genome.fa.s9458.2.7.7.80.10.50.1000.2.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: VEPZ01009458.1 Hibiscus syriacus cultivar Beakdansim tig00113719_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1407308

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 671 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)
373724--373964	21	11.6	21	80	1	236	16	28	51	3	1.61
373768--373964	28	7.3	28	87	10	284	16	28	50	4	1.63
373796--373967	35	4.9	35	83	0	146	16	28	50	4	1.65
376326--376908	288	2.0	290	95	3	1066	27	27	23	21	1.99
378630--378757	20	6.3	20	80	5	105	32	25	16	26	1.96
378627--378743	61	1.9	61	82	0	144	35	23	16	24	1.95
378696--378759	20	3.2	20	95	0	110	26	28	20	25	1.99
378951--378994	22	2.0	22	90	0	70	27	38	15	18	1.91
379222--379282	20	3.1	19	81	6	59	18	19	19	42	1.89
379417--379471	25	2.2	24	78	15	58	20	9	18	52	1.71
381091--381132	20	2.1	20	86	0	57	35	26	21	16	1.94
381102--381146	20	2.3	20	80	3	56	40	20	22	17	1.92
381134--381219	32	2.7	32	94	3	147	47	22	18	11	1.80
381159--381224	19	3.8	19	71	22	72	46	21	19	12	1.82
381262--381316	19	2.9	19	81	10	76	14	23	23	38	1.92
383341--383404	18	3.7	19	80	19	86	46	18	20	14	1.83
383770--383857	20	4.3	20	81	8	88	23	18	26	31	1.97
383784--383878	41	2.3	41	83	3	120	20	21	24	34	1.96
385952--386045	21	4.5	20	80	10	100	18	30	27	23	1.97
385952--386045	42	2.2	42	85	7	120	18	30	27	23	1.97
386566--386672	34	3.1	34	87	0	151	55	5	3	35	1.41
387034--387515	128	3.8	128	94	0	840	32	21	24	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398969--399007	21	1.9	19	90	10	60	48	0	0	51	1.00
402774--402875	50	2.0	50	100	0	204	56	15	1	25	1.50
403019--403090	30	2.4	30	95	2	128	18	41	20	19	1.90
410993--411043	18	2.8	18	80	16	61	39	1	1	56	1.22
414625--414706	32	2.5	33	94	6	148	26	10	17	45	1.81
415753--415792	16	2.4	17	87	8	55	75	2	17	5	1.10
419249--419284	12	3.0	12	91	0	54	58	16	13	11	1.63
420722--420757	18	2.0	18	88	0	54	30	33	16	19	1.94
423253--423306	22	2.5	22	84	6	74	14	12	31	40	1.84
434701--434752	21	2.5	21	90	0	77	34	1	13	50	1.53
434721--434756	14	2.6	15	83	16	51	30	0	19	50	1.48
440572--440640	36	1.9	35	91	2	111	44	15	4	34	1.67
442726--442795	34	2.1	32	89	5	104	21	31	15	31	1.95
443077--443119	21	2.0	21	86	8	61	30	25	18	25	1.98
443155--443191	19	1.9	19	100	0	74	16	27	43	13	1.85
443221--443300	21	4.1	21	76	18	91	12	27	40	20	1.88
443244--443273	15	2.0	15	100	0	60	13	26	33	26	1.93
443223--443294	36	2.0	36	91	0	117	13	27	37	20	1.91
444702--444749	19	2.5	20	82	3	62	29	12	6	52	1.63
445609--445678	34	2.1	34	89	5	108	21	31	15	31	1.95
445960--446002	21	2.0	21	95	0	77	27	27	20	23	1.99
446038--446081	21	2.1	21	100	0	88	13	27	45	13	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446130--446159	15	2.0	15	100	0	60	13	26	33	26	1.93
449148--449207	2	30.0	2	100	0	120	50	0	0	50	1.00
451926--451957	2	16.0	2	100	0	64	50	0	0	50	1.00
453334--453407	30	2.5	30	90	0	121	35	9	32	22	1.87
453642--453695	25	2.2	24	83	6	72	18	12	40	27	1.87
458011--458334	71	4.6	71	78	7	320	26	12	17	43	1.85
461962--461995	15	2.3	15	89	0	50	11	5	20	61	1.50
464434--464458	12	2.1	12	100	0	50	52	32	16	0	1.44
464446--464498	20	2.7	20	93	0	97	47	24	15	13	1.81
465004--465032	14	2.1	14	100	0	58	51	0	0	48	1.00
472549--472801	140	1.8	140	99	0	497	43	20	19	16	1.87
475419--475444	12	2.2	12	100	0	52	38	0	7	53	1.30
486319--486363	23	1.9	24	86	4	65	35	6	0	57	1.25
