genome.fa.s1709.2.7.7.80.10.50.1000.6.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: VEPZ01001709.1 Hibiscus syriacus cultivar Beakdansim tig00003435_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1326839

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 866 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)
885479--885640	67	2.5	67	90	3	249	31	9	12	46	1.74
885976--886055	40	2.0	40	87	4	117	31	20	11	37	1.87
886462--886536	35	2.1	36	85	7	100	36	20	12	32	1.89
886599--886627	1	29.0	1	100	0	58	100	0	0	0	0.00
886832--886885	28	1.9	28	85	7	74	22	16	16	44	1.86
886988--887239	43	5.8	43	74	9	197	27	30	18	23	1.98
886897--887239	129	2.7	129	94	1	598	26	30	19	23	1.98
886949--887239	40	6.8	40	72	12	163	26	31	18	23	1.98
887441--887481	3	14.0	3	85	14	59	31	0	0	68	0.90
887445--887481	19	2.0	18	94	5	65	32	0	0	67	0.91
887450--887492	19	2.3	19	84	8	52	37	2	0	60	1.10
887446--887492	22	2.1	22	84	7	60	36	2	0	61	1.08
893981--894047	30	2.2	29	82	10	73	43	0	4	52	1.21
894207--894265	23	2.6	23	88	0	82	40	16	5	37	1.71
894410--894476	30	2.2	29	82	10	73	43	0	4	52	1.21
894632--894694	23	2.7	23	92	0	99	38	20	4	36	1.74
893842--894896	429	2.5	429	97	0	1993	38	11	7	41	1.70
895116--895201	39	2.2	39	93	0	145	18	13	18	48	1.80
895460--895496	18	2.1	18	89	0	56	51	10	5	32	1.60
895938--895996	23	2.6	23	88	0	82	40	16	5	37	1.71
898875--899359	183	2.7	181	94	1	826	33	16	14	34	1.90
900868--900922	12	4.6	12	88	0	74	18	36	10	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
900864--900922	24	2.5	24	85	0	82	18	35	10	35	1.85
900864--900925	18	3.4	18	79	0	79	17	35	9	37	1.83
900864--900925	6	10.3	6	75	0	52	17	35	9	37	1.83
902392--904550	396	5.4	396	98	0	4033	31	16	14	36	1.89
902392--904550	199	10.9	199	97	1	4036	31	16	14	36	1.89
904669--904717	19	2.6	19	93	0	80	57	10	2	30	1.43
906508--906573	33	2.0	33	90	0	105	22	48	0	28	1.51
906607--906671	21	3.1	21	79	0	76	16	30	13	38	1.88
908899--908941	20	2.3	18	85	14	61	20	16	11	51	1.75
908904--908950	20	2.4	19	82	10	67	19	17	10	53	1.72
909085--909131	20	2.3	20	89	10	78	17	17	10	55	1.69
908871--909344	182	2.6	181	89	1	707	26	16	14	42	1.86
909923--909947	11	2.3	11	100	0	50	36	24	8	32	1.84
911743--911790	2	24.0	2	100	0	96	50	0	0	50	1.00
913586--913690	37	2.8	37	80	0	120	40	13	13	32	1.83
914508--914533	2	13.0	2	100	0	52	50	0	0	50	1.00
914551--914619	16	4.5	15	72	18	61	15	8	0	75	1.04
919010--919080	16	4.7	15	74	17	67	78	8	12	0	0.95
919013--919094	16	4.9	16	71	19	60	78	8	12	1	1.03
919023--919064	9	4.9	9	85	11	61	78	9	11	0	0.96
919013--919071	25	2.4	26	86	8	79	79	8	11	0	0.93
919016--919091	20	3.9	19	74	19	59	78	7	11	1	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
920705--921450	106	7.0	106	94	0	1251	34	25	18	22	1.96
922183--922285	37	2.8	37	85	2	136	41	14	14	29	1.85
922696--922861	61	2.6	63	77	9	158	33	4	3	57	1.37
922753--922840	19	4.6	19	71	19	58	34	3	2	60	1.26
923135--923198	12	5.2	12	73	16	51	15	7	0	76	1.00
923141--923209	35	2.0	35	83	11	88	17	5	0	76	0.97
923163--923223	25	2.4	24	84	10	77	14	4	0	80	0.87
923152--923215	9	7.1	9	72	16	53	14	6	0	79	0.91
923140--923223	8	10.2	8	76	12	64	15	5	0	78	0.93
929403--929462	23	2.5	23	79	15	68	71	8	3	16	1.24
931061--931459	39	10.3	39	90	0	602	36	18	17	27	1.94
931462--931605	76	1.9	77	83	9	188	39	13	15	31	1.85
931509--931650	39	3.7	39	70	11	96	37	16	15	30	1.90
931579--931660	39	2.1	39	88	0	119	36	19	18	25	1.94
