genome.fa.s6985.2.7.7.80.10.50.1000.3.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: VEPZ01006985.1 Hibiscus syriacus cultivar Beakdansim tig00017996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  663392

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 560 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)
289025--289133	26	4.3	25	67	19	64	37	18	14	29	1.90
288985--289432	76	5.9	76	85	2	540	41	20	9	28	1.83
290012--290178	69	2.4	69	83	7	223	20	26	20	31	1.98
290012--290206	69	2.8	67	78	9	205	22	25	22	30	1.99
290375--290483	26	4.3	25	69	19	82	38	19	13	28	1.90
290367--290784	76	5.5	76	87	1	550	41	20	8	28	1.83
290564--290690	25	5.0	24	68	16	78	43	22	7	26	1.79
291371--291501	69	1.9	69	82	6	167	24	23	22	29	1.99
291687--292132	76	5.8	76	82	6	499	39	19	11	29	1.86
298723--298985	76	3.5	73	81	10	237	29	18	13	38	1.89
298872--299075	39	5.2	39	97	0	381	29	16	17	36	1.92
299107--299235	42	3.1	41	79	3	141	27	20	22	29	1.99
299488--299561	13	5.7	13	93	0	121	25	20	18	35	1.96
299539--299568	13	2.3	13	94	0	51	26	16	10	46	1.78
299540--299705	85	2.0	85	91	0	269	29	19	17	33	1.95
299725--299777	2	26.5	2	100	0	106	49	0	0	50	1.00
303736--303972	39	6.0	40	82	3	243	31	17	16	34	1.93
303736--303972	118	2.0	117	83	4	298	31	17	16	34	1.93
305573--305623	22	2.4	22	81	12	63	21	9	11	56	1.63
307242--307651	76	5.4	76	87	1	545	40	20	10	28	1.85
307236--307651	228	1.8	228	87	2	629	40	20	10	28	1.85
308232--308418	69	2.7	69	75	8	193	22	26	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308593--309002	76	5.4	76	88	2	556	40	19	11	28	1.86
309584--309770	69	2.7	69	76	8	193	21	26	20	30	1.98
309939--310430	76	6.5	76	90	0	723	41	20	10	27	1.85
309948--310056	26	4.3	25	68	19	64	39	18	14	27	1.90
310212--310418	25	8.2	25	69	16	115	42	22	8	27	1.82
311340--311449	26	4.3	24	69	21	64	39	17	15	28	1.90
311332--311747	76	5.5	76	86	1	564	40	19	11	28	1.86
311332--311747	228	1.8	228	88	1	636	40	19	11	28	1.86
312828--312881	22	2.6	20	85	5	63	31	16	24	27	1.96
312755--312974	94	2.3	95	85	3	284	35	17	23	23	1.95
313381--314645	47	27.2	47	90	2	1908	44	12	22	19	1.84
314534--314605	35	2.1	35	94	0	126	48	12	20	18	1.80
314480--314645	82	2.0	82	91	0	269	45	12	21	20	1.84
315689--315883	69	2.8	69	78	3	212	21	24	22	31	1.98
316012--316459	76	5.9	76	83	2	506	41	21	9	26	1.84
316319--316367	25	1.9	26	87	4	73	44	26	4	24	1.71
316044--316459	228	1.8	228	84	1	573	41	21	10	26	1.85
317042--317236	69	2.8	70	78	4	209	21	26	22	30	1.99
317405--317514	26	4.3	25	67	19	66	39	19	14	27	1.90
317365--317812	76	5.9	76	85	2	558	41	20	10	26	1.85
317397--317812	228	1.8	228	87	1	618	41	20	11	26	1.85
318393--318574	69	2.6	68	72	16	167	20	28	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322674--323079	130	3.1	130	81	7	461	24	15	14	45	1.83
323064--323106	16	2.7	16	81	0	59	30	32	4	32	1.78
323264--323306	13	3.3	13	83	6	52	20	4	6	67	1.33
330926--330977	27	1.9	27	92	7	88	50	13	3	32	1.60
331462--331499	17	2.3	17	95	4	69	31	0	0	68	0.90
331484--331591	52	2.1	53	91	5	177	40	4	0	53	1.28
341925--342077	37	4.1	38	78	9	163	27	18	15	37	1.92
342407--342525	36	3.5	35	71	19	115	27	21	11	39	1.88
342398--342788	66	5.9	66	87	3	518	26	21	13	38	1.90
342398--342788	132	3.0	132	90	1	588	26	21	13	38	1.90
344503--344532	4	7.5	4	100	0	60	23	0	0	76	0.78
344503--344746	124	2.0	120	86	6	339	23	13	15	47	1.80
344731--344773	16	2.7	16	81	0	59	30	32	4	32	1.78
