genome.fa.s8185.2.7.7.80.10.50.1000.6.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  6  of  16  ( 1911 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)
1014391--1014473	39	2.1	39	84	4	105	50	22	19	7	1.72
1014391--1014473	20	4.3	19	89	6	103	50	22	19	7	1.72
1014479--1014528	19	2.6	19	93	0	82	10	20	26	44	1.82
1015011--1015071	21	2.9	21	72	0	68	22	36	19	21	1.95
1016423--1016458	14	2.6	14	90	0	54	36	0	19	44	1.51
1016568--1016616	19	2.6	19	86	0	71	48	18	20	12	1.79
1016626--1016752	33	3.8	33	92	0	209	11	22	19	45	1.83
1016661--1016772	19	6.4	18	72	20	87	12	23	20	43	1.85
1016680--1016734	14	3.6	14	73	21	56	9	23	21	45	1.80
1019286--1019339	24	2.2	24	93	0	90	40	20	18	20	1.91
1019286--1019353	24	2.8	24	84	0	64	38	20	17	23	1.93
1020202--1020449	20	12.2	20	85	5	277	34	17	22	25	1.95
1020202--1020449	81	3.1	81	85	4	306	34	17	22	25	1.95
1020202--1020448	101	2.4	101	86	6	322	34	17	22	25	1.95
1021849--1021890	12	3.2	13	76	10	50	14	28	0	57	1.38
1027108--1027146	17	2.3	17	95	0	69	25	38	7	28	1.83
1030442--1030479	19	2.0	20	90	10	62	60	0	0	39	0.97
1032166--1032204	2	19.5	2	100	0	78	51	0	0	48	1.00
1032905--1032960	20	2.8	20	86	10	78	35	23	30	10	1.89
1034234--1034447	111	1.9	111	95	0	383	36	8	11	42	1.72
1035849--1035887	17	2.4	17	95	4	71	51	5	0	43	1.24
1036463--1036511	17	2.8	18	81	6	64	30	22	18	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036458--1036510	18	3.0	18	80	5	63	30	24	16	28	1.97
1036845--1036884	21	1.9	21	94	0	71	30	22	37	10	1.87
1036845--1036897	21	2.5	21	87	0	61	33	20	33	11	1.88
1041420--1041520	21	4.8	21	75	15	93	18	19	24	36	1.95
1041435--1041507	23	3.3	23	77	14	100	19	20	23	36	1.95
1041426--1041520	42	2.3	42	96	0	172	18	18	25	36	1.94
1042266--1042340	21	3.6	21	90	3	116	28	28	20	24	1.99
1042243--1042340	42	2.4	42	86	6	130	30	25	20	23	1.98
1042349--1042408	21	2.9	21	94	0	111	21	20	26	31	1.98
1042420--1042473	21	2.6	21	93	0	90	20	22	27	29	1.98
1042339--1042473	71	1.9	71	95	0	243	23	19	24	32	1.97
1043612--1043865	129	2.0	131	93	4	444	35	12	12	39	1.81
1049735--1049768	2	17.0	2	100	0	68	50	0	0	50	1.00
1050067--1050148	30	2.8	30	77	1	85	36	28	15	19	1.93
1050124--1050188	31	2.1	31	85	5	87	36	20	18	24	1.94
1051415--1051472	20	2.6	22	86	10	75	27	22	20	29	1.99
1051459--1051600	64	2.2	63	81	10	173	23	22	18	35	1.96
1051524--1051571	19	2.6	19	87	9	64	22	25	18	33	1.97
1056911--1056942	16	2.1	15	94	5	55	68	0	3	28	1.04
1060053--1060285	117	2.0	117	85	3	317	36	8	11	44	1.71
1060666--1060716	18	2.8	18	87	0	75	15	54	11	17	1.70
1063991--1064027	20	1.9	20	88	5	58	40	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071112--1071332	76	2.9	76	97	0	406	40	16	21	21	1.91
1075085--1075141	28	2.0	28	86	0	78	40	21	7	31	1.80
1076368--1076407	16	2.5	16	87	0	62	27	7	10	55	1.60
1079427--1079875	229	2.0	226	93	2	765	45	8	6	39	1.60
1079941--1079983	20	2.2	20	91	8	70	51	11	18	18	1.76
1080105--1080150	20	2.3	20	86	13	69	54	10	17	17	1.70
1082377--1082417	21	1.9	22	85	5	57	41	14	26	17	1.88
1082475--1082540	33	2.0	33	90	0	105	28	0	48	22	1.51
1084331--1084379	19	2.6	19	93	0	80	30	2	10	57	1.43
1084498--1085867	199	6.9	199	98	0	2627	37	15	15	31	1.89
1084498--1085867	397	3.4	398	98	0	2627	37	15	15	31	1.89
1084498--1085867	596	2.3	596	98	0	2625	37	15	15	31	1.89
1087322--1087410	6	14.3	6	74	6	61	37	6	34	21	1.80
1087337--1087414	3	26.0	3	74	0	66	35	6	34	23	1.80
1087322--1087414	18	5.0	18	75	7	69	36	6	34	22	1.80
