genome.fa.s1976.2.7.7.80.10.50.1000.2.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: VEPZ01001976.1 Hibiscus syriacus cultivar Beakdansim tig00004004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  915387

Tables:   1   2   3   4   

This is table  2  of  4  ( 402 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)
262747--262803	20	2.8	20	79	10	71	22	22	8	45	1.80
262957--262994	16	2.5	15	84	12	51	28	5	0	65	1.14
263161--263213	23	2.3	23	90	0	79	41	11	16	30	1.84
263882--263915	12	2.8	12	90	0	50	55	29	0	14	1.40
266672--266712	20	2.0	20	85	0	55	48	24	7	19	1.74
266759--266827	34	2.0	34	82	0	84	23	13	21	42	1.88
266759--266887	54	2.4	54	82	0	150	26	12	19	41	1.87
266831--266861	14	2.2	14	94	0	53	19	16	22	41	1.89
266783--266893	54	2.1	54	89	0	168	24	12	19	43	1.86
266847--266952	40	2.7	40	75	0	104	21	12	18	47	1.81
266791--266952	20	8.4	20	75	8	93	22	12	19	45	1.84
268520--268571	20	2.5	20	84	3	68	34	13	28	23	1.92
268845--268937	42	2.2	41	75	9	98	36	30	10	22	1.88
268953--269006	21	2.6	21	96	0	99	35	29	12	22	1.91
269120--269232	39	2.8	39	82	4	127	23	13	37	26	1.91
269122--269262	42	3.4	41	82	6	137	21	14	36	27	1.92
269169--269285	42	2.8	42	85	5	139	25	16	32	25	1.96
275813--275877	34	1.9	34	87	0	94	18	15	20	46	1.84
276113--276150	15	2.5	15	87	8	51	78	2	0	18	0.86
276233--276282	22	2.3	22	89	0	73	18	16	42	24	1.89
279168--279211	22	2.0	22	86	0	61	47	20	0	31	1.50
293927--293962	14	2.5	15	86	13	58	47	11	2	38	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294135--294179	19	2.4	19	96	0	81	31	13	22	33	1.92
294147--294196	19	2.6	19	83	0	55	34	16	18	32	1.92
294208--294263	20	2.8	20	94	0	94	17	17	30	33	1.94
294253--294299	20	2.3	20	85	7	60	23	12	25	38	1.90
294253--294312	20	3.0	20	82	0	57	23	15	23	38	1.92
304437--304474	13	3.0	13	96	3	69	7	21	7	63	1.47
313129--313194	32	2.0	33	85	2	89	51	0	0	48	1.00
313155--313228	14	5.3	15	65	15	59	50	0	1	48	1.09
314002--314039	20	1.9	20	100	0	76	36	10	28	23	1.88
314002--314051	20	2.7	18	88	11	59	40	8	28	24	1.83
315525--315569	23	2.0	23	86	8	65	33	2	22	42	1.66
321633--321691	31	1.9	31	89	0	91	44	5	6	44	1.52
321715--321989	22	12.5	22	86	0	354	46	9	0	44	1.35
321977--322002	13	2.0	13	100	0	52	61	0	0	38	0.96
326959--327007	23	2.1	23	88	7	73	38	0	6	55	1.25
328970--329001	16	2.0	16	93	0	55	40	0	18	40	1.51
333199--333262	21	3.0	21	88	4	101	23	26	23	26	2.00
333776--333821	22	2.1	22	91	0	74	19	21	32	26	1.97
334207--334256	25	2.0	24	81	11	57	32	2	20	46	1.62
340057--340120	21	3.0	21	88	4	101	23	26	23	26	2.00
341635--341674	18	2.2	18	100	0	80	52	10	27	10	1.66
346785--346834	25	2.0	23	82	17	57	38	6	2	54	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354452--354571	42	2.9	42	93	0	213	16	19	18	45	1.85
354696--354774	24	3.3	24	75	15	74	51	0	0	48	1.00
354696--354771	23	3.3	22	71	14	55	51	0	0	48	1.00
354787--354888	29	3.5	29	78	15	95	43	1	1	52	1.23
355203--355252	20	2.5	20	93	0	91	34	18	10	38	1.84
355251--355301	15	3.4	15	72	20	52	39	13	5	41	1.69
355235--355306	30	2.4	30	95	2	128	33	15	6	44	1.73
355554--355670	42	2.8	42	89	2	164	17	15	17	50	1.78
355847--355889	17	2.5	18	81	11	54	48	0	0	51	1.00
355859--355912	16	3.6	16	76	16	53	51	0	0	48	1.00
355862--356021	31	5.6	30	67	22	80	48	1	1	49	1.17
355898--355943	18	2.6	19	83	10	53	54	4	2	39	1.32
355956--356019	28	2.2	28	86	8	85	48	0	1	50	1.10