347877--347939	28	2.2	28	88	0	90	30	1	23	44	1.63
349696--349951	69	3.7	69	82	3	291	21	28	21	29	1.98
350090--350494	76	5.3	76	83	3	449	40	18	12	28	1.86
356113--356174	29	2.1	29	100	0	124	14	40	19	25	1.90
356189--356223	18	1.9	18	88	0	52	20	25	22	31	1.98
356229--356273	14	3.2	14	87	0	63	11	20	31	37	1.87
356221--356279	21	2.9	21	79	2	57	13	22	28	35	1.92
357052--357211	39	4.1	39	87	3	169	20	25	25	29	1.99
357101--357245	78	1.9	78	83	2	193	22	24	22	31	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357063--357245	39	4.7	38	83	6	161	21	25	22	30	1.99
363297--363401	39	2.7	39	85	2	131	18	23	27	30	1.97
371900--371976	31	2.5	31	78	2	82	28	31	25	14	1.95
373407--373445	18	2.2	18	85	0	51	25	23	2	48	1.63
377047--377310	69	3.8	69	77	6	275	22	28	20	29	1.98
377055--377310	138	1.9	138	81	6	313	23	27	20	28	1.99
377471--377993	76	6.9	76	85	0	686	40	19	11	28	1.86
377471--378359	228	4.0	227	80	6	959	39	19	11	29	1.87
377868--378127	134	1.9	134	88	0	394	39	20	11	28	1.87
377996--378359	76	4.8	76	84	0	440	39	19	11	29	1.87
377786--378359	210	2.6	210	82	5	628	39	20	11	28	1.87
377640--378355	362	2.0	362	85	1	979	40	20	11	28	1.86
384859--384897	20	2.0	19	85	5	51	28	23	7	41	1.82
389094--389118	9	2.8	9	100	0	50	60	0	0	40	0.97
389116--389182	6	11.2	6	78	12	75	77	1	2	17	0.97
389116--389183	30	2.3	30	87	5	93	76	1	4	17	1.03
390453--390497	14	3.0	15	87	6	56	77	0	4	17	0.92
390447--390486	19	2.0	20	90	4	64	80	0	7	12	0.91
390474--390555	7	10.4	7	81	17	83	65	3	0	30	1.09
390475--390554	3	26.7	3	70	26	55	65	3	0	31	1.11
390459--390558	43	2.3	42	80	10	112	69	3	1	27	1.10
390503--390608	5	20.8	5	73	19	78	59	4	0	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390503--390571	19	3.6	19	83	12	79	62	4	0	33	1.15
390503--390612	23	6.1	18	75	22	67	59	4	0	35	1.24
390503--390612	12	9.2	12	71	18	70	59	4	0	35	1.24
390585--391127	39	14.4	37	83	10	504	43	8	2	44	1.49
390607--391137	115	4.7	114	87	7	780	43	8	3	45	1.50
390607--391137	154	3.5	151	90	5	803	43	8	3	45	1.50
390993--391059	28	2.4	28	95	2	118	41	7	2	47	1.47
390878--391137	144	1.8	143	91	2	432	42	9	3	45	1.51
390915--391138	105	2.1	106	92	4	373	42	8	3	45	1.51
391101--391157	28	2.0	28	83	12	73	45	5	1	47	1.35
393764--393796	3	11.0	3	100	0	66	33	0	0	66	0.92
395156--395318	80	2.1	77	89	3	245	28	14	19	38	1.90
401979--402040	10	6.3	10	75	17	58	79	0	12	8	0.94
401972--402048	20	3.6	22	71	15	63	76	0	12	10	1.02
401966--402040	19	4.0	19	80	10	75	78	0	12	9	0.96
401995--402056	22	2.9	21	79	13	56	77	0	14	8	0.98
401957--402054	8	11.0	8	70	19	61	77	0	13	9	0.99
402687--402750	28	2.3	28	83	0	83	37	35	4	21	1.75
404214--404327	42	2.8	40	78	9	122	25	20	21	32	1.98
404063--404726	275	2.4	275	92	1	1091	28	16	20	35	1.94
404500--404618	42	2.9	42	81	6	118	22	25	21	30	1.99
405561--405885	117	2.8	117	91	0	524	36	16	24	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405952--406437	139	3.5	139	91	1	758	36	17	20	25	1.95
406092--406155	17	3.3	19	67	20	51	37	12	26	23	1.90
405816--406437	278	2.3	275	86	3	849	35	17	20	25	1.95
417691--417730	21	1.9	21	90	10	64	55	7	7	30	1.56
421542--421596	22	2.7	20	78	15	67	29	23	18	29	1.98
424270--424307	20	1.9	20	94	0	67	31	34	15	18	1.92
427957--428030	23	3.0	23	77	13	76	47	2	2	47	1.30
427962--428033	28	2.6	29	78	6	78	47	2	2	47	1.31
428096--428157	30	2.1	29	85	11	81	51	1	4	41	1.33
433114--433416	2	152.0	2	65	19	100	48	3	4	43	1.40

Tables:   1   2   3   4   5