genome.fa.s7748.2.7.7.80.10.50.1000.6.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  6  of  24  ( 2778 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)
1004127--1004203	39	2.0	39	92	0	127	40	22	16	20	1.91
1004400--1004465	22	3.0	22	88	4	98	25	39	13	21	1.90
1004799--1004849	20	2.5	20	93	0	84	11	13	23	50	1.74
1004813--1004856	20	2.2	20	91	0	70	11	13	20	54	1.69
1006728--1006802	20	3.8	20	85	7	116	38	24	18	18	1.93
1006830--1006896	20	3.3	20	93	0	107	23	19	22	34	1.97
1007380--1007483	21	5.0	20	75	10	84	23	32	18	25	1.97
1009008--1009061	14	3.5	14	73	22	54	44	20	24	11	1.83
1008988--1009083	33	2.8	33	92	3	147	42	20	23	12	1.86
1009021--1009089	19	3.8	19	73	21	76	46	18	21	13	1.83
1009093--1009205	20	5.9	20	77	15	114	16	19	23	40	1.91
1009093--1009160	34	2.0	34	85	0	91	13	19	22	45	1.84
1011522--1011575	24	2.2	24	93	0	90	40	20	18	20	1.91
1011666--1011719	24	2.2	24	93	0	90	40	20	18	20	1.91
1011468--1011757	144	2.0	146	98	1	566	32	22	15	30	1.95
1012556--1012622	20	3.3	20	87	0	98	25	19	25	29	1.98
1012609--1012681	20	3.7	20	92	0	128	21	19	19	39	1.92
1012678--1012723	21	2.2	21	88	0	65	41	17	23	17	1.90
1018953--1019108	80	2.0	80	100	0	312	33	16	10	40	1.82
1020612--1020662	19	2.7	19	79	14	61	25	5	0	68	1.12
1031961--1032045	40	2.1	40	100	0	170	48	16	12	22	1.80
1034801--1035478	156	4.4	155	83	8	797	28	18	4	48	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035691--1035741	20	2.5	21	81	9	61	43	0	5	50	1.26
1036068--1036118	20	2.5	21	81	9	61	43	0	5	50	1.26
1043045--1043086	21	2.0	21	100	0	84	19	14	19	47	1.82
1047487--1047519	16	2.1	16	88	11	50	42	0	6	51	1.26
1056392--1056456	2	34.5	2	77	11	66	41	0	4	53	1.21
1056786--1056823	9	4.1	9	83	16	51	18	2	2	76	1.02
1058665--1058698	7	4.7	7	96	3	59	14	14	14	55	1.69
1059944--1059994	13	3.8	14	82	15	63	74	3	17	3	1.12
1059942--1059994	28	2.0	27	89	10	83	75	3	16	3	1.10
1061694--1061780	37	2.4	37	90	1	131	25	21	13	39	1.90
1061661--1061881	102	2.2	101	92	0	361	30	21	12	35	1.90
1061796--1061885	36	2.5	36	92	0	144	26	22	12	38	1.89
1061661--1061964	102	3.0	102	86	1	351	29	19	12	39	1.88
1061837--1062060	123	1.8	123	84	0	304	28	19	11	40	1.86
1061964--1062109	65	2.2	67	85	6	190	34	20	8	36	1.83
1062843--1063110	110	2.5	105	78	9	306	32	24	18	24	1.97
1064435--1064465	14	2.2	14	94	0	53	32	0	0	67	0.91
1064693--1064723	10	3.1	10	100	0	62	9	9	0	80	0.90
1064892--1064934	21	2.0	22	86	4	61	18	2	2	76	1.00
1064890--1064929	17	2.2	19	86	8	57	17	2	2	77	0.99
1075885--1075936	24	2.2	24	82	0	59	50	17	11	21	1.77
1075908--1076041	48	2.8	47	82	4	169	41	17	17	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075908--1076030	24	5.1	24	84	5	151	39	18	17	24	1.91
1084903--1084948	2	23.0	2	100	0	92	50	0	0	50	1.00
1085105--1085181	21	3.7	21	94	1	129	31	9	12	46	1.73
1085607--1086165	51	10.8	51	80	4	575	22	32	15	30	1.95
1085746--1086165	153	2.8	153	93	1	691	20	33	16	29	1.94
1089641--1090066	213	2.0	211	94	1	746	22	31	20	26	1.98
1090999--1091645	182	3.6	182	89	0	893	44	12	16	27	1.83
1093376--1093958	198	2.9	197	83	3	738	37	16	13	31	1.88
1095162--1095230	30	2.3	31	94	2	122	18	17	5	57	1.59
1096791--1097266	198	2.4	198	80	7	545	39	15	15	30	1.88
1097281--1097335	23	2.3	23	78	9	67	30	16	10	41	1.83
1097372--1097416	23	2.0	23	90	0	72	37	17	8	35	1.81
1097288--1097450	87	1.9	87	94	0	290	30	13	12	43	1.81
1097663--1097707	23	2.0	24	83	16	60	44	24	0	31	1.54
1097986--1098033	21	2.2	22	81	3	62	47	6	0	45	1.27
