genome.fa.s692.2.7.7.80.10.50.1000.3.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: VEPZ01000692.1 Hibiscus syriacus cultivar Beakdansim tig00001349_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1095174

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 561 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)
366758--366790	16	2.1	16	100	0	66	6	12	24	57	1.57
391823--391865	13	3.0	15	83	13	63	46	0	0	53	1.00
394107--394177	31	2.3	31	80	2	81	35	14	23	26	1.93
401377--401485	35	3.0	36	90	5	166	44	18	5	31	1.72
401414--401477	20	3.4	20	66	29	59	45	18	4	31	1.70
407991--408044	18	2.7	19	75	13	56	40	3	3	51	1.37
423316--423345	2	15.0	2	100	0	60	50	0	0	50	1.00
431373--431417	23	2.0	23	81	0	54	57	4	2	35	1.31
432602--432644	3	14.7	3	81	13	54	65	2	0	32	1.06
432604--432644	16	2.5	17	88	7	59	65	2	0	31	1.05
432602--432644	19	2.3	19	92	8	70	65	2	0	32	1.06
432965--433392	112	3.8	112	92	2	682	26	20	16	36	1.94
438343--438543	72	2.7	72	83	4	224	33	17	19	28	1.95
440916--440954	7	5.6	7	96	0	69	64	10	12	12	1.51
440874--440947	14	4.6	15	70	18	51	66	6	9	17	1.42
441130--441203	38	1.9	39	86	2	105	32	21	13	32	1.92
442053--442143	46	1.9	49	84	10	127	28	19	14	37	1.91
454430--454493	31	2.1	31	100	0	128	29	12	15	42	1.84
455721--455761	3	13.7	3	100	0	82	68	0	0	31	0.90
457313--457344	16	2.0	16	93	0	55	40	25	15	18	1.90
459562--459676	43	2.6	44	79	4	124	26	18	12	43	1.85
459820--460058	54	4.4	54	84	1	309	31	16	19	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459820--460058	107	2.2	108	87	0	327	31	16	19	32	1.94
460026--460093	35	1.9	35	100	0	136	32	16	19	32	1.93
459971--460146	89	2.0	88	90	1	280	31	17	21	30	1.96
460059--460165	54	2.0	54	90	0	169	28	16	22	31	1.96
460865--460925	22	2.7	23	84	5	79	50	18	19	11	1.76
463998--464121	18	6.9	18	89	0	176	18	19	33	29	1.96
465192--465252	21	2.9	21	83	7	79	22	14	21	40	1.90
469651--469713	33	2.0	33	84	12	87	50	3	9	36	1.51
470392--470421	11	2.7	11	89	0	51	43	0	0	56	0.99
470492--470547	26	2.2	26	83	0	67	26	12	19	41	1.87
473160--473213	24	2.2	24	83	0	63	31	12	18	37	1.89
473635--473688	24	2.2	24	83	0	63	31	12	18	37	1.89
476877--477318	76	5.7	77	81	6	475	37	10	16	35	1.82
476877--477318	155	2.9	154	84	4	552	37	10	16	35	1.82
477903--478104	73	2.8	74	84	4	250	33	14	6	45	1.71
478157--478399	81	3.1	77	74	7	227	39	13	8	38	1.75
479369--479407	20	2.0	19	90	5	60	43	2	2	51	1.29
479772--479958	92	2.0	93	89	2	286	18	16	22	42	1.89
483427--483541	57	2.0	57	91	3	187	22	21	22	33	1.98
492796--493264	233	2.0	235	99	0	924	33	14	20	32	1.92
512263--512317	27	2.0	27	100	0	110	36	18	18	27	1.94
517097--517161	3	21.7	3	96	0	121	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525171--525291	36	3.3	35	80	5	134	33	14	6	45	1.71
527196--527233	12	3.2	12	96	3	69	23	5	15	55	1.61
530265--530929	218	3.1	216	91	2	1048	17	23	24	34	1.96
530265--530919	304	2.2	304	94	0	1157	17	23	24	34	1.96
530265--530929	43	15.3	43	90	1	997	17	23	24	34	1.96
533595--533651	24	2.5	24	88	5	82	28	19	14	38	1.90
535147--535186	15	2.7	15	84	0	62	67	7	0	25	1.16
535407--535453	21	2.2	21	85	7	60	34	14	17	34	1.90
535536--535632	42	2.3	43	76	16	105	63	3	1	31	1.16
536046--536095	21	2.3	22	80	19	61	44	0	4	52	1.20
536500--536624	60	2.1	60	84	3	162	36	11	16	36	1.85
559505--559551	20	2.4	19	82	3	58	8	14	2	74	1.15
559570--559646	7	11.0	7	98	0	118	0	19	28	51	1.47
