genome.fa.s885.2.7.7.80.10.50.1000.3.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: VEPZ01000885.1 Hibiscus syriacus cultivar Beakdansim tig00001728_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1639497

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 787 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)
523936--524016	41	2.0	41	90	7	128	28	27	13	30	1.94
528540--529485	59	16.1	59	89	2	1368	31	19	10	37	1.87
529798--529999	95	2.1	95	83	1	244	27	21	16	34	1.95
531139--531170	2	16.0	2	100	0	64	50	0	0	50	1.00
531780--532969	54	22.3	54	85	4	1454	27	17	20	35	1.95
531785--532969	537	2.2	531	87	2	1709	27	17	20	35	1.95
534004--534047	20	2.1	21	83	4	54	43	29	2	25	1.67
538959--539407	54	8.3	54	91	1	677	25	15	22	36	1.93
542088--542136	20	2.4	20	86	3	71	63	0	0	36	0.95
547281--547336	20	2.8	21	78	15	64	32	14	14	39	1.86
548498--548548	20	2.5	20	100	0	102	62	3	5	27	1.36
550030--550075	21	2.2	21	92	0	74	41	21	15	21	1.90
557210--557267	30	1.9	30	92	0	98	36	22	17	24	1.95
563194--563226	17	1.9	17	100	0	66	24	12	39	24	1.89
565600--565669	3	23.0	3	75	18	65	34	1	5	58	1.31
565598--565633	8	4.5	8	100	0	72	38	0	0	61	0.96
565603--565670	11	6.2	11	72	11	50	35	1	5	57	1.32
574148--574212	22	3.0	22	74	12	64	24	16	21	36	1.94
574424--574491	22	3.2	22	64	16	61	20	19	19	41	1.91
574401--574516	42	2.8	42	97	1	216	19	21	21	37	1.95
574150--574771	290	2.1	292	89	1	944	28	15	18	36	1.92
574690--574771	42	2.0	42	90	0	128	21	20	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574987--575035	3	17.0	3	84	16	68	36	0	0	63	0.95
574984--575036	20	2.7	20	83	16	74	39	0	0	60	0.97
576623--576683	17	3.6	17	78	6	54	75	0	13	11	1.05
577839--578276	37	11.9	35	75	15	309	46	8	2	43	1.45
577838--578276	75	5.9	72	75	16	314	46	8	2	43	1.45
577856--578276	150	2.8	149	82	7	446	46	8	2	43	1.45
578979--579121	73	2.0	72	80	6	164	28	13	8	48	1.72
581943--582018	16	4.9	14	82	9	53	40	2	0	56	1.13
581965--582024	2	30.5	2	88	9	88	45	3	0	51	1.17
582113--582255	31	4.5	31	70	16	82	24	5	2	67	1.26
582062--582187	16	7.5	16	70	19	62	24	4	1	69	1.17
582300--582333	18	1.9	18	88	5	52	14	11	0	73	1.10
582376--582416	18	2.3	18	86	0	55	14	2	4	78	1.03
582385--582416	9	3.6	9	95	0	55	12	0	6	81	0.87
585503--585549	7	6.7	7	80	9	51	82	0	14	2	0.75
585511--585556	14	3.3	14	82	17	60	80	0	15	4	0.86
585628--585766	69	2.0	69	88	5	210	37	21	14	26	1.92
587300--587489	36	5.4	36	71	12	135	30	18	12	38	1.88
587438--587599	65	2.5	67	83	6	183	32	19	9	39	1.83
588325--588685	106	3.3	106	77	6	386	34	22	18	24	1.96
588604--588743	67	2.2	65	84	10	180	32	24	17	26	1.97
590136--590214	16	5.2	15	83	8	81	40	2	0	56	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590098--590167	23	2.9	23	75	12	59	27	5	0	67	1.13
590159--590215	2	29.0	2	87	10	82	45	3	0	50	1.18
590245--590324	37	2.3	34	82	6	97	27	5	1	66	1.20
593106--593152	21	2.2	21	88	0	76	23	25	14	36	1.93
593143--593212	19	3.6	20	84	5	90	37	24	14	24	1.92
596411--596456	18	2.6	18	82	0	56	52	28	0	19	1.47
596405--596456	24	2.2	24	82	0	59	53	26	0	19	1.45
596743--596785	20	2.2	20	86	0	59	46	16	16	20	1.84
596953--597010	25	2.3	25	96	0	107	27	8	20	43	1.81
597252--597338	39	2.2	39	93	0	156	45	21	14	17	1.84
597669--597747	30	2.6	30	75	22	76	54	12	1	31	1.46
597639--597736	31	3.0	32	69	26	89	56	14	2	27	1.50
599127--599191	20	3.2	20	71	14	53	16	20	43	20	1.89
599205--599244	21	1.9	21	94	0	71	22	17	35	25	1.95
