genome.fa.s8593.2.7.7.80.10.50.1000.2.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: VEPZ01008593.1 Hibiscus syriacus cultivar Beakdansim tig00111542_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1058705

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 494 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)
244776--244860	34	2.5	34	92	0	143	61	1	0	37	1.04
244796--244858	25	2.6	25	80	9	69	65	0	0	34	0.93
249230--249260	7	4.4	7	95	0	53	64	0	0	35	0.94
254497--254882	183	2.1	183	89	2	589	42	3	8	45	1.51
255669--255757	32	2.8	31	83	3	106	19	14	6	59	1.57
259660--259705	21	2.1	22	84	4	58	15	26	19	39	1.91
261159--261201	21	2.0	21	95	0	77	27	20	18	32	1.96
261918--262130	101	2.2	98	85	5	288	22	20	22	34	1.97
262008--262117	40	2.8	40	91	0	184	20	20	24	34	1.96
261918--262129	21	10.8	19	73	9	124	22	20	22	34	1.96
261987--262130	21	7.0	21	77	6	134	21	21	24	32	1.98
262541--262577	19	1.9	19	100	0	74	27	29	5	37	1.79
262599--262637	20	2.0	20	85	14	55	43	25	5	25	1.75
274344--274388	21	2.1	21	87	0	63	33	13	4	48	1.62
274675--274998	162	2.0	164	98	1	634	35	14	11	38	1.82
277721--277751	15	2.1	15	93	0	53	48	0	3	48	1.17
277721--277745	13	1.9	13	100	0	50	52	0	0	48	1.00
281872--281902	2	16.0	2	93	6	55	51	0	0	48	1.00
286610--286726	63	1.9	60	84	8	155	30	14	16	38	1.88
296246--296281	2	18.0	2	100	0	72	50	0	0	50	1.00
301546--301583	19	2.0	20	89	5	60	52	0	2	44	1.14
301546--301593	20	2.4	20	80	16	55	47	0	2	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302839--302975	60	2.3	61	82	3	152	40	11	9	38	1.74
304653--304678	8	3.2	8	100	0	52	53	11	34	0	1.37
304731--304777	20	2.4	20	96	3	87	29	0	4	65	1.11
309541--309602	18	3.3	18	75	20	72	58	0	8	33	1.28
309541--309611	20	3.7	19	75	20	76	57	1	7	33	1.34
309528--309616	39	2.3	39	94	1	153	57	1	6	34	1.33
309558--309618	19	3.2	18	70	20	52	57	1	6	34	1.34
313230--313266	19	1.9	19	88	0	56	54	0	5	40	1.24
315963--316009	3	15.3	3	79	20	53	0	34	31	34	1.58
315973--316008	7	5.0	7	93	3	54	0	38	30	30	1.58
332966--333011	23	2.0	23	100	0	92	39	8	4	47	1.54
333489--333547	23	2.6	23	88	0	100	50	8	18	22	1.73
334928--334956	14	2.1	14	100	0	58	51	0	13	34	1.42
335408--335447	8	4.6	8	82	17	53	37	0	10	52	1.35
335410--335447	9	4.2	9	90	9	60	34	0	10	55	1.34
337728--337828	29	3.2	32	79	12	84	34	12	2	49	1.56
346129--346506	189	2.0	189	97	2	715	35	18	10	34	1.85
349113--349137	7	3.6	7	100	0	50	44	0	44	12	1.41
351310--351346	19	1.9	20	94	5	67	40	0	0	59	0.97
358155--358213	21	2.8	21	75	10	57	40	1	1	55	1.20
365128--365158	4	7.8	4	100	0	62	25	0	22	51	1.48
365290--365320	8	3.9	8	100	0	62	51	22	0	25	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365290--365320	12	2.6	12	100	0	62	51	22	0	25	1.48
372562--372599	18	2.1	19	90	5	60	52	10	2	34	1.50
385430--385738	6	51.3	6	94	3	532	48	16	1	33	1.58
388522--388559	19	2.0	19	94	0	67	34	5	13	47	1.65
389100--389150	24	2.1	25	89	10	79	54	3	5	35	1.43
395576--395606	6	5.2	6	96	0	53	64	0	0	35	0.94
395652--395836	91	2.0	93	90	2	293	29	14	16	40	1.88
396070--396139	35	2.0	35	100	0	140	28	5	20	45	1.73
399050--399083	12	2.6	14	86	13	54	70	8	11	8	1.34
401968--402090	21	5.8	21	80	9	133	22	37	17	21	1.94
401968--402088	42	2.8	43	87	6	158	23	37	18	21	1.94
402253--402292	20	1.9	22	90	10	66	37	37	10	15	1.80
404048--404085	19	2.0	20	94	5	69	44	5	13	36	1.66
406674--406849	75	2.3	75	86	3	237	21	23	30	23	1.99