1102236--1102273	3	12.7	3	88	0	58	5	34	26	34	1.79
1102239--1102273	12	2.9	12	100	0	70	5	34	25	34	1.80
1102619--1102653	18	1.9	18	88	0	52	25	11	25	37	1.90
1104253--1104293	18	2.3	18	91	4	66	63	2	4	29	1.28
1123968--1124027	2	30.0	2	100	0	120	50	0	0	50	1.00
1124994--1125090	39	2.4	38	78	11	95	56	1	0	42	1.06
1125011--1125376	186	2.0	186	91	1	599	41	3	9	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128328--1128733	182	2.2	182	91	1	654	27	15	13	44	1.83
1130186--1130252	29	2.3	30	92	2	109	32	26	7	32	1.84
1131622--1131705	40	2.1	40	100	0	168	36	25	9	28	1.87
1132849--1132907	21	2.8	21	86	0	73	18	3	20	57	1.54
1133019--1133107	43	2.1	43	83	8	110	23	20	21	34	1.96
1133110--1133303	43	4.5	43	88	0	271	28	23	21	26	1.99
1133060--1133303	86	2.8	86	82	3	278	27	22	21	27	1.99
1133119--1133324	43	4.8	43	86	2	218	29	24	19	26	1.99
1136078--1136105	2	14.0	2	100	0	56	50	0	0	50	1.00
1136759--1136844	21	4.1	21	69	3	75	19	20	22	37	1.95
1137919--1137964	19	2.3	20	81	7	58	28	17	26	28	1.98
1141649--1141684	19	1.9	19	88	5	56	27	2	2	66	1.19
1142020--1142068	23	2.1	24	84	3	64	61	2	0	36	1.08
1142075--1142161	39	2.2	39	100	0	174	39	2	21	36	1.66
1142179--1142218	20	1.9	20	85	10	53	62	0	0	37	0.95
1145407--1145466	24	2.4	25	83	8	70	38	1	1	58	1.18
1145765--1145829	31	2.1	31	88	0	94	50	4	9	35	1.55
1147983--1148022	20	2.0	20	85	0	53	52	15	7	25	1.68
1149475--1149527	21	2.5	21	75	6	54	24	24	18	32	1.97
1149557--1149611	21	2.6	21	100	0	110	43	25	16	14	1.86
1149596--1149645	20	2.5	20	76	0	64	36	24	18	22	1.95
1149913--1149992	34	2.4	34	93	0	133	11	23	26	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150429--1150485	14	3.7	14	75	20	60	10	15	22	50	1.74
1150417--1150501	33	2.6	33	100	0	170	12	18	20	48	1.81
1150486--1150529	20	2.2	20	88	4	63	22	25	15	36	1.94
1151052--1151099	18	2.7	18	86	0	78	16	10	45	27	1.80
1152950--1153063	20	5.7	20	83	6	140	21	18	27	32	1.97
1152930--1153065	41	3.3	41	83	6	186	22	17	25	34	1.96
1153053--1153125	21	3.5	21	90	1	103	20	23	17	38	1.93
1152950--1153084	41	3.3	40	83	3	146	22	19	25	33	1.97
1153115--1153167	21	2.5	22	78	6	65	37	18	22	20	1.94
1164796--1164855	21	3.2	21	65	30	62	31	5	20	43	1.73
1164788--1164907	35	3.3	36	87	6	172	32	5	19	43	1.72
1164761--1164904	72	2.1	69	84	7	184	33	6	18	41	1.76
1168879--1169015	52	2.6	53	76	6	145	35	23	10	30	1.89
1173089--1173157	10	7.1	10	76	12	72	18	23	30	27	1.98
1173089--1173159	19	3.7	19	92	1	106	18	25	29	26	1.98
1173153--1173227	17	4.4	17	91	0	123	18	38	24	18	1.93
1174111--1174183	31	2.3	32	83	2	94	16	27	31	24	1.96
1174107--1174230	63	2.0	63	82	6	153	17	28	28	25	1.98
1180486--1180542	17	3.4	17	87	0	87	19	38	22	19	1.93
1183804--1183922	24	5.0	24	85	4	168	27	13	19	39	1.89
1186524--1186564	18	2.3	18	82	0	55	56	17	7	19	1.64
1186588--1186632	18	2.5	18	96	0	81	46	17	11	24	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186656--1186902	18	14.3	18	65	22	102	46	19	9	25	1.79
1186561--1186714	82	1.9	81	84	10	206	46	15	11	26	1.79
1186605--1186907	68	4.5	68	90	3	452	46	19	10	24	1.80
1186605--1186907	138	2.2	132	88	3	444	46	19	10	24	1.80
1187402--1187435	16	2.2	16	89	5	52	79	0	11	8	0.94
1189690--1189804	35	3.3	35	87	6	169	36	3	16	43	1.65
1194309--1194429	35	3.4	35	84	8	163	34	3	18	43	1.66
1200201--1200381	29	6.4	27	80	12	172	44	17	3	34	1.67
1200201--1200381	56	3.2	56	83	11	208	44	17	3	34	1.67
1202344--1202470	44	2.9	43	89	2	191	42	13	3	40	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24