genome.fa.s417.2.7.7.80.10.50.1000.3.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1058 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)
441943--441974	2	16.0	2	100	0	64	50	0	0	50	1.00
445079--445116	20	1.9	20	94	0	67	34	21	18	26	1.96
445745--445793	23	2.1	24	88	3	73	22	14	26	36	1.92
449229--449266	20	1.9	20	94	0	67	34	21	18	26	1.96
449895--449943	23	2.1	24	88	3	73	22	14	26	36	1.92
453356--453413	20	2.7	20	81	10	62	32	20	18	27	1.97
458372--458418	24	2.0	24	83	8	60	63	27	4	4	1.31
473870--473957	28	3.0	29	78	6	115	42	3	10	44	1.55
474441--474513	2	36.5	2	100	0	146	49	0	0	50	1.00
474732--474899	60	2.8	59	75	7	160	32	20	5	41	1.75
474757--474892	60	2.2	60	83	3	166	30	22	5	40	1.78
475044--475295	121	2.1	122	87	8	365	41	4	22	30	1.74
475044--475235	60	3.2	60	78	7	244	42	5	22	30	1.75
475088--475327	60	4.0	60	75	12	208	42	4	22	30	1.74
475204--475300	29	3.3	29	65	13	72	41	3	22	32	1.70
476422--476494	23	3.2	23	98	0	137	35	21	8	34	1.84
476914--476986	23	3.2	23	90	0	110	41	20	4	34	1.72
477403--477475	23	3.2	23	88	0	110	38	20	5	35	1.76
476037--478380	489	4.8	489	94	1	4007	40	10	7	41	1.67
477892--477964	23	3.2	23	92	0	110	39	20	4	35	1.72
476037--478380	981	2.4	981	93	1	4051	40	10	7	41	1.67
478612--479388	260	3.0	259	93	4	1291	30	17	14	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482272--482518	120	2.1	120	93	0	422	38	16	13	31	1.87
482107--482701	303	2.0	303	95	0	1082	34	16	14	34	1.89
482392--483707	183	7.2	183	95	0	2295	33	16	14	36	1.89
487001--487061	19	3.3	18	88	2	59	52	11	1	34	1.47
487013--487061	19	2.6	19	96	0	89	55	10	2	32	1.45
488850--488915	33	2.0	33	90	0	105	22	48	0	28	1.51
488949--489013	21	3.1	21	93	0	103	16	30	10	41	1.83
491241--491287	20	2.4	19	82	10	67	19	17	10	53	1.72
491422--491468	20	2.4	19	82	10	67	19	17	10	53	1.72
491208--491680	181	2.6	182	91	0	723	26	16	13	42	1.86
492109--492157	6	8.2	6	100	0	98	32	0	51	16	1.45
492545--492942	195	2.0	195	88	1	593	25	12	27	34	1.91
496206--496250	23	2.0	23	86	0	63	26	28	24	20	1.99
496229--496533	149	2.0	149	99	0	601	34	21	16	27	1.95
496852--496889	19	2.1	19	85	5	51	39	21	0	39	1.53
496914--496960	16	3.0	16	75	15	53	42	17	6	34	1.74
498017--498061	21	2.1	21	84	8	56	20	24	26	28	1.99
501289--501333	23	2.0	23	86	0	63	26	28	24	20	1.99
501312--501765	149	3.0	149	98	0	872	34	21	16	28	1.95
501869--501925	31	1.9	30	82	7	71	28	21	8	42	1.82
503336--503380	21	2.1	21	87	0	63	15	24	28	31	1.96
504186--504559	101	3.7	101	79	3	380	37	11	10	40	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506602--507154	187	3.0	184	79	5	574	34	16	8	40	1.79
510917--510945	14	2.1	14	100	0	58	37	6	0	55	1.27
511707--511770	33	1.9	33	93	0	110	35	1	14	48	1.53
519835--519907	23	3.3	23	82	3	78	68	1	5	24	1.19
524864--524896	17	1.9	17	93	0	57	39	33	0	27	1.57
529769--529803	9	3.9	9	85	14	54	34	0	0	65	0.93
529771--529809	18	2.2	17	95	4	69	33	0	0	66	0.92
533238--533284	22	2.1	22	100	0	94	29	14	29	25	1.95
535801--535916	51	2.3	49	83	5	144	25	28	20	25	1.99
536290--536351	23	2.7	24	74	20	60	25	11	14	48	1.77
536607--536671	32	2.0	32	93	0	112	36	16	18	27	1.93
546001--546277	53	5.2	53	90	2	419	28	28	13	29	1.94
545993--546277	108	2.6	108	91	2	448	28	28	13	29	1.94
545993--546334	108	3.2	109	84	8	441	28	27	14	29	1.95
546243--547031	51	15.3	51	85	7	909	23	24	19	33	1.97
