genome.fa.s4693.2.7.7.80.10.50.1000.2.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: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2620943

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1372 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)
196758--196809	17	3.2	17	75	10	54	50	13	3	32	1.60
199958--200016	31	1.9	31	86	6	84	38	15	15	30	1.88
204320--204359	3	13.3	3	89	10	64	30	0	0	70	0.88
204324--204367	22	2.0	22	91	8	72	29	0	2	68	1.02
204430--204502	26	2.9	25	95	4	137	35	16	16	31	1.91
205010--205049	18	2.3	18	86	4	55	85	5	7	2	0.83
207264--207300	20	2.0	20	89	10	60	18	27	10	43	1.83
207976--208045	31	2.3	30	80	11	79	37	4	7	51	1.49
209401--209430	14	2.2	14	94	5	53	23	3	13	60	1.48
217990--218023	2	17.0	2	100	0	68	50	0	0	50	1.00
219946--219994	23	2.1	23	96	0	89	42	18	14	24	1.87
221520--221678	54	2.9	54	76	3	158	29	18	16	34	1.94
221541--221745	54	3.8	54	76	8	177	28	19	16	36	1.93
225857--225951	39	2.4	39	87	0	136	29	28	24	17	1.97
231103--231142	20	2.0	20	85	0	53	45	0	7	47	1.31
238379--238406	2	14.0	2	100	0	56	50	0	0	50	1.00
240126--240304	36	5.0	36	93	3	265	18	24	23	33	1.97
243831--243954	63	2.0	63	80	6	144	25	28	28	17	1.98
247559--247604	3	15.7	3	81	4	58	32	4	2	60	1.28
253554--253621	30	2.3	30	84	0	82	42	19	5	32	1.75
260713--260752	14	2.9	14	96	0	71	75	0	15	10	1.05
260709--260768	14	4.5	13	80	10	50	78	0	13	8	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
261911--262060	41	3.3	46	66	16	114	29	26	18	26	1.98
261864--262069	90	2.3	91	88	3	301	28	27	18	25	1.98
262310--262355	3	15.7	3	81	4	58	32	4	2	60	1.28
269897--269955	29	2.0	29	100	0	118	49	13	13	23	1.78
274830--274891	31	2.0	31	87	0	88	24	17	17	40	1.91
276631--276703	28	2.7	27	85	8	87	46	4	6	42	1.49
276659--276709	15	3.5	15	71	13	52	45	1	3	49	1.32
304273--304331	14	4.1	14	75	12	57	49	16	0	33	1.47
304269--304324	14	4.0	14	81	4	60	44	21	0	33	1.52
305286--305329	21	2.1	21	82	0	52	31	15	6	45	1.73
330219--330283	24	2.8	24	85	2	87	21	24	27	26	1.99
330978--331021	21	2.0	21	86	4	61	20	25	29	25	1.99
331079--331129	21	2.6	19	84	9	66	21	17	13	47	1.82
331332--331381	21	2.4	21	90	6	75	28	12	20	40	1.87
332124--332154	16	1.9	16	93	0	53	35	9	19	35	1.85
332215--332263	26	2.1	24	82	17	59	46	2	8	42	1.45
332700--332751	21	2.5	21	81	3	61	38	19	25	17	1.93
332740--332847	20	5.3	20	82	6	110	32	25	17	25	1.97
332737--332851	61	1.9	61	85	0	158	33	25	18	23	1.97
333370--333450	19	4.5	19	73	16	73	46	24	17	11	1.80
333446--333630	19	10.1	19	77	14	174	11	22	22	43	1.85
333446--333630	33	5.1	38	79	12	174	11	22	22	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333573--333630	20	2.9	20	80	10	64	13	24	18	43	1.87
335614--335736	42	2.9	42	80	2	122	22	36	17	22	1.95
335670--335736	21	3.2	21	66	6	55	23	35	20	19	1.95
337096--337131	14	2.6	14	95	0	63	30	0	25	44	1.54
337315--337440	33	3.8	32	85	8	173	15	21	19	43	1.88
337316--337440	19	7.4	19	62	24	73	16	21	18	44	1.87
337315--337439	66	1.9	66	94	0	223	16	21	19	43	1.88
339732--339756	12	2.1	12	100	0	50	0	28	0	72	0.86
339931--339984	24	2.2	24	90	0	81	38	20	16	24	1.92
340928--340985	20	2.9	20	92	0	89	37	22	22	17	1.93
341155--341191	14	2.6	14	86	0	56	48	21	0	29	1.50
343101--343158	14	3.9	14	79	16	71	10	17	24	48	1.78
343082--343174	32	2.8	33	95	3	170	11	19	22	46	1.82
343159--343213	20	2.8	19	83	8	65	16	23	23	36	1.94
