genome.fa.s9081.2.7.7.80.10.50.1000.5.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: VEPZ01009081.1 Hibiscus syriacus cultivar Beakdansim tig00112523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1718667

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 838 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)
933012--933048	19	1.9	19	88	0	56	18	29	24	27	1.98
933069--933105	17	2.2	17	95	0	65	16	48	21	13	1.80
940264--940343	19	4.2	18	76	12	70	15	23	27	33	1.94
940264--940343	9	8.3	9	77	13	70	15	23	27	33	1.94
942974--943114	64	2.2	63	82	5	167	32	18	23	25	1.97
943102--943159	20	2.6	22	89	10	84	31	20	22	25	1.98
959212--959240	6	4.8	6	100	0	58	13	34	0	51	1.42
959753--959925	85	2.0	86	96	1	321	35	2	35	26	1.69
960089--960148	26	2.3	27	82	2	77	18	5	23	53	1.64
960585--960612	14	2.0	14	100	0	56	28	28	0	42	1.56
966069--966113	20	2.2	21	88	4	65	57	2	2	37	1.23
967540--967643	3	34.7	3	90	0	163	65	0	1	32	1.04
967934--968909	340	2.9	339	93	1	1588	28	20	13	37	1.90
967938--968910	453	2.2	448	94	1	1689	28	20	13	37	1.90
967934--968910	113	8.7	113	93	1	1498	28	20	13	37	1.90
969501--969928	130	3.3	130	97	0	811	36	22	13	27	1.91
969840--969980	52	2.7	52	100	0	282	38	24	14	22	1.92
971131--971205	9	8.0	9	73	19	64	2	16	0	81	0.80
971130--971197	19	3.9	17	76	16	59	2	17	0	79	0.86
971131--971207	8	10.9	7	74	18	54	2	16	0	80	0.82
971130--971210	32	2.6	31	80	20	89	2	18	0	79	0.85
971131--971205	28	2.7	26	80	15	80	2	16	0	81	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971145--971212	17	3.7	19	82	9	70	4	17	0	77	0.92
971131--971211	18	4.4	18	76	17	78	2	18	0	79	0.85
971130--971200	10	6.8	10	73	13	63	2	16	0	80	0.83
983952--984058	3	35.7	3	86	3	153	66	0	0	32	0.98
985458--985516	30	2.0	30	89	0	91	35	11	8	44	1.72
985326--985777	223	2.0	228	96	3	853	34	17	9	38	1.82
985681--985739	30	2.0	30	89	0	91	35	11	8	44	1.72
986125--986297	81	2.1	81	90	4	278	36	16	8	37	1.80
986254--986412	65	2.4	66	83	7	207	40	16	6	36	1.74
986321--986505	93	2.0	93	86	2	255	39	17	7	35	1.77
986412--986573	66	2.4	69	85	4	206	41	15	7	35	1.75
986207--986612	158	2.5	158	88	3	625	39	16	7	36	1.76
986525--986695	81	2.1	80	89	3	270	37	15	9	36	1.81
986549--986687	26	5.2	27	71	10	115	38	15	10	35	1.81
998543--998595	23	2.3	24	80	9	65	16	7	9	66	1.43
1004749--1004790	17	2.5	17	80	3	50	30	0	0	69	0.89
1006967--1007006	12	3.5	11	84	15	55	7	0	20	72	1.08
1006967--1007009	5	7.8	5	87	10	50	6	0	18	74	1.04
1012419--1012619	84	2.4	85	86	1	287	39	13	15	31	1.87
1016531--1016563	16	2.1	17	88	11	52	45	3	6	45	1.43
1016555--1016668	32	3.7	29	82	6	111	50	6	0	43	1.27
1016559--1016668	30	3.5	32	85	3	127	51	6	0	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016592--1016686	31	3.0	32	86	4	122	52	7	0	40	1.29
1016867--1016905	3	13.0	3	100	0	78	33	0	0	66	0.92
1024690--1024738	21	2.3	21	85	0	62	26	22	20	30	1.98
1027535--1027594	30	2.0	31	86	3	86	46	11	5	36	1.62
1027613--1027675	32	2.0	31	87	6	92	34	3	14	47	1.60
1030912--1030960	25	2.0	25	84	8	64	46	0	2	51	1.12
1032773--1032807	5	7.0	5	100	0	70	40	0	0	60	0.97
1039091--1039141	19	2.6	20	90	3	77	43	23	17	15	1.88
1039091--1039388	20	14.6	20	76	7	170	39	19	22	18	1.92
1039195--1039386	40	4.7	40	82	5	231	37	17	24	20	1.94
1039195--1039378	83	2.2	83	94	0	323	36	17	25	20	1.94
1039442--1039519	6	13.5	6	97	1	99	30	52	11	5	1.59
1040210--1040364	6	26.5	6	96	1	257	0	16	52	30	1.44
1040442--1040485	20	2.2	20	91	0	70	11	18	15	54	1.70