546262--547038	258	3.0	256	90	3	1179	23	24	19	32	1.97
547438--547505	36	1.9	35	84	3	91	20	20	23	35	1.96
548684--548936	125	2.0	125	87	1	364	24	24	16	33	1.96
552836--552932	21	4.6	21	83	7	108	16	21	20	41	1.90
554969--555016	10	5.2	9	85	14	55	47	2	0	50	1.12
554969--555010	2	21.0	2	90	9	68	47	2	0	50	1.14
557874--557918	23	2.0	22	86	4	63	37	0	20	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560763--560893	66	2.0	66	90	3	210	23	12	22	41	1.88
561214--561265	25	2.0	25	82	17	63	34	0	1	63	1.06
574932--575026	47	2.0	47	83	0	118	30	17	11	40	1.86
575705--575740	17	2.1	17	89	0	54	55	11	5	27	1.57
575736--575909	60	2.9	59	75	13	167	36	13	6	42	1.72
587083--587115	16	2.1	16	88	5	50	0	15	0	84	0.61
596445--596470	3	8.7	3	100	0	52	69	0	0	30	0.89
596466--596518	22	2.4	22	90	0	79	66	0	16	16	1.26
598032--598077	23	2.0	23	83	8	58	58	8	2	30	1.40
604271--604301	15	2.1	15	100	0	62	25	6	19	48	1.72
605979--606018	20	2.0	20	90	4	64	37	0	7	55	1.29
606211--606317	35	3.0	35	95	2	187	20	38	27	14	1.91
606244--606302	17	3.4	17	68	21	50	22	40	25	11	1.88
607618--607665	19	2.5	20	86	3	71	54	6	10	29	1.59
608946--609020	23	3.3	23	79	3	89	29	25	26	18	1.98
609284--609312	7	4.3	7	95	4	51	44	24	0	31	1.54
609648--609700	22	2.4	21	75	9	52	37	15	1	45	1.57
610334--610391	24	2.4	24	85	0	71	29	10	25	34	1.89
615122--615199	41	2.0	40	89	5	122	15	26	5	52	1.63
616907--616965	31	1.9	31	92	0	100	40	6	10	42	1.65
616980--617118	54	2.6	54	94	0	242	52	11	1	34	1.46
617013--618138	32	39.4	31	74	18	694	53	13	0	32	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617045--617094	22	2.2	22	82	3	64	56	14	2	28	1.49
616994--617765	26	27.5	26	70	13	122	52	14	0	32	1.44
617240--617282	22	2.0	22	100	0	86	51	13	0	34	1.42
617208--618115	58	16.0	55	69	12	529	53	13	0	33	1.42
617242--617290	22	2.2	22	88	3	71	55	14	0	30	1.40
617368--617421	14	3.6	14	72	18	54	57	5	0	37	1.22
617529--617577	22	2.2	22	82	7	55	53	12	0	34	1.39
617378--617717	171	2.0	170	96	1	628	52	14	0	33	1.42
617262--618116	403	2.1	398	96	1	1566	53	14	0	32	1.41
617781--618084	80	3.7	80	85	10	448	53	13	0	32	1.40
617887--617940	14	3.6	14	72	18	54	57	5	0	37	1.22
617929--617971	22	2.0	22	95	0	77	51	11	0	37	1.39
617931--617979	22	2.2	22	85	3	62	55	12	0	32	1.37
617985--618059	22	3.2	22	75	14	69	56	16	0	28	1.41
617951--618162	112	1.9	111	86	8	306	53	11	0	34	1.38
618036--618126	18	5.5	18	66	19	72	53	12	0	34	1.38
618086--618273	15	12.5	15	73	18	133	50	3	0	46	1.17
618180--618256	38	2.0	39	89	2	120	49	0	0	50	1.00
618118--618271	53	2.9	54	77	4	163	50	1	0	48	1.12
618727--618856	43	3.0	43	79	8	129	26	19	24	29	1.98
620568--620662	2	47.5	2	100	0	190	49	0	0	50	1.00
621753--621910	21	7.8	20	70	7	77	37	24	17	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621878--622188	20	15.5	20	81	6	79	34	26	19	20	1.96
621878--622227	40	8.7	40	87	3	429	35	26	18	20	1.95
621897--622227	60	5.5	59	84	4	403	34	26	18	20	1.96
621916--622227	20	15.6	19	86	4	363	33	25	18	21	1.96
622904--622950	24	2.0	24	87	8	69	25	14	21	38	1.92
623125--623149	12	2.1	12	100	0	50	72	0	28	0	0.86
625433--625706	19	15.4	19	81	15	345	46	18	21	13	1.83
625433--625728	33	8.5	33	77	14	160	45	18	21	14	1.84
625461--625728	109	2.5	105	90	6	450	45	17	22	14	1.84
625461--625728	52	5.0	52	92	4	446	45	17	22	14	1.84

Tables:   1   2   3   4   5   6   7   8   9