genome.fa.s8167.2.7.7.80.10.50.1000.3.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: VEPZ01008167.1 Hibiscus syriacus cultivar Beakdansim tig00110748_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661898

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 589 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)
732785--732910	59	2.1	59	85	0	171	29	23	18	28	1.98
737894--737945	21	2.6	20	80	14	63	73	5	19	1	1.14
749722--749786	16	4.1	16	73	11	53	63	0	23	13	1.30
750696--750746	19	2.6	20	87	3	68	45	5	15	33	1.71
755270--755307	5	7.6	5	82	11	51	78	0	21	0	0.74
755270--755322	15	3.5	15	82	12	63	75	1	18	3	1.05
759048--759088	19	2.2	18	86	4	55	78	2	12	7	1.06
763808--763867	24	2.5	24	97	0	111	28	8	31	31	1.86
767739--767794	24	2.3	24	78	6	69	33	10	17	37	1.85
770685--770749	32	2.0	32	96	0	121	30	13	32	23	1.93
775576--775618	23	1.9	21	81	13	50	37	11	18	32	1.87
783203--783271	22	3.0	22	81	12	75	79	2	14	2	0.96
783203--783271	11	6.5	10	81	3	66	79	2	14	2	0.96
789477--789521	23	2.0	23	86	0	63	62	15	11	11	1.55
796490--796544	24	2.3	24	80	0	65	29	9	23	38	1.85
796911--796963	24	2.2	24	83	6	63	30	16	22	30	1.96
799087--799132	25	1.9	23	86	8	65	78	6	13	2	1.04
810841--810883	23	1.9	21	81	13	50	37	11	18	32	1.87
813411--813471	24	2.6	25	79	10	74	9	18	9	62	1.53
850642--850698	23	2.4	25	76	8	73	66	10	14	8	1.44
851953--852004	24	2.2	24	82	0	59	28	21	19	30	1.97
855165--855193	15	2.0	15	93	6	51	75	3	13	6	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
856496--856570	24	3.1	24	94	0	132	24	17	24	34	1.96
861228--861407	89	2.0	90	81	3	211	30	22	25	21	1.99
865585--865758	91	1.9	91	90	0	276	28	24	27	20	1.99
866892--867192	155	1.9	155	98	0	584	44	4	32	18	1.71
867490--867594	36	2.9	36	94	1	176	29	4	36	29	1.78
872773--872812	12	3.3	13	80	13	50	0	17	2	80	0.83
872773--872814	17	2.6	16	82	14	50	0	16	2	80	0.81
873181--873285	36	2.9	36	94	1	176	29	4	35	30	1.78
874796--874851	24	2.3	24	96	0	103	30	16	21	32	1.95
877200--877242	23	1.9	21	81	13	50	32	18	13	34	1.90
884659--884696	5	7.6	5	90	0	58	81	2	15	0	0.80
885922--885964	23	1.9	21	81	13	50	32	18	13	34	1.90
886494--887508	521	1.9	521	88	3	1524	26	24	11	37	1.90
891844--891886	22	2.0	22	90	0	68	11	13	16	58	1.64
902860--902889	13	2.4	13	94	5	53	26	30	0	43	1.55
907103--907524	211	2.0	209	92	6	712	46	6	16	29	1.73
909626--909652	12	2.2	12	100	0	54	14	33	7	44	1.73
912285--912327	23	1.9	21	81	13	50	37	13	16	32	1.88
913638--913664	12	2.2	12	100	0	54	14	33	7	44	1.73
917531--917603	30	2.4	30	86	6	94	13	10	10	64	1.50
920984--921026	23	1.9	21	81	13	50	32	18	13	34	1.90
930955--931006	24	2.2	24	82	6	61	7	15	17	59	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
933973--934015	20	2.2	20	87	4	61	34	9	6	48	1.62
934757--934796	19	2.0	20	90	4	64	65	0	15	20	1.28
935226--935260	18	1.9	18	88	0	52	42	5	17	34	1.73
935550--935637	24	3.4	24	71	17	86	25	11	31	31	1.91
935575--935656	27	3.0	29	68	18	84	29	10	28	31	1.91
935551--935656	54	2.0	54	100	0	212	27	11	29	32	1.91
938925--938965	22	1.9	21	85	5	55	24	2	31	41	1.68
939307--939341	18	1.9	18	88	0	52	37	11	22	28	1.89
952543--952588	24	2.0	23	83	12	58	76	8	13	2	1.11
952615--952659	14	2.9	15	80	12	56	73	6	15	4	1.21
952793--952834	16	2.6	16	81	11	50	14	16	0	69	1.20
955715--955760	19	2.3	20	85	3	58	34	15	6	43	1.72
959671--959700	13	2.4	13	94	5	53	26	30	0	43	1.55
962439--962468	5	6.2	5	96	3	53	0	20	0	80	0.72
