genome.fa.s8258.2.7.7.80.10.50.1000.6.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: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1617810

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 931 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)
1073390--1073477	28	3.1	28	78	12	108	39	28	4	27	1.76
1074783--1074935	55	2.8	54	81	12	179	32	11	17	39	1.85
1074802--1074996	55	3.5	54	79	12	166	30	11	18	39	1.86
1075000--1075836	249	3.5	240	84	4	1140	31	16	16	34	1.92
1075499--1075595	42	2.3	42	78	5	108	28	17	21	31	1.96
1075734--1075850	42	2.8	41	85	5	144	25	21	19	33	1.97
1075754--1075821	22	3.2	22	68	16	61	23	19	20	36	1.95
1076165--1076509	135	2.6	134	84	6	439	37	16	20	25	1.93
1078382--1078447	29	2.3	28	79	10	71	28	6	4	60	1.40
1078606--1078661	29	1.9	29	88	0	85	28	17	3	50	1.63
1080375--1080422	24	2.0	25	84	12	64	37	8	6	47	1.59
1080860--1080931	2	36.0	2	100	0	144	50	0	0	50	1.00
1084345--1084369	12	2.1	12	100	0	50	16	32	16	36	1.90
1086419--1086468	16	3.1	16	94	2	82	60	2	0	38	1.09
1086420--1086469	17	3.0	17	94	2	84	58	4	0	38	1.17
1086417--1086468	9	6.1	9	80	13	65	61	1	0	36	1.07
1088632--1088719	38	2.3	38	90	5	135	37	36	11	14	1.83
1088583--1089160	257	2.2	260	88	4	864	36	26	12	25	1.91
1090998--1091036	19	2.1	19	95	0	69	28	7	25	38	1.83
1091167--1091193	3	9.0	3	100	0	54	33	33	0	33	1.58
1092916--1093019	15	6.9	15	78	5	75	40	3	18	37	1.69
1092956--1093019	30	2.1	30	85	0	83	39	6	21	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093199--1093253	24	2.3	24	78	9	60	18	21	25	34	1.96
1099912--1099997	15	5.7	15	79	5	93	37	3	19	39	1.69
1099946--1100009	30	2.1	30	85	0	83	35	9	21	32	1.86
1100136--1100197	24	2.6	24	87	5	90	20	25	27	25	1.99
1100175--1100239	23	2.8	24	79	13	73	16	26	24	32	1.96
1100164--1100239	24	3.2	24	80	10	77	18	25	25	31	1.97
1104162--1104190	15	2.0	15	93	6	51	27	27	3	41	1.72
1104600--1104787	100	1.9	99	81	5	227	35	20	11	32	1.89
1104754--1104893	35	3.9	36	73	18	123	33	20	8	37	1.83
1110759--1110919	65	2.5	64	84	3	216	27	16	23	31	1.96
1110760--1110969	65	3.2	64	80	8	205	26	17	24	31	1.97
1119019--1119096	34	2.3	34	88	0	111	29	23	15	32	1.95
1119056--1119141	23	3.7	23	90	0	127	24	24	19	31	1.98
1119024--1119150	11	11.2	11	70	15	71	25	22	18	33	1.97
1121325--1121361	14	2.6	14	86	0	56	29	0	18	51	1.47
1124942--1124995	24	2.2	24	83	6	65	3	12	9	74	1.20
1124951--1124986	17	2.1	17	90	10	56	2	13	11	72	1.23
1129218--1129262	13	3.5	13	84	9	65	73	0	17	8	1.08
1129223--1129262	12	3.2	12	89	3	62	75	0	17	7	1.03
1129223--1129274	25	2.1	24	89	10	79	73	0	21	5	1.04
1130192--1130383	105	1.8	105	80	3	233	43	15	17	23	1.87
1130906--1131010	14	7.9	14	69	16	62	33	5	1	59	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130906--1130999	3	33.0	3	73	12	65	32	4	2	60	1.28
1134710--1134744	18	1.9	18	88	0	52	8	14	2	74	1.17
1138222--1138340	38	3.1	38	79	0	112	25	25	8	41	1.83
1138333--1138432	38	2.6	39	82	7	123	27	27	11	35	1.90
1138341--1138436	39	2.5	38	86	5	122	31	23	12	32	1.92
1138376--1138682	142	2.2	141	86	5	431	32	18	12	35	1.89
1140069--1140111	15	2.9	15	75	0	50	41	9	13	34	1.77
1140319--1140365	24	2.0	24	82	0	58	25	21	23	29	1.99
1149269--1149318	23	2.2	23	96	0	91	32	36	6	26	1.81
1151189--1151232	21	2.0	22	86	4	63	25	25	27	22	2.00
1154022--1154133	30	3.8	29	66	21	70	19	8	11	60	1.55
1155565--1155618	27	2.0	28	88	3	83	16	16	12	53	1.73
1159084--1159167	9	9.1	10	83	13	94	82	0	17	0	0.68
1159090--1159156	7	10.8	6	73	17	57	83	0	16	0	0.64