931607--931720	60	1.9	60	87	0	165	35	14	17	31	1.91
931667--931745	39	2.0	39	90	0	122	36	12	16	34	1.87
935095--935814	365	2.0	365	97	0	1359	35	16	17	30	1.92
936930--937001	29	2.4	30	81	6	85	56	1	13	27	1.46
942912--942936	2	12.5	2	100	0	50	48	0	0	52	1.00
944142--944223	31	2.6	32	80	14	91	39	6	12	42	1.67
947048--947139	43	2.1	43	93	0	157	39	9	6	44	1.63
951970--953174	602	2.0	602	98	0	2320	32	18	25	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957545--957588	12	3.8	12	90	3	63	11	9	47	31	1.71
957543--957588	24	2.0	24	91	4	76	10	10	47	30	1.73
957606--957632	2	13.5	2	100	0	54	48	0	0	51	1.00
957621--957683	24	2.6	24	82	5	83	44	0	0	55	0.99
957722--957758	12	3.0	12	92	4	56	10	16	54	18	1.71
960427--960453	1	27.0	1	100	0	54	100	0	0	0	0.00
960958--960992	11	3.1	11	95	4	61	54	0	0	45	0.99
963729--963797	27	2.6	26	80	14	79	49	4	0	46	1.21
963729--963798	26	2.6	27	82	12	83	50	4	0	45	1.21
966119--966161	22	1.9	23	85	4	61	32	2	0	65	1.06
966327--966356	15	1.9	15	93	6	51	36	0	0	63	0.95
966437--966469	17	2.1	17	88	11	52	48	0	0	51	1.00
969735--969762	2	14.0	2	100	0	56	50	0	0	50	1.00
974149--974227	19	4.2	19	86	4	90	16	25	30	27	1.97
974149--974227	9	8.3	9	79	10	86	16	25	30	27	1.97
974149--974220	28	2.5	28	88	4	99	16	25	30	27	1.97
974221--974278	17	3.4	17	95	0	107	18	44	22	13	1.85
986108--986176	10	7.1	10	76	12	72	18	23	30	27	1.98
986108--986178	19	3.7	19	88	5	90	18	25	29	26	1.98
986172--986229	17	3.4	17	97	0	107	17	43	24	15	1.87
1001528--1001564	15	2.5	15	100	0	74	16	24	21	37	1.93
1003842--1003999	21	7.8	20	72	7	86	38	25	17	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003966--1004159	20	9.6	20	81	5	212	35	25	20	19	1.95
1003986--1004157	60	2.8	60	84	0	245	34	25	19	19	1.96
1004540--1004610	33	2.2	33	94	0	124	11	23	16	47	1.79
1004690--1004764	20	3.8	20	78	5	89	44	18	24	13	1.85
1004690--1004760	19	3.6	19	77	7	79	43	19	23	12	1.86
1004683--1004787	39	2.9	36	80	14	108	44	20	23	10	1.83
1004805--1004894	14	5.7	14	74	23	81	8	25	23	42	1.83
1004788--1004902	33	3.5	33	93	0	203	9	23	20	46	1.80
1004783--1004900	14	7.1	18	66	25	71	10	23	21	44	1.82
1006598--1007071	93	5.1	93	98	0	921	22	12	18	45	1.83
1007115--1007243	19	7.3	19	74	17	116	44	28	17	9	1.79
1007151--1007243	33	2.8	32	88	4	141	45	27	18	8	1.78
1007115--1007243	52	2.5	52	73	14	131	44	28	17	9	1.79
1007239--1007373	19	7.6	19	75	16	128	11	18	23	45	1.82
1007261--1007317	14	3.7	14	75	20	51	12	19	22	45	1.83
1007244--1007336	33	2.8	33	93	0	159	11	19	21	47	1.81
1009295--1009330	14	2.6	14	95	0	63	33	0	22	44	1.53
1009437--1009534	19	5.4	19	84	13	143	45	17	22	14	1.84
1009437--1009553	53	2.2	53	98	1	227	44	17	23	13	1.85
1011867--1011891	12	2.1	12	100	0	50	0	28	0	72	0.86
1012066--1012112	24	2.0	24	87	8	69	38	21	14	25	1.92
1012795--1013084	20	14.5	20	87	1	312	19	18	24	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013071--1013153	21	4.0	21	73	6	78	25	16	24	33	1.96
1013051--1013149	42	2.4	43	77	11	100	21	18	23	37	1.94
1020496--1020606	35	3.2	35	84	2	143	27	36	3	33	1.74
1029180--1029204	2	12.5	2	100	0	50	52	0	0	48	1.00
1029114--1029223	53	2.1	50	95	5	193	40	17	7	35	1.77
1031522--1031641	60	2.0	60	86	3	170	32	23	4	40	1.74
1031821--1031998	60	3.0	59	81	3	198	42	3	19	35	1.68
1036737--1036783	20	2.3	20	96	0	85	36	25	19	19	1.95
1036790--1036844	20	2.8	20	81	8	67	27	25	12	34	1.92
1037021--1037059	16	2.5	15	84	8	51	28	5	0	66	1.12

Tables:   1   2   3   4   5   6   7   8