601726--601776	22	2.3	22	86	0	66	25	11	39	23	1.89
601903--602008	20	5.3	20	71	13	101	20	17	22	38	1.93
601903--602029	40	3.1	41	75	11	111	24	18	22	35	1.95
601903--602093	41	4.7	41	72	9	133	28	17	21	32	1.96
601999--602064	21	3.2	21	89	4	98	39	16	22	21	1.92
609494--609532	17	2.2	18	86	4	53	33	12	5	48	1.63
609557--609591	6	5.8	6	93	0	61	20	0	0	80	0.72
611010--611063	20	2.7	20	80	11	58	37	22	14	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616100--616138	13	2.9	13	80	3	51	87	7	5	0	0.68
616098--616138	21	2.1	18	86	13	55	87	7	4	0	0.65
616114--616147	15	2.3	15	94	0	59	82	8	8	0	0.85
622348--622418	16	4.8	16	72	13	62	25	14	11	49	1.76
624387--624511	47	2.8	45	85	7	164	31	20	7	40	1.80
624387--624525	47	3.2	41	79	14	113	30	21	7	40	1.80
636455--636520	33	2.0	34	93	3	116	28	12	21	37	1.89
638501--638540	2	20.0	2	94	0	71	50	2	0	47	1.14
653661--653897	83	2.9	83	84	3	300	30	18	16	33	1.94
653734--653864	42	3.1	42	69	18	101	31	19	16	32	1.94
655449--655565	43	2.7	43	85	1	144	46	16	17	19	1.85
662089--662147	3	19.3	3	80	3	64	57	1	3	37	1.25
662428--662461	5	7.0	5	86	6	52	76	0	2	20	0.92
662429--662459	14	2.2	14	94	0	53	77	0	3	19	0.90
671530--671585	28	1.9	30	85	7	80	46	5	19	28	1.72
674515--674571	30	1.9	30	92	0	96	45	3	17	33	1.65
677351--677552	26	8.8	24	71	22	157	23	23	9	43	1.83
677379--677550	20	7.7	20	72	21	128	22	25	9	43	1.82
677335--677556	46	4.8	46	92	0	354	23	24	8	43	1.81
678017--678074	22	2.8	20	82	10	71	27	29	15	27	1.96
677950--678125	95	1.9	95	84	2	237	26	25	15	32	1.96
682077--682131	20	2.7	21	88	5	76	52	16	10	20	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684122--684312	46	4.2	46	86	1	240	23	23	8	45	1.80
684156--684312	20	6.8	24	69	21	95	21	23	8	46	1.78
684717--684905	95	2.0	95	86	0	261	25	24	15	33	1.95
690668--690807	46	3.0	46	81	8	167	21	19	11	47	1.80
690722--690794	22	3.2	22	65	14	58	24	19	12	43	1.85
690838--691672	81	10.4	81	84	2	975	30	20	12	36	1.89
690870--691672	322	2.5	321	83	3	997	30	20	12	36	1.90
690853--691646	403	2.0	403	85	4	1100	29	20	12	37	1.90
695940--696200	130	2.0	130	100	0	522	36	13	16	32	1.89
701363--701626	106	2.5	106	94	0	456	31	25	20	23	1.98
705928--705952	2	12.5	2	100	0	50	48	0	0	52	1.00
707737--707908	81	2.1	81	82	4	206	25	23	12	37	1.91
707771--707986	81	2.7	80	82	7	224	28	21	12	37	1.90
707925--708048	63	2.0	62	89	7	189	31	20	11	37	1.88
710106--710637	267	2.0	266	97	2	1005	43	14	22	19	1.88
712351--712400	7	7.1	7	100	0	100	42	42	0	16	1.47
720213--720585	188	2.0	185	92	7	623	33	14	16	36	1.89
721544--721587	16	2.9	15	90	9	72	27	11	18	43	1.84
721296--721967	330	2.0	335	95	3	1209	29	11	20	38	1.88
721876--721919	15	2.9	15	100	0	88	27	11	20	40	1.86
723677--723724	21	2.3	21	100	0	96	45	25	16	12	1.82
727346--727435	35	2.5	35	92	1	144	48	18	11	21	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731144--731202	16	3.7	16	86	0	91	57	20	11	10	1.63
731138--731196	22	2.8	22	74	23	63	59	18	10	11	1.60
732841--732887	20	2.2	23	78	17	57	21	25	27	25	1.99
732928--732982	17	3.2	17	97	0	101	20	47	21	10	1.80
740028--740086	9	6.3	9	78	7	64	15	25	28	30	1.96
740083--740135	5	9.8	5	76	15	52	18	50	22	7	1.72
740081--740142	17	3.4	17	80	20	79	17	46	22	12	1.82
740083--740149	22	3.0	22	93	4	107	17	46	23	11	1.82
740132--740162	7	4.4	7	100	0	62	16	29	29	25	1.96
742150--742180	14	2.2	14	94	0	53	54	16	12	16	1.71

Tables:   1   2   3   4   5   6   7