genome.fa.s8420.2.7.7.80.10.50.1000.3.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: VEPZ01008420.1 Hibiscus syriacus cultivar Beakdansim tig00111200_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1020524

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 664 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)
332382--332424	18	2.5	17	85	7	61	67	2	4	25	1.22
332695--332799	37	2.8	38	85	4	142	28	15	14	41	1.86
332977--333013	18	2.1	18	89	0	56	8	27	8	56	1.56
334156--334216	16	3.8	16	93	0	104	57	22	11	8	1.60
334642--334703	24	2.6	24	87	5	81	54	19	11	14	1.69
343155--343196	16	2.5	17	73	7	50	45	0	0	54	0.99
346575--346600	1	26.0	1	100	0	52	0	0	100	0	0.00
348442--348841	110	3.7	110	92	1	644	26	17	22	34	1.96
350490--350572	30	2.7	29	80	12	76	3	13	7	75	1.14
353804--353841	3	12.7	3	94	0	67	65	2	0	31	1.06
353892--353995	29	3.6	29	97	0	190	55	0	2	40	1.21
353869--353989	58	2.1	59	84	4	165	57	0	6	35	1.31
353895--354022	58	2.2	58	83	6	152	57	2	3	35	1.30
354099--354131	9	3.5	10	88	12	52	72	0	0	27	0.85
354065--354131	19	3.6	18	71	18	50	74	1	1	22	0.98
354510--354621	37	3.0	37	93	2	190	33	11	13	41	1.80
357855--357911	30	1.9	30	85	7	80	50	1	5	42	1.35
365729--365776	21	2.3	21	96	0	87	35	22	29	12	1.91
366430--366491	22	2.7	23	82	5	90	19	25	30	24	1.98
373104--373138	2	17.5	2	93	0	61	48	0	48	2	1.16
374462--374535	20	3.7	20	82	7	78	36	9	18	35	1.84
378969--379053	31	2.8	31	87	1	109	31	22	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380089--380249	64	2.5	62	83	5	205	25	24	18	31	1.98
382851--382884	12	2.8	12	86	0	50	5	44	2	47	1.42
384303--384344	20	2.1	20	95	0	75	33	11	16	38	1.86
384395--384443	19	2.6	19	96	3	91	32	28	14	24	1.94
387656--387706	18	2.8	18	88	5	68	25	0	0	74	0.82
387672--387706	13	2.7	13	95	0	61	20	0	0	80	0.72
387867--388077	42	5.0	42	77	7	158	24	21	6	46	1.75
393141--393203	2	31.5	2	100	0	126	49	0	0	50	1.00
393334--393926	70	8.5	70	76	5	443	26	22	17	34	1.96
393384--393926	211	2.6	209	83	2	651	25	23	17	33	1.96
393744--394067	178	1.8	179	81	2	409	27	25	15	31	1.96
393873--394035	39	4.4	38	69	14	142	28	25	15	29	1.96
393809--394035	109	2.1	108	97	0	427	28	25	16	29	1.97
393915--394067	70	2.2	70	85	4	202	26	26	16	30	1.97
394192--394241	26	2.0	26	88	4	75	44	16	6	34	1.72
394229--394554	51	6.4	51	78	4	291	42	15	10	31	1.80
394382--394463	25	3.2	25	70	21	71	43	10	13	31	1.79
394230--394566	153	2.2	153	80	3	365	43	15	10	30	1.81
397980--398004	12	2.1	12	100	0	50	36	0	24	40	1.55
404231--404306	24	3.2	24	83	3	73	43	21	13	22	1.86
404248--404363	24	4.8	24	87	6	155	38	19	15	25	1.91
405337--405389	26	2.0	26	85	0	70	26	20	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406787--406835	8	6.4	8	77	22	52	20	26	38	14	1.91
406787--406820	15	2.1	16	89	10	52	23	29	35	11	1.90
406810--406853	13	3.5	13	84	6	54	15	20	43	20	1.88
406812--406850	12	3.2	12	88	3	51	17	17	43	20	1.88
415657--415720	29	2.2	30	81	10	80	57	1	7	32	1.37
416365--416413	22	2.2	22	82	7	64	6	22	0	71	1.08
416374--416412	12	3.3	12	82	17	55	7	23	0	69	1.14
420897--420939	21	2.1	20	82	4	50	72	0	11	16	1.13
420911--420954	21	2.2	20	87	4	61	63	0	20	15	1.31
436074--436152	3	26.3	3	100	0	158	34	0	0	65	0.93
438044--438086	22	2.0	22	100	0	86	13	44	27	13	1.83
439364--439411	19	2.5	20	82	3	62	52	6	12	29	1.63
440772--440875	21	5.1	20	81	6	129	19	36	26	17	1.94
440772--440875	41	2.5	40	84	7	129	19	36	26	17	1.94