486580--486660	37	2.2	35	82	8	99	54	9	7	28	1.60
500594--500625	3	10.7	3	100	0	64	31	0	0	68	0.90
501082--501178	30	3.2	30	94	2	169	55	0	2	42	1.11
501125--501182	19	3.5	18	71	28	65	55	0	0	44	0.99
501104--501179	11	7.5	11	71	16	56	56	0	1	42	1.07
501364--501405	2	21.5	2	95	4	77	47	0	0	52	1.00
504864--504931	31	2.2	31	86	5	93	29	23	10	36	1.88
504878--504937	31	1.9	31	96	0	111	25	25	15	35	1.94
509847--509885	19	2.1	19	95	0	69	20	38	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509784--509992	65	3.2	63	83	8	217	29	25	17	27	1.97
509833--509993	65	2.5	65	86	3	218	30	26	16	27	1.96
509784--510013	64	3.6	64	81	6	225	29	26	17	26	1.98
518419--518575	65	2.4	64	81	3	172	31	23	15	29	1.96
518455--518579	64	1.9	65	88	4	191	31	23	16	28	1.96
524882--524952	23	3.2	23	86	4	101	38	16	23	21	1.93
524882--524961	23	3.6	22	83	6	76	37	18	22	21	1.94
525412--525440	2	14.5	2	100	0	58	51	0	0	48	1.00
525774--525880	12	9.2	12	81	6	130	0	39	0	60	0.97
525773--525880	24	4.6	24	88	6	168	0	38	0	61	0.96
525775--525877	5	21.0	5	70	21	67	0	39	0	60	0.97
525776--525880	33	3.1	33	80	8	129	0	40	0	60	0.97
525774--525870	9	11.9	8	71	15	74	0	39	0	60	0.97
527082--527111	8	3.8	8	95	0	51	43	0	0	56	0.99
540019--540723	351	2.0	351	99	0	1383	39	12	6	41	1.69
559336--559693	184	2.0	185	87	5	505	47	6	2	43	1.42
559938--559983	18	2.6	18	93	6	76	23	13	19	43	1.86
560378--560427	2	25.0	2	100	0	100	50	0	0	50	1.00
561022--561081	31	1.9	31	89	0	93	43	5	8	43	1.56
561104--561445	22	15.6	22	86	4	460	48	10	0	40	1.42
561104--561445	66	5.2	66	91	1	535	48	10	0	40	1.42
561429--561459	12	2.6	12	89	0	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561429--561471	21	1.9	23	81	13	54	48	0	2	48	1.14
562877--562969	21	4.5	21	78	4	100	39	18	24	17	1.91
562877--562969	41	2.3	41	100	0	186	39	18	24	17	1.91
562896--563030	41	3.3	41	82	6	132	38	20	21	19	1.94
562958--563052	20	4.7	20	80	2	91	34	24	17	23	1.96
563240--563283	22	2.0	22	95	0	79	20	45	15	18	1.85
564887--564931	18	2.5	18	88	0	72	26	44	15	13	1.83
565413--565479	20	3.4	20	81	2	73	38	23	22	14	1.92
565468--565507	14	2.9	14	96	0	71	50	27	17	5	1.67
565532--565589	14	3.9	14	79	16	71	8	17	25	48	1.75
565527--565605	32	2.4	33	95	2	142	10	18	24	46	1.80
565546--565663	20	6.4	19	78	11	95	14	19	24	41	1.89
565578--565643	19	3.4	19	87	4	96	15	22	24	37	1.92
567641--567708	14	4.2	15	73	22	50	47	19	20	13	1.82
567651--567698	18	2.6	19	93	6	89	47	16	20	14	1.82
567736--567793	20	2.9	20	94	0	98	17	22	22	37	1.93
571369--571521	33	4.4	36	74	16	155	43	20	20	15	1.88
571390--571516	33	3.8	33	88	4	202	42	19	22	14	1.88
571391--571523	66	2.0	66	97	0	248	42	19	21	16	1.89
571525--571591	19	3.8	19	71	18	72	13	20	19	46	1.83
571697--571731	14	2.6	14	95	4	63	42	25	0	31	1.55
573086--573152	21	3.2	21	68	4	55	19	20	35	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575234--575276	18	2.2	20	92	8	72	32	27	23	16	1.96
575205--575355	20	8.1	19	78	12	134	42	21	22	13	1.87
575351--575395	20	2.4	18	79	13	54	11	15	26	46	1.79
575947--575999	20	2.7	20	93	0	88	26	20	28	24	1.99
576008--576061	20	2.7	20	94	0	90	27	18	22	31	1.97
582975--583008	16	2.1	16	100	0	68	23	41	17	17	1.90
591831--591893	11	5.9	11	73	14	60	57	1	1	39	1.18
592000--592064	7	9.3	7	79	0	58	47	30	0	21	1.51
592000--592058	21	2.8	22	74	7	68	47	30	0	22	1.51
601841--601892	27	1.9	27	88	0	77	40	25	9	25	1.85

Tables:   1   2   3   4   5   6