genome.fa.s7911.2.7.7.80.10.50.1000.5.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: VEPZ01007911.1 Hibiscus syriacus cultivar Beakdansim tig00110307_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1972160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1033 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)
1021721--1021755	18	1.9	18	88	0	52	28	17	0	54	1.43
1023051--1023091	18	2.3	18	91	0	64	14	19	48	17	1.81
1026824--1026858	18	1.9	18	88	0	52	28	17	0	54	1.43
1028133--1028166	15	2.1	17	89	10	54	29	26	32	11	1.92
1028158--1028227	18	4.2	18	80	17	96	11	21	48	18	1.79
1028158--1028223	31	2.1	31	97	0	123	12	22	46	18	1.81
1028169--1028205	13	2.8	13	100	0	74	10	24	48	16	1.77
1029726--1029777	26	2.0	26	81	7	61	28	1	3	65	1.21
1031884--1032185	4	76.0	4	95	1	500	49	27	0	22	1.53
1031914--1031950	10	3.7	10	88	0	56	51	37	0	10	1.37
1031924--1031954	14	2.2	14	94	0	53	51	38	0	9	1.35
1033956--1034075	35	3.3	36	89	5	181	43	20	5	31	1.73
1034007--1034067	21	3.2	21	65	29	64	42	21	4	31	1.74
1033958--1034102	35	4.1	36	83	11	142	41	19	6	33	1.76
1038565--1038684	35	3.3	36	89	5	181	43	20	5	31	1.73
1038616--1038676	21	3.2	21	65	29	64	42	21	4	31	1.74
1038567--1038711	35	4.1	36	83	11	142	41	19	6	33	1.76
1039707--1039748	21	2.0	21	86	9	59	26	0	4	69	1.08
1040101--1040218	60	2.0	61	88	5	177	35	16	8	38	1.80
1041685--1041745	6	10.2	6	96	0	95	29	49	16	4	1.66
1041743--1041796	5	10.8	5	93	0	72	16	37	40	5	1.72
1047313--1047343	12	2.6	12	100	0	62	35	54	9	0	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047341--1047394	5	10.8	5	93	0	63	14	37	40	7	1.74
1047344--1047387	15	2.9	15	86	0	70	9	40	40	9	1.68
1056290--1056330	20	2.0	20	85	0	55	75	2	19	2	1.03
1056814--1056862	20	2.5	20	86	3	64	53	4	12	30	1.57
1061248--1061315	22	3.1	22	79	10	68	27	17	14	39	1.89
1061248--1061326	22	3.6	22	78	8	63	27	18	16	36	1.93
1062359--1062483	6	20.3	6	73	8	72	22	0	44	32	1.58
1062382--1062483	9	11.3	9	74	4	62	20	0	47	32	1.51
1062382--1062476	24	4.0	24	75	5	84	20	0	47	32	1.50
1062416--1062464	3	16.3	3	78	0	53	10	0	55	34	1.34
1063441--1063489	17	2.9	17	96	0	89	26	0	28	44	1.54
1064082--1064142	31	2.0	31	90	0	95	24	22	14	37	1.92
1065761--1065835	30	2.5	31	88	2	107	48	16	12	24	1.79
1077707--1077745	20	2.0	20	85	10	53	41	2	5	51	1.38
1080179--1080522	177	2.0	175	98	1	670	40	22	12	24	1.89
1082050--1082149	39	2.6	38	87	3	119	38	9	6	47	1.60
1082511--1082611	39	2.6	39	90	0	148	38	4	7	48	1.54
1082031--1082953	462	2.0	455	92	2	1517	43	5	7	43	1.54
1089600--1089639	21	1.9	21	89	0	62	25	40	25	10	1.86
1096341--1096383	2	21.5	2	90	0	68	2	2	46	48	1.27
1101929--1101967	3	13.0	3	100	0	78	66	0	0	33	0.92
1105937--1105993	26	2.1	27	83	3	71	26	15	3	54	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106399--1106481	40	2.1	40	95	0	148	49	10	19	20	1.78
1108706--1108970	92	2.9	91	82	5	313	32	17	14	35	1.90
1111606--1112634	123	8.3	123	90	1	1517	41	14	18	25	1.89
1113258--1113317	28	2.1	28	85	11	79	46	13	1	38	1.53
1113437--1113622	4	46.5	4	98	0	363	50	24	0	25	1.50
1114751--1115112	43	8.4	43	85	1	449	34	23	21	20	1.96
1119431--1119872	43	10.4	42	85	4	471	35	23	22	18	1.96
1122197--1122239	17	2.5	17	80	0	59	25	25	32	16	1.96
1125081--1125118	18	2.1	18	90	0	58	47	26	2	23	1.65
1127636--1127714	39	2.0	39	95	0	140	32	5	18	43	1.72
1129064--1129108	18	2.5	18	88	0	63	48	24	2	24	1.62
1129064--1129114	18	2.8	18	85	5	59	49	23	1	25	1.61
1131749--1131773	12	2.1	12	100	0	50	8	28	48	16	1.74
