genome.fa.s8160.2.7.7.80.10.50.1000.5.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: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466564

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 773 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)
1002230--1002302	23	3.2	23	88	0	101	34	4	21	39	1.73
1002682--1003357	183	3.7	183	98	0	1248	34	15	17	32	1.91
1005820--1005884	25	2.6	25	95	0	121	41	10	10	36	1.75
1006230--1006302	23	3.2	23	84	0	92	34	4	20	41	1.72
1006230--1006327	46	2.1	45	81	7	108	33	6	17	42	1.74
1006661--1006733	23	3.2	23	84	0	92	35	4	20	39	1.72
1006028--1007330	431	3.0	431	96	0	2405	40	7	12	39	1.71
1007092--1007164	23	3.2	23	86	0	101	35	5	19	39	1.75
1007092--1007173	23	3.7	21	81	12	78	36	4	19	39	1.73
1007641--1007688	23	2.1	23	92	0	78	33	16	12	37	1.86
1007897--1007935	20	2.0	20	89	0	60	41	0	2	56	1.13
1010970--1011075	56	1.9	56	90	0	167	31	21	12	34	1.90
1011630--1011693	19	3.3	19	84	8	76	32	0	1	65	1.02
1011630--1011696	22	3.0	22	86	8	82	34	0	1	64	1.03
1011664--1011705	22	1.9	22	85	0	57	42	0	2	54	1.13
1011630--1011693	3	21.7	3	80	15	71	32	0	1	65	1.02
1013663--1013716	28	2.0	27	88	3	81	35	5	0	59	1.21
1013685--1013739	24	2.5	22	80	16	60	29	1	1	67	1.11
1017001--1017032	15	2.1	15	94	0	55	25	21	6	46	1.74
1024882--1025102	64	3.5	64	82	6	227	34	19	19	27	1.96
1025395--1025467	24	3.1	24	80	9	71	36	4	23	35	1.74
1025409--1025444	12	3.0	12	91	0	63	33	5	25	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025409--1025477	24	2.8	26	83	12	85	37	5	24	31	1.79
1025587--1025616	15	2.0	15	100	0	60	20	20	26	33	1.97
1026542--1026588	21	2.4	19	86	10	67	23	10	6	59	1.53
1027705--1028439	235	3.2	234	86	6	1070	38	13	19	29	1.89
1027922--1028354	113	3.9	113	95	1	766	37	12	19	30	1.89
1028683--1028768	3	29.3	3	84	13	117	32	0	0	67	0.91
1029194--1029222	15	1.9	15	100	0	58	62	27	6	3	1.37
1030090--1030149	19	3.2	19	74	23	56	50	0	0	50	1.00
1031011--1031080	36	1.9	37	94	2	124	40	35	8	15	1.78
1032057--1032110	21	2.6	21	82	8	58	53	1	1	42	1.22
1033581--1033658	29	2.7	29	94	2	131	29	25	11	33	1.91
1033987--1034027	18	2.3	18	87	4	57	29	7	2	60	1.36
1036217--1036288	26	3.0	24	68	27	62	26	6	4	62	1.39
1039692--1039789	51	1.9	51	85	4	135	23	27	30	18	1.98
1040084--1040138	22	2.5	22	94	2	94	25	20	25	29	1.99
1040599--1040627	3	9.7	3	100	0	58	34	0	0	65	0.93
1042172--1042215	15	2.9	15	79	0	61	38	27	13	20	1.90
1043057--1043082	2	13.0	2	100	0	52	50	0	0	50	1.00
1045380--1045421	16	2.5	17	80	7	50	66	0	21	11	1.23
1048760--1048797	19	2.0	19	100	0	76	47	5	0	47	1.24
1048793--1048828	14	2.5	15	90	4	56	75	0	2	22	0.94
1056301--1056361	27	2.3	27	100	0	122	16	16	32	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057873--1057944	28	2.5	29	82	10	85	25	9	12	52	1.69
1058547--1058577	2	15.5	2	100	0	62	48	0	0	51	1.00
1059181--1059224	3	14.7	3	100	0	88	31	0	0	68	0.90
1066359--1066392	17	2.0	17	88	0	50	70	0	2	26	1.01
1066894--1066939	18	2.6	18	85	0	65	47	10	34	6	1.64
1066877--1066924	24	2.0	24	87	0	69	43	16	35	4	1.67
1072070--1072144	39	1.9	39	83	0	96	20	22	22	34	1.96
1072576--1072620	2	22.5	2	95	0	81	2	0	46	51	1.13
1074549--1074609	29	2.1	30	84	3	79	44	8	11	36	1.71
1075953--1076027	39	1.9	39	91	0	123	14	25	25	34	1.94
1076060--1076091	12	2.7	12	100	0	64	15	6	43	34	1.72
1078213--1078289	39	2.0	39	86	0	109	20	24	23	31	1.98
1081949--1081995	4	12.5	4	78	13	55	72	0	0	27	0.85
1081948--1081988	18	2.1	18	86	13	55	73	0	0	26	0.84
