genome.fa.s4862.2.7.7.80.10.50.1000.6.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: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2846896

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1530 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)
1030600--1030818	95	2.3	94	76	8	201	31	24	12	31	1.93
1040032--1040075	17	2.6	17	88	0	70	11	36	20	31	1.88
1045683--1045708	2	13.0	2	100	0	52	50	0	0	50	1.00
1046965--1047040	3	24.0	3	84	7	89	36	1	1	60	1.13
1046966--1047050	16	5.3	17	79	12	74	40	1	1	57	1.14
1046950--1047048	26	3.6	28	78	16	100	39	1	2	57	1.17
1050795--1050825	14	2.1	15	94	5	55	25	16	12	45	1.83
1055179--1055865	249	2.8	249	91	0	1088	30	16	17	36	1.92
1056046--1056098	3	17.0	3	80	7	52	37	1	1	58	1.20
1056021--1056098	23	3.6	21	84	8	86	34	1	5	58	1.28
1056073--1056108	15	2.3	16	95	4	65	47	0	0	52	1.00
1060023--1060073	25	2.1	24	89	7	77	58	13	13	13	1.63
1077891--1077976	27	3.2	26	65	12	66	37	13	18	30	1.90
1077458--1077993	54	9.9	54	82	5	625	35	20	17	26	1.95
1080424--1080468	20	2.2	20	96	0	81	15	13	15	55	1.69
1082980--1083019	21	1.9	21	89	0	62	35	12	12	40	1.81
1084656--1084690	16	2.2	16	90	10	54	48	2	2	45	1.32
1096158--1096189	14	2.3	14	100	0	64	53	0	9	37	1.34
1099147--1099185	17	2.2	17	86	4	51	46	33	2	17	1.62
1099407--1099445	20	1.9	21	85	15	55	20	2	2	74	1.06
1103816--1103843	12	2.3	12	100	0	56	25	17	25	32	1.97
1105544--1105656	57	2.0	57	87	6	167	40	16	4	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105642--1105670	14	2.1	14	100	0	58	37	20	6	34	1.80
1109769--1109810	15	2.8	15	88	0	66	23	11	21	42	1.86
1110798--1110834	12	2.9	14	88	11	53	27	16	0	56	1.40
1112463--1112507	21	2.2	21	92	4	74	31	35	4	28	1.77
1112470--1112512	21	2.0	21	95	0	77	32	32	4	30	1.78
1117722--1117748	6	4.5	6	100	0	54	18	0	14	66	1.25
1121295--1121363	30	2.3	30	90	5	104	17	5	21	55	1.63
1123408--1123766	175	2.0	178	87	4	517	54	6	15	23	1.65
1125612--1125797	59	3.2	59	88	0	273	26	13	29	29	1.95
1126029--1126153	41	3.0	41	81	4	153	32	21	20	25	1.98
1125702--1126153	228	2.0	227	89	1	699	30	16	25	27	1.97
1126272--1126548	52	5.1	52	65	15	139	44	17	7	29	1.77
1126214--1126548	109	3.0	109	79	7	372	44	17	8	29	1.78
1133887--1133945	27	2.2	27	96	0	109	16	5	57	20	1.58
1133901--1133960	27	2.2	27	87	0	84	21	5	55	18	1.62
1134049--1134088	18	2.2	19	86	4	55	2	10	40	47	1.50
1135344--1135378	12	2.8	13	95	4	63	17	17	42	22	1.88
1136943--1137040	36	2.7	36	75	13	94	33	26	10	29	1.89
1136946--1137041	18	5.3	18	66	18	56	33	28	10	28	1.90
1139222--1139280	3	20.3	3	75	13	52	67	1	3	27	1.16
1139230--1139291	29	2.2	28	81	16	76	62	3	4	29	1.31
1139308--1139369	29	2.2	29	80	13	67	61	1	6	30	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140498--1140573	3	26.0	3	73	15	61	56	0	0	43	0.99
1140498--1140559	25	2.6	23	80	12	54	58	0	0	41	0.98
1140727--1141740	76	13.4	76	93	1	1714	35	21	18	24	1.96
1142416--1142514	22	4.5	22	93	0	171	39	14	11	35	1.81
1142882--1143037	54	2.9	54	87	1	224	21	23	17	37	1.94
1145094--1145310	114	1.9	114	91	0	353	29	20	16	33	1.94
1152471--1152524	25	2.2	25	86	6	74	66	0	3	29	1.09
1152471--1152524	11	4.3	13	76	23	62	66	0	3	29	1.09
1152471--1152542	37	1.9	37	86	5	101	62	1	5	30	1.26
1152470--1152524	22	2.3	25	85	14	73	67	0	3	29	1.08
1152470--1152546	12	6.5	12	74	14	54	63	1	5	29	1.24
1152762--1152811	2	25.0	2	100	0	100	50	0	0	50	1.00
1153778--1153853	3	26.0	3	70	15	52	55	1	0	43	1.08
1153779--1153838	24	2.6	23	80	15	61	55	1	0	43	1.10
