genome.fa.s8646.2.7.7.80.10.50.1000.3.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: VEPZ01008646.1 Hibiscus syriacus cultivar Beakdansim tig00111633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1024377

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 507 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)
568187--568221	14	2.5	14	100	0	70	37	22	20	20	1.95
590551--590584	3	11.3	3	93	0	59	67	2	0	29	1.05
592791--592826	5	6.8	5	93	6	54	22	0	0	77	0.76
592793--592831	17	2.4	17	91	4	62	25	0	0	74	0.82
593034--593058	12	2.1	12	100	0	50	76	8	0	16	1.02
597984--598011	3	9.3	3	100	0	56	32	32	0	35	1.58
598767--598819	4	12.5	4	78	11	52	26	5	1	66	1.25
599677--599804	64	2.0	67	87	7	192	34	18	18	28	1.95
600289--600339	23	2.2	23	92	0	84	17	27	27	27	1.98
602928--602982	21	2.6	21	91	5	85	49	7	18	25	1.73
606474--606601	64	2.0	67	90	7	210	34	19	19	26	1.96
607050--607275	103	2.2	103	95	1	409	25	13	24	36	1.92
609048--609078	3	10.3	3	100	0	62	67	32	0	0	0.91
615144--615168	10	2.5	10	100	0	50	80	0	0	20	0.72
615177--615231	26	2.2	26	83	9	69	74	0	7	18	1.04
615192--615237	17	2.7	18	77	16	53	73	0	6	19	1.04
615214--615251	20	1.9	20	88	0	58	73	2	2	21	1.07
615202--615309	24	4.7	23	70	20	66	70	1	7	20	1.21
615718--615770	23	2.3	23	90	0	79	20	18	30	30	1.97
618361--618480	35	3.3	36	89	5	181	43	20	5	31	1.73
618412--618472	21	3.2	21	65	29	64	42	21	4	31	1.74
618363--618507	35	4.1	36	83	11	142	41	19	6	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622543--622577	16	2.1	17	89	5	54	42	22	0	34	1.54
622972--623091	35	3.3	36	88	5	172	43	19	5	32	1.72
623023--623083	21	3.2	21	65	29	64	42	21	4	31	1.74
622993--623118	35	3.6	36	85	9	136	42	18	7	32	1.77
628449--628581	6	22.2	6	98	0	239	2	16	49	31	1.58
628859--628913	22	2.5	22	75	0	56	29	9	23	38	1.85
634386--634424	5	7.8	5	91	0	51	2	41	33	23	1.68
634422--634511	6	15.2	6	95	2	155	2	16	50	31	1.58
634788--634842	22	2.5	22	75	0	56	29	9	23	38	1.85
639754--639799	24	1.9	24	86	0	65	34	19	23	21	1.96
639778--639900	23	5.3	23	80	4	115	36	22	23	17	1.94
639804--639900	46	2.1	46	86	0	131	37	21	23	17	1.94
640097--640176	40	2.1	38	85	4	106	43	18	6	31	1.75
640167--640258	46	2.0	46	93	4	159	39	21	10	28	1.87
645761--645827	30	2.2	31	81	2	73	34	23	19	22	1.97
645787--645911	31	4.0	32	77	13	125	32	20	18	29	1.96
646257--646310	25	2.2	26	80	12	69	38	14	0	46	1.45
646264--646318	25	2.2	24	78	9	58	43	14	0	41	1.45
652069--652137	29	2.3	30	82	5	77	28	15	7	47	1.72
655538--655629	43	2.1	43	89	0	139	35	18	22	22	1.95
655554--655660	43	2.5	43	84	3	126	37	18	19	24	1.94
659237--659403	39	4.3	36	76	15	131	13	6	3	76	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659305--659401	4	24.8	4	75	19	57	15	4	3	77	1.05
659334--659394	19	3.2	19	92	2	86	11	4	4	78	1.06
659255--659394	20	7.2	20	74	15	100	13	5	4	76	1.12
659266--659403	19	7.1	18	74	17	84	15	5	3	76	1.10
659197--659394	20	10.2	18	69	18	96	14	7	3	75	1.15
661954--662213	95	2.7	94	85	7	337	32	17	17	32	1.93
663083--664800	83	20.6	83	87	1	2186	35	22	18	24	1.96
666845--666923	4	20.0	4	70	21	51	21	3	2	72	1.13
666886--666923	20	1.9	20	94	0	67	26	0	0	73	0.83
673805--673850	2	23.0	2	100	0	92	50	0	0	50	1.00
675562--675601	15	2.6	16	84	11	57	25	0	0	75	0.81
675632--675656	2	12.5	2	100	0	50	48	0	0	52	1.00
675999--676030	15	2.0	17	88	11	50	21	6	0	71	1.07
