genome.fa.s4123.2.7.7.80.10.50.1000.3.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: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1596068

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1036 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)
374485--374577	36	2.5	37	85	1	125	32	11	13	41	1.81
375311--377102	106	17.0	106	90	1	2652	23	17	24	34	1.96
377930--377984	22	2.5	22	100	0	110	23	12	27	36	1.91
383201--383258	31	1.9	30	82	10	73	79	1	5	13	0.98
383402--383446	2	23.5	2	91	8	76	53	0	0	46	1.00
383621--383665	23	1.9	23	86	13	65	66	2	2	28	1.15
383805--383845	11	3.6	11	87	6	55	65	4	4	24	1.32
383864--383915	25	2.0	28	88	11	83	69	1	0	28	0.99
384527--384631	37	2.8	37	88	0	156	30	15	14	40	1.87
385194--385256	3	21.3	3	86	3	83	65	0	0	34	0.93
385415--385541	50	2.8	42	70	17	110	33	16	15	33	1.91
385830--385937	43	2.5	43	80	3	119	41	13	9	35	1.77
385864--385986	43	2.9	43	81	6	135	40	11	13	34	1.80
387583--387671	43	2.1	43	97	0	169	31	13	11	43	1.79
390003--390065	29	2.2	29	88	5	92	50	1	0	47	1.10
389940--390123	92	2.0	92	87	6	266	52	1	1	45	1.15
390031--390109	19	3.9	19	69	18	61	53	1	1	44	1.16
390077--390116	21	2.0	19	85	9	53	57	0	0	42	0.98
389927--390030	20	5.1	20	78	17	115	55	0	0	42	1.12
390077--390152	24	3.3	22	77	13	73	52	0	1	46	1.08
397609--397671	24	2.8	23	81	9	76	23	33	22	20	1.97
401715--401772	22	2.7	22	78	7	66	32	0	1	65	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401715--401772	21	2.7	22	79	10	66	32	0	1	65	1.03
412137--412173	18	2.0	19	89	5	58	35	0	56	8	1.29
412162--412230	32	2.1	33	91	2	113	40	2	43	13	1.58
412380--412413	14	2.4	14	90	5	50	44	11	0	44	1.40
417026--417126	36	2.8	37	88	7	161	48	3	6	40	1.49
417025--417237	99	2.2	97	79	9	227	46	4	7	41	1.53
417099--417163	26	2.5	26	84	0	76	44	1	4	49	1.32
417155--417260	36	2.9	35	83	5	131	46	7	8	37	1.63
417313--417360	20	2.5	20	76	10	55	20	4	2	72	1.11
417309--417358	9	5.3	9	76	23	50	22	2	2	74	1.03
420807--420930	60	2.1	59	81	3	151	31	18	17	32	1.94
425205--425286	29	2.8	29	96	1	146	31	14	13	40	1.85
428614--428714	36	2.8	36	83	1	121	41	15	10	31	1.82
429107--429152	11	4.2	11	76	17	51	34	0	2	63	1.07
429418--429460	4	10.2	4	80	9	50	23	2	0	74	0.93
429418--429460	13	3.4	13	81	12	54	23	2	0	74	0.93
429548--429593	19	2.5	19	83	13	60	17	8	0	73	1.07
435075--435150	22	3.5	22	92	0	125	39	26	14	19	1.90
436090--437043	106	9.0	106	92	1	1470	34	24	18	22	1.96
437796--437896	37	2.7	37	84	0	112	42	13	12	30	1.82
438291--438346	2	29.5	2	82	10	73	42	0	1	55	1.10
438283--438351	14	5.2	13	84	8	68	39	0	1	59	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438599--438656	12	5.3	11	74	18	50	27	1	0	70	0.97
438754--438812	29	2.0	29	83	6	75	22	10	1	66	1.31
440564--440673	29	3.8	28	90	3	166	32	13	10	42	1.79
442576--443362	393	2.0	388	90	2	1247	29	19	19	30	1.97
460354--460405	22	2.4	22	90	6	79	9	13	19	57	1.63
463233--463427	109	1.8	109	81	6	245	51	18	14	14	1.76
471610--471648	14	2.8	14	80	0	51	41	28	2	28	1.69
472654--472697	2	22.5	2	90	4	72	50	0	0	50	1.00
479328--479384	12	5.2	11	77	14	64	5	0	10	84	0.77
479336--479384	11	4.7	10	78	16	55	4	0	10	85	0.71
479335--479384	16	3.2	16	78	13	59	4	0	10	86	0.71
483872--483922	24	2.2	24	82	3	59	25	27	15	31	1.96
483881--483926	24	1.9	24	90	0	74	26	23	19	30	1.98
483883--483956	22	3.2	22	82	5	67	21	22	17	37	1.94
