genome.fa.s8160.2.7.7.80.10.50.1000.3.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: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466564

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 773 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)
527447--527605	64	2.5	65	88	6	227	54	1	0	44	1.11
527477--527609	13	10.7	12	68	15	74	55	1	0	42	1.09
527505--527586	26	3.2	26	78	16	82	54	1	0	43	1.07
530020--530142	61	2.0	61	98	0	237	43	21	16	18	1.87
548706--549537	105	8.0	105	92	1	1296	22	17	25	33	1.96
550245--550525	36	8.0	35	76	13	256	40	13	19	25	1.89
550190--550499	138	2.3	137	84	2	381	40	12	19	27	1.88
550281--550469	102	1.9	102	87	2	281	40	13	18	27	1.88
550387--550559	36	4.8	36	84	4	163	40	16	20	23	1.91
550387--550567	72	2.5	72	85	4	224	38	16	19	25	1.92
551004--551039	18	2.0	18	88	0	54	41	30	8	19	1.81
551455--551503	22	2.2	22	92	0	80	28	14	24	32	1.94
551467--551510	22	2.0	22	86	0	61	31	13	22	31	1.93
552139--552220	23	3.5	23	77	9	85	1	14	7	76	1.05
552130--552205	41	1.9	40	81	7	93	1	15	7	75	1.10
552158--552228	25	2.9	25	76	20	69	0	16	8	74	1.05
552161--552221	31	2.0	30	84	9	79	0	14	6	78	0.94
555330--555427	34	2.8	35	85	4	144	29	14	12	43	1.81
556378--556762	182	2.1	183	91	4	629	42	3	8	45	1.51
565592--565660	10	7.1	10	76	12	72	18	23	30	27	1.98
565592--565662	19	3.7	19	92	1	106	18	25	29	26	1.98
565658--565685	14	2.0	14	100	0	56	21	50	21	7	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565656--565732	17	4.4	17	82	6	100	19	42	23	14	1.87
566615--566738	63	2.0	63	82	6	153	16	28	29	25	1.97
572400--572424	12	2.1	12	100	0	50	0	8	24	68	1.16
572949--573000	19	2.7	19	87	3	68	19	25	28	26	1.98
572949--572998	10	5.1	10	74	13	50	20	22	30	28	1.98
572996--573023	14	2.0	14	100	0	56	21	50	21	7	1.72
572994--573053	17	3.4	17	80	8	75	18	45	23	13	1.84
572997--573046	22	2.5	19	90	9	73	20	50	22	8	1.74
573936--574059	63	2.0	63	82	6	153	16	28	29	25	1.97
574925--574999	17	4.3	17	86	6	105	13	22	45	18	1.84
574972--575000	14	2.1	14	100	0	58	6	20	51	20	1.70
575002--575047	19	2.4	19	92	0	74	23	34	23	17	1.96
574997--575047	10	5.3	10	76	9	52	23	35	23	17	1.95
575002--575062	19	3.2	19	88	2	68	27	32	22	16	1.96
596750--596789	21	1.9	21	84	0	53	47	22	15	15	1.82
604522--604571	24	2.2	23	79	10	59	36	8	14	42	1.74
605693--605778	45	1.9	45	95	0	154	26	19	26	26	1.99
605798--605836	20	2.0	20	89	0	60	20	15	33	30	1.94
606167--606206	19	2.0	20	85	9	55	25	37	0	37	1.56
608470--608566	44	2.2	44	81	7	108	30	19	23	25	1.98
612327--612370	22	2.0	22	82	8	54	36	11	2	50	1.51
622696--622836	41	3.4	41	99	0	273	21	23	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623565--623913	83	4.2	83	79	6	291	30	19	17	32	1.95
623565--623913	41	8.5	40	78	5	295	30	19	17	32	1.95
627384--627443	21	2.8	22	84	2	77	20	5	20	55	1.62
627634--627820	43	4.4	42	81	6	164	27	25	18	28	1.98
627634--627779	43	3.4	43	83	5	172	28	24	19	28	1.98
628281--628324	5	8.6	5	92	2	70	2	20	54	22	1.56
628404--628577	41	4.2	41	93	0	276	31	21	22	24	1.98
629563--629601	19	2.1	19	100	0	78	15	25	15	43	1.86
634727--634761	16	2.2	16	94	0	61	37	14	20	28	1.91
635442--635568	58	2.2	58	94	0	218	41	6	16	35	1.74
636379--636521	72	2.0	72	91	1	234	37	2	2	56	1.28
636399--636520	36	3.4	36	77	4	147	36	2	3	57	1.28
636646--636686	2	21.0	2	95	5	75	51	0	0	48	1.00
636688--636784	27	3.7	27	78	6	76	37	4	1	57	1.25