1157008--1157098	35	2.6	35	75	0	101	14	26	18	40	1.89
1158746--1158888	44	3.3	43	70	18	125	30	13	15	39	1.86
1158732--1158860	42	3.0	43	69	20	124	30	13	16	39	1.87
1158732--1158900	86	2.0	85	89	3	261	31	14	14	39	1.86
1159020--1159065	21	2.2	21	84	7	58	50	23	2	23	1.61
1160930--1160977	18	2.7	18	100	0	96	27	25	8	39	1.84
1162684--1162734	21	2.5	20	83	3	57	27	21	29	21	1.99
1162772--1162814	22	1.9	23	90	4	70	20	18	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162915--1162972	30	2.0	29	86	10	82	44	15	5	34	1.69
1162915--1162974	29	2.0	30	90	6	95	43	15	6	35	1.72
1164297--1164321	12	2.1	12	100	0	50	32	0	24	44	1.54
1167163--1167407	83	3.0	81	83	4	267	37	23	11	28	1.89
1168079--1168126	2	24.0	2	95	0	87	47	0	0	52	1.00
1175415--1175473	8	7.1	8	75	24	52	40	0	0	59	0.97
1175413--1175473	16	3.7	16	81	12	70	40	0	0	59	0.98
1176566--1176616	19	2.7	19	90	0	66	23	19	27	29	1.98
1176520--1176681	84	1.9	84	83	5	211	29	19	21	29	1.98
1177049--1177103	28	2.0	28	89	3	85	45	9	5	40	1.59
1179410--1179502	44	2.1	43	82	5	116	27	17	25	29	1.97
1185258--1185414	65	2.4	65	80	4	174	29	17	21	30	1.97
1191267--1191411	41	3.6	40	88	0	191	33	14	24	28	1.94
1192853--1192982	20	6.5	20	82	8	140	28	12	21	37	1.90
1192853--1192999	40	3.7	40	79	10	149	26	13	21	38	1.90
1192853--1192999	60	2.5	60	82	6	165	26	13	21	38	1.90
1192874--1192999	20	6.3	20	79	10	107	25	14	20	39	1.90
1193264--1193402	36	3.8	36	89	2	190	32	17	22	27	1.97
1195000--1195043	23	1.9	23	90	9	72	40	0	0	59	0.98
1200180--1200260	30	2.7	30	79	5	83	46	4	11	37	1.61
1202771--1202828	27	2.1	27	96	0	107	24	24	18	32	1.97
1203479--1203517	20	2.0	19	90	5	60	7	15	38	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206021--1206070	25	2.0	25	92	0	82	34	14	26	26	1.94
1209700--1209768	30	2.3	30	90	5	104	17	7	21	53	1.67
1216174--1216223	3	17.0	3	95	4	93	34	0	0	66	0.92
1217065--1217101	2	18.5	2	100	0	74	48	0	0	51	1.00
1222572--1224853	4	581.0	4	93	4	3499	49	28	0	21	1.53
1223790--1223996	2	105.5	2	94	3	368	50	48	0	0	1.07
1225702--1226002	130	2.3	130	84	3	381	25	31	17	25	1.97
1225897--1226049	40	3.8	40	72	12	123	25	32	17	24	1.97
1225897--1226057	83	1.9	83	85	0	223	26	31	16	24	1.97
1226117--1226219	43	2.5	40	82	7	109	24	29	19	27	1.98
1227768--1227911	30	5.0	29	76	12	136	16	13	11	58	1.63
1227839--1227908	29	2.4	29	82	2	77	18	14	10	57	1.65
1227779--1227931	30	5.2	29	74	16	97	16	13	11	58	1.63
1229093--1229163	29	2.4	29	97	0	133	40	26	8	23	1.83
1238584--1238642	21	2.8	22	79	5	59	28	18	15	37	1.91
1238626--1238702	20	3.8	20	72	3	73	29	22	19	28	1.98
1246449--1246490	21	2.0	21	85	0	57	26	28	16	28	1.97
1246481--1247074	243	2.5	236	85	4	777	36	17	15	30	1.91
1246812--1247308	271	1.8	275	83	5	666	35	17	15	32	1.91
1247365--1247541	58	3.1	58	87	1	230	41	16	10	31	1.83
1247397--1247575	58	3.1	58	87	2	236	39	15	11	33	1.84
1251303--1251470	84	2.0	84	100	0	336	23	25	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254136--1254270	66	2.0	66	100	0	270	36	14	20	28	1.92
1258197--1258295	21	4.8	21	73	6	85	25	21	17	36	1.94
1258229--1258306	41	1.9	40	89	2	120	28	21	17	32	1.96
1260362--1260428	24	2.9	24	91	8	104	28	2	0	68	1.04
1260372--1260445	21	3.6	21	83	8	89	29	4	0	66	1.10
1260369--1260428	3	20.0	3	86	6	86	30	1	0	68	0.99
1260375--1260457	21	4.0	20	71	14	62	28	3	0	67	1.07
1260460--1260516	26	2.3	24	80	11	69	40	10	3	45	1.56
1261214--1261288	35	2.1	35	92	0	123	33	28	29	9	1.88
1261349--1261459	24	4.7	23	80	5	98	43	18	11	26	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13