genome.fa.s8876.2.7.7.80.10.50.1000.3.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: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1683876

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 708 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)
528071--528104	2	17.5	2	93	6	61	50	0	0	50	1.00
532998--533035	3	12.7	3	89	10	60	31	0	2	65	1.06
532994--533031	12	3.4	11	83	16	51	31	0	2	65	1.06
533455--533501	14	3.4	14	81	0	58	23	34	31	10	1.89
533548--533624	29	2.7	29	97	0	145	23	27	35	14	1.93
533788--533817	2	15.0	2	100	0	60	50	0	0	50	1.00
535646--535712	25	2.8	24	82	8	82	34	0	1	64	1.03
535649--535742	32	2.9	32	80	14	88	32	1	2	63	1.13
535647--535722	8	9.4	8	71	22	52	35	0	2	61	1.10
535649--535742	15	5.9	15	68	20	57	32	1	2	63	1.13
541053--541140	41	2.1	42	83	6	108	42	6	1	50	1.36
541114--541168	10	5.2	10	78	10	56	43	3	0	52	1.18
541103--541172	32	2.2	32	92	2	115	42	4	0	52	1.20
541121--541161	22	2.0	20	90	9	64	46	2	0	51	1.14
541649--541793	30	4.8	30	97	0	254	45	13	12	28	1.79
542361--542396	14	2.6	14	95	4	65	16	8	5	69	1.33
543432--543472	18	2.3	18	83	4	57	51	2	0	46	1.14
549780--549834	24	2.5	22	85	8	67	7	16	34	41	1.76
549793--549854	24	2.6	24	92	0	97	4	9	40	45	1.58
549929--550017	5	16.4	5	72	19	63	73	1	6	19	1.12
549964--550017	19	2.8	20	78	10	69	74	0	7	18	1.05
549929--550011	17	5.1	16	77	12	80	72	1	7	19	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551118--551152	3	11.7	3	88	11	54	65	2	0	31	1.07
556371--556413	18	2.4	18	77	14	52	25	11	6	55	1.60
559119--559169	20	2.5	20	96	0	93	29	31	15	23	1.95
563737--563787	20	2.5	20	100	0	102	29	33	15	21	1.94
568618--568691	28	2.6	28	97	2	139	59	6	5	28	1.45
571159--571203	21	2.1	22	83	4	56	11	28	4	55	1.54
575819--575863	21	2.1	22	83	4	56	11	28	4	55	1.54
577992--578055	28	2.3	27	86	5	101	14	9	35	40	1.78
578640--578681	18	2.4	18	92	4	68	28	28	7	35	1.84
580084--580126	21	1.9	24	86	13	65	53	2	4	39	1.34
580191--580244	27	2.0	27	100	0	108	37	11	7	44	1.68
584178--584312	46	2.9	46	93	0	216	16	19	22	42	1.89
588800--588890	43	2.1	44	83	4	114	48	0	4	47	1.22
599664--599709	24	2.0	23	91	4	74	36	8	21	32	1.84
600288--600397	57	1.9	57	94	0	193	36	17	6	40	1.75
603822--604190	20	18.5	20	85	4	458	34	26	18	20	1.96
604864--604910	24	2.0	24	87	8	69	25	14	21	38	1.92
605082--605106	12	2.1	12	100	0	50	72	0	28	0	0.86
607400--607686	19	16.4	19	77	18	311	47	18	20	14	1.83
607400--607634	33	6.8	33	79	14	196	46	18	20	14	1.83
607428--607653	52	4.2	53	90	5	325	46	17	20	15	1.83
607467--607708	33	6.9	34	77	17	214	46	17	20	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607428--607686	52	4.9	54	88	8	269	47	17	20	14	1.83
607715--607813	20	5.6	19	80	19	133	15	23	18	43	1.87
607919--607955	14	2.6	14	91	0	65	45	21	0	32	1.52
609906--609961	14	3.7	14	80	17	67	44	23	21	10	1.83
609887--609978	32	2.8	33	91	3	159	46	21	20	10	1.81
609850--609983	19	7.6	19	78	15	119	45	23	19	11	1.82
609979--610107	19	7.3	19	75	17	125	8	17	28	45	1.77
609979--610070	33	2.8	33	93	3	150	7	18	28	45	1.76
610151--610434	92	3.1	93	96	2	531	45	19	13	22	1.84
612124--612213	14	5.7	14	74	23	81	41	23	26	8	1.84
612116--612230	33	3.5	33	92	0	203	44	20	25	9	1.82
612123--612235	19	6.8	18	72	23	88	42	22	25	9	1.84
612247--612301	14	3.6	14	73	21	56	9	27	23	40	1.85
612421--612490	33	2.1	33	91	0	113	47	18	22	11	1.81