1088880--1089223	184	1.9	184	93	0	589	35	14	16	33	1.89
1091690--1091754	25	2.6	25	80	0	85	35	9	13	41	1.77
1092040--1092103	23	2.8	23	87	0	92	35	6	20	37	1.78
1092040--1092112	23	3.2	23	82	7	85	34	5	20	39	1.76
1092381--1092431	25	2.0	25	92	0	84	33	7	19	39	1.81
1092726--1092762	18	2.1	18	89	0	56	32	5	10	51	1.60
1092718--1092764	24	2.0	24	86	0	67	34	4	14	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093021--1093107	39	2.2	39	95	0	156	48	20	13	17	1.81
1093510--1093573	23	2.8	23	87	0	92	35	6	20	37	1.78
1093510--1093582	23	3.2	23	82	7	85	34	5	20	39	1.76
1097590--1097658	24	2.9	25	79	18	76	52	2	1	43	1.25
1097727--1097773	16	3.0	16	75	12	53	48	0	0	51	1.00
1097702--1097776	30	2.5	30	80	8	82	50	0	1	48	1.09
1097864--1098302	198	2.2	197	83	6	534	41	13	14	30	1.85
1098303--1098351	21	2.4	20	82	3	62	44	0	2	53	1.12
1098945--1098995	23	2.2	23	89	0	75	33	13	9	43	1.77
1098881--1099082	87	2.3	87	88	0	305	31	13	11	43	1.80
1098945--1099201	110	2.3	110	88	1	363	32	12	10	44	1.76
1099040--1099101	23	2.7	23	92	0	97	35	16	9	38	1.81
1099055--1099301	87	2.8	87	88	1	361	31	12	11	44	1.78
1099151--1099201	23	2.2	23	85	0	66	39	11	9	39	1.75
1098881--1099279	197	2.0	197	90	0	629	32	13	11	43	1.79
1099229--1099279	23	2.2	23	85	0	66	35	17	7	39	1.79
1100636--1100665	2	15.0	2	100	0	60	50	0	50	0	1.00
1101026--1101052	4	6.8	4	100	0	54	22	0	0	77	0.76
1101046--1101070	13	1.9	13	100	0	50	24	0	4	72	1.02
1102124--1102208	32	2.7	32	89	5	129	57	11	9	21	1.62
1106916--1106986	2	35.5	2	100	0	142	50	0	0	49	1.00
1108067--1108148	21	3.9	21	93	3	130	31	25	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108755--1108972	42	5.2	42	86	4	305	38	19	17	23	1.92
1108756--1109017	21	12.2	21	73	14	180	38	19	17	23	1.93
1108756--1109017	84	3.1	83	82	5	301	38	19	17	23	1.93
1108948--1108996	24	2.0	24	92	0	80	32	16	20	30	1.94
1109184--1109251	34	2.0	34	100	0	136	26	11	29	32	1.92
1110702--1110753	27	1.9	27	96	0	95	23	25	13	38	1.91
1111316--1111343	2	14.0	2	100	0	56	50	0	0	50	1.00
1112480--1112558	40	2.0	39	85	7	106	48	2	16	32	1.60
1112583--1112634	27	1.9	27	88	0	77	44	0	11	44	1.40
1114346--1114381	2	18.0	2	100	0	72	0	50	0	50	1.00
1119284--1119309	10	2.6	10	100	0	52	61	0	11	26	1.30
1119242--1119310	30	2.3	30	79	0	75	55	11	13	20	1.68
1126486--1126572	39	2.3	39	95	2	158	27	16	17	39	1.90
1126987--1127190	41	5.0	41	84	3	248	25	20	17	36	1.94
1130093--1130127	11	3.0	11	84	15	52	51	25	0	22	1.48
1130088--1130127	13	3.2	13	82	17	57	47	22	0	30	1.52
1132280--1132342	20	2.9	21	79	9	65	15	25	34	23	1.95
1136144--1136183	21	1.9	21	85	10	55	35	10	2	52	1.48
1140397--1140621	43	5.3	43	76	9	171	24	20	20	33	1.97
1140421--1140621	43	4.7	44	78	7	182	24	21	20	32	1.97
1140460--1140625	85	1.9	86	85	3	228	23	22	20	33	1.97
1147535--1147567	2	16.5	2	100	0	66	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)
1150502--1150543	2	21.0	2	100	0	84	50	0	0	50	1.00
1151552--1151606	4	13.8	4	100	0	110	74	0	0	25	0.82
1154345--1154403	28	2.1	28	100	0	118	20	16	23	38	1.92
1166155--1166227	34	2.1	34	90	5	112	39	8	26	26	1.84
1169226--1169262	12	3.2	12	96	3	67	70	0	0	29	0.88
1171962--1171995	10	3.4	10	87	0	50	23	2	0	73	0.97
1181307--1181425	60	2.0	62	86	6	172	52	11	24	11	1.71
1182183--1183157	105	9.4	105	94	3	1706	33	25	18	22	1.96
1182777--1183069	93	3.0	93	85	11	424	34	25	18	22	1.96
1183513--1183547	18	2.1	16	89	10	52	40	0	0	60	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16