genome.fa.s572.2.7.7.80.10.50.1000.4.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: VEPZ01000572.1 Hibiscus syriacus cultivar Beakdansim tig00001120_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2399138

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1076 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)
812732--813016	2	141.0	2	76	16	241	42	3	4	49	1.41
813036--813065	15	2.0	15	93	0	51	53	23	0	23	1.46
815922--815946	2	12.5	2	100	0	50	48	0	0	52	1.00
819736--819850	54	2.2	50	89	6	167	21	13	10	54	1.68
819776--819859	22	3.5	22	70	22	71	20	11	8	59	1.58
819817--819868	21	2.5	20	72	9	50	21	11	9	57	1.62
827257--827349	31	3.0	31	76	3	96	44	12	5	37	1.66
857672--857707	2	18.0	2	100	0	72	50	0	0	50	1.00
887775--887815	21	2.0	21	90	0	64	17	26	17	39	1.91
887776--887822	21	2.2	21	84	0	58	21	25	19	34	1.96
888040--888101	22	3.0	22	70	18	60	27	38	14	19	1.90
888436--888485	20	2.5	20	80	3	66	12	18	24	46	1.82
890366--890469	20	5.5	20	80	13	121	39	22	19	19	1.93
890369--890488	54	2.2	54	92	0	195	40	21	20	17	1.92
890505--890658	34	4.4	34	73	13	141	15	19	22	42	1.88
890524--890590	20	3.3	20	93	0	107	20	19	22	37	1.95
892585--892620	14	2.6	14	90	0	54	30	0	22	47	1.52
892799--892870	33	2.2	32	87	7	101	12	25	19	43	1.86
892868--892977	20	5.5	20	90	2	168	16	22	26	34	1.95
895406--895459	24	2.2	24	90	0	81	42	20	16	20	1.89
896311--896467	20	7.8	20	80	8	151	24	21	19	35	1.96
896311--896467	40	3.9	40	84	7	194	24	21	19	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
896321--896467	60	2.4	61	87	5	210	23	21	19	36	1.95
896457--896503	21	2.2	21	92	0	76	34	19	23	23	1.97
900665--901270	309	2.0	308	89	3	923	41	6	4	47	1.48
902154--902188	19	1.9	19	88	11	56	5	17	5	71	1.25
910297--910325	2	14.5	2	100	0	58	51	0	0	48	1.00
918906--918933	2	14.0	2	100	0	56	50	0	0	50	1.00
936796--936837	3	14.0	3	100	0	84	33	0	0	66	0.92
937200--937296	20	4.7	21	74	10	67	27	23	18	29	1.98
937506--937595	21	4.3	20	73	10	83	30	21	22	26	1.99
938346--938468	21	5.9	21	78	15	96	29	21	23	25	1.99
938331--938461	62	2.1	62	83	5	167	30	20	22	25	1.98
938409--938482	21	3.5	21	92	0	121	22	21	28	27	1.99
939121--939163	22	2.0	21	81	4	50	41	6	2	48	1.43
939768--939811	22	2.1	21	83	8	54	25	18	22	34	1.96
950994--951020	2	13.5	2	100	0	54	48	0	0	51	1.00
956963--957021	29	2.0	29	100	0	118	23	13	13	49	1.78
961648--961706	29	2.0	29	100	0	118	23	13	13	49	1.78
966235--966280	19	2.4	19	92	0	83	36	2	17	43	1.61
973801--973868	26	2.7	26	73	6	61	47	0	0	52	1.00
973853--974026	53	3.3	53	75	18	152	49	1	1	48	1.16
973991--974071	19	4.3	19	75	14	71	48	1	2	48	1.23
974066--974110	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974215--974275	28	2.1	30	85	11	83	47	0	1	50	1.10
976246--976293	22	2.2	21	85	3	60	45	4	2	47	1.33
987700--987826	31	4.1	31	78	9	132	30	17	19	32	1.95
992113--992239	31	4.1	31	78	8	123	30	17	20	31	1.95
993169--993197	14	2.1	14	93	6	51	34	3	13	48	1.60
1001671--1001851	29	6.2	29	94	0	299	35	7	26	30	1.83
1007241--1007281	20	2.1	19	90	4	64	31	26	0	41	1.56
1007243--1007282	10	4.0	10	84	12	55	32	27	0	40	1.57
1007401--1007621	110	2.0	111	93	0	381	35	9	9	45	1.69
1009458--1009497	21	1.9	21	100	0	80	30	20	37	12	1.89
1009714--1009798	35	2.5	33	76	14	82	27	7	10	55	1.60
1013399--1013506	49	2.2	49	81	1	117	27	29	26	15	1.96
1022534--1022561	2	14.0	2	100	0	56	0	50	0	50	1.00
1027086--1027186	48	2.1	49	94	1	177	17	16	0	64	1.35
1031397--1031465	2	34.5	2	100	0	138	50	0	0	49	1.00
