genome.fa.s8654.2.7.7.80.10.50.1000.6.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2052 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)
1093712--1093760	19	2.7	17	84	9	53	26	20	28	24	1.99
1093732--1093941	65	3.2	66	77	9	227	26	18	23	30	1.98
1094636--1094675	19	2.0	20	85	4	55	40	17	0	42	1.49
1094591--1095045	226	2.0	226	85	5	607	37	19	7	35	1.80
1095260--1095809	198	2.8	198	78	4	560	30	16	11	42	1.82
1101762--1101876	61	1.9	61	90	3	187	22	18	28	30	1.97
1101986--1102154	45	3.8	45	89	2	250	40	8	21	28	1.82
1105702--1106218	139	3.7	139	86	2	691	26	20	17	35	1.94
1109347--1109389	4	11.8	4	81	18	58	0	20	0	79	0.74
1109346--1109472	18	7.8	17	70	16	74	2	22	0	74	0.98
1109347--1109389	22	2.0	22	90	9	70	0	20	0	79	0.74
1109346--1109406	15	4.2	14	80	12	52	1	19	0	78	0.83
1109346--1109455	8	12.3	9	75	12	52	1	23	0	74	0.91
1109346--1109472	19	6.8	18	72	14	78	2	22	0	74	0.98
1109346--1109455	10	11.4	10	76	16	72	1	23	0	74	0.91
1109346--1109472	9	13.4	9	73	20	59	2	22	0	74	0.98
1109346--1109442	10	8.7	11	76	13	83	1	24	0	74	0.89
1112914--1112990	33	2.3	33	90	0	118	27	15	9	48	1.75
1123776--1123828	26	2.0	26	100	0	106	52	7	18	20	1.69
1123847--1123890	16	2.7	16	80	16	54	70	0	11	18	1.16
1123899--1123933	14	2.5	14	90	0	52	57	0	17	25	1.40
1124350--1124404	26	2.1	26	83	6	67	65	10	1	21	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124463--1124523	29	2.1	29	81	0	68	55	13	13	18	1.68
1127010--1127054	2	22.5	2	100	0	90	48	0	0	51	1.00
1128302--1128775	200	2.4	198	84	5	589	29	15	14	40	1.86
1131287--1131824	199	2.7	198	85	4	726	32	15	13	38	1.86
1131583--1132032	248	1.8	249	85	3	629	32	16	13	37	1.87
1133324--1133359	15	2.4	15	95	0	63	25	33	5	36	1.79
1134813--1135353	194	2.7	198	89	3	838	33	16	13	37	1.87
1135609--1135653	19	2.4	19	96	3	83	57	8	0	33	1.30
1137245--1137334	44	2.1	42	83	10	110	20	32	4	43	1.71
1137395--1137460	33	2.0	33	91	5	107	22	45	0	31	1.53
1137494--1137537	21	2.1	21	86	0	61	18	31	9	40	1.81
1137620--1137652	15	2.2	15	94	0	57	12	60	6	21	1.53
1139735--1140210	182	2.6	181	86	3	625	28	16	13	41	1.86
1141015--1141482	182	2.6	182	88	3	674	27	15	14	42	1.86
1142265--1142739	181	2.6	181	88	1	673	28	16	14	41	1.86
1143699--1143761	3	20.7	3	96	3	117	0	0	31	68	0.90
1143827--1143920	49	1.9	49	84	4	127	21	46	10	21	1.81
1145211--1145260	24	2.1	24	85	3	66	14	6	8	72	1.27
1146857--1146901	22	2.1	22	95	4	83	11	33	15	40	1.83
1156683--1156754	11	6.5	11	72	21	53	80	0	12	6	0.89
1156664--1156760	16	5.8	15	70	22	52	79	1	11	8	0.99
1156703--1156751	18	2.8	17	75	12	55	79	0	16	4	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158048--1158356	133	2.3	135	84	5	396	33	21	16	28	1.95
1160615--1161048	220	2.0	212	90	8	682	45	12	8	32	1.73
1164442--1164471	15	2.1	14	93	6	51	10	6	56	26	1.57
1165266--1165492	11	20.6	11	71	16	80	48	2	3	45	1.33
1165408--1165493	2	44.5	2	90	6	142	47	0	0	52	1.00
1165560--1165597	20	2.0	20	89	5	60	36	0	34	28	1.58
1165808--1165832	13	1.9	13	100	0	50	56	12	0	32	1.36
1165970--1166031	21	3.0	21	78	4	54	37	30	3	29	1.73
1166057--1166106	22	2.3	22	79	6	57	52	8	2	38	1.43
1166073--1166104	13	2.5	13	94	0	55	50	9	0	40	1.35
1166316--1166398	34	2.4	34	97	0	157	46	10	6	36	1.63
1166336--1166394	20	3.2	20	68	26	67	47	8	6	37	1.61
1166344--1166398	16	3.3	16	72	18	58	47	9	5	38	1.58
1166377--1166501	20	6.5	19	71	15	69	45	7	6	40	1.57
1166377--1166455	37	2.2	36	81	4	97	44	7	7	40	1.61
