genome.fa.s1700.2.7.7.80.10.50.1000.3.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: VEPZ01001700.1 Hibiscus syriacus cultivar Beakdansim tig00003398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2632955

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1314 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)
470298--470606	165	1.9	161	82	6	381	27	17	26	29	1.98
471610--471638	8	3.8	8	95	4	51	48	0	41	10	1.37
475444--475524	28	3.0	27	69	8	67	50	1	1	46	1.17
483813--483861	18	2.7	18	90	0	71	22	42	16	18	1.88
483839--483892	13	4.2	12	81	6	63	20	40	20	18	1.91
483901--484092	58	3.3	58	70	9	158	31	3	16	48	1.63
483901--484092	29	6.6	29	73	10	133	31	3	16	48	1.63
484006--484102	29	3.4	29	81	4	83	39	1	12	47	1.48
485034--485194	42	3.8	41	86	4	223	21	22	24	31	1.98
490636--490682	18	2.6	18	89	0	67	14	42	21	21	1.88
500170--500250	20	3.9	20	76	12	74	27	32	24	16	1.96
506939--506967	12	2.3	13	94	5	51	17	44	24	13	1.85
507022--507159	27	4.9	28	76	6	127	33	2	13	50	1.56
507082--507143	29	2.1	29	87	3	88	33	0	17	48	1.48
508113--508237	42	3.0	41	82	5	151	22	22	21	33	1.97
508113--508261	43	3.5	42	80	7	106	20	24	21	34	1.97
508181--508275	43	2.2	42	76	10	95	21	26	18	33	1.96
508781--508829	20	2.5	20	93	0	80	32	18	24	24	1.97
508795--508842	20	2.4	20	86	6	62	31	18	22	27	1.97
510854--510971	39	3.0	39	77	9	116	21	21	20	37	1.95
510949--511036	40	2.2	40	82	6	108	23	21	20	34	1.97
511169--511216	15	2.9	17	76	20	57	37	6	4	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511169--511216	17	3.0	17	73	17	57	37	6	4	52	1.46
511300--511338	15	2.6	15	91	0	60	20	20	20	38	1.94
512922--513049	68	2.0	63	86	10	179	59	14	5	21	1.55
520665--520843	97	1.9	96	85	3	252	34	13	15	35	1.88
522283--522450	46	3.7	46	91	0	246	20	22	13	44	1.85
522299--522588	26	12.7	20	70	21	112	19	23	12	44	1.84
522437--522601	46	3.6	46	94	0	285	20	21	13	44	1.85
522293--522601	164	1.9	164	93	0	537	19	21	13	45	1.84
522319--522566	118	2.1	118	92	1	408	19	21	13	45	1.85
526310--526382	33	2.2	33	90	0	110	27	12	13	46	1.79
527968--528256	46	6.4	46	85	8	380	21	23	10	44	1.83
527974--528335	20	16.0	25	68	23	136	20	23	11	44	1.83
528045--528322	20	12.7	20	75	18	234	19	25	11	43	1.84
528045--528322	66	4.2	66	80	12	354	19	25	11	43	1.84
528243--528335	46	2.0	46	95	0	168	19	21	13	45	1.85
530224--530285	29	2.2	28	85	8	81	14	4	6	74	1.19
532245--532269	2	12.5	2	100	0	50	52	0	0	48	1.00
532584--532635	9	5.6	9	78	17	61	84	1	9	3	0.82
532587--532647	14	4.3	14	80	15	63	81	1	9	6	0.92
532602--532647	23	2.0	24	87	12	69	80	2	8	8	0.99
534537--534749	58	3.8	57	75	12	208	31	7	17	42	1.79
534545--534805	110	2.3	109	81	7	299	33	8	18	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534539--534805	58	4.7	55	73	11	186	33	8	18	40	1.80
534997--535084	39	2.3	39	78	7	99	34	18	12	35	1.88
535109--535228	59	2.0	59	87	3	170	24	25	18	32	1.97
535046--535448	211	1.9	212	86	1	576	30	23	15	31	1.95
535459--535703	39	6.3	39	84	4	280	31	16	17	35	1.92
535587--535651	22	3.2	22	64	28	61	36	16	16	29	1.92
536338--536496	64	2.5	64	85	5	198	28	23	20	26	1.99
551460--551493	2	17.0	2	100	0	68	50	0	0	50	1.00
554856--554885	15	2.0	15	100	0	60	40	13	26	20	1.89
559371--559450	3	26.7	3	97	0	151	65	0	1	33	1.01
559771--560320	113	4.9	114	92	2	887	29	19	13	38	1.89
561116--561699	83	7.0	83	95	0	1017	35	22	13	28	1.92
573531--573565	17	2.1	17	88	0	52	60	0	5	34	1.21