483893--483969	22	3.4	22	80	8	66	19	23	19	37	1.94
486595--486635	20	2.0	20	85	4	55	19	14	29	36	1.92
486745--486784	20	2.0	21	85	5	55	27	17	20	35	1.95
491620--491704	23	3.7	23	77	3	98	18	25	22	32	1.97
491713--491764	24	2.2	23	89	3	77	19	26	21	32	1.97
504862--504902	21	2.0	21	90	0	64	14	21	0	63	1.30
519715--519752	20	1.9	20	84	10	51	50	5	5	39	1.48
520301--520435	44	3.0	44	89	1	189	30	20	7	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520575--520686	59	1.9	59	87	3	163	32	17	13	36	1.89
520710--520930	58	3.8	59	84	6	272	29	23	10	36	1.88
520710--520937	59	3.9	58	82	7	257	30	23	10	35	1.89
526010--526040	7	4.4	7	100	0	62	38	29	0	32	1.57
532863--533100	113	2.1	113	96	0	431	42	9	16	31	1.80
536981--537025	18	2.3	18	85	11	54	28	0	17	53	1.44
537413--537516	23	4.5	23	85	0	127	22	22	24	31	1.98
539544--539611	10	6.7	10	85	14	95	19	0	0	80	0.70
539560--539611	16	3.4	16	79	15	65	21	0	0	78	0.74
539544--539612	6	11.3	6	76	14	70	18	0	0	81	0.70
544179--544213	17	2.0	18	88	5	54	17	8	31	42	1.79
544694--544775	36	2.2	38	85	12	125	24	26	14	34	1.94
544947--545018	37	1.9	37	85	0	99	29	20	9	40	1.85
545637--546054	106	4.0	106	84	5	573	35	22	18	22	1.96
545637--546054	204	2.0	207	86	4	592	35	22	18	22	1.96
547506--547537	2	16.5	2	93	6	57	50	0	0	50	1.00
549679--549784	23	4.6	23	84	0	113	23	20	21	33	1.97
549843--549875	17	2.0	17	88	5	50	30	24	6	39	1.79
552417--552580	81	2.0	81	100	0	328	26	14	28	29	1.95
553813--553857	19	2.4	19	96	0	81	44	13	17	24	1.85
554427--554466	19	2.1	19	90	0	62	52	7	5	35	1.51
554579--554613	12	2.7	13	91	8	54	40	5	8	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554579--554614	13	2.7	14	87	12	58	41	5	8	44	1.58
554916--554966	26	2.0	25	85	7	68	56	23	0	19	1.42
556297--556343	19	2.5	18	83	10	58	65	17	0	17	1.27
561099--561141	18	2.4	18	80	7	52	0	32	6	60	1.23
563575--563635	21	2.8	22	78	9	54	27	1	19	50	1.57
572771--572806	13	2.7	13	91	4	54	16	13	19	50	1.79
576193--576290	49	2.0	49	100	0	196	46	12	10	30	1.74
577774--577828	3	18.0	3	84	3	74	60	0	0	40	0.97
577774--577828	25	2.2	25	93	3	94	60	0	0	40	0.97
579583--579662	31	2.6	31	95	0	142	47	0	0	52	1.00
579901--579931	16	1.9	16	100	0	62	45	0	0	54	0.99
581260--581299	12	3.3	12	82	0	53	62	0	0	37	0.95
581263--581309	15	3.1	15	87	3	58	63	0	0	36	0.94
583250--583278	14	2.1	14	100	0	58	34	13	17	34	1.89
584522--584563	17	2.4	18	85	14	54	61	0	33	4	1.17
585988--586034	2	23.5	2	100	0	94	51	0	0	48	1.00
586415--586464	17	2.9	18	73	8	50	54	2	4	40	1.31
586694--586727	15	2.3	15	89	0	50	58	2	2	35	1.28
587710--587775	26	2.5	26	100	0	132	28	22	24	24	1.99
590304--590380	23	3.4	23	72	15	79	29	23	24	22	1.99
592236--592265	15	2.0	15	100	0	60	53	20	6	20	1.67
595974--596061	45	1.9	46	93	2	151	28	19	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597864--597930	24	2.7	25	73	13	66	64	0	7	28	1.21
597904--597949	23	2.0	24	83	12	60	52	0	15	32	1.43
600732--600883	3	51.7	3	74	13	111	35	4	3	55	1.39
610811--610856	2	23.0	2	100	0	92	50	0	0	50	1.00
611717--611804	41	2.1	41	85	4	115	22	5	40	30	1.77
618608--618633	13	2.0	13	100	0	52	53	0	0	46	1.00
623247--623744	128	3.9	128	97	2	934	22	25	19	32	1.97
623247--623740	252	2.0	251	98	0	952	22	25	19	32	1.97
624127--624229	33	3.2	33	80	6	129	38	2	4	53	1.37
624748--624817	21	3.3	21	88	7	106	21	27	32	18	1.97

Tables:   1   2   3   4   5   6   7   8   9