genome.fa.s1448.2.7.7.80.10.50.1000.2.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: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1849635

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 993 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)
271018--271077	30	2.0	31	83	3	77	51	10	10	28	1.67
273768--273814	19	2.6	18	83	12	60	65	0	14	19	1.26
274223--274275	19	2.6	20	85	8	63	41	5	15	37	1.70
274953--275012	30	2.0	31	83	9	79	50	10	11	28	1.71
277661--277816	64	2.4	65	77	7	174	30	19	21	28	1.97
279741--279811	23	3.2	22	71	15	65	28	23	19	28	1.99
280032--280220	94	2.0	94	98	0	369	42	11	12	33	1.78
289180--289230	27	1.9	26	84	11	68	11	23	0	64	1.26
289703--289742	21	2.0	21	90	5	64	40	5	25	30	1.77
292224--292300	26	3.0	26	87	11	97	46	9	7	36	1.64
295028--295065	20	2.0	19	85	10	51	23	36	7	31	1.84
296815--297181	120	3.1	120	88	0	520	29	19	16	34	1.94
299945--299977	16	2.1	16	88	11	50	33	24	12	30	1.91
304009--304062	20	2.6	21	82	5	65	38	18	12	29	1.88
321481--321523	19	2.3	19	92	4	70	79	2	16	2	0.95
331222--331268	19	2.6	18	81	15	53	19	12	0	68	1.21
339241--339353	60	1.9	60	86	0	163	14	13	35	37	1.85
361080--361193	40	2.8	41	75	11	117	27	21	22	28	1.99
360998--361193	81	2.4	81	82	1	223	28	20	20	30	1.98
361080--361382	41	7.5	42	72	12	150	27	19	20	32	1.97
361080--361352	81	3.4	80	79	6	264	27	20	20	31	1.97
361319--361490	42	4.1	42	80	5	170	26	19	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361335--361490	84	1.9	84	86	5	226	27	19	17	35	1.94
363121--363203	29	2.8	28	75	13	78	46	4	10	37	1.60
364745--364792	24	2.0	24	95	0	87	29	12	10	47	1.74
365072--365205	59	2.3	59	84	0	178	27	17	23	31	1.97
365280--365432	45	3.4	45	96	0	279	39	5	22	32	1.76
367724--367847	21	6.1	20	75	14	87	81	3	12	2	0.91
367724--367846	18	7.1	16	77	16	97	81	3	13	2	0.92
367730--367828	1	99.0	1	67	0	54	83	4	10	2	0.85
367727--367827	8	13.2	8	73	12	79	83	3	10	1	0.87
367730--367827	20	4.9	21	74	10	64	83	4	10	2	0.85
371365--371413	24	2.0	24	92	0	80	30	10	12	46	1.74
371542--371663	58	2.1	58	89	1	183	32	10	17	39	1.84
371959--372108	45	3.3	45	96	0	273	38	4	24	33	1.76
374622--374670	19	2.6	19	81	9	64	73	2	0	24	0.94
375593--375625	10	3.3	10	95	0	57	18	12	9	60	1.57
375776--376211	112	3.9	112	86	3	540	31	14	22	31	1.94
378835--379037	101	2.0	101	95	0	361	27	20	18	33	1.96
384529--384570	21	2.0	21	90	0	66	35	16	21	26	1.94
396114--396170	13	4.8	13	68	27	54	68	14	1	15	1.29
396111--396167	17	3.4	17	77	18	73	68	12	1	17	1.29
396104--396179	34	2.2	34	97	0	143	64	15	3	15	1.43
396125--396173	21	2.3	21	79	6	55	67	14	2	16	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399696--399731	18	2.0	18	88	0	54	30	25	13	30	1.94
403325--403356	14	2.1	16	88	11	50	40	31	0	28	1.57
404285--404360	36	2.1	36	95	0	134	32	10	14	42	1.80
416290--416325	14	2.6	14	95	0	63	11	16	25	47	1.79
418418--418459	21	2.0	21	95	0	75	26	28	21	23	1.99
418570--418623	19	2.8	19	94	0	90	35	11	12	40	1.79
420012--420069	29	2.0	29	90	6	91	41	17	6	34	1.76
420786--420844	30	2.0	30	90	9	95	40	16	6	35	1.76
421571--421630	29	2.0	31	90	6	97	41	16	6	35	1.75
419410--424025	791	5.9	796	95	3	8428	42	13	8	34	1.76
423145--423202	28	2.0	28	83	12	73	39	17	6	36	1.76
423931--423990	29	2.0	31	87	6	88	41	15	6	36	1.73
425848--426003	78	2.0	78	100	0	312	34	8	28	28	1.87
427571--427621	23	2.2	23	92	3	84	21	35	21	21	1.96