1081948--1081992	22	2.1	21	87	4	63	73	0	0	26	0.84
1082477--1082524	24	2.0	24	91	0	78	45	16	31	6	1.72
1087756--1087855	39	2.6	39	87	1	139	17	31	23	29	1.96
1091512--1091599	39	2.3	39	87	0	122	17	29	21	31	1.96
1092000--1092028	2	14.5	2	100	0	58	48	0	0	51	1.00
1095769--1095815	23	2.0	24	91	4	78	46	14	31	6	1.70
1099668--1099736	30	2.3	29	85	9	95	44	5	11	37	1.65
1100198--1100231	17	2.0	17	94	0	59	14	41	20	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103422--1103483	30	2.1	30	87	0	88	45	8	12	33	1.72
1104798--1104871	38	1.9	39	94	2	132	13	27	25	33	1.93
1105277--1105314	2	19.0	2	100	0	76	50	0	0	50	1.00
1112642--1112689	15	3.2	15	81	0	60	31	2	14	52	1.54
1119606--1119645	20	2.0	20	95	0	71	20	32	25	22	1.98
1119606--1119667	23	2.9	21	85	7	81	20	33	25	19	1.96
1127997--1128050	26	2.1	26	89	0	81	22	14	27	35	1.93
1129572--1129614	12	3.6	12	80	0	50	53	6	37	2	1.41
1132524--1132558	16	2.2	16	94	0	61	51	5	14	28	1.65
1134465--1134532	27	2.6	27	93	4	113	30	10	16	42	1.81
1138221--1138288	27	2.6	27	95	4	122	30	11	16	41	1.84
1140791--1141000	108	1.9	108	87	1	305	37	9	10	42	1.73
1146916--1147064	6	24.8	6	92	0	235	33	33	4	28	1.78
1147733--1147766	17	1.9	18	88	5	52	70	0	8	20	1.13
1148729--1148762	12	2.8	12	86	0	50	64	0	26	8	1.22
1154071--1154106	17	2.1	17	100	0	72	61	11	0	27	1.30
1155716--1155740	2	12.5	2	100	0	50	52	0	48	0	1.00
1158006--1158039	18	1.9	18	94	5	61	70	5	5	17	1.28
1159659--1159697	3	13.0	3	94	0	69	69	0	0	30	0.89
1159663--1159727	9	7.6	9	91	3	64	73	0	0	26	0.83
1159666--1159722	12	4.5	12	77	16	53	75	0	0	24	0.80
1159659--1159721	15	4.2	14	86	8	72	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159693--1159724	4	8.0	4	92	0	55	78	0	0	21	0.76
1159926--1160226	141	2.2	137	84	7	371	25	18	28	26	1.98
1161176--1161226	24	2.1	23	86	13	68	11	0	11	76	1.02
1161191--1161215	9	2.8	9	100	0	50	8	0	8	84	0.79
1172773--1172804	17	1.9	16	93	6	55	68	6	6	18	1.32
1174427--1174474	3	17.0	3	87	8	66	72	0	0	27	0.84
1174428--1174494	6	11.3	6	79	9	57	76	0	0	23	0.79
1174428--1174481	12	4.4	13	90	4	78	75	0	0	24	0.80
1174449--1174494	16	2.9	15	87	9	56	78	0	0	21	0.76
1174910--1174945	18	2.1	17	89	5	54	50	0	8	41	1.33
1180967--1181006	20	2.0	20	100	0	80	50	25	10	15	1.74
1182503--1182541	20	2.0	20	85	10	53	61	2	0	35	1.10
1188687--1190686	999	2.0	998	98	0	3840	35	16	22	25	1.95
1199183--1199247	20	3.2	20	77	16	64	78	0	13	7	0.95
1200524--1200575	2	29.5	2	75	24	55	44	0	0	55	0.99
1200524--1200575	10	5.3	11	88	11	62	44	0	0	55	0.99
1201890--1201920	2	15.5	2	100	0	62	51	0	0	48	1.00
1210839--1211259	154	2.7	153	85	4	565	51	6	17	25	1.69
1212083--1212119	2	18.5	2	100	0	74	51	0	0	48	1.00
1218777--1218824	2	24.0	2	100	0	96	50	0	0	50	1.00
1220620--1220742	3	41.0	3	96	0	183	66	5	0	27	1.14
1221169--1221460	46	6.6	46	77	10	243	26	17	29	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221214--1221481	129	2.1	129	83	4	335	27	17	29	25	1.98
1221745--1221817	37	1.9	37	81	8	85	42	10	16	30	1.82
1221898--1221972	32	2.3	32	88	0	105	34	25	12	28	1.91
1222976--1223027	15	3.6	14	79	7	50	3	21	3	71	1.18
1227100--1227139	21	2.0	20	85	5	53	47	15	17	20	1.83
1227098--1227140	13	3.2	13	78	18	52	51	13	16	18	1.77
1229374--1229463	32	2.9	31	85	6	119	58	8	13	18	1.60
1232562--1232640	3	26.3	3	90	10	126	65	0	1	32	1.00
1240307--1240376	35	2.0	35	100	0	140	40	40	2	17	1.64
1243039--1243080	9	4.6	9	82	5	57	73	2	0	23	0.94

Tables:   1   2   3   4   5   6   7