genome.fa.s9604.2.7.7.80.10.50.1000.3.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  3  of  17  ( 1985 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)
421635--421717	42	2.0	42	95	0	148	30	22	21	25	1.99
421657--421717	20	3.0	20	71	17	61	29	24	22	22	1.99
431121--431156	19	1.9	19	88	5	56	2	36	2	58	1.27
436220--436277	3	19.7	3	96	3	109	31	0	0	68	0.89
443662--443743	37	2.2	36	81	10	94	32	17	12	37	1.86
444091--444305	68	3.2	66	79	6	209	30	17	13	39	1.87
444116--444305	66	2.8	66	81	6	213	28	17	13	40	1.88
444353--445128	411	1.9	412	81	4	947	28	29	15	27	1.96
444307--445130	137	6.0	137	79	3	839	28	29	15	26	1.96
445330--445373	3	15.0	3	90	4	72	31	2	0	65	1.05
449873--449931	30	2.0	30	93	3	102	37	6	11	44	1.68
450011--450087	21	3.7	21	96	0	145	23	36	16	23	1.94
450154--450217	20	3.2	20	84	8	78	25	32	17	25	1.96
450159--450196	12	3.2	12	92	0	58	28	26	18	26	1.98
450318--450357	20	1.9	22	90	10	66	37	40	10	12	1.77
453294--453350	29	2.0	29	96	0	105	36	5	12	45	1.64
453543--453590	8	6.5	8	77	18	59	22	37	14	25	1.92
453529--453587	20	2.9	21	90	7	95	22	35	16	25	1.95
453529--453591	28	2.2	28	83	5	83	23	34	15	25	1.95
453811--453874	30	2.2	29	81	8	69	39	4	14	42	1.66
453821--453878	30	2.0	30	93	3	100	37	5	12	44	1.64
454057--454115	20	2.9	21	85	7	86	22	33	16	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454057--454119	28	2.2	28	80	5	74	23	33	15	26	1.95
454094--454118	8	3.1	8	100	0	50	24	40	12	24	1.88
453218--454805	528	3.0	528	96	2	2874	33	19	17	30	1.94
454339--454402	30	2.2	29	81	8	69	39	4	14	42	1.66
454349--454406	30	2.0	30	93	3	100	37	5	12	44	1.64
454496--454533	13	2.9	13	92	0	58	18	34	21	26	1.96
454598--454651	20	2.7	20	91	5	83	22	35	16	25	1.95
455007--455076	34	2.1	32	86	5	95	31	15	30	22	1.95
456679--456757	2	39.0	2	70	12	54	45	8	2	43	1.48
456684--456755	27	2.6	27	78	6	74	45	9	2	41	1.51
456754--456792	18	2.2	17	86	4	51	46	7	12	33	1.71
462523--462573	5	9.8	5	81	12	50	15	3	1	78	0.99
462500--462574	19	4.0	20	81	10	77	12	10	1	76	1.10
462522--462554	6	5.7	6	85	7	50	15	3	0	81	0.80
462605--462635	15	2.0	16	93	6	55	12	0	9	77	0.99
462625--462690	32	2.1	32	88	5	98	13	10	0	75	1.04
462634--462712	32	2.5	31	84	10	97	15	11	1	72	1.19
462777--462832	28	2.0	27	89	3	85	14	7	1	76	1.07
462891--462919	12	2.3	13	94	5	51	31	0	0	68	0.89
465358--465709	95	3.6	97	85	7	450	32	16	19	31	1.94
466881--466984	43	2.5	42	82	3	120	29	28	16	25	1.97
467142--467475	124	2.7	124	90	0	526	31	24	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467487--468173	80	8.4	81	89	1	842	33	23	19	23	1.97
469914--469949	18	1.9	18	88	5	54	5	19	0	75	1.00
470008--470085	7	11.0	7	70	17	54	16	2	1	79	0.91
470010--470066	26	2.2	24	77	17	60	19	0	1	78	0.83
470013--470085	12	6.3	12	72	15	55	16	2	1	79	0.92
470012--470086	19	4.0	18	81	14	80	16	4	1	78	0.96
470188--470233	9	4.4	10	82	17	58	13	0	0	86	0.56
481371--481470	45	2.2	46	77	8	107	52	9	23	16	1.71
485671--485721	20	2.5	20	90	0	84	33	17	27	21	1.96
486645--486695	20	2.5	20	90	0	84	33	17	27	21	1.96
488977--489037	20	3.0	20	82	0	59	29	19	11	39	1.87
491548--491579	15	2.1	15	100	0	64	31	12	15	40	1.85
509633--509734	39	2.6	38	72	13	91	35	16	1	46	1.59
509895--509934	18	2.2	18	86	8	55	60	2	2	35	1.24
509941--510009	25	2.6	27	77	13	81	42	5	0	52	1.25