1168275--1168328	21	2.6	21	81	0	63	55	24	1	18	1.52
1168251--1168328	14	5.6	14	71	6	52	51	26	1	20	1.55
1168402--1168434	14	2.4	14	94	0	57	45	24	0	30	1.53
1168402--1168441	21	1.9	21	84	0	53	47	27	0	25	1.52
1170757--1171048	137	2.1	137	94	0	512	14	21	33	30	1.93
1171312--1171347	17	2.1	17	100	0	72	25	16	30	27	1.97
1173166--1173276	54	2.1	54	87	3	161	44	9	13	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173166--1173276	27	4.1	27	86	4	145	44	9	13	32	1.77
1175646--1175714	12	5.4	12	72	13	57	2	13	47	36	1.57
1175628--1175714	26	3.5	24	77	11	66	5	14	45	33	1.69
1175652--1175715	28	2.3	28	86	0	83	3	12	46	37	1.57
1176632--1176683	16	3.2	17	72	22	58	42	0	21	36	1.53
1189739--1189798	24	2.5	24	81	5	77	21	18	18	41	1.90
1194100--1194129	7	4.4	7	91	8	53	0	0	13	86	0.57
1194100--1194128	13	2.2	13	100	0	58	0	0	13	86	0.58
1196175--1196241	34	2.0	34	84	0	89	41	17	17	22	1.90
1196284--1196351	24	2.9	23	82	4	91	44	20	11	23	1.84
1199651--1199710	26	2.3	26	94	0	102	31	23	20	25	1.98
1199677--1200022	55	6.3	55	81	2	356	26	19	25	28	1.99
1199707--1199961	28	9.3	25	66	23	97	26	19	27	27	1.99
1199679--1200020	110	3.1	109	88	2	472	26	19	25	28	1.99
1206250--1206290	16	2.4	17	88	8	57	41	0	7	51	1.30
1206540--1206587	16	3.0	16	84	0	60	56	12	6	25	1.59
1209270--1209318	23	2.1	24	84	3	64	36	0	6	57	1.24
1211645--1211688	19	2.3	19	84	0	52	31	2	11	54	1.48
1211770--1211959	20	8.9	20	66	22	68	50	2	3	44	1.32
1214133--1214244	59	1.9	59	88	5	172	35	16	14	33	1.88
1214571--1214679	58	1.9	57	84	5	148	36	16	15	31	1.90
1215176--1215211	11	3.2	11	88	4	54	66	19	0	13	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215182--1215251	22	3.2	22	73	15	63	55	20	5	18	1.62
1215190--1215252	33	1.9	33	83	0	81	52	20	6	20	1.68
1215242--1215299	24	2.5	23	83	5	71	48	15	12	24	1.79
1223512--1223591	26	3.0	28	69	14	69	70	7	3	18	1.27
1223763--1223807	3	15.0	3	90	0	72	33	33	0	33	1.58
1225692--1225772	26	3.1	25	75	21	78	65	0	0	34	0.93
1225717--1225776	30	2.0	31	87	9	88	66	0	0	33	0.92
1225695--1225765	14	5.5	13	74	24	62	66	0	0	33	0.92
1230626--1230652	13	2.1	13	100	0	54	48	14	14	22	1.81
1231617--1231648	9	3.6	9	95	0	55	78	0	9	12	0.97
1231816--1231863	25	1.9	25	87	8	71	70	0	18	10	1.15
1232607--1232717	36	3.0	37	93	2	197	33	13	12	40	1.82
1233935--1234040	43	2.5	43	88	0	167	21	16	22	38	1.93
1233981--1234190	108	1.9	109	93	0	359	25	13	23	37	1.92
1233856--1234148	151	1.9	153	89	1	455	24	15	22	37	1.93
1234705--1234776	32	2.2	32	80	2	81	30	25	15	29	1.96
1239082--1239137	24	2.3	25	80	20	66	75	0	8	16	1.05
1239524--1239560	17	2.0	20	85	15	53	75	0	5	18	0.99
1239901--1240008	37	2.9	37	84	0	153	33	10	13	42	1.78
1241127--1241212	29	2.9	30	73	15	79	43	5	18	32	1.74
1241108--1241271	60	2.7	60	80	4	161	46	4	14	34	1.64
1243021--1243120	50	2.0	50	100	0	200	28	24	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245288--1245437	62	2.4	62	95	0	264	40	7	25	27	1.82
1253476--1253527	21	2.5	21	84	3	70	21	25	19	34	1.96
1253517--1253580	20	3.2	20	95	2	112	37	25	20	17	1.93
1253475--1253609	20	6.8	20	83	5	71	28	22	20	29	1.98
1253496--1253595	40	2.5	41	77	4	114	31	23	20	26	1.98
1254484--1254537	24	2.2	24	90	0	81	22	18	18	40	1.91
1257077--1257193	19	6.4	19	70	16	104	46	19	18	15	1.84
1257077--1257156	39	2.1	38	88	4	117	46	18	18	16	1.85
1257136--1257228	33	2.8	33	85	1	116	45	18	21	15	1.85
1257228--1257270	19	2.2	21	84	16	65	16	16	27	39	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18