genome.fa.s8955.2.7.7.80.10.50.1000.3.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  3  of  23  ( 2731 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)
303115--303181	33	2.0	33	100	0	134	49	14	29	5	1.68
305973--306004	16	1.9	17	93	6	57	43	34	3	18	1.66
307006--307052	21	2.2	22	85	7	62	38	2	6	53	1.39
307966--307997	9	3.6	9	95	0	55	9	28	9	53	1.64
308273--308354	38	2.2	38	84	0	101	29	6	12	52	1.62
309231--309263	16	2.0	17	94	5	59	42	0	0	57	0.98
315331--315369	15	2.9	14	85	14	55	38	12	28	20	1.89
315341--315370	15	2.0	15	100	0	60	40	13	26	20	1.89
324762--324818	27	2.0	29	87	12	84	29	5	0	64	1.15
327038--327078	7	5.9	7	78	21	50	14	17	9	58	1.62
327108--327150	22	2.0	22	86	9	61	18	13	4	62	1.48
334294--334348	22	2.5	22	87	0	83	34	12	12	40	1.82
334749--335419	113	6.0	113	94	1	1039	38	15	18	27	1.91
336709--336757	4	12.5	4	79	12	57	26	2	0	71	0.97
339755--339787	14	2.4	14	90	5	50	72	0	27	0	0.85
350679--350737	24	2.5	24	97	0	109	55	15	6	22	1.63
350733--350916	85	2.2	85	84	6	234	53	11	2	32	1.49
352913--352978	35	1.9	34	82	14	82	34	7	6	51	1.55
353119--353168	20	2.5	20	83	6	66	38	2	16	44	1.59
354359--354572	116	1.8	116	80	4	252	35	14	23	25	1.93
354811--354856	8	5.8	8	80	10	58	84	0	2	13	0.71
354811--354856	16	2.9	16	90	0	74	84	0	2	13	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354809--354865	15	3.7	15	79	9	60	80	0	5	14	0.87
358083--358125	3	14.0	3	82	4	50	39	2	0	58	1.11
359573--359606	17	2.0	17	88	11	52	20	8	5	64	1.43
360413--360477	24	2.7	24	77	15	71	30	4	0	64	1.14
360407--360475	26	2.7	26	84	13	81	30	2	0	66	1.06
360925--360959	5	7.0	5	100	0	70	0	20	0	80	0.72
370452--370550	22	4.5	22	90	0	144	32	13	14	40	1.84
370989--371154	73	2.3	73	98	0	323	30	16	20	32	1.94
371064--371319	113	2.3	112	89	2	388	36	15	19	29	1.92
370928--371267	186	1.8	185	91	1	565	35	15	20	28	1.94
371355--371713	138	2.6	137	86	4	454	39	14	18	27	1.89
371938--371997	22	2.7	22	89	0	93	36	1	0	61	1.06
371932--371995	19	3.4	19	84	2	94	32	1	0	65	1.02
371932--371996	3	21.0	3	85	6	85	33	1	0	64	1.03
373296--373321	11	2.4	11	100	0	52	34	0	0	65	0.93
373367--373404	2	19.0	2	100	0	76	50	0	0	50	1.00
375434--375800	139	2.7	138	81	7	381	31	10	11	45	1.75
376604--376642	17	2.4	17	86	4	53	41	2	0	56	1.13
376547--376720	86	2.0	86	100	0	348	36	11	4	47	1.60
377787--377831	17	2.6	17	96	0	81	31	6	13	48	1.68
382072--382145	20	3.3	20	68	22	58	20	25	12	41	1.87
382085--382172	27	3.5	27	68	23	75	22	25	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382050--382206	47	3.3	47	90	0	233	21	23	12	42	1.86
387870--387988	59	2.0	59	100	0	238	33	20	22	23	1.97
388884--389127	47	5.5	47	77	14	273	21	22	11	44	1.85
388929--389009	35	2.3	35	89	4	119	19	20	13	45	1.84
388890--389056	81	2.0	82	90	1	264	21	22	12	43	1.86
388969--389093	27	5.1	27	62	25	89	20	23	12	43	1.86
389517--389741	95	2.4	95	80	8	242	25	22	17	34	1.95
391179--391234	19	2.9	18	84	5	58	76	10	5	7	1.14
392561--392874	157	2.0	157	100	0	628	42	15	15	26	1.87
393824--393859	12	3.0	12	91	0	54	22	0	5	72	1.05
394173--394211	17	2.4	16	82	4	51	30	38	0	30	1.58
394261--394300	19	2.2	18	86	4	53	27	5	0	67	1.11
396285--396439	25	6.4	25	80	8	169	38	15	1	44	1.55
396285--396439	50	3.2	50	83	8	205	38	15	1	44	1.55
396766--396847	30	2.7	30	90	0	128	36	18	23	21	1.95
