genome.fa.s6564.2.7.7.80.10.50.1000.4.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: VEPZ01006564.1 Hibiscus syriacus cultivar Beakdansim tig00016065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1886890

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 894 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)
1006187--1006762	283	2.0	280	85	6	781	25	12	21	40	1.88
1007622--1007676	15	3.7	15	95	2	94	32	7	20	40	1.80
1007671--1007720	20	2.5	20	90	0	82	38	10	16	36	1.82
1007887--1007965	28	2.8	28	83	9	99	56	1	1	40	1.15
1007887--1007983	27	3.5	26	80	14	99	54	2	1	42	1.19
1007994--1008059	22	3.0	23	80	6	73	51	0	0	48	1.00
1007994--1008053	21	2.9	20	83	9	75	53	0	0	46	1.00
1007903--1008058	53	2.9	55	74	13	148	51	1	0	46	1.13
1008244--1008354	42	2.6	42	97	0	204	45	19	19	15	1.86
1011060--1011122	26	2.4	26	100	0	126	12	12	39	34	1.82
1010808--1011387	289	2.0	282	87	4	833	25	13	21	39	1.90
1015058--1015113	31	2.0	29	83	16	73	14	12	25	48	1.78
1015104--1015168	26	2.5	26	100	0	130	12	12	40	35	1.80
1015095--1015168	26	2.8	28	93	4	111	13	12	36	37	1.82
1014850--1015431	287	2.0	280	84	9	739	25	12	20	41	1.87
1018886--1018946	26	2.3	26	88	0	95	16	11	34	37	1.85
1020071--1020140	15	4.7	15	89	1	106	35	7	20	37	1.80
1020071--1020152	30	2.8	30	90	5	123	37	7	19	35	1.80
1020135--1020204	20	3.5	20	94	0	122	38	10	15	35	1.81
1020371--1020552	27	7.2	25	69	20	76	49	1	1	48	1.15
1020370--1020446	27	2.9	26	78	16	86	53	1	1	44	1.17
1020482--1020537	21	2.7	21	81	8	60	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1020459--1020545	31	2.8	30	81	15	97	49	0	1	49	1.08
1020478--1020550	30	2.5	31	78	14	82	52	0	0	47	1.00
1020724--1020840	42	2.8	42	96	0	207	45	19	20	14	1.85
1023563--1023625	26	2.4	26	100	0	126	12	12	39	34	1.82
1023554--1023625	26	2.7	28	93	4	107	13	12	36	37	1.83
1023306--1023889	288	2.0	282	87	4	834	25	13	21	40	1.89
1027278--1027896	263	2.4	255	88	4	897	26	13	19	40	1.88
1031574--1031635	26	2.4	26	94	0	106	12	9	38	38	1.77
1031318--1031903	291	2.0	282	87	6	822	24	12	22	40	1.88
1035632--1035696	26	2.5	26	97	0	121	12	10	40	36	1.78
1035623--1035696	26	2.8	28	91	4	102	13	10	36	39	1.80
1035375--1035959	291	2.0	283	88	4	861	24	12	22	40	1.89
1039699--1039761	26	2.4	26	100	0	126	12	12	39	34	1.82
1039443--1040021	283	2.0	280	87	5	835	25	12	21	40	1.89
1044800--1045069	148	1.8	149	90	4	438	47	7	7	37	1.60
1045195--1045237	23	1.9	22	86	13	61	65	4	0	30	1.13
1046605--1046631	3	9.0	3	100	0	54	66	0	0	33	0.92
1051103--1051227	56	2.3	54	80	5	133	32	22	12	33	1.91
1052913--1053381	181	2.6	182	91	1	717	42	14	16	26	1.86
1053317--1053357	20	2.2	19	83	12	50	51	14	17	17	1.77
1055572--1055636	21	3.1	21	93	0	103	41	10	30	16	1.83
1055670--1055735	33	2.0	33	87	0	96	30	0	46	22	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057331--1057379	19	2.6	19	96	0	89	32	2	10	55	1.45
1057613--1058246	200	3.2	200	97	0	1171	35	15	19	29	1.92
1059821--1059872	6	8.7	6	86	0	50	38	5	32	23	1.78
1059821--1059872	12	4.3	12	87	0	59	38	5	32	23	1.78
1059838--1059876	3	13.0	3	88	0	60	35	2	33	28	1.71
1061086--1061491	183	2.2	182	93	2	688	34	14	16	34	1.90
1061365--1061611	120	2.1	120	95	0	440	32	14	15	37	1.88
1061186--1061776	303	2.0	303	96	0	1083	34	14	16	35	1.89
1065125--1065374	87	2.9	87	97	0	464	32	15	10	42	1.80
1065209--1065253	23	2.0	23	86	0	63	37	15	8	37	1.79
1067254--1067797	272	2.0	273	85	4	729	27	21	15	35	1.94
1067530--1067829	159	1.9	159	86	4	435	28	21	16	34	1.95
1068052--1068277	118	1.9	119	90	4	359	26	18	15	38	1.91
