genome.fa.s8785.2.7.7.80.10.50.1000.3.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: VEPZ01008785.1 Hibiscus syriacus cultivar Beakdansim tig00111917_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1341157

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 675 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)
421505--421651	43	3.5	42	76	14	126	48	7	15	28	1.72
421662--421726	29	2.2	29	83	0	85	50	6	20	23	1.70
421673--421733	29	2.1	29	87	3	88	40	9	27	21	1.85
421925--422037	60	1.9	60	90	0	181	41	11	9	37	1.74
421912--422058	60	2.4	59	82	4	179	38	12	13	36	1.82
423259--423875	256	2.4	259	85	10	821	40	18	12	28	1.87
429389--429453	25	2.7	25	80	17	68	78	1	3	16	0.96
429389--429521	16	7.8	16	71	17	63	74	2	8	15	1.15
429591--429670	2	40.0	2	100	0	160	50	0	0	50	1.00
429707--429737	2	15.5	2	100	0	62	51	0	0	48	1.00
430037--430061	2	12.5	2	100	0	50	52	0	0	48	1.00
431745--432035	120	2.4	123	86	2	390	25	15	25	34	1.95
431943--432235	66	4.4	66	72	10	263	25	16	24	33	1.96
431823--432235	186	2.1	193	84	7	527	25	16	24	33	1.96
432316--432551	64	3.7	64	86	4	341	33	12	19	34	1.90
435074--435114	21	2.0	21	85	0	55	19	29	4	46	1.71
437209--437259	4	12.5	4	84	15	61	76	1	1	19	0.98
437207--437272	12	5.5	11	78	18	53	75	1	3	19	1.01
437214--437267	16	3.3	17	80	15	60	75	1	1	20	0.98
437209--437276	33	2.1	33	84	15	88	76	1	2	19	0.99
437212--437307	17	5.7	18	69	23	57	75	1	7	16	1.09
437237--437306	8	8.4	8	77	17	54	74	0	8	17	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437272--437310	15	2.5	15	88	12	53	71	0	15	12	1.14
437791--437827	15	2.4	16	86	13	51	32	2	5	59	1.34
438289--438536	130	1.9	130	93	0	424	35	12	15	36	1.86
438932--439007	35	2.2	35	92	0	125	35	1	23	39	1.63
439327--439363	14	2.7	14	88	12	51	70	0	2	27	1.01
439435--439468	9	3.8	9	96	0	59	76	0	2	20	0.92
440565--440605	22	1.9	22	90	5	66	14	24	26	34	1.94
449898--449937	16	2.5	16	87	0	53	32	10	2	55	1.47
449939--449974	19	1.9	19	94	5	65	47	0	2	50	1.15
460381--460507	44	3.2	43	65	28	107	26	0	11	60	1.37
460419--460480	32	1.9	32	83	6	81	24	0	11	64	1.26
460378--460587	76	2.8	76	92	1	350	27	0	11	60	1.37
461284--461336	15	3.3	15	76	7	52	24	1	0	73	0.93
461295--461344	18	2.8	18	75	3	57	20	4	0	76	0.95
473581--473614	17	2.1	16	88	5	50	61	5	17	14	1.52
476459--476508	25	2.0	25	88	0	73	30	8	2	60	1.37
478910--479034	47	2.8	46	85	7	159	39	8	19	33	1.81
481665--481751	17	5.2	17	74	16	76	80	1	14	3	0.90
481662--481752	12	8.3	11	75	19	75	79	1	16	3	0.93
481666--481780	50	2.2	53	83	9	139	75	1	17	5	1.07
481665--481740	21	3.7	19	77	8	62	81	1	13	3	0.89
481666--481752	29	2.9	29	77	14	79	79	1	16	3	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485766--485942	90	2.0	89	92	1	291	38	10	6	45	1.63
492774--492843	20	3.3	21	69	23	56	50	1	5	42	1.35
494027--494151	47	2.8	46	86	7	168	40	6	20	32	1.78
503818--503858	20	2.0	20	95	0	73	26	24	21	26	2.00
503880--503921	21	2.0	21	100	0	84	23	28	23	23	2.00
504575--504714	31	4.5	31	88	0	199	42	20	17	19	1.90
509276--509315	20	2.0	20	95	0	71	22	27	30	20	1.98
510001--510110	31	3.5	31	87	0	157	40	21	18	19	1.91
512852--512892	21	2.0	21	90	0	64	31	24	14	29	1.95
525686--526187	80	6.3	80	85	2	602	37	16	17	28	1.92
525685--526186	239	2.1	238	85	2	668	37	16	17	28	1.92
529052--529090	18	2.2	18	85	0	51	33	30	12	23	1.92
529549--529593	23	2.0	23	86	0	63	42	8	13	35	1.75