574220--574266	13	3.5	13	77	13	51	55	2	2	40	1.24
575702--575747	14	3.5	14	82	14	53	50	0	0	50	1.00
575704--575744	11	3.4	12	87	12	50	48	0	0	51	1.00
575726--575806	3	27.0	3	92	5	137	65	0	0	34	0.93
577295--577334	18	2.2	18	90	0	62	52	10	5	32	1.56
577341--577381	2	21.0	2	90	5	66	46	0	0	53	1.00
577434--577458	7	3.6	7	100	0	50	28	12	12	48	1.76
578716--578832	46	2.6	46	94	2	202	57	11	11	18	1.65
578951--578999	26	1.9	25	95	4	89	30	2	0	67	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585550--585592	13	3.4	13	84	15	63	37	0	2	60	1.10
588160--588308	77	1.9	78	82	10	189	43	6	8	41	1.60
588294--588333	19	2.1	19	85	4	53	55	2	2	40	1.27
591888--591932	19	2.3	20	85	7	58	75	0	20	4	0.97
591821--591919	31	3.2	31	72	19	89	72	0	20	7	1.07
591888--591937	18	2.7	19	82	14	61	76	0	18	6	0.99
593769--594127	38	9.2	38	80	4	403	25	17	16	40	1.90
593772--594127	194	1.8	194	87	1	534	25	17	16	40	1.90
594049--594202	42	3.6	43	75	11	145	24	19	16	39	1.92
594221--594483	42	6.4	42	75	6	193	26	14	17	41	1.88
594243--594385	38	3.7	38	80	3	151	25	13	18	42	1.87
594409--594551	45	3.2	45	76	7	123	24	13	17	44	1.85
594486--594585	45	2.2	45	82	7	123	27	9	19	45	1.80
595188--595809	134	4.6	134	82	4	652	31	15	18	34	1.92
595278--595774	268	1.9	268	87	0	733	29	15	19	35	1.93
595984--596009	13	2.0	13	100	0	52	30	0	0	69	0.89
596180--596225	19	2.4	19	88	0	74	10	36	28	23	1.89
596643--596678	2	18.0	2	88	0	54	44	0	5	50	1.25
596859--596910	22	2.4	22	90	9	81	21	25	44	9	1.82
596966--597019	25	2.2	25	80	12	58	64	0	7	27	1.20
604230--604271	2	21.5	2	95	4	77	50	0	0	50	1.00
608347--608386	21	1.9	21	94	0	71	60	12	15	12	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610385--610422	20	1.9	20	88	0	58	21	26	10	42	1.85
615674--615725	3	18.7	3	84	11	58	75	0	23	1	0.91
615662--615735	27	2.7	27	93	2	121	77	0	20	2	0.90
615666--615727	8	7.4	8	77	15	63	77	0	20	1	0.85
615662--615776	27	4.5	25	74	12	83	77	0	17	5	0.95
617095--617136	19	2.2	19	95	0	75	30	11	16	40	1.85
617179--617509	133	2.5	132	84	2	414	33	16	18	30	1.94
619460--619500	21	2.0	21	85	9	57	19	17	9	53	1.70
624784--624905	31	3.8	30	68	14	73	36	20	22	21	1.96
624980--625014	12	2.9	12	82	0	52	51	14	22	11	1.74
630708--630760	18	2.9	18	88	0	88	30	32	18	18	1.96
631688--631726	21	1.9	19	90	10	60	25	28	15	30	1.96
634376--634432	10	5.7	10	87	0	78	35	19	12	33	1.89
634370--634432	20	3.2	20	93	0	99	36	19	12	31	1.89
635202--635250	19	2.6	19	90	0	71	16	28	32	22	1.95
635251--635294	19	2.4	18	77	7	54	18	50	18	13	1.79
635296--635439	29	5.0	29	86	2	200	32	5	25	36	1.79
635296--635439	57	2.5	58	86	3	200	32	5	25	36	1.79
635339--635456	57	2.1	57	87	6	168	33	5	27	34	1.79
635295--635476	57	3.2	57	80	7	156	34	5	23	36	1.78
635297--635489	29	6.7	28	80	6	129	33	5	23	37	1.77
636511--636571	28	2.2	28	87	0	86	26	6	16	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642762--642979	29	7.7	28	81	10	203	32	5	23	38	1.78
642762--642979	58	3.9	56	84	6	255	32	5	23	38	1.78
644002--644062	27	2.2	27	85	2	77	24	6	18	50	1.70
654678--654714	10	3.7	10	88	0	56	35	16	13	35	1.88
654672--654714	20	2.2	20	91	0	68	37	16	13	32	1.88
655346--655380	18	1.9	18	88	11	54	28	25	5	40	1.78
659653--659677	13	1.9	13	100	0	50	48	4	0	48	1.20
661899--661933	10	3.5	10	92	0	52	28	8	28	34	1.87
668832--668912	21	3.7	22	75	6	67	23	37	22	17	1.94
677927--677986	24	2.5	24	77	0	66	16	20	31	31	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11