genome.fa.s8117.2.7.7.80.10.50.1000.3.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: VEPZ01008117.1 Hibiscus syriacus cultivar Beakdansim tig00110656_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1567030

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 808 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)
515769--515794	2	13.0	2	100	0	52	50	0	0	50	1.00
516458--516512	16	3.4	16	82	0	65	9	20	29	41	1.82
516458--516528	32	2.2	32	84	0	88	9	16	28	45	1.80
516468--516528	16	3.8	16	86	0	77	9	16	27	45	1.79
516467--516536	32	2.2	31	80	7	77	11	14	30	44	1.80
517634--517689	29	1.9	29	88	0	85	32	10	0	57	1.33
522272--522647	138	2.7	138	83	3	454	38	15	25	21	1.92
525915--526035	60	2.0	59	91	1	197	35	18	4	42	1.69
525939--526035	29	3.3	28	64	22	65	36	21	3	39	1.69
529357--529386	15	2.0	15	93	0	51	43	0	0	56	0.99
531068--531107	21	1.9	21	94	0	71	17	5	20	57	1.58
537251--537322	19	3.5	20	80	9	83	29	16	26	27	1.97
537251--537322	22	3.6	19	81	9	81	29	16	26	27	1.97
537670--537815	55	2.7	53	81	9	159	34	11	19	34	1.88
537673--537826	54	2.8	54	82	4	166	35	11	18	35	1.86
538096--538800	81	8.7	81	87	1	923	36	11	24	27	1.90
538096--538800	242	2.9	243	87	2	1015	36	11	24	27	1.90
538095--538800	323	2.2	322	87	2	995	36	11	24	27	1.90
538939--539028	45	2.0	45	95	0	162	50	7	16	25	1.72
544716--544771	21	2.7	21	88	0	85	23	19	30	26	1.98
546482--546793	156	2.0	156	99	0	615	22	19	20	38	1.94
556201--556241	21	2.0	21	85	0	55	41	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556185--556343	73	2.2	72	90	4	248	40	1	1	55	1.18
556521--556637	41	2.9	41	91	3	177	40	16	17	26	1.90
556655--556719	24	2.6	24	76	13	69	16	13	15	53	1.73
556983--557036	10	5.1	10	78	12	54	12	9	16	61	1.56
556993--557036	23	1.9	23	100	0	88	15	9	13	61	1.56
557043--557123	31	2.6	31	98	0	153	44	18	14	22	1.86
557637--557710	37	2.0	36	86	2	103	45	4	1	48	1.29
558254--558296	22	2.1	22	87	12	65	39	2	9	48	1.48
558892--558970	13	6.1	13	75	5	70	43	2	1	53	1.22
561562--561609	21	2.3	21	88	0	69	33	29	16	20	1.95
564505--564538	17	2.1	17	88	5	52	52	5	0	41	1.25
564504--564541	17	2.4	16	83	12	51	52	5	0	42	1.24
567126--567150	3	8.3	3	100	0	50	32	0	0	68	0.90
570290--570320	2	16.0	2	93	6	55	48	0	0	51	1.00
572061--572094	2	17.0	2	100	0	68	50	0	0	50	1.00
574390--574423	5	7.0	5	86	6	52	79	0	0	20	0.73
580137--580185	26	2.0	24	84	11	64	36	0	2	61	1.08
580710--580814	37	2.8	37	80	0	129	42	13	11	32	1.80
581375--581482	22	4.9	23	74	17	95	27	4	0	66	1.17
581434--581485	25	2.0	28	88	11	83	28	0	1	69	0.99
581496--581542	11	4.2	11	86	5	58	21	6	4	68	1.30
581641--581712	23	3.2	22	74	21	69	30	5	0	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582115--582178	27	2.4	27	76	19	64	15	7	3	73	1.19
583317--583354	20	1.9	20	89	10	60	7	26	0	65	1.19
586790--586876	31	2.8	29	77	17	86	78	8	11	2	1.05
587631--587681	22	2.3	22	96	0	93	39	29	13	17	1.88
588510--589864	106	12.8	106	89	1	1947	34	25	17	23	1.96
590615--590719	37	2.8	37	79	0	120	40	13	12	34	1.82
591263--591335	24	2.9	24	80	11	76	24	6	1	67	1.23
591328--591372	21	2.1	21	88	8	65	28	0	2	68	1.01
591277--591371	13	7.8	13	70	20	64	27	4	1	67	1.16
591387--591432	11	4.2	11	83	8	58	21	2	4	71	1.14
591388--591431	23	1.9	23	90	0	70	22	2	4	70	1.17
591906--591977	33	2.3	31	83	11	85	30	2	2	63	1.22
600009--600060	24	2.2	24	89	0	77	50	11	13	25	1.75
600917--600945	15	1.9	15	100	0	58	20	13	34	31	1.92
