genome.fa.s8358.2.7.7.80.10.50.1000.3.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: VEPZ01008358.1 Hibiscus syriacus cultivar Beakdansim tig00111097_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  729890

Tables:   1   2   3   4   

This is table  3  of  4  ( 413 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)
426894--426949	24	2.3	24	84	0	67	19	14	10	55	1.68
426953--427014	24	2.6	24	78	0	79	22	12	12	51	1.74
427184--427210	14	1.9	14	100	0	54	48	0	0	51	1.00
430305--430548	123	2.0	124	95	0	445	44	18	5	32	1.72
434649--434791	31	4.6	31	70	7	110	34	29	21	14	1.93
434649--434791	62	2.3	63	80	3	155	34	29	21	14	1.93
440203--440277	30	2.5	30	78	4	80	40	8	18	33	1.80
440469--441418	476	2.0	475	96	0	1729	33	10	16	39	1.82
441929--442009	9	9.0	9	79	0	81	28	7	18	45	1.76
441929--442018	27	3.3	27	82	0	117	26	6	18	47	1.73
441930--442009	18	4.4	18	85	0	115	28	6	18	46	1.73
443051--443298	31	8.1	31	87	4	369	27	17	20	34	1.95
443051--443298	90	2.7	90	89	3	363	27	17	20	34	1.95
443533--443596	18	3.6	18	76	0	74	35	3	21	39	1.70
448194--448268	30	2.5	31	77	14	84	32	20	8	40	1.81
448484--448634	31	4.9	31	90	3	232	27	17	19	36	1.94
449632--449676	21	2.0	24	83	12	60	40	8	8	42	1.67
451255--451333	40	2.0	40	92	5	133	25	17	22	34	1.96
451454--451595	44	3.2	44	79	7	162	38	8	19	33	1.82
453073--454729	329	5.0	329	95	2	3030	36	11	17	34	1.86
453073--454729	671	2.5	658	95	3	3075	36	11	17	34	1.86
455756--455827	9	7.9	9	73	7	65	80	1	12	5	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455762--455825	14	4.8	13	75	16	60	81	0	12	6	0.87
459698--459858	40	4.0	40	91	0	259	25	16	24	33	1.96
460570--460614	21	2.0	24	83	12	60	42	8	8	40	1.67
461536--461588	22	2.4	22	96	0	97	49	0	7	43	1.31
469094--469140	14	3.6	14	78	21	66	14	12	12	59	1.61
469076--469141	24	2.7	24	90	4	96	18	13	13	54	1.71
472942--472970	12	2.3	13	94	5	51	68	0	0	31	0.89
474349--474561	36	5.6	38	79	12	215	48	4	1	45	1.30
474343--474793	39	11.8	38	71	21	306	48	5	2	44	1.38
474528--474577	25	2.0	25	92	0	82	52	4	0	44	1.20
474447--474659	102	2.1	106	86	6	303	48	4	1	45	1.32
474487--474620	63	2.1	63	90	8	209	48	4	2	44	1.35
474557--474657	40	2.6	38	86	10	134	50	3	2	42	1.36
474639--474669	2	16.0	2	93	6	55	48	0	0	51	1.00
474603--474705	48	2.2	47	89	6	156	50	2	1	44	1.28
474586--474746	87	1.9	86	85	8	229	49	3	2	44	1.33
475371--476121	85	8.8	85	88	0	991	25	18	22	34	1.96
475371--476121	171	4.4	170	89	1	1045	25	18	22	34	1.96
482511--482562	26	2.0	26	88	0	77	32	36	9	21	1.86
487325--487424	20	4.9	20	86	7	139	12	22	22	44	1.85
487530--487566	6	6.3	6	93	6	67	32	51	16	0	1.45
490545--490596	27	2.0	27	92	3	88	34	11	19	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492192--492404	36	5.9	36	88	4	313	37	20	23	18	1.94
492187--492404	72	3.0	72	96	1	393	38	20	23	18	1.94
492454--492505	27	2.0	27	88	3	79	34	13	19	32	1.90
496355--496396	18	2.3	19	84	16	61	47	0	4	47	1.23
496377--496434	29	1.9	31	86	6	84	39	0	5	55	1.22
496860--496927	35	1.9	35	90	0	109	32	8	19	39	1.82
498010--498170	64	2.5	66	75	7	175	40	14	7	37	1.74
498222--498278	27	2.1	28	83	6	73	36	17	5	40	1.72
498129--498294	79	2.1	78	87	3	235	36	15	8	40	1.77
498209--498612	158	2.5	158	85	6	539	39	15	7	37	1.76
498315--498508	92	2.1	93	83	6	252	38	15	8	37	1.77
498420--498574	67	2.4	65	83	5	179	41	12	8	37	1.74
498481--498702	92	2.4	92	88	3	340	40	15	9	35	1.79