967887--967940	23	2.2	25	83	6	67	7	16	14	61	1.55
971914--971962	20	2.4	20	80	12	55	26	12	14	46	1.79
972641--972670	15	2.1	15	93	6	53	76	3	20	0	0.92
980185--980227	23	1.9	23	81	13	54	30	18	13	37	1.90
986173--986257	11	7.2	11	72	22	66	31	36	3	28	1.74
986170--986271	36	2.9	36	94	1	170	32	36	4	26	1.78
986171--986287	36	3.4	34	85	11	130	30	36	3	29	1.74
986171--986310	36	4.1	33	84	9	106	30	36	2	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990526--990609	11	7.1	11	71	23	64	30	36	3	28	1.74
990523--990624	36	2.9	36	92	1	161	31	36	4	27	1.78
990524--990639	36	3.3	33	84	10	83	30	37	3	29	1.74
991772--991813	18	2.4	18	85	14	61	0	19	2	78	0.86
991773--991813	9	4.8	8	85	14	55	0	17	2	80	0.82
993674--993753	35	2.3	35	86	2	115	28	3	38	28	1.74
996569--996599	9	3.4	9	95	0	53	25	6	25	41	1.79
998934--998976	23	1.9	21	81	13	50	34	16	11	37	1.85
998948--998993	24	2.0	23	82	4	56	41	13	15	30	1.85
999600--1000139	274	2.0	274	92	0	893	30	17	10	41	1.83
1007907--1007947	22	1.9	21	90	5	64	41	36	2	19	1.65
1011437--1011469	16	2.1	16	94	0	57	33	15	6	45	1.70
1014832--1014864	16	2.1	16	94	0	57	33	18	3	45	1.65
1014581--1015493	458	2.0	460	86	7	1300	30	16	13	39	1.87
1024311--1024350	19	2.0	20	90	4	64	20	15	0	65	1.28
1025855--1025887	15	2.3	15	89	5	50	27	6	15	51	1.66
1025951--1025983	16	2.1	16	100	0	66	33	18	6	42	1.75
1025700--1026621	464	2.0	448	88	8	1345	30	16	14	39	1.88
1034614--1034656	23	1.9	21	81	13	50	32	18	13	34	1.90
1036132--1036218	40	2.2	40	95	0	156	32	11	33	22	1.90
1038364--1038414	23	2.2	23	85	3	75	60	13	15	9	1.58
1042004--1042996	502	2.0	501	93	1	1722	27	23	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046119--1046166	13	3.7	12	79	17	51	4	18	2	75	1.07
1046445--1046484	19	2.1	19	90	0	62	67	0	15	17	1.23
1047042--1047099	24	2.3	24	88	5	80	6	8	1	82	0.90
1047041--1047106	18	3.6	18	77	20	66	6	9	3	81	0.95
1047061--1047106	19	2.4	18	86	13	58	6	8	4	80	1.01
1047312--1047360	19	2.4	21	80	10	57	65	2	10	22	1.34
1052592--1052665	1	74.0	1	75	0	67	0	9	2	87	0.63
1052589--1052669	8	9.8	8	78	17	85	0	11	2	86	0.67
1052592--1052669	13	6.2	13	82	4	88	0	10	2	87	0.65
1052589--1052669	24	3.2	24	84	6	99	0	11	2	86	0.67
1058508--1058547	19	2.0	20	90	4	64	22	12	0	65	1.26
1058511--1058578	24	2.6	26	75	11	68	25	13	0	61	1.32
1060809--1060838	13	2.4	13	94	5	53	43	0	30	26	1.55
1064109--1064158	27	1.9	26	88	8	75	60	16	18	6	1.55
1064109--1064158	25	1.9	25	88	8	73	60	16	18	6	1.55
1064144--1064177	10	3.3	10	88	8	50	76	0	20	2	0.92
1071218--1071260	23	1.9	21	81	13	50	32	18	13	34	1.90
1073014--1073069	19	2.8	20	89	2	87	41	10	7	41	1.67
1074665--1074746	25	3.3	25	94	0	146	32	19	13	34	1.91
1075278--1075311	11	3.1	11	86	0	50	76	2	8	11	1.12
1076670--1076703	11	3.1	11	86	0	50	67	8	11	11	1.42
1080365--1080404	19	2.0	20	90	4	64	67	0	12	20	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081760--1081819	30	2.0	31	86	3	86	55	8	8	28	1.59
1081838--1081875	19	2.0	19	85	10	51	44	10	13	31	1.77
1087310--1087361	21	2.4	21	83	3	59	9	11	5	73	1.25
1094554--1094605	24	2.2	24	82	0	59	28	21	19	30	1.97
1095900--1096003	36	2.9	37	91	5	178	30	34	3	30	1.76
1096401--1096447	14	3.1	15	75	12	51	70	8	19	2	1.24
1100240--1100343	36	2.9	36	91	5	167	31	35	2	29	1.72
1104478--1104529	24	2.2	24	82	0	59	28	19	19	32	1.96
1114145--1114276	48	2.7	49	78	11	137	31	21	6	41	1.77
1118655--1118714	23	2.6	23	86	2	84	61	11	18	8	1.54

Tables:   1   2   3   4   5