genome.fa.s8000.2.7.7.80.10.50.1000.3.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: VEPZ01008000.1 Hibiscus syriacus cultivar Beakdansim tig00110457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1646480

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 964 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)
289196--289294	42	2.4	43	77	11	100	21	18	23	37	1.94
289435--289481	7	6.7	7	97	0	76	42	4	14	38	1.66
291315--291344	2	15.0	2	100	0	60	50	0	0	50	1.00
303834--303903	32	2.2	32	84	5	88	24	10	24	41	1.85
313181--313273	35	2.7	35	82	0	114	40	25	1	32	1.63
313881--313920	21	1.9	21	85	10	55	50	2	2	45	1.28
316055--316135	22	3.7	22	89	0	108	25	11	25	37	1.89
316044--316135	44	2.1	44	83	0	112	25	13	23	38	1.91
322980--323029	22	2.3	22	85	0	64	30	16	18	36	1.92
338774--338873	35	2.8	37	81	6	114	32	15	14	39	1.86
339334--340106	109	7.4	104	80	7	773	21	21	24	32	1.98
339490--340068	324	1.8	312	83	6	759	21	21	25	32	1.98
339806--340101	98	2.9	98	83	4	369	20	21	24	32	1.98
340631--340811	65	2.8	65	92	0	299	37	11	20	30	1.88
340696--341153	102	4.5	102	94	0	790	37	12	20	29	1.90
340761--341171	37	11.9	37	68	18	269	37	13	20	28	1.91
340596--340898	167	1.8	168	94	0	545	37	12	19	29	1.89
341067--341171	36	2.9	36	92	1	165	39	13	23	23	1.90
341964--342014	22	2.3	22	96	0	93	27	9	27	35	1.88
342623--342684	20	3.0	21	79	9	65	1	16	6	75	1.08
342641--342693	23	2.4	22	84	6	72	0	15	5	79	0.91
346238--346319	11	7.3	11	70	20	53	59	2	3	34	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346767--346866	35	2.8	37	81	6	114	32	15	14	39	1.86
347308--347523	117	1.8	117	83	5	285	29	14	7	48	1.71
350244--350273	15	2.0	15	100	0	60	33	40	6	20	1.78
352486--352530	21	2.1	21	91	0	72	26	2	26	44	1.66
352585--352636	19	2.5	20	78	12	61	34	13	30	21	1.92
353359--353476	57	2.1	56	81	12	136	31	23	18	26	1.98
353378--353484	56	1.9	56	88	9	164	30	21	18	28	1.97
359355--359395	20	2.0	20	95	0	73	29	24	26	19	1.98
361583--361613	2	15.5	2	100	0	62	48	0	0	51	1.00
362083--362242	65	2.5	64	83	7	200	33	20	16	28	1.95
362221--362261	19	2.3	17	87	8	55	24	21	19	34	1.97
363178--363227	2	25.0	2	100	0	100	50	0	0	50	1.00
369002--369027	13	2.0	13	100	0	52	69	0	15	15	1.20
370975--371008	18	2.0	16	88	11	50	52	5	5	35	1.50
375553--375613	26	2.3	26	100	0	122	37	27	0	34	1.57
378275--378304	9	3.2	9	90	9	51	40	13	0	46	1.43
378292--378383	48	1.9	48	86	0	130	36	11	7	43	1.70
387331--387671	83	4.1	83	79	3	375	35	20	17	25	1.95
387766--387798	13	2.5	13	90	0	57	54	12	0	33	1.37
401300--401550	42	5.9	41	87	7	326	33	24	23	18	1.97
401300--401547	84	2.9	84	90	3	374	33	24	24	18	1.97
402483--402580	29	3.3	29	82	4	90	40	22	7	29	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402588--402640	18	3.0	18	88	2	81	13	20	47	18	1.82
408778--409021	84	2.9	84	91	3	375	32	24	25	18	1.97
408778--409028	42	5.9	42	88	4	337	32	23	25	18	1.97
409951--410047	29	3.3	28	80	7	86	38	24	7	29	1.82
410055--410107	18	3.0	18	91	2	90	13	20	49	16	1.79
412607--412657	24	2.1	24	92	0	84	33	15	25	25	1.95
413496--413530	16	2.3	15	90	5	52	88	0	8	2	0.61
420039--420105	29	2.3	30	94	2	118	11	22	7	58	1.58
421723--421760	19	2.0	19	100	0	76	31	31	21	15	1.94
421839--421872	17	2.0	17	94	0	59	44	5	26	23	1.76
422270--422302	2	16.5	2	100	0	66	51	0	0	48	1.00
424403--424468	31	2.1	31	85	0	87	30	25	9	34	1.87
425325--425354	2	15.0	2	100	0	60	50	0	0	50	1.00
