genome.fa.s8512.2.7.7.80.10.50.1000.3.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: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1759229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1011 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)
529306--529476	34	4.9	34	81	9	148	22	18	23	35	1.95
529300--529440	74	1.9	74	86	2	203	23	19	22	34	1.97
529291--529504	20	11.6	20	69	17	133	25	18	22	34	1.96
529479--529757	140	2.0	140	97	0	522	44	15	11	28	1.82
529815--529849	18	1.9	18	94	0	61	17	2	25	54	1.57
532099--532152	24	2.2	24	90	0	81	40	20	16	22	1.91
532971--533079	20	5.3	20	82	6	96	25	15	26	32	1.96
532986--533037	21	2.5	21	93	0	95	21	13	25	40	1.89
533094--533139	19	2.4	19	85	3	56	21	17	30	30	1.96
533105--533141	19	1.9	19	94	0	65	21	16	29	32	1.95
533472--533519	11	4.5	11	78	5	62	45	2	2	50	1.25
540954--540990	2	18.5	2	100	0	74	51	0	0	48	1.00
544706--544787	20	4.2	19	84	6	92	14	28	37	19	1.91
544706--544787	40	2.0	40	88	4	121	14	28	37	19	1.91
547097--547166	34	2.1	34	86	5	99	21	30	15	32	1.94
547513--547554	20	2.1	20	95	0	75	14	28	40	16	1.88
547513--547561	20	2.6	19	87	6	55	16	28	36	18	1.92
554530--554556	5	5.4	5	100	0	54	0	55	0	44	0.99
555604--556186	222	2.6	219	89	3	873	36	21	14	27	1.92
567418--567607	20	9.6	19	71	10	69	36	26	12	23	1.91
567517--567593	20	3.9	20	82	1	102	44	25	12	16	1.84
567517--567592	40	1.9	40	94	2	136	43	26	13	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567517--567612	39	2.5	40	87	3	142	43	25	11	19	1.84
568343--568370	12	2.3	12	100	0	56	53	32	0	14	1.41
568480--568535	24	2.3	24	87	0	76	26	19	17	35	1.94
568494--568547	24	2.2	24	90	0	81	22	18	18	40	1.91
570804--570838	18	1.9	18	94	0	61	54	25	2	17	1.57
571674--571710	18	2.1	18	89	0	56	32	5	10	51	1.60
571666--571718	24	2.2	24	86	0	70	35	3	13	47	1.61
571987--572073	39	2.2	39	95	0	156	47	19	14	18	1.83
572312--572349	20	1.9	20	88	0	58	15	15	23	44	1.85
572408--572547	66	2.2	60	85	7	172	50	17	1	30	1.54
573940--574012	21	3.5	21	67	20	62	21	19	30	28	1.98
576244--576277	13	2.6	13	95	0	59	82	11	5	0	0.83
576698--576806	20	5.4	20	74	8	114	20	14	22	42	1.88
576706--576838	40	3.3	40	85	8	180	19	15	24	39	1.91
576751--576817	20	3.3	20	85	8	100	16	14	26	41	1.87
576698--576882	80	2.3	80	84	5	230	21	14	25	38	1.91
576824--576878	20	2.8	19	75	8	65	25	14	32	27	1.95
580861--580910	21	2.4	21	86	0	64	64	2	4	30	1.23
582056--582230	94	1.9	93	92	1	296	40	10	4	44	1.60
588193--588247	27	2.0	28	89	7	85	45	0	10	43	1.39
588272--588303	2	16.0	2	100	0	64	50	0	0	50	1.00
589422--589476	13	4.2	13	83	0	65	34	7	14	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590443--590509	26	2.6	26	74	9	75	53	1	8	35	1.41
590464--590503	12	3.1	13	86	10	55	62	0	10	27	1.27
590517--590583	34	2.0	34	82	5	82	47	1	10	40	1.47
593926--593996	12	6.3	11	71	15	56	73	1	4	21	1.08
595358--595482	31	4.0	31	91	2	189	37	22	18	21	1.94
599065--599109	14	3.2	14	90	6	65	46	11	6	35	1.66
599104--599174	22	2.9	24	82	12	74	46	5	0	47	1.26
599111--599174	25	2.5	26	87	7	87	43	3	0	53	1.16
599639--599870	42	5.5	42	79	4	243	34	18	19	27	1.95
599633--599870	85	2.8	82	81	8	255	35	18	19	26	1.95
603656--603809	41	3.7	40	77	8	141	29	16	20	34	1.94
606189--606214	7	3.7	7	100	0	52	46	0	30	23	1.53
606455--606496	21	2.0	20	82	13	50	35	4	0	59	1.19
609880--609930	4	13.2	4	75	8	52	29	1	0	68	1.00