440940--440993	27	2.0	27	100	0	108	29	14	22	33	1.94
443937--443988	21	2.5	21	93	0	86	34	17	11	36	1.86
456447--456511	26	2.4	27	80	7	71	46	9	6	38	1.61
458013--458047	18	1.9	18	88	0	52	71	2	2	22	1.13
462014--462072	26	2.3	25	82	11	66	55	3	11	28	1.52
475787--475836	21	2.4	21	80	6	57	2	36	10	52	1.47
478351--478485	24	5.6	24	84	4	101	40	20	12	25	1.88
478345--478485	48	2.9	48	83	1	165	41	20	12	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483007--483121	24	4.8	24	88	4	160	42	20	13	23	1.88
482984--483124	48	2.9	48	86	1	183	43	20	11	24	1.84
482987--483138	72	2.1	71	78	8	164	45	19	11	23	1.83
485472--485528	18	3.2	18	94	0	96	12	24	45	17	1.83
491042--491081	2	20.0	2	100	0	80	50	0	0	50	1.00
492887--493000	41	2.8	40	80	11	124	41	18	17	22	1.90
492946--493023	41	1.9	41	86	0	111	39	20	16	23	1.92
501876--502026	41	3.7	41	79	1	142	37	21	10	30	1.88
501949--502048	41	2.4	41	86	0	137	33	22	13	32	1.92
507178--507253	39	2.0	39	84	5	102	19	26	13	40	1.88
508227--508365	49	2.8	49	92	3	226	38	15	2	42	1.62
510222--510255	17	2.0	17	88	0	50	17	17	2	61	1.46
513676--513834	77	2.0	79	82	7	191	38	11	5	44	1.62
521125--521156	15	2.1	16	94	5	57	50	3	6	40	1.43
523074--523132	23	2.7	23	84	7	79	20	11	22	45	1.83
524382--525059	339	2.0	339	98	0	1320	33	15	23	27	1.95
527646--527682	20	1.9	19	89	10	58	45	10	24	18	1.81
527827--527896	37	1.9	37	88	2	106	47	4	0	48	1.21
531123--531170	11	3.9	13	71	23	50	39	0	8	52	1.32
531136--531188	23	2.3	24	87	12	76	39	0	9	50	1.35
531463--531540	21	3.6	21	77	13	77	23	10	20	46	1.81
531458--531546	44	2.0	44	91	0	142	25	10	22	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540506--540659	76	2.0	78	82	12	192	42	9	3	44	1.53
543006--543579	291	2.0	291	97	0	1085	23	18	17	39	1.92
544325--544442	23	5.1	23	82	10	127	35	24	16	22	1.95
549975--550001	2	13.5	2	100	0	54	51	0	0	48	1.00
550274--550314	15	2.7	15	85	14	57	41	0	2	56	1.13
553740--553916	65	2.7	64	85	6	207	35	12	22	29	1.91
553773--553916	64	2.2	65	90	2	218	36	12	22	29	1.91
553640--554088	166	2.7	166	82	4	521	37	13	21	27	1.91
553808--554311	100	5.1	100	70	16	270	37	12	21	28	1.90
553906--554218	66	4.8	65	88	1	432	36	12	20	30	1.90
554223--554308	21	4.4	21	77	16	103	38	10	25	25	1.88
554188--554371	57	3.1	57	85	7	217	37	14	21	26	1.92
554244--554407	36	4.7	36	75	14	164	37	14	22	26	1.92
554324--554407	37	2.3	36	89	2	123	35	14	21	28	1.92
554244--554471	102	2.2	101	86	3	314	37	13	21	28	1.90
554361--554507	65	2.2	65	85	5	199	38	10	19	31	1.85
562890--563002	60	1.9	60	83	7	149	17	10	32	38	1.84
564657--564760	23	4.5	23	83	9	122	31	15	22	30	1.95
568308--568349	16	2.6	16	78	10	50	57	0	23	19	1.41
568490--568601	35	3.2	35	93	1	188	33	3	36	25	1.74
568543--568600	13	4.7	13	73	16	52	31	1	41	25	1.66
568936--568986	19	2.6	20	87	3	68	45	5	15	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573719--573775	13	4.5	13	76	8	64	35	17	21	26	1.95
573722--573769	24	2.0	24	87	0	69	37	16	20	25	1.93
574930--574976	24	2.0	24	86	0	67	23	23	19	34	1.97
574947--574992	24	1.9	24	82	8	58	32	19	15	32	1.93
576318--576357	18	2.2	19	86	8	57	0	15	7	77	0.98
576724--576833	35	3.1	35	88	1	166	32	4	37	25	1.76
577181--577231	19	2.6	20	87	3	68	45	5	13	35	1.68
583449--583496	21	2.3	21	81	0	60	25	33	22	18	1.97
585910--585949	20	2.0	21	90	5	64	42	10	17	30	1.82
586707--586834	42	3.0	43	86	6	190	24	5	17	52	1.66

Tables:   1   2   3   4   5   6   7   8   9