genome.fa.s5397.2.7.7.80.10.50.1000.5.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: VEPZ01005397.1 Hibiscus syriacus cultivar Beakdansim tig00012370_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1218879

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 577 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)
1017477--1017551	29	2.6	28	81	8	80	49	1	2	46	1.24
1025878--1026001	60	2.1	60	83	6	153	38	12	9	38	1.77
1026423--1026475	21	2.5	21	90	0	79	22	26	16	33	1.96
1026465--1026580	41	2.8	41	81	6	137	35	19	20	24	1.96
1026465--1026573	20	5.3	20	78	8	112	35	20	20	23	1.96
1026543--1026583	20	2.0	20	85	0	55	34	19	21	24	1.97
1027435--1027488	24	2.2	24	93	0	90	20	18	20	40	1.91
1029880--1029973	20	4.7	20	86	2	136	35	24	21	19	1.96
1029880--1029973	40	2.3	40	90	3	154	35	24	21	19	1.96
1029978--1030065	19	4.8	19	80	16	114	45	18	21	14	1.85
1029925--1030065	53	2.7	52	87	3	192	41	19	22	15	1.89
1030069--1030140	20	3.9	20	72	20	66	12	20	22	44	1.85
1030238--1030274	14	2.6	14	86	0	56	48	21	0	29	1.50
1031646--1031749	42	2.5	42	96	0	190	20	15	42	22	1.89
1031643--1031755	21	5.4	21	72	0	91	22	15	40	22	1.90
1032239--1032307	20	3.5	20	89	0	93	36	20	18	24	1.95
1032314--1032435	54	2.3	53	89	1	181	19	22	19	38	1.93
1032355--1032435	20	4.3	20	76	17	93	20	20	20	37	1.95
1034310--1034378	20	3.5	20	88	2	77	42	26	15	15	1.88
1034308--1034407	20	5.4	19	76	15	75	45	24	17	14	1.84
1034420--1034469	20	2.5	20	83	3	64	20	20	24	36	1.95
1034803--1034864	22	3.0	21	71	26	60	19	14	37	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035059--1035152	20	4.7	20	80	2	107	21	21	18	39	1.93
1035149--1035194	21	2.2	21	84	7	58	36	17	26	19	1.94
1035630--1035686	2	28.5	2	100	0	114	49	0	0	50	1.00
1037622--1037664	22	2.0	22	100	0	86	18	48	23	9	1.76
1037654--1037684	7	4.4	7	91	0	53	16	25	29	29	1.96
1044377--1044454	28	2.8	29	75	13	81	17	25	28	28	1.98
1044387--1044455	9	7.3	9	79	8	57	15	27	28	27	1.96
1044377--1044453	19	4.1	19	77	5	84	18	24	28	28	1.98
1044453--1044494	22	1.9	22	100	0	84	21	50	19	9	1.75
1046643--1046763	60	2.0	60	95	1	217	23	20	13	42	1.87
1049574--1049705	20	6.5	20	78	3	156	15	21	24	38	1.92
1049547--1049785	61	3.9	61	74	5	241	19	19	23	38	1.94
1049592--1049788	41	4.9	41	89	5	310	19	19	23	37	1.94
1049551--1049788	80	2.9	82	85	4	270	19	18	23	37	1.94
1049592--1049788	80	2.4	81	91	3	308	19	19	23	37	1.94
1050386--1050419	12	3.1	11	91	8	52	0	17	52	29	1.45
1050569--1050645	19	3.9	19	77	9	91	41	19	19	19	1.91
1050595--1050666	22	3.4	22	73	11	78	38	25	18	18	1.92
1050576--1050666	41	2.2	41	98	0	173	39	23	18	18	1.92
1050576--1050686	41	2.7	41	91	4	161	41	22	18	17	1.90
1052219--1052279	30	2.1	29	87	3	86	57	6	8	27	1.53
1052247--1052284	20	1.9	20	84	10	51	52	5	7	34	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054937--1054967	15	2.1	15	93	0	53	22	16	6	54	1.64
1055382--1055415	2	16.5	2	93	6	59	47	2	0	50	1.16