612670--612723	21	2.5	22	78	3	65	20	16	38	24	1.92
612870--613063	20	9.6	20	81	5	212	19	19	25	35	1.95
612870--613063	60	3.2	60	82	0	244	19	19	25	35	1.95
613056--613132	21	3.7	20	70	13	57	27	16	23	32	1.96
613118--613169	20	2.6	20	96	0	95	21	13	26	38	1.90
613295--613356	12	5.2	12	81	11	56	35	1	12	50	1.51
613322--613356	6	5.8	6	100	0	70	31	0	17	51	1.45
613359--613391	5	6.6	5	92	0	57	3	0	36	60	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616086--616128	18	2.4	18	88	0	59	32	0	6	60	1.23
616098--616138	18	2.4	16	92	8	64	24	0	0	75	0.80
616118--616144	13	2.1	13	100	0	54	29	0	0	70	0.88
616866--616919	26	2.1	26	85	0	72	38	7	22	31	1.82
617171--617207	14	2.7	14	91	4	58	51	5	0	43	1.24
634407--634456	17	3.1	16	80	11	57	32	0	2	66	1.03
634414--634443	15	2.1	15	93	6	53	33	0	0	66	0.92
634389--634457	32	2.2	32	78	5	77	33	2	1	62	1.19
636085--636171	38	2.3	38	88	4	131	39	37	11	11	1.78
636331--636398	33	2.3	26	72	27	73	42	35	8	13	1.75
636332--636407	32	2.4	33	91	4	129	40	36	10	11	1.76
636043--636610	235	2.3	243	88	8	832	36	26	11	24	1.90
643712--643768	28	2.0	28	82	0	69	31	12	17	38	1.87
658972--659283	156	2.0	157	99	0	617	41	17	12	27	1.86
664357--664581	112	2.0	112	99	0	441	39	14	13	32	1.85
669708--670521	302	2.7	299	85	3	1078	40	13	9	36	1.77
670485--670595	56	2.0	55	82	5	134	27	20	1	50	1.58
672774--672813	19	2.1	19	85	0	53	32	2	5	60	1.32
693614--693701	19	4.9	19	72	18	82	50	0	0	50	1.00
693617--693701	38	2.3	38	89	4	129	49	0	0	50	1.00
703099--703138	21	1.9	21	85	10	55	32	10	5	52	1.56
703947--703987	21	2.1	19	86	9	55	53	2	0	43	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706519--706543	12	2.1	12	100	0	50	28	24	0	48	1.52
707811--707908	31	3.2	31	81	12	112	31	7	14	46	1.71
707856--707918	31	2.1	30	90	3	99	38	6	9	46	1.62
708196--708225	2	15.0	2	100	0	60	50	0	0	50	1.00
710677--710945	136	2.0	136	89	0	412	39	19	11	28	1.87
712742--712771	14	2.1	14	100	0	60	10	30	6	53	1.60
717954--718008	20	2.8	18	79	15	56	9	14	7	69	1.36
718289--718326	20	1.9	20	84	10	51	50	0	39	10	1.37
718960--718984	13	1.9	13	100	0	50	56	8	0	36	1.29
724161--724321	81	2.0	81	100	0	322	36	12	17	34	1.87
728471--728645	88	2.0	87	98	1	341	41	9	19	29	1.83
733321--733376	26	2.2	26	87	6	78	33	16	12	37	1.86
735172--735204	16	2.1	16	94	0	57	33	6	21	39	1.78
735452--735491	17	2.3	18	80	20	50	52	10	2	35	1.48
740852--741165	156	2.0	156	98	1	603	33	16	14	35	1.88
741348--741409	29	2.1	29	87	0	88	14	38	24	22	1.91
741457--741509	23	2.3	23	86	0	79	26	24	37	11	1.89
741536--741598	29	2.2	29	91	5	101	22	33	30	14	1.93
758259--758310	25	2.0	26	85	10	72	63	11	19	5	1.47
760894--760937	23	1.9	23	100	0	88	25	4	15	54	1.60
764007--764056	24	2.1	24	100	0	100	46	30	8	16	1.75
769424--769457	17	2.1	17	88	5	52	47	0	5	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
770596--770676	40	2.0	40	100	0	162	41	16	17	24	1.89
773323--773452	63	2.1	63	82	2	154	30	23	10	35	1.89
784661--784685	2	12.5	2	100	0	50	48	0	0	52	1.00
786385--786429	23	2.0	23	90	0	72	35	15	17	31	1.92
786450--786536	44	2.0	44	93	4	149	55	14	10	19	1.68
791526--791564	13	2.9	14	88	7	55	53	23	0	23	1.46
791682--791743	23	2.8	23	76	11	58	40	0	1	58	1.08
793026--793065	21	1.9	21	89	0	62	20	22	17	40	1.92
793700--793900	33	5.8	33	76	8	195	45	20	20	12	1.83
793893--793934	19	2.2	19	86	0	57	19	21	21	38	1.94

Tables:   1   2   3   4   5   6