genome.fa.s1.2.7.7.80.10.50.1000.4.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: VEPZ01000001.1 Hibiscus syriacus cultivar Beakdansim tig00000002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2159989

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 891 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)
745066--745181	24	4.7	24	87	11	148	35	16	15	32	1.90
745066--745181	51	2.4	48	85	10	162	35	16	15	32	1.90
747648--747707	26	2.3	27	83	13	72	63	8	1	26	1.32
754208--754258	21	2.4	21	86	0	66	19	11	21	47	1.81
760090--760130	21	2.1	19	86	9	55	65	0	7	26	1.18
760707--760775	34	2.0	34	94	0	120	31	14	11	42	1.82
761371--761760	98	3.8	101	78	7	326	20	20	25	33	1.97
762431--762558	31	3.9	31	72	17	82	34	12	20	32	1.90
762334--762525	67	2.8	68	83	3	219	38	12	20	28	1.89
762480--762593	33	3.4	33	89	6	160	32	10	19	37	1.86
762636--763074	37	12.9	36	67	20	173	38	11	19	30	1.87
762777--763074	100	2.9	102	92	3	494	37	12	20	30	1.89
763934--763989	22	2.5	22	91	0	85	28	10	25	35	1.89
764594--764660	23	3.2	22	73	14	61	1	11	7	79	1.00
764614--764676	8	8.1	7	77	16	54	0	14	6	79	0.92
764624--764683	16	3.6	17	73	24	65	0	11	10	78	0.97
767819--767853	16	2.1	18	89	10	56	65	0	8	25	1.21
767884--767912	2	14.5	2	100	0	58	51	0	0	48	1.00
768448--768516	34	2.0	34	91	0	111	33	13	11	42	1.80
770873--770928	19	2.9	19	73	7	60	69	3	3	23	1.20
771117--771166	18	2.6	19	82	17	68	68	2	2	28	1.12
771287--771319	2	16.5	2	93	0	57	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
771561--771603	18	2.4	18	80	0	50	65	0	9	25	1.22
771662--771710	9	4.9	10	80	14	57	61	2	0	36	1.08
773368--774041	105	6.4	105	94	0	1150	22	17	25	33	1.96
773368--774041	316	2.1	315	94	1	1172	22	17	25	33	1.96
785317--785387	19	3.6	19	75	9	63	69	4	5	21	1.27
785482--785511	2	15.0	2	100	0	60	50	0	0	50	1.00
786011--786053	18	2.4	18	80	0	50	65	0	9	25	1.22
786112--786160	9	4.9	10	80	14	57	61	2	0	36	1.08
791238--791266	2	14.5	2	100	0	58	51	0	0	48	1.00
801044--801119	15	5.5	15	70	17	74	47	0	0	52	1.00
801049--801120	27	2.7	27	100	0	144	47	0	0	52	1.00
801302--801366	26	2.5	26	94	0	112	33	3	12	50	1.55
802386--802453	16	4.2	16	71	0	55	61	14	5	17	1.52
803983--804019	14	2.8	14	84	8	51	72	0	0	27	0.84
803976--804040	18	3.7	17	74	16	53	73	1	1	23	1.00
810960--811062	50	2.1	49	83	1	125	51	6	8	33	1.59
813538--813568	16	1.9	16	100	0	62	19	0	19	61	1.35
822151--822214	6	10.7	6	100	0	128	34	34	31	0	1.58
830559--830587	12	2.3	13	94	5	51	44	6	6	41	1.58
830527--830627	30	3.5	28	78	17	91	48	2	5	42	1.42
830529--830618	11	7.7	11	72	14	58	47	3	5	43	1.43
830539--830730	60	3.1	61	75	10	176	45	4	7	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
830766--830828	2	31.5	2	100	0	126	50	0	0	49	1.00
831819--831855	17	2.2	17	100	0	74	21	10	21	45	1.82
835031--835055	2	12.5	2	100	0	50	48	0	0	52	1.00
835302--835400	49	2.0	50	80	9	114	47	2	0	50	1.12
835527--835564	11	3.5	11	82	10	51	52	0	0	47	1.00
835535--835717	33	5.8	31	74	14	137	51	1	0	46	1.12
835527--835605	19	4.0	20	69	16	58	51	1	0	46	1.08
835535--835629	28	3.2	28	77	20	97	50	2	0	47	1.13
835590--835690	28	3.6	28	75	16	86	47	0	0	50	1.14
835657--835700	22	2.0	23	86	4	63	54	0	0	45	0.99
838126--838186	2	30.5	2	100	0	122	49	0	0	50	1.00
839111--839178	31	2.2	32	81	2	84	47	2	2	47	1.32
844376--844432	12	4.8	12	75	0	60	56	0	1	42	1.10
847774--847846	35	2.1	34	82	12	87	34	2	9	53	1.48