1062327--1063502	282	4.2	282	86	3	1492	37	12	14	35	1.84
1067781--1067818	20	1.9	20	89	10	60	68	0	2	28	1.03
1069980--1070042	31	2.0	31	84	0	81	23	9	11	55	1.64
1081100--1081186	42	2.1	42	91	0	138	27	18	22	31	1.97
1081225--1081249	13	1.9	13	100	0	50	32	24	20	24	1.98
1081245--1081318	22	3.5	22	69	14	73	25	16	21	36	1.94
1081240--1081321	42	2.0	42	87	4	121	26	15	23	34	1.95
1081102--1081371	135	2.0	135	87	4	393	30	17	21	30	1.96
1081879--1082303	165	2.6	165	86	5	551	29	14	23	32	1.94
1081879--1082303	55	7.8	55	85	3	495	29	14	23	32	1.94
1085592--1085636	21	2.1	21	83	0	54	46	6	13	33	1.69
1088419--1088460	6	7.5	6	82	15	54	0	69	0	30	0.89
1117802--1119102	105	12.4	105	92	1	2112	32	24	18	24	1.97
1117802--1119087	522	2.5	524	93	1	2154	32	24	18	24	1.97
1121995--1122021	7	3.9	7	100	0	54	55	0	0	44	0.99
1126726--1126769	15	3.0	15	80	3	54	45	0	0	54	0.99
1131369--1131456	29	3.0	29	98	0	167	34	18	15	31	1.92
1133774--1133858	42	2.0	43	93	2	145	55	11	10	22	1.66
1135690--1135732	3	14.3	3	95	0	77	0	30	0	69	0.88
1137225--1137273	22	2.2	21	85	10	62	48	24	0	26	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137242--1137294	7	7.4	7	77	12	54	47	30	0	22	1.52
1137242--1137310	14	4.9	14	84	7	77	44	31	0	23	1.53
1137255--1137355	21	4.8	20	74	10	78	41	30	0	27	1.56
1137536--1137620	27	3.3	25	76	20	79	41	3	1	54	1.25
1137547--1137605	23	2.5	24	86	8	77	40	5	1	52	1.33
1137561--1137623	23	2.6	25	83	14	71	41	3	0	55	1.16
1137537--1137647	50	2.2	52	82	9	131	39	2	0	56	1.19
1140901--1141188	118	2.4	121	84	4	361	44	7	15	31	1.75
1141734--1141765	16	2.0	17	88	11	50	37	6	0	56	1.25
1143977--1144013	19	1.9	19	88	0	56	64	5	21	8	1.40
1146380--1146413	16	2.1	17	88	5	52	35	0	0	64	0.94
1149017--1149050	2	17.0	2	100	0	68	50	0	0	50	1.00
1162017--1162064	18	2.8	17	90	6	71	33	6	31	29	1.82
1168280--1168362	37	2.2	39	80	10	100	46	1	2	49	1.22
1168504--1168541	20	1.9	20	88	0	58	21	26	10	42	1.85
1172061--1172226	60	2.8	60	79	2	183	27	22	15	35	1.93
1172067--1172260	30	6.5	29	74	7	156	26	21	16	36	1.94
1175076--1175128	23	2.3	23	90	0	79	18	30	16	33	1.94
1175690--1175905	30	7.0	30	79	8	229	23	23	16	36	1.94
1176855--1176889	16	2.2	16	90	5	54	28	2	14	54	1.54
1177213--1177246	15	2.2	16	89	5	52	35	8	8	47	1.66
1181501--1181538	19	2.0	19	94	0	67	44	0	7	47	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182876--1182911	16	2.2	17	90	5	56	55	0	16	27	1.42
1182874--1182973	17	5.9	17	74	9	53	61	5	12	22	1.50
1192494--1192542	24	2.0	24	96	0	89	42	10	12	34	1.76
1193737--1193818	30	2.8	30	81	5	87	34	17	4	43	1.70
1196063--1196166	54	1.9	54	94	0	181	40	12	18	28	1.87
1196401--1196433	3	11.0	3	100	0	66	33	0	0	66	0.92
1206702--1206774	21	3.5	21	92	0	110	19	21	27	31	1.97
1216615--1216670	29	1.9	29	82	7	69	46	1	19	32	1.61
1217970--1218654	352	1.9	349	90	7	1102	40	14	7	37	1.75

Tables:   1   2   3   4   5

The End!