genome.fa.s8449.2.7.7.80.10.50.1000.2.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: VEPZ01008449.1 Hibiscus syriacus cultivar Beakdansim tig00111254_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1344907

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 690 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)
390267--390350	43	2.0	43	97	0	159	30	10	17	40	1.84
402669--402702	14	2.4	14	95	0	59	38	23	5	32	1.79
404950--404998	24	2.0	25	92	7	84	12	10	40	36	1.77
405035--405083	3	16.0	3	83	12	64	63	0	0	36	0.95
405441--406202	113	6.7	113	90	3	1016	27	18	14	38	1.90
405444--406202	229	3.3	226	87	5	1041	27	18	14	38	1.90
406139--406241	44	2.4	44	93	6	178	17	22	10	49	1.77
406160--406231	20	3.4	20	66	26	58	13	25	11	50	1.75
406576--406773	95	2.1	95	98	0	378	31	15	14	37	1.88
407189--407493	83	3.7	83	97	0	574	39	23	12	25	1.90
407100--407493	166	2.3	171	91	4	629	38	23	12	25	1.90
408720--408768	1	49.0	1	79	0	53	0	10	0	89	0.48
408720--408763	11	4.2	11	85	8	65	0	9	0	90	0.44
408720--408771	13	4.1	13	85	5	70	0	11	0	88	0.52
408720--408768	19	2.5	20	87	12	75	0	10	0	89	0.48
408720--408768	14	3.4	14	88	8	64	0	10	0	89	0.48
408721--408768	25	1.9	25	91	0	78	0	10	0	89	0.48
416048--416079	15	2.1	15	94	0	55	46	9	18	25	1.79
421318--421376	3	19.0	3	86	6	82	62	0	0	37	0.95
421318--421403	18	5.0	17	81	12	79	65	0	0	34	0.93
422183--422207	2	12.5	2	100	0	50	52	0	0	48	1.00
429194--429233	21	1.9	21	94	0	71	30	15	7	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429228--429326	33	3.0	33	94	1	164	32	7	15	45	1.73
429312--429366	13	4.2	13	75	13	58	34	3	12	49	1.59
429562--429618	21	2.7	21	91	0	96	19	26	26	28	1.99
429803--429836	18	1.9	18	88	5	52	38	11	14	35	1.83
429784--429839	16	3.6	15	74	9	58	32	12	14	41	1.83
429930--429961	16	2.0	17	88	11	50	43	21	21	12	1.86
431780--431837	29	2.0	29	100	0	116	31	20	13	34	1.92
440128--440232	22	4.8	22	95	0	174	27	28	26	17	1.97
443938--443982	23	2.0	22	86	4	63	35	42	2	20	1.64
458761--458819	30	2.0	30	83	6	75	27	11	10	50	1.71
460246--460648	201	2.0	199	93	6	684	40	8	16	34	1.78
463969--464792	268	3.1	266	85	1	1040	31	14	21	32	1.94
463969--464768	402	2.0	402	84	1	1037	31	15	21	32	1.94
463954--464789	134	6.2	134	82	2	919	30	15	21	32	1.94
465142--465231	42	2.2	42	80	6	103	30	21	17	31	1.96
465045--465475	232	1.8	233	83	2	571	32	17	16	33	1.92
468278--468340	12	5.3	11	74	22	56	3	19	0	77	0.90
468260--468376	16	7.2	17	71	24	83	2	23	0	73	0.96
468279--468364	34	2.6	33	85	5	129	3	22	0	74	0.97
468265--468363	9	12.0	8	70	19	53	3	22	0	74	0.95
469332--469504	55	3.2	52	77	11	179	43	17	5	32	1.73
469542--469888	55	6.6	55	80	11	377	41	14	10	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469603--469897	152	1.9	152	88	1	439	42	14	10	32	1.80
470409--471147	370	2.0	370	95	1	1347	28	19	17	33	1.95
471517--471595	28	2.8	28	88	1	113	21	3	35	39	1.72
472249--472332	10	8.4	10	74	12	66	1	17	1	79	0.86
472247--472351	20	5.4	19	76	17	99	2	17	1	78	0.97
472224--472351	27	4.8	25	74	17	77	2	18	2	76	1.00
472609--472657	2	24.5	2	95	0	89	46	2	0	51	1.12
475838--475879	21	2.0	21	100	0	84	52	9	4	33	1.55
476157--476205	21	2.3	22	82	3	55	67	10	4	18	1.36
476200--476266	14	4.8	14	70	7	55	67	1	8	22	1.27
476200--476279	14	5.7	14	72	5	54	65	1	10	23	1.31
480915--481496	136	4.2	136	87	3	801	24	19	23	33	1.97
481553--481597	20	2.3	20	81	14	58	33	0	24	42	1.55