605445--605637	93	2.1	93	90	0	296	32	18	13	35	1.91
607159--607198	20	2.1	20	90	9	66	80	0	0	20	0.72
607159--607216	27	2.1	27	84	12	75	75	1	0	22	0.89
634216--634415	99	2.0	99	100	0	400	23	27	21	29	1.99
635739--635780	22	1.9	22	85	9	59	40	0	2	57	1.12
638885--638961	31	2.5	31	78	2	82	28	31	25	14	1.95
639831--639866	7	5.4	7	87	12	58	25	27	30	16	1.97
639831--639866	13	2.8	13	87	12	56	25	27	30	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639856--639913	17	3.4	17	92	0	98	18	22	41	17	1.90
639907--639957	19	2.7	19	90	6	77	23	31	27	17	1.97
639909--639957	9	5.1	10	78	9	57	24	32	24	18	1.97
644018--644391	187	2.0	187	94	0	658	31	7	19	41	1.79
646899--646958	31	1.9	31	93	0	102	35	11	26	26	1.91
647791--647857	22	3.0	22	100	0	134	26	26	26	19	1.99
648077--648136	30	2.0	31	90	3	95	33	23	6	36	1.81
648152--648221	29	2.4	29	92	0	113	38	12	10	38	1.77
648654--648695	21	2.0	21	85	0	57	16	26	28	28	1.97
648525--648674	67	2.2	67	88	2	212	17	26	27	28	1.97
654737--654803	22	3.0	22	100	0	134	26	26	26	19	1.99
655023--655082	30	2.0	31	90	3	95	33	23	6	36	1.81
655098--655167	29	2.4	29	92	0	113	38	12	10	38	1.77
655540--655580	20	2.0	20	90	0	64	7	31	29	31	1.85
655470--655621	67	2.3	66	86	3	196	17	26	26	28	1.97
655601--655642	21	2.0	21	85	0	57	16	26	28	28	1.97
657826--657880	20	2.8	20	88	2	85	47	3	23	25	1.68
663756--663785	2	15.0	2	100	0	60	50	0	0	50	1.00
665161--665639	240	2.0	242	98	0	935	27	15	21	35	1.93
669379--669420	17	2.5	17	96	0	75	71	0	0	28	0.86
669427--669614	96	2.0	96	81	12	226	43	7	2	46	1.45
669522--669783	37	7.0	36	85	6	308	43	7	2	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669573--669805	39	6.2	37	81	9	120	43	8	3	45	1.50
670469--670607	68	2.0	68	84	5	183	26	14	19	39	1.90
670567--670981	168	2.4	169	89	2	636	26	19	19	35	1.95
670550--670982	85	5.1	85	89	1	620	26	18	19	35	1.95
673019--673061	21	2.0	21	81	0	50	30	30	25	13	1.94
673042--673191	67	2.2	67	90	0	228	28	29	24	18	1.98
673155--673192	20	1.9	20	88	0	58	23	34	31	10	1.89
673558--673618	30	2.3	26	77	22	72	39	6	21	32	1.79
673706--674009	149	2.0	149	99	0	599	27	16	20	36	1.93
673988--674032	23	2.0	23	86	0	63	20	24	28	26	1.99
680075--680117	21	2.0	21	81	0	50	30	30	25	13	1.94
680097--680248	67	2.2	68	90	1	234	27	28	26	17	1.98
680615--680675	30	2.3	26	77	22	72	39	6	21	32	1.79
681043--681087	23	2.0	23	86	0	63	20	24	28	26	1.99
685880--685908	12	2.3	13	94	5	51	68	0	0	31	0.89
690707--690769	26	2.5	25	84	2	81	76	1	1	20	0.96
690764--690870	38	2.8	36	79	13	108	43	6	1	47	1.40
690811--691027	59	3.5	59	73	18	174	44	7	1	47	1.40
690849--690891	21	2.0	21	90	0	68	44	6	0	48	1.29
690772--690966	97	2.0	96	83	8	245	43	7	1	48	1.37
690865--691031	25	6.5	25	70	20	105	44	7	1	46	1.40
690864--691077	38	5.2	37	75	19	185	43	7	1	46	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690907--691073	91	1.9	88	88	6	255	43	8	2	46	1.47
690849--691077	129	1.8	125	88	5	352	43	7	1	47	1.42
694193--694246	3	18.0	3	92	0	63	61	0	0	38	0.96
695910--696021	49	2.3	50	81	9	131	16	31	31	20	1.95
696219--696305	35	2.5	34	80	12	97	54	10	8	27	1.62
698614--698652	18	2.2	18	95	4	71	64	2	0	33	1.08
698691--698740	10	5.0	10	82	0	55	44	0	30	26	1.55
721905--721949	4	11.2	4	100	0	90	73	0	0	26	0.84
732119--732164	19	2.6	18	86	10	67	69	0	4	26	1.07
740013--740078	30	2.3	28	79	12	71	42	3	1	53	1.25

Tables:   1   2   3   4   5   6   7