609878--609992	8	14.6	8	76	18	73	32	0	1	65	1.09
609962--609994	2	16.5	2	100	0	66	48	0	0	51	1.00
610156--610191	16	2.3	15	90	4	54	19	2	0	77	0.88
610300--610364	8	8.5	8	74	20	59	16	4	1	76	1.02
610299--610358	14	4.1	14	74	16	59	16	3	1	78	0.97
610300--610358	22	2.7	22	82	15	77	16	3	1	77	0.98
611828--611910	21	4.0	21	87	1	114	20	39	26	13	1.89
611828--611910	42	2.0	42	90	2	132	20	39	26	13	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617183--617263	23	3.8	20	77	9	63	23	30	23	22	1.99
617204--617263	23	2.7	23	82	5	70	21	31	23	23	1.98
619009--619283	136	2.0	135	97	0	514	38	7	13	40	1.72
619539--619617	20	4.0	20	86	0	113	18	36	26	17	1.94
619539--619617	40	2.0	40	92	5	133	18	36	26	17	1.94
620179--620694	259	2.0	257	99	0	1014	30	23	17	28	1.97
621194--621221	14	2.0	14	100	0	56	50	7	14	28	1.69
621537--621585	19	2.7	17	84	9	53	26	20	28	24	1.99
621558--621669	53	2.1	53	83	8	138	31	22	16	29	1.96
622069--622106	19	2.0	19	100	0	76	31	26	0	42	1.56
622196--622220	2	12.5	2	100	0	50	52	0	0	48	1.00
624363--624442	22	3.6	22	74	5	81	25	23	25	26	2.00
634168--634313	73	1.9	76	81	13	178	29	17	11	41	1.85
634326--634478	39	4.0	39	85	2	202	29	19	13	37	1.90
634494--634579	36	2.4	36	88	0	118	25	19	11	43	1.85
634407--634606	101	2.0	102	89	1	312	30	19	11	39	1.86
634644--634797	66	2.3	66	83	3	193	25	20	14	38	1.91
637200--637245	18	2.6	16	86	13	56	28	2	0	69	1.00
637265--637301	2	18.5	2	100	0	74	48	0	0	51	1.00
637394--637500	3	36.3	3	70	20	57	26	5	1	66	1.24
637411--637451	19	2.1	19	90	4	64	31	7	0	60	1.24
637406--637537	23	5.8	23	72	15	89	22	5	2	69	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637455--637545	17	5.6	17	70	19	61	18	4	2	74	1.09
637455--637537	5	15.8	5	70	18	53	18	4	2	74	1.10
637649--637703	19	2.9	19	81	2	58	18	1	1	78	0.94
637631--637703	14	5.3	14	73	15	55	16	5	1	76	1.04
637593--637698	9	11.3	9	70	13	63	16	6	2	74	1.14
642974--643030	3	18.7	3	82	10	71	64	0	0	35	0.93
642976--643036	31	2.0	31	90	6	97	65	0	0	34	0.93
643632--644478	113	7.5	112	95	1	1428	27	17	16	38	1.91
645968--646014	23	2.0	25	84	16	64	0	21	0	78	0.75
645979--646029	19	2.6	20	81	12	61	1	21	0	76	0.88
645965--646028	25	2.5	25	89	5	92	1	21	0	76	0.87
649731--649769	9	4.4	9	93	3	62	61	0	15	23	1.33
657150--657192	19	2.3	19	84	8	52	32	6	6	53	1.55
658928--658991	3	21.0	3	78	9	67	62	0	1	35	1.05
658928--658986	15	3.9	15	82	10	75	62	0	1	35	1.05
658938--658982	17	2.7	17	86	10	58	66	0	0	33	0.92
659415--659477	2	32.0	2	96	3	119	49	0	0	50	1.00
662099--662175	10	7.2	11	76	20	58	33	0	0	66	0.92
662112--662176	3	21.0	3	84	12	87	36	0	0	63	0.95
662104--662176	19	3.8	19	81	16	89	35	0	0	64	0.94
663464--663523	3	20.3	3	75	16	54	26	3	1	68	1.15
663464--663523	14	4.1	14	81	10	75	26	3	1	68	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664304--664336	17	2.0	17	88	5	50	30	3	3	63	1.24
665918--665971	14	3.8	14	82	4	63	24	14	9	51	1.71
669615--669670	7	7.4	7	79	16	51	78	0	17	3	0.89
669616--669653	12	3.3	12	78	14	53	81	0	15	2	0.80
669600--669670	17	4.5	16	76	20	60	76	0	21	2	0.92
669628--669671	16	2.6	17	89	3	63	75	0	18	6	1.02
671745--672083	113	3.0	114	92	0	554	33	15	19	30	1.94
674606--674660	22	2.5	22	87	0	83	34	14	14	36	1.87
675055--675729	113	6.0	113	89	1	937	38	14	18	28	1.90
676081--676128	3	16.0	3	83	16	64	37	0	0	62	0.95

Tables:   1   2   3   4   5   6   7   8   9