676013--676060	23	2.0	24	88	4	71	16	10	2	70	1.24
676014--676071	23	2.6	23	75	22	68	18	8	1	70	1.21
676961--677017	25	2.3	25	79	11	64	14	17	0	68	1.21
679286--679336	24	2.1	24	82	13	61	19	5	5	68	1.31
686393--686436	23	1.9	23	85	0	61	75	4	20	0	0.98
686473--686521	7	6.7	7	90	9	80	81	2	16	0	0.78
686473--686521	15	3.4	14	89	10	80	81	2	16	0	0.78
686474--686521	22	2.2	22	92	7	64	83	2	14	0	0.74
687454--688308	106	8.4	105	80	10	947	34	24	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687569--688261	94	7.0	95	78	11	721	34	24	18	22	1.96
687774--687929	43	3.4	43	68	13	123	35	26	18	19	1.95
687464--688261	200	4.0	200	92	0	1242	34	24	18	22	1.96
690082--690116	18	1.9	18	88	11	54	31	0	0	68	0.90
690072--690120	22	2.2	22	85	7	64	32	0	0	67	0.91
693061--693126	31	2.1	31	91	0	105	24	12	15	48	1.78
693527--693632	39	2.7	38	77	11	108	39	14	2	43	1.60
693877--693928	21	2.3	23	75	21	56	42	3	0	53	1.19
694086--694131	21	2.2	21	88	0	65	30	28	17	23	1.97
694139--694239	21	4.6	21	69	20	64	30	21	23	23	1.99
694186--694259	20	3.7	20	79	16	89	33	18	21	25	1.96
694182--694265	41	2.0	41	97	0	159	33	19	22	25	1.97
694398--694445	6	8.5	6	97	2	75	29	54	16	0	1.43
695037--695161	21	6.0	21	75	12	114	35	23	20	21	1.96
695037--695155	63	1.9	63	92	0	202	35	23	19	21	1.96
695371--695428	27	2.2	28	79	14	70	41	3	0	55	1.17
700570--700594	11	2.3	11	100	0	50	72	0	0	28	0.86
700620--700662	15	2.9	15	82	6	52	79	4	4	11	1.04
700602--700663	25	2.5	25	82	7	74	79	3	4	12	1.02
700682--700763	38	2.4	33	78	19	87	73	2	1	23	1.03
703086--703169	40	2.1	40	88	4	125	22	3	35	38	1.72
705823--705911	22	4.0	22	80	12	101	58	14	11	15	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
707301--707656	176	2.0	178	98	1	689	26	8	12	53	1.65
708748--708789	19	2.2	19	91	4	66	21	11	7	59	1.56
722474--722563	29	3.0	28	76	10	81	34	14	5	45	1.68
731758--731810	20	2.7	19	86	13	72	39	15	16	28	1.89
732848--732893	22	2.1	22	95	0	83	28	32	0	39	1.57
733541--733575	15	2.2	16	90	5	54	17	17	0	65	1.27
733600--733630	15	2.1	15	100	0	62	22	6	0	70	1.09
735070--735150	41	2.0	41	95	0	144	50	8	6	34	1.58
736453--736515	28	2.2	28	83	5	74	25	14	7	52	1.68
736470--736523	28	1.9	28	96	0	99	18	16	7	57	1.62
736948--737021	18	4.1	18	91	0	103	22	29	22	24	1.99
743556--743620	29	2.2	29	94	0	121	43	9	6	41	1.61
748095--748172	34	2.2	35	86	4	104	16	8	38	35	1.80
748731--748777	18	2.7	18	90	3	69	27	29	8	34	1.87
750080--750208	58	2.2	59	87	2	179	31	20	6	41	1.79
750362--750525	60	2.7	58	83	7	197	40	6	21	31	1.78
750923--750977	7	7.9	7	91	0	92	32	29	23	14	1.94
750923--750980	21	2.8	21	100	0	116	36	27	22	13	1.92
751144--751272	6	21.0	6	94	4	204	0	0	35	64	0.94
756399--756456	29	2.0	30	89	3	91	37	22	6	32	1.81
757408--757441	15	2.4	14	90	9	59	50	29	5	14	1.67
758172--758204	17	1.9	17	93	0	57	48	6	3	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
758914--758997	33	2.7	29	77	12	78	47	2	2	47	1.28
762217--762268	21	2.5	21	90	0	77	40	13	21	25	1.89
762223--762271	21	2.3	21	92	0	80	38	14	22	24	1.91
763603--763722	43	2.8	43	85	8	165	52	0	1	45	1.16
768873--768903	14	2.2	14	94	0	53	25	22	29	22	1.99
770062--770088	13	2.1	13	100	0	54	7	0	7	85	0.75
771213--771275	26	2.4	25	84	10	72	66	1	0	31	1.01
771194--771274	21	3.8	22	78	18	75	65	2	0	32	1.06
771318--771344	13	2.1	13	100	0	54	40	7	7	44	1.60
771291--771480	36	5.0	37	82	5	204	41	8	5	44	1.58

Tables:   1   2   3   4   5