genome.fa.s418.2.7.7.80.10.50.1000.3.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: VEPZ01000418.1 Hibiscus syriacus cultivar Beakdansim tig00000765_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  909013

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 524 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)
521425--521461	18	2.1	18	89	0	56	51	10	5	32	1.60
521665--521729	23	2.8	23	90	0	94	38	18	7	35	1.80
522081--522134	23	2.5	20	75	18	54	42	18	1	37	1.61
522096--522158	23	2.7	23	90	0	90	38	19	6	36	1.77
522428--522779	184	1.9	184	98	0	677	34	15	14	35	1.88
524249--524335	3	29.0	3	77	0	84	24	34	5	35	1.79
524249--524350	18	5.7	18	79	0	87	22	34	6	36	1.81
524257--524347	42	2.2	42	91	0	146	21	35	7	35	1.83
525815--527035	199	6.1	199	97	0	2311	32	15	14	37	1.87
527119--527157	19	2.1	19	95	0	69	53	10	2	33	1.48
528950--529015	33	2.0	33	87	0	96	24	45	1	28	1.62
531121--531173	24	2.2	24	83	6	63	26	7	13	52	1.66
531318--531364	20	2.4	19	79	10	58	19	17	8	55	1.67
531485--531531	20	2.3	20	89	10	78	17	17	10	55	1.69
532836--532874	3	13.7	3	89	10	64	30	0	0	69	0.89
532836--532874	20	2.0	20	100	0	78	30	0	0	69	0.89
536889--536943	17	3.2	17	80	14	51	49	5	12	32	1.64
540129--540203	38	1.9	39	83	2	98	25	18	17	38	1.92
540374--540474	24	4.2	24	68	10	82	45	14	13	25	1.82
543787--543859	34	2.1	34	94	0	128	32	19	23	24	1.97
543826--543877	20	2.6	20	90	0	77	32	17	23	26	1.96
549869--549911	21	2.0	22	90	4	70	41	16	16	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552193--552228	13	2.8	13	91	0	63	38	0	0	61	0.96
552628--552670	21	2.0	21	90	4	68	39	16	18	25	1.91
554187--554284	32	3.1	32	96	0	187	26	15	30	27	1.96
554605--554667	18	3.3	18	75	12	63	44	1	4	49	1.33
554650--554682	14	2.4	14	94	0	57	27	6	9	57	1.53
556326--556384	30	2.0	30	93	0	100	32	15	25	27	1.95
556602--556639	17	2.2	18	85	4	51	44	2	0	52	1.14
556624--556719	50	1.9	50	83	8	124	44	4	1	50	1.28
557019--557057	17	2.2	18	86	4	53	51	0	2	46	1.14
559378--559454	2	40.0	2	92	7	133	49	0	0	50	1.00
560147--560384	100	2.3	100	80	9	250	29	4	29	36	1.78
560763--560882	18	7.1	18	78	16	148	41	5	4	48	1.46
560760--560984	50	4.5	51	75	14	232	43	7	4	44	1.54
560824--560996	33	5.2	33	81	8	215	43	9	5	41	1.59
560824--561090	101	2.8	100	82	8	290	44	7	5	42	1.56
560892--560970	42	1.9	40	87	5	113	45	10	5	39	1.60
561086--561125	12	3.4	12	89	3	64	45	0	7	47	1.31
561456--561535	21	4.2	18	79	7	52	20	38	26	15	1.91
561486--561535	20	2.5	20	90	3	73	18	40	28	14	1.89
562196--562277	2	44.0	2	70	22	54	51	1	1	46	1.16
563349--563395	13	3.6	13	86	11	69	59	0	0	40	0.97
574880--574931	21	2.5	21	81	3	61	38	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574920--574993	20	3.7	20	75	10	69	35	24	18	21	1.96
575511--575558	19	2.5	19	77	12	53	45	27	16	10	1.80
575554--575699	19	8.1	19	71	17	105	13	24	19	42	1.87
575587--575674	33	2.6	33	92	1	149	12	27	21	38	1.89
575642--575699	20	2.9	20	80	10	64	13	24	18	43	1.87
577844--577952	21	5.2	21	63	16	55	22	37	18	22	1.94
577822--577955	42	3.2	41	80	4	178	21	38	18	21	1.94
577859--577974	21	5.5	21	66	8	65	22	33	21	22	1.97
577789--577964	84	2.1	84	95	0	316	22	36	17	24	1.94
577789--577994	42	4.9	41	72	9	146	22	34	17	24	1.96
577789--577994	84	2.5	84	88	1	261	22	34	17	24	1.96
579354--579389	14	2.6	14	95	0	63	30	0	25	44	1.54
579548--579698	19	8.7	19	68	21	98	15	22	19	41	1.90