415308--415484	75	2.3	76	88	2	257	22	23	31	23	1.98
425158--425622	112	4.1	112	91	1	732	44	13	15	26	1.83
425493--425947	181	2.5	182	88	1	655	42	12	15	29	1.83
428251--428295	20	2.3	19	88	11	65	13	28	31	26	1.94
428251--428295	10	4.7	9	81	13	54	13	28	31	26	1.94
430643--430675	16	2.1	16	100	0	66	63	18	12	6	1.48
430741--430834	23	4.2	23	70	16	81	59	22	9	8	1.55
430754--430796	13	3.2	13	81	15	52	62	25	9	2	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439070--439132	31	2.1	30	81	3	72	44	12	15	26	1.83
445042--445083	19	2.2	19	83	8	50	45	14	4	35	1.66
446854--446893	2	20.0	2	100	0	80	0	50	0	50	1.00
447563--447623	15	4.2	15	69	23	58	47	3	0	49	1.18
447551--447596	20	2.2	21	80	3	58	50	2	0	47	1.13
447565--447665	42	2.4	42	83	6	125	44	2	0	52	1.16
447631--447675	20	2.2	20	80	7	56	51	2	0	46	1.13
447678--447716	2	20.0	2	94	5	71	51	0	0	48	1.00
453568--453608	8	5.2	8	82	5	57	34	0	29	36	1.58
453677--454539	258	3.4	252	96	2	1622	22	25	19	32	1.97
453677--454539	126	6.8	126	96	2	1613	22	25	19	32	1.97
454926--455027	34	3.0	34	82	5	134	39	2	3	53	1.34
455548--455635	21	4.2	21	88	4	115	22	23	34	19	1.97
455645--455692	21	2.3	21	85	0	60	22	12	39	25	1.89
477241--477275	16	2.2	16	100	0	70	34	5	17	42	1.73
481500--481535	18	2.0	18	100	0	72	33	11	27	27	1.91
481759--481802	23	2.0	22	86	4	61	38	11	9	40	1.73
483666--484196	177	3.0	177	96	0	983	32	17	15	34	1.91
486891--487242	174	2.0	176	97	2	665	34	9	17	38	1.82
488375--488440	4	16.5	4	82	6	80	45	25	3	25	1.68
488375--488440	20	3.3	20	87	4	89	45	25	3	25	1.68
494720--494817	47	2.1	48	90	1	153	51	6	7	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495588--495998	205	2.0	205	100	0	822	34	9	16	39	1.82
496570--496631	19	3.4	19	72	18	60	25	12	9	51	1.70
500225--500435	106	2.0	105	90	0	332	35	16	12	36	1.86
506808--506868	14	4.4	14	77	8	70	63	16	9	9	1.50
507083--507121	20	2.0	20	85	10	53	35	12	5	46	1.65
509264--509294	5	6.2	5	100	0	62	19	41	38	0	1.51
517843--517872	13	2.3	13	100	0	60	16	46	23	13	1.82
517831--517866	18	2.0	18	100	0	72	16	50	22	11	1.77
517887--518035	29	5.1	29	83	6	133	34	2	20	43	1.63
517882--518035	58	2.7	58	76	9	152	33	2	20	42	1.66
518927--519218	117	2.5	117	88	2	435	19	16	32	31	1.94
521844--521888	21	2.1	21	87	0	63	31	28	24	15	1.96
523019--523146	31	4.1	31	80	9	152	26	18	21	33	1.96
523105--523201	30	3.2	30	88	1	113	22	20	24	31	1.98
523132--523204	30	2.4	30	95	0	128	24	20	24	30	1.99
525282--525429	61	2.4	59	78	6	145	35	16	10	38	1.82
531198--531248	2	25.5	2	100	0	102	0	49	0	50	1.00
541735--541795	2	30.5	2	100	0	122	49	0	0	50	1.00
541963--542020	29	2.0	29	82	0	71	15	31	27	25	1.96
542101--542149	23	2.1	23	85	7	64	28	22	34	14	1.93
542247--542332	29	3.0	29	86	3	120	22	29	32	16	1.95
543915--544136	54	4.3	47	87	8	192	40	0	8	51	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543915--544002	15	5.5	15	76	18	88	44	0	3	52	1.18
544005--544047	22	2.0	22	95	0	77	37	0	11	51	1.39
543982--544133	32	5.4	32	70	28	146	36	0	9	53	1.34
543982--544863	54	16.4	54	83	8	1093	34	0	12	52	1.44
544059--544101	22	2.0	22	95	0	77	37	0	9	53	1.33
544081--544794	80	8.9	80	81	10	807	33	0	13	52	1.46
544240--544831	32	20.7	31	65	28	234	33	0	13	52	1.46
544273--544369	22	4.0	22	71	23	86	35	0	12	52	1.39
544381--544423	22	2.0	22	95	0	77	34	0	11	53	1.37
543982--544794	322	2.5	322	97	0	1520	33	0	12	52	1.45

Tables:   1   2   3   4   5