1040472--1040809	20	16.6	20	79	6	178	18	23	19	39	1.93
1040474--1040705	40	5.7	40	85	4	293	19	25	18	36	1.94
1040474--1040705	83	2.8	83	87	1	335	19	25	18	36	1.94
1040759--1040809	19	2.6	20	90	3	77	15	17	23	43	1.88
1042819--1042889	36	1.9	37	94	2	126	18	28	32	21	1.96
1043287--1043359	22	3.2	21	67	14	56	41	6	19	32	1.78
1043297--1043371	23	3.3	22	70	15	71	40	8	20	32	1.81
1043271--1043383	46	2.5	46	92	4	187	41	6	18	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043532--1043622	38	2.4	38	85	3	121	29	23	21	25	1.99
1043781--1043822	20	2.0	21	90	4	68	42	7	9	40	1.65
1045113--1045213	23	4.3	24	79	5	98	24	24	18	31	1.98
1045159--1045229	24	3.0	23	77	8	79	22	25	22	29	1.99
1051264--1052029	171	4.5	171	87	1	1009	26	28	18	27	1.98
1054689--1054736	19	2.5	20	82	3	62	29	16	20	33	1.95
1054755--1054833	19	4.1	19	82	12	106	32	12	21	32	1.91
1056679--1056716	18	2.1	19	85	5	51	21	10	15	52	1.72
1057373--1057414	21	2.0	21	81	9	50	38	16	14	30	1.89
1057778--1057826	27	1.9	24	88	12	71	61	0	28	10	1.29
1058512--1058541	3	10.0	3	100	0	60	66	0	0	33	0.92
1059368--1059411	23	1.9	23	81	9	54	29	15	11	43	1.82
1067404--1067477	22	3.2	24	75	9	91	45	12	8	33	1.71
1074161--1074301	59	2.4	60	84	5	180	41	6	21	30	1.78
1080750--1080790	20	2.0	20	86	13	57	58	0	0	41	0.98
1086134--1086182	25	2.0	24	84	15	64	38	0	6	55	1.25
1086155--1086198	19	2.3	19	80	11	54	40	0	4	54	1.21
1096077--1096191	58	2.0	58	100	0	230	34	18	24	22	1.96
1098968--1099027	25	2.4	25	94	0	102	16	13	38	31	1.87
1100363--1100556	97	2.0	97	100	0	388	50	5	34	10	1.59
1105983--1106021	19	2.0	20	90	5	62	64	0	0	35	0.94
1108327--1108379	25	2.1	25	86	6	72	35	3	7	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108900--1108954	27	2.1	25	90	6	83	36	3	7	52	1.47
1108024--1109122	571	1.9	562	88	4	1645	37	10	10	41	1.73
1109198--1109246	2	25.0	2	95	4	91	48	0	0	51	1.00
1113930--1113995	20	3.5	19	75	8	62	40	1	3	54	1.25
1114737--1114948	95	2.2	97	92	5	351	36	3	7	52	1.47
1114759--1114910	48	3.2	48	61	15	116	40	2	7	49	1.46
1121956--1122004	20	2.5	20	93	3	82	38	10	16	34	1.82
1122101--1122199	49	2.0	50	80	9	114	47	2	0	50	1.12
1122332--1122393	26	2.3	26	83	13	72	51	1	1	45	1.20
1122446--1122489	22	2.0	23	86	4	63	54	0	0	45	0.99
1122461--1122523	23	2.6	24	78	19	60	47	0	0	52	1.00
1122450--1122506	21	2.6	22	81	10	64	52	0	0	47	1.00
1122330--1122497	29	6.0	28	69	20	86	50	1	1	47	1.16
1122386--1122506	54	2.3	51	76	19	124	49	0	0	48	1.12
1122698--1122814	42	2.8	42	86	1	164	49	15	16	18	1.80
1130397--1130436	21	2.0	20	90	5	62	7	15	20	57	1.61
1130647--1130683	20	1.9	19	89	10	58	45	10	24	18	1.81
1135768--1135811	16	2.8	16	86	6	54	45	0	6	47	1.29
1136210--1136239	2	15.0	2	100	0	60	50	0	0	50	1.00
1139490--1139523	2	17.0	2	100	0	68	50	0	0	50	1.00
1141062--1141097	2	18.0	2	100	0	72	50	0	0	50	1.00
1148822--1148859	19	2.0	19	100	0	76	47	5	21	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149068--1149196	59	2.2	59	85	0	168	27	17	25	28	1.98
1149272--1149432	46	3.5	46	94	2	281	39	6	20	32	1.79
1151366--1151413	2	24.5	2	95	4	89	52	0	0	47	1.00
1154125--1154202	40	1.9	41	92	2	131	53	2	8	34	1.46
1154886--1154953	33	2.1	33	97	2	129	25	14	17	42	1.87
1162150--1162181	6	5.7	6	92	7	50	28	53	18	0	1.45
1162808--1162880	20	3.6	20	79	17	96	20	20	20	38	1.94
1162790--1162880	41	2.2	41	96	0	164	20	18	21	38	1.93
1162796--1162862	21	3.2	21	76	19	86	19	17	22	40	1.92
1162868--1162914	21	2.2	21	88	0	67	25	23	21	29	1.99

Tables:   1   2   3   4   5   6   7