genome.fa.s8259.2.7.7.80.10.50.1000.3.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: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373650

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1275 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)
511109--511538	2	234.5	2	64	26	129	51	5	2	41	1.36
511160--511293	13	11.5	13	72	22	77	53	5	1	39	1.32
519688--519727	21	2.0	21	85	5	55	27	37	25	10	1.88
529822--529854	2	17.0	2	87	6	50	48	0	0	51	1.00
533662--533752	33	2.8	33	93	0	155	23	13	6	57	1.59
537107--537157	22	2.3	22	100	0	102	29	15	17	37	1.91
540095--540149	17	3.2	17	77	12	58	16	23	27	32	1.96
541270--541312	18	2.5	16	82	14	50	39	2	2	55	1.25
541496--541535	21	2.0	21	85	5	55	15	12	22	50	1.77
541699--541853	43	3.7	43	74	10	115	21	22	13	41	1.88
541773--541913	43	3.3	42	82	5	167	21	17	13	46	1.83
545523--545726	41	5.0	41	68	17	138	33	18	17	30	1.94
545465--545737	83	3.3	80	84	7	334	32	17	18	31	1.94
547432--547465	18	2.0	18	88	11	54	38	0	20	41	1.53
552327--552372	23	2.0	22	83	12	56	71	15	4	8	1.26
555503--555552	24	2.1	24	88	7	75	58	14	2	26	1.47
559059--559120	30	2.0	31	84	12	83	41	0	3	54	1.16
560392--560443	19	2.7	19	85	8	61	59	0	0	40	0.97
561929--562362	194	2.2	194	85	1	566	41	12	14	32	1.83
562957--563025	19	3.6	19	73	9	68	44	1	15	37	1.56
562666--563081	230	1.8	230	91	1	699	36	6	22	35	1.79
566135--566196	13	4.8	13	83	0	70	29	19	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566174--566339	85	2.0	85	82	9	205	31	19	18	30	1.96
566365--566396	2	17.0	2	87	12	50	46	0	0	53	1.00
569342--569388	21	2.2	21	77	7	51	21	12	14	51	1.76
569062--569789	200	3.7	200	87	2	974	38	13	15	32	1.85
572559--572588	15	2.0	15	93	0	51	30	6	13	50	1.67
572839--572974	6	22.7	6	74	3	94	30	10	6	52	1.60
572863--572973	30	3.7	29	87	4	141	29	8	6	55	1.53
575033--575077	22	2.0	22	82	0	54	40	11	17	31	1.85
574817--575132	81	3.9	81	86	1	402	36	12	22	29	1.90
574817--575132	163	2.0	160	83	1	407	36	12	22	29	1.90
576991--577028	19	2.0	19	100	0	76	47	10	15	26	1.78
576994--577037	19	2.3	19	88	4	61	52	9	9	29	1.64
579969--579997	2	14.5	2	100	0	58	51	48	0	0	1.00
580611--580975	108	3.3	108	71	13	326	32	15	12	39	1.85
580770--580815	23	2.0	24	82	4	58	32	19	10	36	1.87
580473--581071	226	2.7	224	87	2	833	32	15	12	39	1.85
590734--590831	31	3.2	31	76	5	119	52	4	8	35	1.50
590734--590879	29	4.9	29	72	6	123	52	2	7	37	1.44
590734--590879	60	2.5	59	86	3	197	52	2	7	37	1.44
592209--592271	27	2.3	28	81	8	67	46	1	3	49	1.27
592249--592290	17	2.4	18	92	4	68	45	4	7	42	1.52
593172--593279	45	2.4	46	85	4	139	30	19	19	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595945--596046	43	2.4	43	80	4	125	22	23	26	27	2.00
595966--596045	22	3.6	22	79	5	99	23	23	26	26	2.00
595970--596064	44	2.2	42	88	7	138	25	21	25	28	1.99
595966--596064	21	4.7	20	79	10	92	24	21	26	28	1.99
597178--597343	65	2.6	64	78	12	180	25	17	24	32	1.97
598355--598398	21	2.1	21	86	0	61	34	15	40	9	1.79
603338--603391	25	2.2	25	93	6	92	27	14	7	50	1.70
610290--610338	19	2.7	17	84	9	53	26	20	28	24	1.99
610310--610435	65	1.9	64	85	6	173	27	19	23	29	1.98
610537--610571	15	2.2	16	90	5	54	57	2	8	31	1.44
616153--616192	21	1.9	21	90	10	64	57	7	5	30	1.48
619088--619143	21	2.7	21	77	2	51	25	30	26	17	1.97
626355--626409	21	2.6	21	74	5	58	38	20	16	25	1.92
638007--638045	20	2.0	20	89	0	60	33	23	10	33	1.88