509948--510033	27	3.3	27	80	6	79	40	8	0	51	1.32
523316--523351	11	3.0	12	88	12	56	33	38	0	27	1.57
523290--523397	22	4.9	22	73	10	87	31	28	15	24	1.96
525394--525555	83	2.0	82	81	7	193	40	10	9	39	1.72
525899--525955	21	2.9	19	85	12	80	29	10	10	49	1.71
529005--529055	3	16.7	3	84	11	68	64	1	0	33	1.05
552839--552879	14	2.9	15	78	10	50	70	2	2	24	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556334--556363	15	1.9	16	93	6	53	60	6	0	33	1.23
560231--560297	19	3.5	19	72	11	55	50	5	5	37	1.51
560888--560912	12	2.1	12	100	0	50	16	16	24	44	1.86
563931--563970	21	1.9	21	85	10	55	37	0	15	47	1.45
567680--567794	60	1.9	60	85	3	160	25	21	26	26	2.00
568634--568707	14	5.3	14	70	23	50	62	2	1	33	1.18
569780--569804	9	2.8	9	100	0	50	84	8	0	8	0.79
571431--571484	15	3.6	15	94	0	90	38	7	33	20	1.80
573164--573203	16	2.5	16	87	0	53	0	62	0	37	0.95
573165--573207	22	2.0	20	91	8	68	0	62	0	37	0.95
575529--576126	311	1.9	311	81	4	724	20	24	18	36	1.94
577983--578358	123	3.0	124	79	9	350	26	17	29	26	1.97
578064--578825	249	3.1	247	81	7	658	27	17	26	27	1.98
578400--578859	44	11.1	43	67	17	235	26	18	24	29	1.98
578352--578895	123	4.4	125	88	3	807	26	18	25	29	1.98
578352--578895	247	2.2	247	89	4	821	26	18	25	29	1.98
579156--579244	32	2.8	32	84	0	106	29	24	15	30	1.96
586145--586187	20	2.2	20	86	0	59	34	20	13	30	1.92
594991--595040	27	1.9	25	88	8	73	56	10	18	16	1.67
597935--597974	3	13.0	3	84	5	53	62	2	2	32	1.22
599959--600006	12	4.2	11	87	10	69	72	0	0	27	0.84
599959--600006	23	2.1	24	88	7	73	72	0	0	27	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600131--600159	13	2.1	14	93	6	51	41	6	0	51	1.28
600085--600232	77	1.9	79	82	8	187	43	8	4	43	1.52
600177--600328	69	2.1	69	89	4	223	43	9	4	42	1.58
600177--600353	35	4.9	36	83	7	218	44	10	4	41	1.59
602094--602122	14	2.0	15	93	6	51	6	10	0	82	0.83
612491--612523	6	5.5	6	100	0	66	81	0	0	18	0.68
612701--612838	38	3.9	36	79	11	140	45	8	2	42	1.50
612771--612877	38	2.8	38	84	0	124	46	10	1	41	1.48
613583--613660	10	7.3	10	76	11	66	80	2	0	16	0.82
613602--613660	31	1.9	31	89	6	93	83	0	0	16	0.66
613602--613660	7	8.0	7	85	10	82	83	0	0	16	0.66
614840--614880	3	13.7	3	94	0	73	65	0	0	34	0.93
615140--615303	85	1.9	86	86	3	233	22	19	24	33	1.97
615773--616432	106	6.5	106	85	8	884	23	18	24	33	1.97
615920--616418	94	5.1	94	83	11	656	24	17	24	34	1.96
615816--616418	200	3.0	198	84	9	796	23	18	24	33	1.96
615773--616425	306	2.1	306	91	0	1056	23	18	24	33	1.97
620701--620741	7	5.4	7	86	13	55	80	0	0	19	0.71
628089--628115	14	1.9	14	100	0	54	48	14	0	37	1.45
628112--628168	24	2.4	24	84	0	69	54	15	12	17	1.71
637590--637625	17	2.2	17	90	5	56	33	0	22	44	1.53
637673--637716	16	2.8	15	82	3	52	38	6	15	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648955--648982	4	7.0	4	100	0	56	75	0	25	0	0.81
649118--649160	16	2.5	17	85	7	52	48	6	23	20	1.73
661913--661958	20	2.3	20	85	7	58	65	15	0	19	1.28
662345--662383	20	2.0	20	89	0	60	25	17	30	25	1.97
666361--666513	74	2.0	76	92	6	256	31	17	20	30	1.96
667195--667402	103	2.0	103	98	1	400	28	8	17	44	1.79
667993--668029	19	1.9	19	88	0	56	45	2	8	43	1.47
672514--672553	21	1.9	21	94	0	71	40	22	10	27	1.86
672514--672564	21	2.4	21	87	6	68	41	19	9	29	1.84
673320--673352	6	5.7	6	96	3	59	54	0	33	12	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17