355977--356029	20	2.7	19	73	18	54	49	0	1	49	1.12
356024--356068	23	2.0	23	86	0	63	53	2	2	42	1.25
356164--356203	20	2.0	20	85	9	55	60	0	0	40	0.97
356372--356405	14	2.4	14	90	0	50	32	14	14	38	1.87
356424--356481	15	3.7	15	82	14	73	37	22	5	34	1.76
360597--360632	2	18.0	2	100	0	72	50	0	0	50	1.00
365785--365840	9	6.3	9	82	12	71	16	23	32	28	1.96
365785--365840	19	3.2	18	87	9	80	16	23	32	28	1.96
374314--374364	18	2.7	19	78	6	59	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374888--374932	23	2.0	23	90	0	72	42	0	13	44	1.43
394158--394287	60	2.1	61	86	6	176	31	23	7	37	1.83
406632--406681	22	2.3	22	92	0	91	16	16	28	40	1.89
406579--406720	76	1.9	76	90	0	230	19	14	23	42	1.88
407313--407339	6	4.5	6	100	0	54	0	14	51	33	1.43
407452--407543	22	4.3	22	76	13	102	40	23	17	18	1.91
411141--411166	6	4.3	6	100	0	52	46	0	0	53	1.00
420004--420036	2	16.5	2	100	0	66	51	0	0	48	1.00
427405--427456	21	2.5	21	81	3	61	38	19	25	17	1.93
427445--427558	20	5.7	20	82	6	104	31	24	18	25	1.97
427442--427558	61	1.9	61	83	0	153	33	23	17	24	1.97
428134--428318	19	10.1	19	77	14	174	11	22	22	43	1.85
428134--428318	33	5.1	38	79	12	174	11	22	22	43	1.85
428261--428318	20	2.9	20	80	10	64	13	24	18	43	1.87
430310--430432	42	2.9	42	79	7	115	23	35	17	22	1.95
430366--430432	21	3.2	21	66	6	55	23	35	20	19	1.95
431791--431826	14	2.6	14	95	0	63	30	0	25	44	1.54
432006--432059	19	2.8	19	82	2	63	16	20	24	38	1.92
434326--434350	12	2.1	12	100	0	50	0	28	0	72	0.86
434525--434579	24	2.2	25	87	3	76	38	20	16	25	1.92
435639--435696	20	2.9	20	94	0	98	37	22	22	17	1.93
435866--435902	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437745--437848	19	5.4	19	79	4	84	41	24	18	16	1.90
437814--437855	18	2.2	19	87	8	59	52	19	16	11	1.74
437874--437955	18	4.6	19	79	14	104	13	20	20	45	1.85
437940--437994	20	2.8	19	83	8	65	16	23	23	36	1.94
437874--437975	33	2.8	34	76	23	102	13	22	21	42	1.88
438470--438514	18	2.5	18	88	0	72	13	15	44	26	1.83
439834--439871	20	1.9	20	88	0	58	50	21	15	13	1.78
440366--440418	20	2.7	20	93	0	88	24	18	28	28	1.98
452274--452299	5	5.2	5	100	0	52	23	57	19	0	1.40
455569--455630	31	2.1	31	87	6	92	25	3	8	62	1.38
455566--455641	29	2.6	29	73	10	75	26	2	7	63	1.35
455578--455709	43	3.0	43	74	11	108	27	6	8	58	1.51
459279--459338	31	1.9	31	86	0	84	38	5	11	45	1.63
459805--459866	18	3.2	20	78	19	62	61	0	1	37	1.06
459882--459930	14	3.8	14	69	20	52	57	0	0	42	0.99
459862--459926	24	2.5	24	85	12	76	55	1	0	43	1.09
459915--459965	12	4.3	12	76	18	54	66	1	0	31	1.03
462078--462156	15	5.1	15	74	15	72	56	1	0	41	1.07
462106--462168	19	3.6	18	76	22	71	57	1	0	41	1.08
462086--462195	33	3.3	34	87	7	147	60	1	0	38	1.08
462121--462175	16	3.1	19	77	17	73	61	3	0	34	1.13
463803--463917	54	2.1	54	95	0	203	19	7	21	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465985--466036	18	2.9	18	91	0	86	28	32	19	19	1.96
466810--466867	20	2.7	20	86	10	71	25	20	20	32	1.97
466855--466996	65	2.2	63	81	8	162	26	22	17	33	1.96
467303--467342	18	2.3	18	86	4	55	12	22	0	65	1.26
486001--486142	35	4.0	35	88	1	212	19	22	19	38	1.94
486004--486147	71	2.0	71	94	0	252	18	22	19	39	1.92
492406--492443	20	1.9	20	84	10	51	10	42	13	34	1.78
497684--498006	160	2.0	161	87	0	459	39	19	13	27	1.89
502574--502621	24	2.0	24	91	0	78	22	35	10	31	1.88
508168--508215	25	1.9	25	91	0	78	25	6	16	52	1.67

Tables:   1   2   3   4