genome.fa.s8192.2.7.7.80.10.50.1000.7.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: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1702141

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1079 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)
993931--993982	24	2.2	23	86	3	68	61	0	0	38	0.96
995519--995896	105	3.6	105	83	1	452	33	14	24	27	1.94
1005929--1006055	58	2.2	57	86	8	177	25	27	15	31	1.96
1019948--1020030	37	2.2	37	93	0	139	34	37	24	3	1.73
1023290--1023329	21	2.0	19	85	9	53	40	2	5	52	1.37
1025374--1025448	38	2.0	37	82	10	91	48	2	1	48	1.24
1025720--1025807	42	2.1	42	93	6	153	38	22	18	20	1.93
1026086--1026111	2	13.0	2	100	0	52	0	50	0	50	1.00
1027087--1027121	17	2.1	17	100	0	70	40	20	11	28	1.87
1043868--1043906	21	1.9	21	89	5	62	25	15	23	35	1.94
1058426--1058476	25	2.0	25	81	7	59	62	0	0	37	0.95
1058414--1058498	34	2.5	34	94	0	152	60	0	0	40	0.97
1058434--1058488	9	6.3	9	77	8	51	67	0	0	32	0.91
1061553--1061600	21	2.2	22	96	3	89	43	6	0	50	1.27
1065147--1065246	48	2.1	48	94	3	175	19	19	11	51	1.76
1068640--1068673	3	10.7	3	87	12	50	35	0	2	61	1.11
1068836--1068860	3	8.3	3	100	0	50	0	68	0	32	0.90
1069143--1069271	68	1.9	67	85	1	177	28	27	15	28	1.96
1070318--1070392	38	2.0	38	100	0	150	29	10	33	26	1.90
1083477--1083506	2	15.0	2	100	0	60	50	0	0	50	1.00
1091193--1091249	25	2.3	25	87	3	80	45	8	3	42	1.52
1094594--1094622	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099012--1099101	6	15.0	6	91	0	135	44	16	5	33	1.71
1101943--1102017	25	3.2	25	61	24	63	40	25	9	25	1.85
1101940--1102029	45	2.0	45	97	0	171	40	25	8	25	1.85
1108910--1108948	20	2.0	20	90	10	62	38	0	20	41	1.53
1111773--1111832	22	2.8	22	94	2	104	36	8	18	36	1.81
1113028--1113190	84	2.0	83	84	8	215	30	25	19	25	1.98
1113094--1113145	19	2.7	19	100	0	104	26	34	21	17	1.95
1113076--1113231	83	1.9	82	82	10	199	26	26	21	25	1.99
1113197--1113270	37	2.0	37	100	0	148	24	27	27	21	1.99
1118996--1119060	23	2.9	23	79	4	80	27	26	24	21	1.99
1120599--1120671	21	3.5	21	94	0	119	12	38	16	32	1.86
1120599--1120684	42	2.0	42	86	0	118	10	39	16	33	1.83
1121237--1121272	2	18.0	2	100	0	72	50	0	0	50	1.00
1121519--1121813	147	2.0	147	100	0	590	37	12	8	41	1.73
1121865--1122074	65	3.3	63	81	11	239	30	23	19	27	1.98
1123984--1124037	15	3.5	15	89	2	72	31	24	9	35	1.87
1127504--1127565	32	1.9	33	83	9	83	43	0	8	48	1.32
1128371--1128401	12	2.6	12	94	0	53	45	6	38	9	1.63
1128446--1128471	3	8.7	3	100	0	52	65	34	0	0	0.93
1133082--1133117	2	18.0	2	94	0	63	52	0	0	47	1.00
1145628--1145679	20	2.6	20	96	0	95	38	26	13	21	1.90
1145669--1145767	21	4.8	20	72	6	72	36	23	19	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145734--1145927	20	9.6	20	81	5	221	35	25	19	19	1.95
1145734--1145927	60	3.2	60	83	0	253	35	25	19	19	1.95
1146308--1146378	33	2.2	33	92	0	115	11	22	18	47	1.80
1146499--1146553	14	3.6	14	73	21	56	40	23	27	9	1.85
1146499--1146569	33	2.2	33	92	0	115	42	25	23	8	1.82
1146565--1146662	19	5.7	19	70	22	81	10	24	22	42	1.84
1146587--1146676	14	5.7	14	74	23	81	8	25	23	42	1.83
1146570--1146684	33	3.5	33	95	0	212	9	24	20	45	1.81
1147199--1147300	19	5.6	19	84	13	151	44	17	23	14	1.86
1147307--1147601	33	8.5	35	84	12	237	14	20	17	47	1.83
1147329--1147601	19	15.4	19	81	14	352	14	20	17	47	1.82
1147329--1147573	71	3.4	73	84	11	316	14	20	16	47	1.82
1147307--1147573	52	5.0	52	93	4	453	14	20	16	47	1.83
1149311--1149335	12	2.1	12	100	0	50	0	28	0	72	0.86