498206--498665	158	2.9	157	80	7	518	40	15	7	37	1.76
502858--502915	21	2.8	21	78	14	57	50	0	1	48	1.11
502919--502944	12	2.2	12	100	0	52	57	0	7	34	1.27
504595--504630	18	2.0	18	88	0	54	22	33	11	33	1.89
514514--514565	20	2.6	20	93	0	86	44	5	25	25	1.76
522701--522776	30	2.5	30	86	0	107	52	7	6	32	1.56
523433--523514	29	2.8	29	70	7	67	50	18	9	21	1.76
526952--527012	31	2.0	31	90	0	95	31	19	4	44	1.72
536371--536435	27	2.5	27	79	16	75	64	3	0	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542380--542449	21	3.3	21	68	7	70	7	1	34	57	1.35
542375--542469	42	2.3	42	98	0	181	6	2	29	62	1.32
542375--542494	42	2.9	42	90	5	154	8	5	29	57	1.49
546865--547007	70	2.0	70	94	0	250	26	13	25	34	1.94
546946--547110	43	3.8	43	76	3	116	22	16	26	35	1.95
547102--547262	44	3.7	44	86	4	222	29	18	19	33	1.95
547578--547648	21	3.4	21	75	7	56	4	36	15	43	1.66
558278--558341	28	2.2	29	88	2	94	50	15	9	25	1.74
563368--563443	29	2.7	27	80	11	82	23	13	2	60	1.45
566468--566527	32	1.9	31	96	3	111	38	0	8	53	1.31
566473--566543	32	2.2	32	89	0	106	45	0	7	47	1.30
568221--568295	31	2.4	31	88	0	105	57	6	0	36	1.25
569494--569538	23	2.0	23	86	0	63	26	24	26	22	2.00
569764--569822	29	2.3	27	83	16	72	37	15	10	37	1.81
575539--575583	23	2.0	23	90	0	72	31	26	22	20	1.98
579028--579073	19	2.4	19	100	0	92	36	28	15	19	1.92
580532--580566	17	2.1	17	88	0	52	68	2	25	2	1.17
584094--584128	17	2.1	17	88	0	52	68	0	25	5	1.11
585266--585304	18	2.2	18	95	0	69	33	20	5	41	1.74
585738--585845	52	2.1	53	96	1	200	37	9	15	37	1.80
586175--586269	21	4.5	21	90	0	145	23	14	17	44	1.86
587172--587200	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587352--587376	4	6.2	4	100	0	50	76	0	0	24	0.80
591546--591584	20	1.9	21	85	15	55	33	7	0	58	1.26
593417--593865	147	3.0	149	98	1	877	35	20	15	28	1.93
601265--601425	85	1.9	87	92	2	272	32	14	10	42	1.79
601347--601388	21	2.0	21	90	0	66	33	14	9	42	1.78
603929--603980	21	2.5	21	81	3	61	38	19	25	17	1.93
603969--604083	20	5.7	20	82	6	115	32	25	18	24	1.97
603966--604094	61	2.1	61	86	0	177	34	24	17	24	1.95
604271--604314	22	2.0	22	95	0	79	20	45	15	18	1.85
604539--604582	20	2.2	20	87	0	61	11	18	20	50	1.77
605906--605947	18	2.3	18	87	0	66	26	47	11	14	1.78
606429--606495	20	3.4	20	81	2	73	38	23	22	14	1.92
606483--606507	12	2.1	12	100	0	50	48	24	20	8	1.76
606429--606520	20	5.1	19	71	20	54	42	22	20	14	1.88
606541--606630	14	5.8	14	74	21	81	11	17	23	47	1.79
606536--606644	33	3.3	33	94	3	186	11	18	22	47	1.80
606557--606644	14	5.2	18	70	24	75	12	18	21	47	1.81
606633--606675	20	2.2	20	83	4	52	20	23	18	37	1.94
606641--606687	20	2.3	20	88	0	67	17	23	23	36	1.95
607053--607139	40	2.1	40	85	4	120	22	40	13	22	1.90
608554--608592	14	2.8	14	84	0	51	35	0	17	46	1.49
608728--608777	14	3.0	17	75	24	61	48	18	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608719--608772	14	3.5	14	75	22	54	48	18	20	12	1.81
608804--608891	20	4.4	20	74	5	97	15	21	23	38	1.92
609409--609442	12	2.9	12	86	4	52	17	41	5	35	1.74
609997--610050	24	2.2	24	86	0	72	24	16	18	40	1.90
610225--610261	12	3.1	12	92	0	65	75	0	24	0	0.80
612208--612255	19	2.5	19	100	0	96	16	0	27	56	1.41
614279--614407	9	13.6	9	67	20	50	24	4	3	67	1.24
614379--614407	3	10.0	3	92	7	51	31	0	0	68	0.89
618454--618634	94	1.9	95	87	3	267	34	17	17	30	1.93
619950--620066	36	3.2	36	93	1	198	30	19	11	38	1.87

Tables:   1   2   3   4