343695--343739	18	2.5	18	88	0	72	13	15	44	26	1.83
345059--345096	20	1.9	20	88	0	58	50	21	15	13	1.78
345123--345173	19	2.7	19	96	0	93	9	19	27	43	1.82
345380--345423	22	2.0	22	95	0	79	18	15	45	20	1.85
345611--345663	20	2.7	20	93	0	88	24	18	28	28	1.98
345674--345766	20	4.6	20	75	4	87	17	23	18	40	1.90
345656--345766	41	2.7	41	92	4	179	17	21	18	43	1.88
346498--346562	24	2.8	24	85	2	87	21	24	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347257--347300	21	2.0	21	86	4	61	20	25	29	25	1.99
347358--347408	21	2.6	19	84	9	66	21	17	13	47	1.82
347611--347660	21	2.4	21	90	6	75	28	12	20	40	1.87
348403--348433	16	1.9	16	93	0	53	35	9	19	35	1.85
348494--348542	26	2.1	24	82	17	59	46	2	8	42	1.45
349456--349528	21	3.5	21	96	0	128	21	23	21	32	1.98
354580--354648	34	2.0	34	100	0	138	28	14	18	37	1.91
359886--359910	5	5.0	5	100	0	50	40	0	0	60	0.97
360172--360253	25	3.4	24	75	21	82	32	3	0	63	1.12
360546--360582	7	5.3	7	86	0	56	81	2	0	16	0.81
362003--362090	29	3.0	29	86	0	113	20	38	29	11	1.87
362242--362321	29	2.8	29	84	3	99	15	27	40	17	1.89
367335--367359	2	12.5	2	100	0	50	48	0	0	52	1.00
369673--369736	32	2.0	32	100	0	128	25	28	25	21	1.99
373965--374050	43	2.0	43	95	0	154	29	11	32	26	1.92
374070--374137	31	2.2	31	83	0	82	27	2	10	58	1.45
379193--379265	33	2.2	33	92	2	121	12	6	32	47	1.67
380233--380326	46	2.0	46	91	0	152	41	5	20	32	1.75
381206--381236	10	3.1	10	95	0	53	6	29	12	51	1.65
383081--383243	60	2.7	60	84	0	209	39	15	12	31	1.86
386907--386981	31	2.4	33	77	11	84	60	1	0	38	1.06
386904--386983	34	2.5	31	83	8	97	61	1	0	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388047--388113	29	2.3	29	94	0	125	38	10	7	43	1.67
388152--388263	59	1.9	59	90	3	181	43	7	8	41	1.61
402923--402957	15	2.3	15	85	0	52	25	37	37	0	1.57
402928--402957	5	6.0	5	96	0	51	23	36	40	0	1.55
409983--410041	27	2.2	27	81	0	64	55	1	3	38	1.26
422451--422638	60	3.1	61	80	3	211	33	22	5	38	1.77
425849--425979	59	2.2	60	78	9	135	38	12	11	36	1.80
427656--427690	17	2.1	17	100	0	70	5	5	14	74	1.19
431535--431601	29	2.3	29	75	14	75	38	4	8	47	1.55
432227--432296	15	4.6	15	73	15	63	54	5	5	34	1.48
436864--437562	122	5.8	121	79	4	644	32	16	8	42	1.79
436897--437497	244	2.5	240	84	3	742	32	15	8	42	1.79
443858--443889	16	2.0	16	93	0	55	53	12	15	18	1.73
447008--447043	17	2.1	17	100	0	72	41	0	22	36	1.54
447011--447053	17	2.5	17	88	0	50	41	2	27	27	1.68
456980--457015	18	2.0	18	94	0	63	13	11	25	50	1.75
458639--458714	31	2.5	30	75	12	73	35	10	2	51	1.50
458984--459061	35	2.2	35	97	0	147	48	14	10	26	1.75
460167--460248	29	2.8	29	94	1	137	32	14	9	42	1.79
464937--465018	29	2.8	29	94	1	137	32	14	9	42	1.79
467301--468182	239	3.7	239	88	1	1252	29	21	17	31	1.96
469088--469136	16	3.1	15	80	11	53	30	14	10	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469060--469136	32	2.4	31	82	2	91	29	14	10	45	1.78
475031--475143	60	1.9	59	96	0	190	52	2	10	34	1.50
477693--477804	56	2.0	56	96	0	206	43	22	9	24	1.83
479471--479569	44	2.3	43	87	5	144	69	5	6	19	1.28
479460--479568	44	2.6	40	81	12	112	70	5	7	16	1.29
479478--479568	45	2.0	44	91	2	146	70	5	6	17	1.29
479506--479579	22	3.4	22	70	18	64	68	4	6	20	1.29
479491--479586	44	2.2	44	87	9	133	67	3	7	21	1.29
489231--489260	10	3.1	10	95	4	53	0	20	73	6	1.05
492096--492134	20	2.0	20	89	0	60	33	23	10	33	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12