444151--444176	13	2.0	13	100	0	52	23	38	23	15	1.92
444472--444510	15	2.6	15	95	0	69	61	5	33	0	1.18
444675--444703	10	3.0	10	95	5	51	48	0	0	51	1.00
444808--444875	33	2.1	33	88	0	100	41	0	8	50	1.34
444906--444983	36	2.2	36	90	4	122	43	0	7	48	1.31
445072--445123	27	1.9	27	92	7	88	46	0	5	48	1.26
445028--445158	70	1.9	70	84	9	178	44	0	6	48	1.29
447703--447744	22	1.9	22	95	0	75	45	7	4	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447796--447876	24	3.4	24	86	3	110	41	6	3	48	1.46
447796--447887	24	3.8	24	81	5	105	42	8	3	45	1.51
448105--448144	16	2.5	16	88	8	55	47	5	5	42	1.47
448318--448454	66	2.2	61	90	6	211	34	8	21	35	1.84
451858--451916	30	2.0	30	86	0	82	35	18	6	38	1.78
452743--452802	19	3.2	19	100	0	120	21	20	16	41	1.90
452793--452846	22	2.5	22	93	0	99	16	16	27	38	1.90
454611--454655	2	22.5	2	100	0	90	48	0	0	51	1.00
456260--456292	3	11.3	3	93	6	59	69	0	0	30	0.88
456489--456808	40	7.5	41	70	14	183	25	18	31	24	1.98
456449--456778	40	7.7	45	72	15	164	25	18	30	25	1.98
456475--456808	128	2.6	129	95	1	598	25	18	31	25	1.98
457225--457268	15	2.9	15	93	0	70	43	4	20	31	1.72
457385--457521	62	2.2	60	81	12	145	42	10	14	32	1.81
457477--457562	29	3.0	29	85	11	115	46	12	11	29	1.77
457477--457578	28	3.6	27	78	15	91	46	13	11	28	1.79
457899--458094	104	1.9	105	87	5	290	39	10	20	29	1.86
458061--458162	36	2.9	35	82	4	118	35	13	20	30	1.92
458449--458516	4	17.2	4	76	19	63	25	0	22	52	1.47
458449--458516	16	4.3	16	90	1	111	25	0	22	52	1.47
464301--464325	2	12.5	2	100	0	50	48	0	0	52	1.00
465939--465968	3	10.3	3	92	7	53	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466165--466484	40	7.5	41	70	14	174	25	18	30	24	1.98
466125--466454	40	7.7	45	72	15	155	25	18	30	25	1.98
466151--466484	128	2.6	129	94	1	589	25	18	30	25	1.98
466907--466950	15	2.9	15	93	0	70	43	4	20	31	1.72
467066--467202	62	2.2	60	81	12	145	42	10	14	32	1.81
467159--467258	28	3.6	27	80	12	112	45	14	12	29	1.80
480620--480674	24	2.3	24	75	6	58	45	10	20	23	1.82
492315--492364	2	25.0	2	100	0	100	50	0	0	50	1.00
497719--497807	21	4.2	21	91	4	135	16	22	22	38	1.93
497719--497807	42	2.1	42	91	0	151	16	22	22	38	1.93
497800--497870	20	3.5	20	84	1	88	40	23	12	22	1.88
497874--497935	28	2.2	28	94	0	106	32	12	17	37	1.88
497915--497961	21	2.3	21	85	10	62	31	17	12	38	1.87
498910--498963	24	2.2	24	83	0	63	22	18	18	40	1.91
501223--501258	18	2.0	18	94	0	63	55	25	2	16	1.55
501500--501556	29	2.0	29	96	0	105	26	15	26	31	1.96
501503--501564	29	2.1	29	84	0	79	30	17	25	25	1.97
501541--501587	20	2.3	20	81	0	58	48	17	17	17	1.81
503111--503205	21	4.7	21	83	6	124	21	18	38	21	1.93
503111--503201	42	2.3	39	92	5	146	19	19	39	20	1.93
503453--503493	21	2.0	21	90	0	64	29	36	14	19	1.92
503755--503797	16	2.7	16	100	0	86	6	27	32	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505720--505768	20	2.5	20	93	0	80	18	12	22	46	1.82
505759--505808	20	2.5	20	86	0	73	24	16	24	36	1.94
506697--506787	47	2.0	45	82	10	112	28	2	6	62	1.32
506942--506993	25	2.0	26	96	3	97	11	21	26	40	1.87
508226--508250	13	1.9	13	100	0	50	0	0	68	32	0.90
521150--521209	23	2.6	23	78	0	66	25	26	25	23	2.00
521321--521368	2	24.0	2	100	0	96	50	0	0	50	1.00
522133--522187	23	2.4	23	90	0	83	38	20	5	36	1.75
527596--527620	12	2.1	12	100	0	50	56	8	0	36	1.29
527670--527728	29	2.0	30	83	9	77	61	3	6	28	1.38

Tables:   1   2   3   4   5   6