1131776--1131817	15	2.8	16	82	10	61	45	0	0	54	0.99
1131779--1131868	13	7.0	13	67	15	53	47	0	0	52	1.00
1131920--1132008	42	2.1	42	91	0	142	15	41	12	30	1.84
1132400--1132429	2	15.0	2	100	0	60	50	0	0	50	1.00
1132420--1132571	78	1.9	78	84	2	198	52	12	4	30	1.59
1132824--1132866	21	2.0	21	82	8	52	60	9	0	30	1.28
1132881--1133144	4	65.8	4	78	3	109	52	9	21	17	1.72
1132936--1133144	40	5.2	40	81	0	202	51	10	23	14	1.72
1132940--1133134	52	3.8	52	83	0	228	51	10	24	12	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132940--1133144	28	7.6	28	71	8	129	51	10	23	14	1.72
1133137--1133208	26	2.7	26	82	6	81	51	9	5	33	1.58
1133296--1133344	21	2.3	21	82	3	62	55	10	0	34	1.34
1137074--1137204	64	2.0	64	100	0	262	38	6	22	32	1.79
1137980--1138049	30	2.3	30	80	9	81	28	7	2	61	1.37
1139174--1139230	27	2.1	27	83	6	71	64	5	1	28	1.25
1139125--1139313	78	2.4	77	79	6	193	57	8	4	29	1.48
1139368--1139410	21	2.0	21	86	0	59	60	11	0	27	1.31
1139235--1139749	250	2.1	250	98	0	994	53	10	4	31	1.54
1139618--1139660	21	2.0	21	90	0	68	60	13	0	25	1.34
1143819--1143844	5	5.2	5	100	0	52	80	0	0	19	0.71
1143923--1143999	29	2.7	29	93	0	127	61	6	6	25	1.45
1145651--1145737	42	2.1	42	82	0	102	39	21	12	26	1.89
1145875--1145970	42	2.3	41	82	3	120	33	23	20	21	1.97
1145654--1147684	233	8.7	233	87	1	2703	35	17	15	32	1.91
1146800--1146903	42	2.5	41	82	4	120	29	22	24	24	1.99
1147064--1147139	20	3.7	20	75	13	73	35	19	21	23	1.96
1149294--1149372	6	13.2	6	93	0	59	45	39	5	10	1.60
1149334--1149376	2	21.5	2	100	0	86	51	48	0	0	1.00
1149376--1149405	2	15.5	2	93	6	53	50	0	0	50	1.00
1158017--1158046	3	9.7	3	92	7	51	70	0	0	30	0.88
1158016--1158046	16	1.9	16	100	0	62	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158020--1158047	13	2.2	13	100	0	56	71	0	0	28	0.86
1158070--1158165	23	4.1	23	80	7	95	25	18	17	38	1.93
1164117--1164174	29	2.0	29	93	0	98	25	17	17	39	1.91
1170039--1170083	18	2.4	18	85	10	56	40	2	6	51	1.41
1174142--1174179	2	19.5	2	94	5	69	50	0	0	50	1.00
1180664--1180736	18	3.9	18	80	7	92	20	21	31	26	1.98
1183197--1183281	16	5.2	15	76	16	64	76	0	7	16	0.99
1183206--1183283	25	3.3	23	75	12	79	75	0	6	17	1.00
1183206--1183247	12	3.4	12	78	18	50	76	0	7	16	1.00
1183259--1183293	16	2.1	18	89	10	56	71	0	0	28	0.86
1183574--1183613	2	20.0	2	94	0	71	47	2	0	50	1.14
1184145--1184249	37	2.8	37	86	0	147	30	13	15	40	1.85
1186855--1187150	149	2.0	149	100	0	592	31	19	26	22	1.98
1193769--1193808	13	2.9	14	81	7	55	30	27	25	17	1.97
1193808--1193845	5	7.8	5	85	5	51	5	21	52	21	1.66
1193813--1193849	19	1.9	19	100	0	74	8	21	48	21	1.76
1193809--1193856	19	2.5	19	83	12	71	8	20	50	20	1.74
1193854--1193960	19	5.7	18	80	7	115	29	29	25	14	1.95
1193861--1193961	28	3.6	28	89	6	150	30	29	23	15	1.96
1193854--1193960	9	11.4	9	79	7	115	29	29	25	14	1.95
1194688--1196505	106	17.2	106	91	0	2786	23	17	24	34	1.96
1197736--1198085	172	2.0	175	88	5	521	25	17	20	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202534--1202592	13	4.8	12	78	12	50	77	0	10	11	0.98
1202554--1202612	10	6.0	10	74	18	52	76	0	6	16	1.00
1202526--1202610	19	4.5	18	71	12	64	75	0	9	15	1.04
1202617--1202641	2	12.5	2	100	0	50	52	0	0	48	1.00
1202685--1202745	13	4.6	13	76	10	52	65	3	3	27	1.24
1202873--1202919	2	24.5	2	91	8	80	53	0	0	46	1.00
1202914--1202954	21	2.0	21	85	9	57	70	4	2	21	1.18
1203409--1203506	37	2.6	37	84	6	110	32	11	13	42	1.79
1205681--1205712	2	16.0	2	100	0	64	50	0	0	50	1.00
1209125--1209180	21	2.8	20	76	10	53	41	0	3	55	1.17

Tables:   1   2   3   4   5   6   7   8   9