531109--531136	13	2.2	13	100	0	56	28	17	21	32	1.96
533591--533622	16	2.0	16	93	0	55	40	18	0	40	1.51
535239--535283	16	2.8	15	78	15	54	71	4	2	22	1.15
545717--545750	2	17.0	2	100	0	68	50	0	0	50	1.00
545939--546001	29	2.2	29	88	5	92	49	1	19	30	1.58
546071--546120	22	2.3	22	79	6	57	54	4	0	42	1.19
546239--546269	2	15.5	2	100	0	62	51	0	0	48	1.00
546264--546298	17	2.1	17	94	0	61	48	5	5	40	1.51
549076--549157	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553844--553925	29	2.8	29	94	1	137	32	14	9	42	1.79
564835--564877	22	2.0	21	82	13	52	23	23	6	46	1.76
568791--568816	11	2.4	11	100	0	52	23	38	15	23	1.92
569551--569592	9	4.8	9	85	5	59	30	14	2	52	1.54
569551--569592	17	2.4	18	84	8	59	30	14	2	52	1.54
569837--569872	18	2.1	17	89	5	54	25	27	16	30	1.97
569875--569964	31	2.9	31	96	0	162	35	21	21	22	1.96
570744--570800	21	2.8	21	86	2	71	28	24	19	28	1.98
576489--576555	34	1.9	34	82	14	84	47	17	11	22	1.80
576726--576751	11	2.4	11	100	0	52	23	38	15	23	1.92
578994--579032	16	2.5	16	91	4	62	46	0	0	53	1.00
583304--583352	22	2.2	22	89	7	73	40	10	14	34	1.79
584443--584569	41	3.1	41	71	8	123	33	13	18	35	1.89
584420--584697	83	3.4	83	74	5	240	34	12	16	36	1.87
590873--590904	15	2.1	15	100	0	64	21	15	12	50	1.77
592281--592372	43	2.2	42	92	2	148	34	16	19	29	1.94
592339--592484	43	3.4	42	75	10	125	30	13	20	35	1.91
592378--592582	43	4.8	42	74	6	117	30	18	19	31	1.95
592958--592994	19	1.9	19	88	0	56	32	29	13	24	1.93
593078--593125	20	2.4	20	89	0	78	27	31	18	22	1.97
593713--593754	19	2.2	20	91	4	68	52	21	9	16	1.72
593741--593809	20	3.5	20	87	0	93	36	24	20	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593849--593888	20	2.0	20	95	0	71	27	15	22	35	1.94
594082--594127	21	2.2	21	81	14	60	52	6	10	30	1.62
596183--596246	22	3.0	21	88	6	69	20	14	43	21	1.87
596193--596246	22	2.5	22	96	0	99	16	14	44	24	1.85
596424--596518	21	4.6	21	76	2	68	31	20	21	27	1.97
596412--596527	41	2.8	41	74	3	108	31	18	22	26	1.97
597167--597207	19	2.0	21	86	9	59	31	0	26	41	1.56
597196--597247	21	2.5	21	80	20	56	36	0	17	46	1.48
597334--597392	29	2.0	29	87	6	84	42	13	13	30	1.83
598070--598106	20	1.9	19	89	10	58	45	5	24	24	1.74
606103--606141	16	2.4	16	87	8	53	30	0	2	66	1.05
606120--606191	13	5.5	13	75	9	67	38	0	1	59	1.06
606322--606375	17	3.2	17	72	0	54	31	0	3	64	1.11
607883--607930	21	2.3	21	85	0	60	25	39	12	22	1.89
607934--608006	21	3.5	21	88	7	112	17	34	27	20	1.95
608539--608603	34	2.1	33	86	13	93	53	3	4	38	1.37
609065--610083	128	8.4	120	83	13	1178	32	17	25	23	1.97
623397--623437	21	2.0	21	85	0	55	34	17	12	36	1.87
623786--624118	166	2.0	166	97	0	621	26	21	18	33	1.96
627199--627252	21	2.6	21	84	0	72	31	11	14	42	1.81
630647--630718	32	2.3	30	79	11	83	40	0	1	58	1.07
630648--630751	47	2.2	46	78	16	106	38	0	2	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632396--632443	21	2.3	21	85	0	60	25	39	12	22	1.89
632447--632540	21	4.5	21	89	5	136	18	32	27	21	1.96
632423--632540	42	2.8	42	82	7	141	19	33	24	22	1.97
633058--633164	34	3.1	34	87	0	151	55	3	3	37	1.36
633516--634015	128	3.9	128	95	1	862	33	20	23	22	1.97
634086--634126	8	5.2	8	82	5	57	36	29	0	34	1.58
643366--643430	25	2.6	25	100	0	130	32	30	0	36	1.58
657058--657259	40	5.1	40	97	0	386	23	17	26	32	1.97
664255--664336	40	2.0	40	100	0	164	23	17	26	32	1.96
665595--665660	24	2.8	23	78	14	71	34	12	3	50	1.55

Tables:   1   2   3   4   5   6