1149509--1149555	24	2.0	24	87	8	69	38	21	14	25	1.92
1150228--1150596	20	18.5	20	86	4	458	20	18	26	34	1.96
1170310--1170355	18	2.5	18	85	3	56	43	39	13	4	1.63
1172588--1172638	18	2.8	18	93	0	84	47	5	0	47	1.26
1173619--1173657	21	1.9	20	89	5	60	46	2	7	43	1.46
1174520--1174563	3	14.3	3	95	4	79	34	0	0	65	0.93
1175417--1175447	2	15.5	2	100	0	62	51	0	0	48	1.00
1175576--1175679	29	3.6	29	93	1	181	41	6	9	42	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177428--1177461	16	2.1	16	94	0	59	20	44	0	35	1.52
1181167--1181192	11	2.4	11	100	0	52	34	0	11	53	1.37
1182406--1182469	24	2.9	21	72	17	58	25	20	21	32	1.97
1182374--1182469	45	2.2	44	85	12	126	26	21	22	29	1.99
1190497--1190553	29	2.0	29	89	0	87	50	24	7	17	1.70
1192851--1192892	22	2.0	22	86	13	63	73	2	0	23	0.94
1192850--1192891	18	2.3	19	79	4	50	71	2	0	26	0.98
1193037--1193085	19	2.7	18	81	12	55	71	2	0	26	0.97
1192826--1193192	185	2.0	186	97	0	700	47	9	13	29	1.73
1195682--1195715	11	3.0	11	83	8	50	26	50	17	5	1.69
1195951--1195978	5	5.6	5	100	0	56	21	57	21	0	1.41
1202427--1202476	18	2.8	18	84	3	66	26	28	8	38	1.84
1204374--1204410	13	2.8	13	91	0	56	37	8	21	32	1.83
1204367--1204418	13	4.0	13	78	9	52	40	11	19	28	1.86
1204844--1204881	20	2.0	20	89	5	60	42	7	0	50	1.31
1210653--1210703	26	2.0	26	92	3	86	29	25	9	35	1.88
1229928--1230116	20	9.4	20	82	4	202	36	26	17	19	1.94
1231031--1231055	13	1.9	13	100	0	50	76	0	24	0	0.80
1233354--1233587	72	3.3	72	81	8	295	47	17	21	13	1.82
1233340--1233609	53	5.1	52	89	8	406	46	17	22	13	1.83
1233340--1233609	105	2.6	109	90	7	425	46	17	22	13	1.83
1233321--1233614	72	4.2	68	78	13	267	45	18	22	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233586--1233701	53	2.2	52	84	3	151	18	22	18	39	1.92
1233624--1233711	19	4.8	19	79	14	114	13	21	15	48	1.80
1233802--1233838	14	2.6	14	91	0	65	45	21	0	32	1.52
1235758--1235897	19	7.6	19	79	8	137	45	25	19	10	1.81
1235909--1235967	14	3.9	14	74	20	55	6	15	28	49	1.70
1235893--1236016	33	3.7	33	89	1	176	8	16	27	46	1.77
1235893--1235984	19	5.4	18	72	24	83	7	16	28	47	1.73
1236114--1237173	93	11.4	93	99	0	2093	46	19	13	21	1.83
1238855--1238968	19	6.1	19	74	15	103	46	18	23	11	1.81
1238980--1239036	14	3.7	14	75	20	60	8	24	22	43	1.81
1238964--1239043	33	2.4	33	95	0	142	8	21	22	47	1.78
1239024--1239097	21	3.5	21	80	7	96	14	20	17	47	1.83
1239177--1239247	33	2.2	33	94	0	124	47	16	23	11	1.79
1239627--1239758	20	6.6	20	87	3	176	18	18	28	34	1.95
1244821--1244866	23	2.0	23	91	0	74	28	17	4	50	1.65
1248014--1248051	17	2.2	17	100	0	76	26	28	21	23	1.99
1249358--1249429	29	2.5	28	84	8	92	29	5	2	62	1.32
1250499--1250538	2	20.0	2	100	0	80	50	0	0	50	1.00
1251264--1251331	2	34.0	2	96	0	127	48	0	1	50	1.10
1252274--1252311	20	2.0	19	90	10	60	57	2	2	36	1.26
1252702--1252771	32	2.2	32	86	0	95	37	14	18	30	1.90
1252716--1252793	32	2.4	32	80	4	86	41	14	14	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255484--1255528	23	2.0	23	82	8	56	24	13	0	62	1.31
1258296--1258342	4	11.8	4	95	0	85	27	0	21	51	1.48
1265949--1266009	27	2.3	27	91	0	95	8	31	14	45	1.74
1271605--1271633	2	14.5	2	100	0	58	48	0	0	51	1.00
1272720--1272860	70	2.0	70	97	0	264	46	2	4	46	1.34
1274555--1274592	16	2.4	16	90	0	58	18	13	10	57	1.63
1276898--1277055	67	2.4	67	77	1	165	24	21	14	39	1.91
1277816--1277859	21	2.0	21	86	8	61	72	0	0	27	0.85
1277855--1277885	2	15.5	2	100	0	62	51	0	0	48	1.00
1279175--1279207	2	16.5	2	100	0	66	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9