1159100--1159148	20	2.4	21	90	10	84	85	0	14	0	0.59
1159088--1159167	38	2.1	37	88	2	115	83	0	16	0	0.64
1162247--1162407	70	2.3	70	91	3	254	39	17	16	26	1.91
1162388--1162452	20	3.3	20	67	18	55	46	12	20	21	1.83
1162427--1162602	78	2.3	78	96	2	327	33	14	23	28	1.94
1162669--1162762	38	2.5	39	92	3	156	46	12	21	19	1.82
1165036--1165114	30	2.6	30	74	4	79	16	7	8	67	1.41
1167000--1167032	12	2.6	13	95	4	59	15	51	24	9	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167041--1167138	29	3.4	29	90	1	144	39	8	20	31	1.82
1174335--1174406	10	8.0	8	82	17	72	15	26	36	22	1.93
1174340--1174390	19	2.7	18	91	8	84	17	29	33	19	1.95
1174439--1174539	29	3.5	28	87	6	141	36	10	22	29	1.89
1174439--1174539	27	3.5	29	86	6	143	36	10	22	29	1.89
1178773--1178811	21	1.9	20	84	5	51	28	15	20	35	1.93
1184880--1184930	21	2.5	20	81	9	59	31	15	23	29	1.95
1185436--1185482	15	3.1	15	78	0	58	42	8	10	38	1.70
1185518--1185550	15	2.1	16	88	5	50	48	0	12	39	1.40
1186812--1186910	36	2.6	39	84	6	125	47	11	17	24	1.79
1186693--1186971	152	1.8	154	79	5	323	42	13	17	26	1.87
1188468--1188514	23	2.1	21	84	7	58	21	6	4	68	1.30
1188969--1189014	2	23.5	2	95	4	85	50	0	0	50	1.00
1188960--1189020	12	4.9	12	89	4	68	50	3	0	45	1.17
1189053--1189146	45	2.1	46	95	2	172	34	4	12	48	1.61
1194317--1194404	38	2.3	39	84	5	108	35	12	2	50	1.53
1195283--1195353	36	2.0	36	97	2	135	16	30	32	19	1.95
1195712--1195746	15	2.4	14	90	4	52	34	5	20	40	1.76
1202356--1202384	15	2.0	15	93	6	51	58	13	13	13	1.63
1202651--1202685	15	2.3	15	95	0	61	17	20	34	28	1.95
1204330--1204379	21	2.4	21	86	0	73	54	16	4	26	1.59
1207778--1207812	14	2.6	14	90	4	54	5	17	14	62	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207944--1207995	26	2.0	27	85	11	72	46	3	5	44	1.45
1207945--1208311	109	3.3	106	80	11	370	46	1	7	44	1.40
1208118--1208175	11	4.9	11	72	15	53	48	0	5	46	1.24
1207945--1208308	146	2.5	144	82	7	398	46	1	7	44	1.40
1208275--1208330	21	2.5	22	82	14	69	44	3	8	42	1.53
1207944--1208311	37	10.0	37	83	9	382	46	1	7	44	1.40
1208250--1208364	58	2.0	55	86	8	160	46	1	6	44	1.40
1208300--1208403	34	2.9	35	83	9	120	46	2	6	44	1.44
1208414--1208479	11	5.9	12	72	21	54	36	0	0	63	0.95
1208451--1208480	4	7.5	4	100	0	60	23	0	0	76	0.78
1210507--1210536	13	2.3	13	94	0	51	30	0	0	70	0.88
1211707--1211741	18	1.9	18	94	0	61	0	31	0	68	0.90
1214047--1214100	23	2.3	23	100	0	108	16	22	25	35	1.95
1214047--1214115	23	3.0	23	89	0	66	18	21	23	36	1.95
1215307--1215523	45	4.9	45	85	5	264	29	20	7	42	1.80
1215307--1215560	90	2.8	88	82	4	280	29	20	8	40	1.82
1215991--1216052	22	3.0	20	75	13	63	24	22	17	35	1.95
1216128--1216162	18	2.0	17	88	5	52	25	25	17	31	1.97
1226707--1227213	84	6.0	85	86	3	711	35	22	17	24	1.95
1226710--1227213	169	3.0	169	87	3	714	35	22	17	24	1.95
1227147--1227281	68	2.0	68	92	2	227	33	19	18	28	1.95
1227975--1228357	37	10.9	37	80	14	350	43	2	9	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227975--1228263	73	4.0	73	85	6	374	43	2	8	44	1.48
1227976--1228263	112	2.6	110	84	7	376	44	2	9	44	1.48
1228199--1228289	25	3.4	25	80	16	119	43	0	9	46	1.37
1228195--1228322	56	2.3	57	89	9	192	43	0	9	46	1.35
1228136--1228278	36	4.2	31	78	16	108	46	0	7	45	1.31
1228267--1228357	33	2.5	37	86	10	118	41	2	9	46	1.49
1228125--1228357	129	1.8	127	84	7	319	44	0	9	45	1.41
1228370--1228449	3	26.0	3	81	14	67	30	2	0	67	1.04
1228370--1228417	24	2.0	24	92	8	80	37	0	0	62	0.95
1228371--1228451	11	7.2	11	76	18	53	28	2	0	69	1.02

Tables:   1   2   3   4   5   6   7   8