425910--425988	21	3.8	21	72	9	81	32	18	18	29	1.96
426605--426744	70	2.0	70	92	0	235	28	15	20	35	1.94
426901--427240	170	2.0	169	96	0	626	35	15	20	29	1.93
429067--429113	21	2.3	21	81	3	51	29	23	8	38	1.84
429152--429262	50	2.2	50	87	4	152	29	18	23	27	1.98
429327--429369	21	2.1	21	86	4	61	32	18	13	34	1.90
431425--431463	18	2.2	18	95	0	69	38	28	12	20	1.89
431429--431470	18	2.3	18	87	0	57	40	33	9	16	1.81
447690--448544	182	4.7	181	90	1	1232	40	14	16	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452922--453621	199	3.5	198	83	5	869	39	15	14	30	1.87
453638--453695	23	2.5	23	91	0	98	37	18	8	34	1.82
453638--453702	23	2.8	23	88	0	76	38	18	9	33	1.83
453658--453823	87	1.9	88	92	1	280	33	13	10	42	1.79
453745--453789	23	2.0	23	90	0	72	37	17	8	35	1.81
457603--457629	2	13.5	2	100	0	54	51	0	0	48	1.00
461212--461243	3	10.7	3	100	0	64	34	0	0	65	0.93
462505--462556	23	2.3	23	86	0	77	50	7	15	26	1.71
465215--465260	17	2.6	18	90	10	69	45	0	2	52	1.13
467238--467412	44	4.0	44	93	0	296	22	22	22	31	1.98
469279--469321	2	21.5	2	95	0	77	48	0	2	48	1.14
469277--469356	16	5.1	16	77	8	65	48	0	3	47	1.19
471182--471231	18	2.6	20	81	15	61	26	18	30	26	1.98
474667--474705	15	2.7	15	81	18	55	46	0	10	43	1.37
474878--474921	15	2.7	17	79	13	56	65	2	4	27	1.23
474874--474938	29	2.4	27	78	12	78	61	1	4	32	1.26
476303--476364	3	20.0	3	85	12	81	69	0	0	30	0.89
476591--477606	113	9.0	114	87	4	1199	28	18	14	38	1.91
478307--478351	23	2.0	23	90	0	72	24	26	26	22	2.00
478319--478629	149	2.1	145	94	3	534	34	21	17	27	1.95
478730--478757	14	2.0	14	100	0	56	35	28	7	28	1.84
479174--479229	2	28.0	2	100	0	112	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480171--480215	21	2.1	21	87	0	63	15	24	28	31	1.96
483487--483530	22	2.0	23	86	4	63	25	25	27	22	2.00
483506--483810	147	2.1	148	94	1	540	34	21	16	27	1.95
485280--485324	21	2.1	21	87	0	63	15	24	28	31	1.96
486396--486450	22	2.5	22	87	0	83	36	14	14	34	1.87
488999--489218	114	1.9	114	93	0	377	30	20	15	33	1.94
490848--490909	32	1.9	32	96	0	115	19	17	19	43	1.88
491544--491604	4	14.8	4	74	19	54	3	16	3	77	1.04
491529--491578	12	4.1	12	94	2	82	0	18	0	82	0.68
491523--491578	16	3.6	16	83	13	64	0	17	0	82	0.68
491560--491611	26	2.0	27	92	3	88	5	15	9	69	1.35
495128--495181	14	3.8	14	85	2	63	51	9	14	24	1.71
499046--499104	3	19.0	3	82	6	73	67	0	0	32	0.91
504528--504580	22	2.4	22	100	0	106	22	20	35	20	1.96
514337--514412	26	2.9	26	88	3	64	23	22	18	35	1.96
518034--518087	27	2.0	27	96	0	99	35	18	12	33	1.89
519198--519256	25	2.3	26	91	8	104	30	3	5	61	1.34
523399--523469	27	2.6	27	93	0	124	30	12	15	40	1.85
527010--527070	27	2.3	27	100	0	122	29	13	14	42	1.84
545612--545645	11	2.8	13	82	17	54	50	17	0	32	1.47
547930--548029	50	2.0	50	96	0	182	45	15	25	15	1.84
550873--550945	30	2.4	30	95	0	128	30	24	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556462--556534	30	2.4	30	95	0	128	30	24	20	24	1.99
571149--571195	19	2.6	17	83	9	58	61	0	0	38	0.96
571129--571186	26	2.2	26	84	6	73	63	1	0	34	1.04
580143--580228	39	2.2	40	80	4	93	38	10	10	40	1.74
588417--588460	16	2.8	16	92	0	70	34	20	4	40	1.73
593649--593694	6	7.8	6	87	4	67	10	2	2	84	0.79
593638--593687	23	2.2	23	82	7	57	8	8	4	80	1.03
593651--593726	23	3.3	23	80	12	86	10	3	5	80	1.00
593680--593787	36	3.1	35	79	12	89	12	6	7	73	1.25
603917--604093	62	2.8	62	83	5	212	55	10	22	12	1.66

Tables:   1   2   3   4   5   6   7   8   9