640818--640969	40	3.8	40	85	2	189	56	13	3	26	1.53
640869--640940	20	3.3	23	65	23	66	58	13	2	25	1.49
644939--644993	25	2.2	26	90	3	85	23	7	12	56	1.61
648330--648383	3	19.0	3	88	11	87	70	0	0	29	0.88
648798--648890	42	2.3	40	84	3	114	32	20	20	26	1.97
649306--649423	42	2.8	42	86	0	164	34	21	21	22	1.97
652440--652475	15	2.4	15	90	9	56	2	8	0	88	0.59
654034--654072	18	2.2	17	86	4	51	2	15	0	82	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654044--654082	11	3.5	11	89	6	60	0	12	0	87	0.55
654042--654082	18	2.3	18	88	12	59	0	14	0	85	0.60
654552--654582	11	2.9	11	95	4	55	0	16	0	83	0.64
663547--663575	15	1.9	15	100	0	58	0	34	0	65	0.93
667318--667346	15	1.9	15	100	0	58	34	6	24	34	1.82
667712--667751	13	3.1	13	88	0	62	30	10	22	37	1.87
668084--668181	29	3.2	30	85	5	126	24	20	6	48	1.72
674431--674457	2	13.5	2	100	0	54	48	0	0	51	1.00
674612--674741	68	1.9	68	85	6	183	25	23	14	36	1.93
675067--675378	79	3.9	79	89	0	444	29	22	10	36	1.88
675829--675898	35	2.0	35	85	0	95	24	24	17	34	1.96
676981--677022	12	3.6	12	81	18	52	59	4	0	35	1.19
677192--677261	30	2.3	30	82	0	86	28	22	2	45	1.67
677299--677330	2	16.5	2	93	6	57	50	0	0	50	1.00
680677--680710	16	2.1	17	88	5	52	58	0	14	26	1.36
683309--683595	74	3.9	74	96	0	520	42	6	31	18	1.77
683309--683595	149	1.9	148	95	0	520	42	6	31	18	1.77
686499--686550	24	2.2	24	92	0	86	25	13	32	28	1.93
686701--686844	28	5.3	26	74	21	109	40	6	0	51	1.34
686839--686876	2	19.0	2	100	0	76	50	0	0	50	1.00
686915--687091	29	6.0	29	72	13	114	55	1	6	36	1.35
686915--687099	30	6.3	28	73	17	121	55	1	6	36	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689700--689729	13	2.2	14	94	5	53	40	13	26	20	1.89
689982--690184	15	13.5	15	80	2	219	64	10	1	23	1.36
692450--692634	102	1.8	102	83	0	244	30	11	21	35	1.90
692444--692667	102	2.2	101	78	4	243	30	11	23	34	1.90
693282--693362	38	2.1	38	86	6	119	35	2	25	35	1.70
693459--693956	188	2.6	190	77	6	508	34	17	15	32	1.91
704051--704090	17	2.4	17	87	8	55	45	15	12	27	1.82
707514--707595	29	2.8	29	82	10	96	30	3	17	48	1.64
719342--719392	20	2.5	21	87	3	68	29	33	7	29	1.85
719341--719415	21	3.6	21	78	1	71	29	29	13	28	1.94
719473--719531	20	3.0	20	82	7	75	33	33	10	22	1.87
719683--719807	2	63.0	2	98	1	243	49	0	0	50	1.00
720475--720538	35	2.0	35	82	14	84	59	0	14	26	1.35
722715--722764	25	2.1	25	85	7	68	68	12	2	18	1.30
729297--729455	73	2.2	73	90	0	246	24	18	22	35	1.96
746752--746927	56	3.2	55	73	9	171	27	26	15	31	1.96
746934--746995	25	2.5	25	100	0	124	30	14	17	37	1.90
748348--748424	40	1.9	39	84	7	102	31	5	31	32	1.80
749301--749333	16	2.1	16	100	0	66	18	18	27	36	1.94
751093--751144	21	2.3	23	84	15	65	48	0	3	48	1.20
751236--751316	23	3.5	23	76	6	74	53	0	0	46	1.00
751281--751374	28	3.4	27	72	17	79	42	3	0	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
751327--751363	17	2.2	17	90	0	56	40	2	0	56	1.13
751313--751359	14	3.4	14	75	0	58	36	4	0	59	1.17
751298--751374	28	2.9	26	77	19	88	41	3	0	54	1.19
755581--755643	22	2.9	22	86	11	94	36	4	9	49	1.57
756016--756124	45	2.4	45	93	3	184	37	5	25	31	1.79
756512--756536	12	2.1	12	100	0	50	24	16	24	36	1.94
762317--762357	22	1.9	21	90	5	64	34	4	12	48	1.62
762686--762729	20	2.2	20	83	0	52	15	11	27	45	1.81
762727--762837	45	2.5	45	92	2	179	37	6	25	30	1.81
771815--771882	15	5.2	13	68	25	54	58	2	0	38	1.13

Tables:   1   2   3   4   5   6   7   8   9   10   11