579552--579678	33	3.9	32	87	8	193	14	22	19	42	1.88
579545--579677	66	2.0	66	97	0	248	16	22	19	41	1.90
581296--581320	12	2.1	12	100	0	50	0	28	0	72	0.86
581504--581550	24	2.0	24	91	0	76	34	17	19	29	1.94
581508--581559	24	2.2	24	82	0	59	36	19	17	26	1.94
582290--582340	20	2.5	20	93	0	93	29	17	31	21	1.96
582553--582603	20	2.5	20	96	0	93	35	27	21	15	1.94
582629--582693	19	3.7	19	86	13	95	13	21	18	46	1.84
582800--582836	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584704--584757	20	2.7	20	77	11	65	40	24	20	14	1.90
584744--584839	19	5.7	18	70	20	64	43	23	18	13	1.86
584760--584817	14	3.9	14	75	16	62	46	24	18	10	1.80
584744--584833	32	2.8	32	87	3	126	45	24	17	12	1.83
584829--584910	18	4.6	19	78	17	104	14	20	18	46	1.84
584897--584946	20	2.5	20	90	0	73	14	20	24	42	1.88
585431--585475	18	2.5	18	88	0	72	13	15	44	26	1.83
586795--586868	20	3.8	20	81	1	69	43	22	17	16	1.88
587095--587143	22	2.3	21	89	6	73	24	14	40	20	1.89
587313--587447	20	6.7	20	78	7	103	25	17	22	34	1.96
587313--587450	61	2.3	61	83	0	177	24	17	22	35	1.95
587313--587468	61	2.6	61	80	4	163	23	18	22	35	1.96
587518--587558	21	2.0	21	85	0	55	34	31	17	17	1.93
588864--589042	94	1.9	94	97	0	340	24	17	14	43	1.87
590400--590429	15	2.0	15	100	0	60	40	20	26	13	1.89
593315--593396	29	2.8	29	92	0	128	50	0	9	40	1.36
599613--599664	18	2.9	18	77	5	52	36	9	7	46	1.66
610841--610882	17	2.5	17	84	0	57	71	4	2	21	1.16
623749--623949	36	5.4	36	81	9	167	46	3	8	40	1.53
623790--623949	71	2.2	72	78	9	175	46	3	9	40	1.52
624005--624032	13	2.2	13	100	0	56	42	7	7	42	1.59
624018--624057	20	1.9	22	85	10	57	45	2	7	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624076--624116	19	2.3	19	87	8	59	36	0	0	63	0.95
624084--624122	19	2.1	19	85	0	51	33	0	5	61	1.18
625678--625717	17	2.3	18	83	12	57	40	12	0	47	1.41
625841--625886	5	9.2	5	100	0	92	0	19	0	80	0.71
628993--629036	18	2.4	18	96	0	79	50	0	25	25	1.50
629952--629984	17	1.9	17	93	0	57	39	9	27	24	1.85
631483--631551	33	2.1	33	91	0	111	27	43	15	13	1.84
631684--631727	23	1.9	23	100	0	88	22	22	27	27	1.99
632149--632204	27	2.2	25	93	6	94	30	0	14	55	1.40
632461--632538	39	2.0	39	100	0	156	35	5	12	46	1.65
634762--634837	37	2.0	38	97	2	145	26	7	22	43	1.80
635774--636759	60	17.2	60	75	14	788	41	0	11	46	1.47
636088--636184	11	8.1	12	69	20	53	43	0	12	44	1.42
636095--636759	120	5.7	120	87	6	986	41	0	11	46	1.40
636410--636486	21	3.3	21	65	22	55	46	0	7	45	1.32
636163--636755	288	2.1	287	95	0	1069	41	0	11	46	1.40
636479--636755	21	13.9	20	63	20	66	41	0	10	48	1.37
636719--636750	14	2.2	15	94	5	57	40	0	6	53	1.26
636727--636775	25	2.0	25	87	0	71	40	0	12	46	1.41
638984--639014	15	2.1	14	94	5	53	54	6	0	38	1.26
639009--639043	8	4.4	8	96	0	61	62	14	0	22	1.31
638989--639035	16	3.0	16	87	9	62	59	8	0	31	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639270--639323	27	2.0	28	88	3	83	46	9	0	44	1.35
639333--639373	22	1.9	22	90	5	66	53	17	0	29	1.44
639475--639521	14	3.5	13	77	11	51	2	40	0	57	1.11
639775--639810	19	1.9	19	94	5	65	27	13	58	0	1.36
639835--639934	29	3.4	29	91	0	155	15	23	37	25	1.93
640587--640621	17	2.1	17	88	0	52	51	0	11	37	1.38
641169--641200	14	2.2	15	94	5	57	59	0	0	40	0.97
641161--641209	14	2.9	17	74	22	50	57	0	0	42	0.99
642034--642087	10	5.1	10	74	12	54	22	27	37	12	1.91
642074--642152	14	5.6	14	80	0	95	21	34	34	10	1.87

Tables:   1   2   3   4   5