641457--641539	27	2.8	31	80	14	111	24	8	13	54	1.66
643639--643674	2	18.0	2	100	0	72	50	0	0	50	1.00
645531--645616	3	26.7	3	84	11	68	61	1	1	36	1.11
645548--645575	2	14.0	2	100	0	56	50	0	0	50	1.00
645621--646046	39	11.2	37	79	13	392	45	8	2	43	1.47
645886--645981	44	2.2	44	89	5	144	46	6	3	43	1.44
646016--646041	13	2.0	13	100	0	52	53	7	0	38	1.30
646653--646972	85	3.8	85	86	1	408	24	18	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648310--648349	20	2.0	20	85	0	53	35	17	15	32	1.91
648361--648567	99	2.1	99	90	0	326	31	18	15	34	1.92
658714--658751	20	1.9	20	94	0	67	76	0	5	18	0.97
660181--660221	2	21.0	2	95	5	75	48	0	0	51	1.00
660210--660260	26	1.9	27	92	4	86	45	5	3	45	1.46
660198--660511	38	8.6	37	79	13	217	42	8	3	45	1.53
660198--660478	36	7.7	36	79	11	288	43	8	3	44	1.52
660305--660505	36	5.4	38	86	7	231	41	9	4	43	1.58
670886--670939	25	2.2	25	93	0	90	24	35	12	27	1.92
670892--670943	25	2.1	25	100	0	104	19	38	11	30	1.87
672427--672472	22	2.1	22	83	0	56	67	0	2	30	1.03
676092--676179	43	2.0	43	100	0	176	57	9	11	21	1.60
681162--681191	14	2.2	13	94	5	51	23	0	0	76	0.78
681544--681599	14	4.1	14	73	21	57	14	16	17	51	1.76
681545--681600	24	2.2	26	87	9	89	16	14	17	51	1.76
681867--681930	10	6.1	10	71	10	56	9	10	21	57	1.61
682258--682335	23	3.4	23	94	0	138	8	16	26	47	1.76
688426--688470	22	2.2	20	84	11	56	46	24	20	8	1.78
688835--688895	23	2.8	22	78	19	65	26	6	21	45	1.76
688845--688883	20	2.0	20	85	10	53	20	5	23	51	1.67
703488--703552	3	22.0	3	76	14	64	32	0	1	66	1.01
703482--703548	35	1.9	35	84	6	91	29	0	1	68	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
703488--703551	28	2.3	29	81	8	78	31	0	1	67	1.00
703589--703638	26	2.0	25	92	4	82	34	34	18	14	1.90
703587--703645	26	2.4	24	81	10	75	35	35	16	11	1.86
705462--705501	11	3.3	13	80	13	50	50	2	0	47	1.14
715503--716414	123	7.8	111	88	3	596	39	14	18	27	1.89
715854--716414	123	4.6	123	95	0	1007	39	14	18	27	1.90
716781--716831	3	17.0	3	84	8	68	35	0	0	64	0.94
716868--716917	26	2.0	25	92	4	82	34	34	18	14	1.90
716866--716924	26	2.4	24	81	10	75	35	35	16	11	1.86
718321--718351	16	1.9	16	93	0	53	38	3	3	54	1.32
724372--724428	26	2.2	26	84	3	71	28	5	3	63	1.33
724430--724463	16	2.1	17	88	5	52	29	0	0	70	0.87
724424--724463	17	2.2	20	86	13	59	27	0	0	72	0.85
732228--732256	15	1.9	15	100	0	58	13	44	27	13	1.82
733486--733548	33	2.0	31	87	9	92	61	0	12	25	1.31
734280--734515	102	2.3	102	86	1	321	39	9	10	40	1.72
737354--737432	35	2.3	35	93	4	135	26	3	20	49	1.66
737684--737728	3	15.7	3	86	9	67	71	0	0	28	0.87
737872--738108	84	2.9	83	87	4	329	22	18	33	24	1.97
737920--738108	40	4.6	40	73	8	166	22	18	33	25	1.97
738185--738280	28	3.3	28	83	12	106	44	13	15	26	1.83
738241--738464	66	3.4	63	71	9	153	40	14	18	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
738564--738749	101	1.8	100	79	8	216	39	11	13	34	1.82
739267--739387	37	3.5	37	68	19	114	43	10	12	33	1.77
739304--739434	30	4.1	30	72	21	115	41	12	12	33	1.81
739248--739417	67	2.5	67	96	0	304	44	11	12	31	1.78
739366--739443	30	2.7	29	81	15	90	43	15	8	32	1.78
739520--739615	27	3.5	26	80	12	86	48	14	12	23	1.78
739831--739956	36	3.5	35	77	7	128	38	9	18	33	1.83
739854--739972	36	3.4	36	79	6	111	37	12	19	30	1.89
739924--740155	104	2.3	103	85	7	294	37	12	19	30	1.89
740021--740311	156	1.9	156	86	4	417	40	11	16	31	1.84

Tables:   1   2   3   4   5   6   7