482587--482673	42	2.1	41	87	6	122	21	20	33	24	1.97
483231--483266	17	2.1	17	90	10	56	52	5	0	41	1.24
483406--483787	191	2.0	191	98	0	746	39	17	15	27	1.90
484573--484619	25	1.9	24	87	12	69	61	0	0	38	0.96
484612--484660	23	2.2	23	89	10	75	55	0	0	44	0.99
484602--484660	23	2.5	25	76	18	63	55	0	0	44	0.99
484629--484694	34	1.9	34	87	6	98	59	3	0	37	1.13
495803--495877	32	2.4	30	78	12	80	34	29	21	14	1.93
498133--498165	16	2.1	16	94	0	57	21	9	18	51	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499275--499361	37	2.4	37	94	0	147	51	8	12	27	1.67
500328--500466	69	2.0	69	98	1	271	35	17	4	43	1.69
505227--505275	2	24.5	2	100	0	98	48	0	0	51	1.00
507924--507973	20	2.5	20	80	0	64	38	20	16	26	1.92
508146--508196	22	2.3	22	89	0	75	21	43	13	21	1.87
508139--508196	22	2.7	21	81	2	62	20	43	17	18	1.89
510264--510304	21	2.0	21	85	0	55	21	14	31	31	1.94
510379--510437	21	2.8	21	94	0	100	20	13	27	38	1.90
510733--510851	42	2.8	42	87	0	139	21	36	18	23	1.95
510729--510836	21	5.1	21	80	4	110	21	37	17	24	1.94
510760--510851	21	4.4	21	83	5	98	20	36	20	21	1.95
511864--511895	6	5.3	6	100	0	64	50	0	34	15	1.45
512156--512304	64	2.3	64	94	0	253	28	2	17	51	1.56
512372--512433	20	3.1	20	73	0	70	30	14	24	30	1.95
514944--515001	24	2.3	26	85	5	75	41	17	13	27	1.87
515753--515790	16	2.5	15	84	12	51	65	0	5	28	1.14
515927--515995	20	3.6	19	79	13	70	34	11	23	30	1.90
515947--516034	40	2.2	40	85	4	115	36	13	22	27	1.92
537338--537431	48	2.0	48	89	0	143	27	6	43	22	1.77
538072--538114	21	2.0	21	81	0	50	30	30	25	13	1.94
539721--539776	23	2.4	23	78	0	58	25	26	19	28	1.99
544985--545052	23	3.0	23	82	0	82	20	26	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545827--545862	15	2.4	15	100	0	72	19	5	55	19	1.62
550075--550121	19	2.6	19	83	12	64	61	2	0	36	1.08
550075--550121	17	2.6	17	78	18	51	61	2	0	36	1.08
550634--550679	3	15.3	3	90	0	74	39	0	0	60	0.97
552387--552420	17	1.9	18	88	5	52	44	5	8	41	1.60
552985--553035	24	2.1	25	82	10	70	33	1	1	62	1.17
557678--557725	22	2.3	22	86	10	66	81	0	16	2	0.79
562782--562836	22	2.5	22	93	0	101	34	10	14	40	1.81
563512--564197	76	9.0	76	96	0	1212	22	21	21	34	1.97
564350--564419	3	23.0	3	85	2	86	38	0	1	60	1.06
564350--564428	18	4.2	18	78	15	81	40	0	1	58	1.06
569166--569232	31	2.4	27	77	20	75	61	4	7	26	1.42
569178--569257	31	2.6	31	93	0	133	60	6	10	23	1.52
571805--571885	20	4.3	20	74	19	84	45	3	17	33	1.66
572452--572507	26	2.2	26	81	12	62	33	5	8	51	1.56
574551--574606	2	28.5	2	96	3	105	48	0	0	51	1.00
574825--574933	48	2.3	46	84	9	139	37	6	6	49	1.54
575075--575121	20	2.3	20	85	7	60	57	2	0	40	1.11
575858--575895	16	2.4	16	86	0	58	60	23	5	10	1.50
576814--576861	20	2.4	20	82	0	60	45	20	16	16	1.85
578819--578878	3	19.7	3	89	3	93	35	1	1	61	1.16
579817--579866	18	2.5	19	84	15	66	22	2	0	76	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579834--579862	12	2.5	12	94	5	51	17	0	0	82	0.66
583773--583968	100	2.0	101	86	3	279	36	23	19	20	1.95
584634--584784	80	1.9	80	84	2	205	28	25	21	25	1.99
585047--585120	3	24.3	3	94	2	130	33	1	1	63	1.11
585264--585325	21	3.0	20	79	9	70	20	27	17	33	1.96
585315--585366	21	2.5	20	84	3	59	38	15	23	23	1.92
585400--585509	20	5.5	20	92	0	148	27	27	19	26	1.99
585663--585696	12	2.9	12	86	4	52	17	41	5	35	1.74
586080--586149	21	3.3	21	68	5	61	21	20	37	21	1.95
586083--586204	42	2.9	41	79	7	111	23	18	36	21	1.95

Tables:   1   2   3   4   5   6