851063--851107	23	2.0	23	90	0	72	22	20	11	46	1.81
864450--864498	17	3.0	16	85	5	62	34	0	8	57	1.29
865595--865637	2	21.5	2	95	0	68	46	4	0	48	1.22
867583--867653	35	2.0	36	97	2	135	16	30	32	19	1.95
869930--869973	23	1.9	23	90	0	70	27	25	27	20	1.99
870001--870049	22	2.3	22	85	3	64	32	30	24	12	1.92
873764--873838	38	2.0	37	92	7	125	16	30	34	18	1.93
875970--876029	31	1.9	32	86	10	88	41	5	3	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879785--879820	18	2.0	18	94	0	63	41	0	2	55	1.14
879974--880020	18	2.6	18	86	0	67	34	12	29	23	1.92
897136--897167	15	2.1	15	100	0	64	25	28	34	12	1.92
906553--906614	19	3.3	19	82	13	74	61	0	3	35	1.12
907855--907901	24	2.1	23	84	11	62	44	4	2	48	1.34
918775--918822	18	2.8	18	84	6	55	39	0	4	56	1.19
918952--919165	106	2.0	106	99	0	419	34	22	16	26	1.95
919348--919393	18	2.6	18	86	3	58	41	0	4	54	1.20
919432--919858	213	2.0	212	95	3	779	28	29	16	24	1.97
931176--931272	50	1.9	50	85	4	133	48	14	22	14	1.80
932014--932579	105	5.4	105	95	0	952	33	25	18	22	1.97
933085--933132	18	2.8	18	84	6	55	39	0	4	56	1.19
939246--939285	21	1.9	21	85	10	55	57	17	5	20	1.58
947153--947177	13	1.9	13	100	0	50	76	8	0	16	1.02
947584--947612	15	1.9	15	100	0	58	44	6	13	34	1.71
948097--948147	23	2.2	23	85	0	66	43	7	9	39	1.67
948185--948237	23	2.4	22	87	6	72	52	5	5	35	1.49
948094--948278	93	2.0	91	85	6	250	47	9	8	35	1.65
964807--964855	23	2.1	23	85	7	64	59	12	2	26	1.44
966255--966339	7	12.3	7	96	1	145	42	0	11	45	1.40
967153--967221	23	3.0	23	82	0	93	31	26	23	18	1.97
968279--968459	64	2.8	63	83	3	218	28	16	25	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968407--968445	19	2.1	19	95	0	69	25	15	38	20	1.92
968300--968459	65	2.5	65	85	3	216	29	15	25	30	1.96
974891--974930	21	1.9	21	85	10	55	35	10	2	52	1.48
976856--977036	64	2.8	63	84	3	227	27	16	26	29	1.97
976984--977034	19	2.7	19	85	8	70	25	15	35	23	1.94
976877--977036	65	2.5	65	87	3	225	28	15	26	30	1.96
977470--977497	2	14.0	2	100	0	56	50	0	0	50	1.00
978497--978574	20	3.8	20	75	18	70	24	25	19	30	1.98
982020--982088	23	3.0	23	84	0	102	30	26	26	17	1.97
984466--984644	2	94.5	2	68	22	75	44	3	3	48	1.39
984481--984559	40	2.0	41	82	12	101	41	2	2	53	1.28
984577--984644	5	12.8	5	79	13	57	50	1	1	47	1.19
986979--987029	2	25.5	2	100	0	102	50	0	49	0	1.00
987957--987981	4	6.2	4	100	0	50	76	0	0	24	0.80
990550--990829	142	2.0	142	97	0	533	38	19	8	33	1.83
990581--990870	142	2.0	141	88	4	429	40	19	8	32	1.81
991799--991861	32	2.0	32	87	6	92	38	15	11	34	1.83
995109--995730	309	2.0	309	97	0	1183	34	17	12	35	1.88
999710--1000778	538	2.0	538	98	0	2084	34	12	15	37	1.85
1001477--1001625	52	2.8	52	79	6	183	20	12	10	56	1.65
1005162--1005210	19	2.6	19	96	0	89	34	0	0	65	0.93
1006758--1006822	30	2.2	30	91	0	103	13	21	35	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012812--1012897	32	2.7	32	96	0	154	36	10	27	25	1.89
1012885--1012945	31	2.0	31	90	6	97	45	13	18	22	1.83
1020554--1020711	78	2.0	78	95	0	280	19	23	25	31	1.98
1021341--1021366	2	13.0	2	100	0	52	50	0	0	50	1.00
1022365--1022421	19	3.0	19	71	5	53	45	3	1	49	1.29
1022386--1022447	30	2.0	31	87	3	90	45	8	0	46	1.32
1033346--1033391	24	1.9	24	82	8	58	39	21	10	28	1.87
1048623--1048660	18	2.1	18	100	0	76	21	10	23	44	1.83
1049232--1049256	2	12.5	2	100	0	50	52	0	0	48	1.00
1052253--1052294	22	1.9	22	85	0	57	47	0	7	45	1.30

Tables:   1   2   3   4   5   6   7   8