559918--559957	21	1.9	21	94	0	71	42	2	0	55	1.13
559978--560029	21	2.5	21	93	0	95	67	1	3	26	1.18
560854--560884	2	15.5	2	100	0	62	51	0	0	48	1.00
560958--561098	73	1.9	72	88	1	210	43	8	8	39	1.66
563112--563174	3	20.3	3	83	6	81	31	0	1	66	1.01
564754--564792	2	19.5	2	100	0	78	48	0	0	51	1.00
564898--564930	2	17.0	2	93	6	59	51	0	0	48	1.00
580418--580542	64	1.9	65	88	4	191	27	21	22	28	1.99
580419--580556	64	2.2	64	83	7	165	28	21	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581661--581756	30	3.2	30	94	1	149	31	27	20	20	1.98
581745--581840	31	3.1	31	96	1	176	29	18	18	33	1.95
582608--582652	21	2.1	21	87	0	63	15	24	28	31	1.96
583972--584349	188	2.0	189	99	0	749	25	21	29	23	1.99
585830--585909	22	3.6	22	79	5	99	23	25	26	25	2.00
585834--585928	44	2.2	42	87	7	129	24	22	26	27	2.00
585834--585928	21	4.4	21	77	9	86	24	22	26	27	2.00
590327--590384	22	2.5	23	91	8	100	17	44	22	15	1.86
596216--596273	21	2.7	21	78	7	64	25	34	25	13	1.93
597835--597882	18	2.6	19	83	6	55	45	22	29	2	1.64
597850--597895	18	2.5	18	89	3	65	45	23	30	0	1.53
601266--601312	19	2.5	20	93	6	80	19	19	36	25	1.95
601232--601372	75	1.9	75	81	8	171	28	19	23	29	1.98
606362--606397	18	1.9	19	88	5	56	19	11	5	63	1.46
609195--609234	6	6.5	6	88	5	62	17	5	0	77	0.94
612687--612729	18	2.4	18	84	7	52	20	6	4	67	1.33
623816--623931	59	2.0	59	81	13	141	29	25	5	39	1.77
624472--624498	2	13.5	2	100	0	54	48	0	0	51	1.00
625277--625378	26	3.8	26	77	10	96	33	3	4	57	1.38
625276--625380	30	3.6	30	73	10	92	33	3	4	58	1.37
625653--625692	20	2.0	20	90	4	64	37	0	7	55	1.29
626083--626130	19	2.5	20	82	3	62	52	6	12	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627861--627896	17	2.1	17	100	0	72	22	11	5	61	1.50
629408--629461	25	2.1	26	83	10	67	42	0	1	55	1.10
629408--629454	23	1.9	26	87	12	73	40	0	2	57	1.11
636008--636059	26	2.0	26	100	0	104	26	11	7	53	1.63
637002--637052	21	2.4	21	83	0	66	64	5	11	17	1.45
642269--642299	6	5.2	6	100	0	62	0	48	0	51	1.00
646069--646098	2	15.0	2	100	0	60	50	0	0	50	1.00
648777--648863	42	2.1	42	93	0	147	52	14	10	21	1.71
649910--649952	16	2.6	17	77	3	52	58	0	0	41	0.98
652019--652058	19	2.1	19	86	13	55	32	0	0	67	0.91
652111--652150	2	20.0	2	100	0	80	50	0	0	50	1.00
652672--652750	31	2.5	31	83	0	95	24	10	13	51	1.72
654372--654404	14	2.4	14	94	0	57	60	15	12	12	1.59
654448--654496	23	2.1	23	84	0	62	57	18	8	16	1.63
656671--656748	39	2.0	39	94	0	138	37	26	19	16	1.93
657023--657065	21	2.0	22	86	4	61	25	27	23	23	2.00
660361--660412	20	2.6	20	84	0	68	13	15	32	38	1.86
662335--662365	2	15.5	2	100	0	62	51	0	0	48	1.00
663431--663470	3	13.3	3	89	10	64	35	0	0	65	0.93
680649--680735	37	2.4	36	83	7	113	42	17	4	35	1.70
684794--684832	16	2.4	16	91	4	60	35	23	7	33	1.83
685223--685342	35	3.3	36	87	6	163	43	20	5	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688228--688254	13	2.1	13	100	0	54	44	22	0	33	1.53
694414--694496	24	3.3	25	72	24	75	39	3	1	55	1.25
694434--694535	25	4.1	24	75	17	84	41	3	0	53	1.26
694480--694519	21	1.9	21	84	0	53	42	5	0	52	1.23
694959--695022	23	2.8	23	83	6	69	51	1	3	43	1.26
695016--695062	23	2.0	24	83	8	60	40	10	0	48	1.38
695178--695243	23	2.8	23	80	11	80	51	1	6	40	1.36
695796--695880	42	2.1	40	88	4	125	49	0	1	49	1.08
695902--695935	13	2.7	13	90	4	52	8	17	58	14	1.61
695950--696019	35	2.0	36	88	2	106	17	34	12	35	1.88

Tables:   1   2   3   4   5