41	3.1	41	65	20	108	38	5	6	49	1.52
618653--618689	5	7.6	5	93	3	58	86	0	13	0	0.57
618672--618858	99	1.9	101	83	7	247	58	13	17	10	1.63
621585--621666	39	2.1	39	93	0	137	40	14	25	19	1.90
626231--626302	20	3.4	20	72	20	74	41	4	1	52	1.29
630457--630489	16	2.1	16	88	11	50	57	3	0	39	1.14
645770--645830	31	2.0	31	86	0	86	42	19	14	22	1.88
645858--645947	24	3.8	24	95	0	153	28	24	26	20	1.99
645933--645981	11	4.4	11	79	5	53	24	24	22	28	1.99
645968--646002	17	2.1	17	100	0	70	28	31	17	22	1.96
645983--646051	35	2.0	35	94	0	120	30	27	15	26	1.96
648969--649011	7	6.1	7	88	0	50	53	20	2	23	1.57
648969--649021	14	3.8	14	82	0	61	52	22	1	22	1.56
648969--649035	28	2.4	28	80	9	82	52	22	1	23	1.56
649109--649160	14	3.5	14	74	23	52	42	0	5	51	1.25
649600--649640	2	20.5	2	100	0	82	0	48	0	51	1.00
653992--654500	192	2.7	192	90	0	777	31	20	21	27	1.98
654353--654654	154	2.0	154	97	0	568	33	22	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661750--661920	87	2.0	87	92	0	288	28	16	9	45	1.79
662027--662070	21	2.1	21	100	0	88	40	4	11	43	1.61
670262--670290	2	14.5	2	100	0	58	51	0	0	48	1.00
673373--673414	22	1.9	22	85	9	59	45	0	0	54	0.99
674813--674891	25	3.0	28	66	17	78	32	3	1	62	1.21
674839--674881	18	2.4	17	81	14	50	23	2	2	72	1.08
675149--675207	15	3.7	16	84	6	66	11	3	27	57	1.50
675153--675220	32	2.1	33	83	5	86	8	2	27	60	1.41
675153--675220	16	4.3	15	77	7	55	8	2	27	60	1.41
676690--676730	19	2.2	19	100	0	82	53	17	4	24	1.63

Tables:   1   2   3   4   5