1032290--1032345	26	2.1	27	83	9	71	33	0	3	62	1.12
1032364--1032415	27	2.0	26	84	3	68	69	0	0	30	0.89
1033860--1033915	29	1.9	29	100	0	112	62	17	7	12	1.51
1033860--1033906	16	3.1	16	70	17	55	59	19	8	12	1.58
1043439--1043464	5	5.2	5	100	0	52	38	0	0	61	0.96
1052634--1052687	25	2.2	25	83	12	67	53	0	1	44	1.11
1056584--1056709	50	2.5	50	80	0	144	17	34	26	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056754--1056870	60	2.0	60	94	0	207	27	46	3	23	1.68
1056890--1056930	10	4.1	10	84	12	57	31	29	0	39	1.57
1057053--1057274	111	2.0	111	96	0	408	36	8	11	44	1.71
1058773--1058813	18	2.3	18	91	0	64	31	31	17	19	1.95
1059152--1059191	21	1.9	21	94	0	71	30	17	37	15	1.90
1059155--1059195	9	4.6	9	81	0	55	31	17	36	14	1.90
1068783--1068823	23	1.9	22	85	14	59	58	7	14	19	1.59
1074703--1074733	15	2.1	15	100	0	62	32	6	41	19	1.77
1089035--1089081	3	16.0	3	87	12	71	31	0	0	68	0.90
1089163--1089239	25	3.1	25	94	0	136	37	19	14	28	1.91
1092717--1092778	32	2.0	32	96	3	117	14	14	9	61	1.57
1092957--1093372	210	2.0	210	85	0	564	31	21	22	24	1.98
1095210--1095286	26	3.2	25	67	25	76	24	23	10	41	1.85
1097610--1097679	36	2.0	34	83	5	86	32	15	10	41	1.81
1097471--1097847	195	1.9	196	89	6	586	32	15	11	41	1.82
1097846--1097920	35	2.1	35	87	4	107	36	16	13	34	1.87
1098022--1098103	36	2.3	36	77	8	87	36	18	13	31	1.89
1098077--1098264	104	1.8	105	85	2	272	31	19	11	37	1.87
1098292--1098373	36	2.3	36	77	8	87	36	18	13	31	1.89
1097944--1098813	272	3.2	272	98	1	1678	31	17	11	39	1.86
1099166--1099272	29	3.8	29	85	6	141	25	10	14	49	1.75
1099249--1099403	67	2.3	66	93	1	256	30	12	10	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099249--1099464	66	3.3	66	84	5	226	30	12	12	44	1.79
1099743--1099808	28	2.4	28	92	0	105	34	9	13	42	1.76
1099672--1099868	87	2.2	90	84	8	260	31	11	14	42	1.82
1099859--1099933	35	2.1	36	85	7	100	36	18	10	34	1.86
1100358--1100609	43	5.8	43	71	10	172	26	30	19	23	1.98
1100320--1100519	40	4.8	40	72	14	154	25	32	19	23	1.97
1100268--1100609	129	2.7	129	94	1	598	25	30	20	23	1.99
1100306--1100651	43	8.0	44	71	13	154	25	30	19	24	1.98
1100808--1100854	3	16.0	3	87	12	71	31	0	0	68	0.90
1100936--1101012	25	3.1	25	94	0	136	37	19	14	28	1.91
1104489--1104550	32	2.0	32	96	3	117	14	14	9	61	1.57
1104728--1105143	210	2.0	210	85	0	564	31	21	22	24	1.98
1106985--1107062	26	3.2	25	67	22	76	24	23	10	42	1.85
1107000--1107074	20	3.5	20	70	20	62	26	25	10	37	1.89
1109390--1109459	36	2.0	34	83	5	86	32	15	10	41	1.81
1109250--1109640	196	2.0	197	89	4	612	31	15	11	41	1.83
1109585--1109704	35	3.3	36	79	12	120	35	16	11	36	1.85
1109807--1109888	36	2.3	36	77	8	87	36	18	13	31	1.89
1110080--1110161	36	2.3	36	77	8	87	36	18	13	31	1.89
1110352--1110433	36	2.3	36	77	8	87	36	18	13	31	1.89
1109729--1110604	273	3.2	273	99	0	1727	31	17	11	39	1.86
1110958--1111064	29	3.8	29	85	6	141	25	10	14	49	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111057--1111178	37	3.5	36	72	19	123	31	13	10	44	1.77
1111041--1111196	67	2.3	67	94	0	267	30	12	10	45	1.77
1111539--1111605	28	2.4	28	92	2	107	35	8	13	41	1.76
1111656--1111730	35	2.1	36	85	7	100	36	18	10	34	1.86
1112156--1112407	43	5.8	43	71	10	172	26	30	19	23	1.98
1112065--1112407	129	2.7	129	94	1	607	25	30	20	24	1.99
1112117--1112317	40	4.8	40	73	13	163	24	32	18	23	1.97
1112103--1112449	43	8.0	44	71	12	163	25	30	19	24	1.98
1112606--1112648	3	15.0	3	81	18	56	32	0	0	67	0.91
1112606--1112648	13	3.2	14	90	9	72	32	0	0	67	0.91

Tables:   1   2   3   4   5   6   7   8   9