396993--397169	88	2.0	88	100	0	354	37	17	12	32	1.87
397994--398026	17	1.9	17	93	0	57	63	9	0	27	1.24
399669--399780	3	37.0	3	85	1	134	33	0	8	58	1.34
402533--402616	42	2.0	42	97	0	159	39	5	14	40	1.70
402779--402807	2	14.5	2	100	0	58	48	0	0	51	1.00
403029--403053	2	12.5	2	100	0	50	52	0	0	48	1.00
404212--404261	21	2.5	20	80	6	64	48	0	10	42	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406258--406296	20	2.1	18	85	9	51	43	5	17	33	1.72
417304--417343	19	2.1	19	95	0	71	15	32	0	52	1.43
419462--419505	20	2.2	20	100	0	88	25	13	9	52	1.70
421621--421665	18	2.7	16	82	6	54	40	2	26	31	1.68
422171--422805	216	2.9	216	90	5	916	35	27	12	24	1.91
426198--426257	3	20.0	3	80	13	70	35	0	1	63	1.05
427828--427869	20	2.2	19	86	4	57	33	0	2	64	1.07
427731--427960	120	1.9	118	83	4	293	37	7	8	46	1.62
430024--430065	7	6.0	7	81	8	50	14	16	14	54	1.71
430024--430065	15	3.0	14	83	10	50	14	16	14	54	1.71
430125--430184	27	2.3	27	85	2	86	21	13	6	58	1.58
430124--430151	12	2.3	12	100	0	56	25	14	7	53	1.66
431798--431847	2	25.0	2	100	0	100	50	0	0	50	1.00
432156--432220	15	4.2	16	79	14	66	78	3	15	3	1.00
432174--432220	14	3.3	13	85	14	58	78	2	17	2	0.94
434485--434708	114	2.0	114	89	0	340	33	15	20	30	1.93
437364--437428	22	3.0	22	90	0	103	33	15	12	38	1.85
437370--437443	22	3.4	22	86	3	96	36	10	16	36	1.83
438201--438245	24	1.9	23	82	13	56	55	6	22	15	1.63
438191--439056	113	7.7	113	88	1	1207	37	14	19	28	1.91
440789--440821	3	11.0	3	93	0	57	33	3	0	63	1.10
441005--441046	20	2.2	19	86	4	57	33	0	2	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440901--441137	120	2.0	117	82	6	282	37	7	7	47	1.60
441120--441165	9	5.0	10	82	17	64	54	0	0	45	0.99
441121--441165	18	2.5	18	100	0	90	55	0	0	44	0.99
448377--448411	6	5.7	6	96	3	61	51	0	2	45	1.16
448551--448611	29	2.0	31	87	6	90	68	0	3	27	1.05
448551--448595	15	3.1	15	78	18	58	66	0	2	31	1.04
448648--448729	16	5.3	15	66	20	53	78	2	4	14	1.03
448688--448741	5	11.4	5	77	18	62	79	0	0	20	0.73
448686--448751	20	3.3	20	81	10	64	77	0	0	22	0.77
454579--454628	18	2.9	18	77	16	61	60	0	2	38	1.09
457220--457261	21	2.0	21	100	0	84	9	19	23	47	1.78
461012--461052	20	2.2	20	91	8	68	36	0	2	60	1.10
463260--463323	32	2.0	32	96	0	119	32	15	10	40	1.82
467715--467749	18	1.9	18	94	0	61	60	5	0	34	1.21
469290--469348	32	1.9	30	82	6	73	30	27	1	40	1.66
476357--476415	21	2.8	21	89	5	84	37	23	15	23	1.93
480859--480901	15	2.7	16	79	20	54	13	6	6	72	1.27
480867--480896	14	2.1	15	93	6	53	10	6	6	76	1.15
486840--486877	17	2.2	17	100	0	76	31	15	42	10	1.81
486840--486883	17	2.6	17	92	0	61	31	15	38	13	1.87
496364--496418	2	27.5	2	100	0	110	49	0	50	0	1.00
498206--498295	32	2.9	30	79	9	99	28	3	11	56	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500157--500207	13	3.6	13	76	19	57	56	27	9	5	1.54
522138--522194	21	2.7	21	91	0	87	21	19	26	33	1.97
523765--523849	34	2.5	34	92	0	134	31	15	23	29	1.95
526705--526821	46	2.5	46	91	0	189	47	8	23	21	1.78
526736--526893	72	2.2	72	93	0	262	47	9	22	20	1.79
526808--526926	46	2.6	46	97	0	220	47	10	22	20	1.80
526705--526923	118	1.9	118	94	0	384	47	9	21	21	1.78
527400--527438	2	19.5	2	100	0	78	51	0	0	48	1.00
535490--535566	41	1.9	39	84	5	100	49	6	28	15	1.69
535636--535683	24	2.0	23	84	4	60	75	0	4	20	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23