1068057--1068314	118	2.2	118	85	2	358	25	20	15	38	1.92
1070152--1070337	65	2.9	62	77	13	180	27	18	24	30	1.98
1070178--1070337	65	2.5	65	86	5	209	27	16	24	31	1.97
1070178--1070385	65	3.2	63	78	12	199	25	17	25	32	1.97
1072625--1072926	151	2.0	151	100	0	604	43	17	9	30	1.80
1083920--1083944	12	2.1	12	100	0	50	84	0	8	8	0.79
1085239--1085275	18	2.1	18	100	0	74	35	16	10	37	1.83
1086118--1086241	56	2.2	54	80	5	131	33	21	12	33	1.90
1087895--1087926	6	5.3	6	100	0	64	46	34	0	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088992--1089058	35	1.9	34	84	3	89	35	11	8	43	1.73
1088992--1089058	17	3.9	17	86	5	82	35	11	8	43	1.73
1090533--1090629	49	2.0	49	87	0	140	54	13	11	20	1.69
1090920--1091004	31	2.8	31	89	5	122	35	15	9	40	1.79
1092997--1093032	17	2.1	17	89	0	54	19	11	11	58	1.62
1094520--1094577	23	2.5	23	85	0	80	34	22	13	29	1.93
1094843--1094901	22	2.7	22	86	2	75	11	25	23	38	1.89
1099649--1099692	23	1.9	23	100	0	88	38	13	38	9	1.77
1099717--1100044	162	2.0	164	98	1	642	36	17	17	29	1.92
1100845--1100902	23	2.5	23	85	0	71	31	20	17	31	1.96
1102758--1102810	21	2.5	21	93	0	88	18	22	20	37	1.94
1105508--1105621	57	2.0	57	100	0	228	15	33	28	22	1.95
1108739--1108795	20	2.9	20	97	2	107	24	19	21	35	1.96
1109936--1109992	24	2.4	24	96	0	105	29	21	19	29	1.97
1110794--1111032	129	1.9	129	92	1	408	41	14	10	33	1.80
1113341--1113446	24	4.4	24	68	9	81	49	16	12	21	1.79
1115835--1115941	24	4.4	25	72	11	89	48	16	14	20	1.81
1118472--1118537	24	2.8	24	80	0	78	53	13	12	21	1.72
1118519--1118573	24	2.3	25	75	9	60	43	16	14	25	1.86
1122839--1122910	24	3.0	24	81	0	81	52	16	9	20	1.72
1128187--1128217	16	1.9	16	100	0	62	58	12	12	16	1.64
1132100--1132145	23	2.0	23	95	0	83	39	10	17	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140353--1140396	21	2.1	21	95	0	79	56	11	15	15	1.66
1142226--1142268	15	2.9	15	82	3	52	37	6	23	32	1.82
1142471--1142659	21	8.9	21	75	4	128	25	12	23	38	1.90
1142471--1142659	42	4.5	42	75	5	146	25	12	23	38	1.90
1149900--1149938	21	2.0	20	90	10	62	41	20	10	28	1.85
1154674--1154738	27	2.4	27	97	0	121	30	29	3	36	1.73
1165030--1165059	15	2.0	15	100	0	60	53	6	6	33	1.53
1167196--1167369	90	1.9	89	94	1	303	37	11	6	44	1.68
1169051--1169114	28	2.3	27	86	10	85	46	14	7	31	1.72
1169117--1169146	15	2.0	15	93	0	51	40	10	0	50	1.36
1170797--1170876	16	4.9	16	78	13	74	5	17	0	77	0.94
1170780--1170884	39	2.6	37	80	10	102	4	18	0	76	1.02
1170807--1170885	24	3.1	26	82	10	83	3	20	0	75	0.95
1170815--1170885	27	2.6	27	82	10	74	4	19	0	76	0.96
1170799--1170881	21	4.1	20	72	21	75	4	18	0	77	0.95
1171591--1171620	13	2.3	13	94	0	51	0	20	0	80	0.72
1172461--1172548	43	2.0	43	95	0	158	25	22	21	30	1.99
1173754--1173807	23	2.3	23	93	0	90	35	16	25	22	1.95
1179837--1180009	92	1.9	92	92	2	294	32	18	19	30	1.95
1182520--1182569	24	2.1	24	100	0	100	16	20	42	22	1.89
1183751--1183821	21	3.4	20	82	7	79	16	19	23	39	1.92
1183722--1183837	42	2.8	42	86	1	144	21	18	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185773--1185861	31	2.9	31	96	0	160	24	24	32	17	1.97
1185773--1185878	31	3.4	29	88	7	140	24	26	31	17	1.97
1188010--1188051	19	2.2	19	95	0	75	40	26	23	9	1.85
1188115--1188153	20	2.0	20	89	0	60	17	20	30	30	1.96
1190621--1190661	20	2.0	20	90	0	64	39	12	7	41	1.70
1193520--1193556	19	1.9	19	94	0	65	45	27	24	2	1.66
1193542--1193613	22	3.3	20	72	16	54	38	20	22	18	1.93
1196129--1196169	20	2.0	20	90	0	64	39	12	7	41	1.70
1198415--1198647	119	2.0	120	83	7	296	27	21	12	38	1.90
1198611--1199007	207	1.9	207	86	4	559	27	22	16	33	1.95

Tables:   1   2   3   4   5   6   7   8