genome.fa.s8097.2.7.7.80.10.50.1000.4.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: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3094402

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  4  of  12  ( 1389 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)
857075--857176	34	3.0	34	98	0	195	44	12	5	37	1.67
860559--860596	15	2.5	15	100	0	76	15	5	23	55	1.61
862026--862095	37	1.9	37	88	2	106	47	4	0	48	1.21
862523--862563	20	2.0	20	86	9	57	39	9	7	43	1.65
862991--863041	7	7.0	7	75	16	50	41	15	3	39	1.66
867973--868017	23	2.0	23	86	0	63	26	28	24	20	1.99
867996--868448	149	3.0	149	98	0	870	34	21	16	27	1.94
869331--869365	18	1.9	18	88	11	54	22	17	5	54	1.64
873211--873644	142	3.0	146	93	4	728	35	20	16	27	1.94
874495--874529	18	1.9	18	88	11	54	22	17	5	54	1.64
875619--875997	188	2.0	190	98	1	744	31	21	12	34	1.90
877601--877703	36	2.9	36	97	0	188	42	17	16	23	1.88
881157--881191	15	2.3	15	95	0	61	31	34	20	14	1.92
881377--881427	7	7.0	7	75	16	50	41	15	3	39	1.66
892735--892855	41	3.0	41	88	0	170	17	19	24	38	1.92
892673--892790	62	1.9	62	87	0	173	19	17	25	37	1.94
892820--892874	19	2.8	19	75	5	56	20	20	23	36	1.95
893459--893500	6	7.5	6	87	12	63	0	16	52	30	1.44
894798--894853	29	2.0	29	82	3	69	55	7	7	30	1.54
898523--898571	22	2.1	22	85	7	62	34	2	22	40	1.66
898534--898579	22	2.1	22	95	0	83	26	2	28	43	1.66
899785--899815	15	2.1	15	100	0	62	41	0	32	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901769--901796	2	14.0	2	100	0	56	50	0	0	50	1.00
904911--904952	22	1.9	22	90	9	68	52	2	14	30	1.54
905963--905989	4	6.8	4	100	0	54	22	0	0	77	0.76
908250--908503	138	1.8	139	83	4	341	35	23	22	18	1.96
908958--909681	153	4.6	154	86	5	797	42	21	21	14	1.88
915908--915942	12	2.8	13	87	12	56	57	0	0	42	0.99
915982--916030	19	2.7	18	87	9	73	73	6	4	16	1.19
917334--917401	3	22.7	3	96	0	127	64	1	0	33	1.02
917717--918383	113	5.9	113	94	0	1140	29	20	12	37	1.89
919093--919611	84	6.2	84	96	1	918	36	21	14	27	1.92
920731--920776	16	2.9	15	81	9	56	4	17	0	78	0.91
931369--931405	15	2.7	15	88	12	53	62	8	5	24	1.44
931396--931446	18	2.9	17	75	16	50	72	1	0	25	0.95
932133--932167	12	2.8	13	87	12	56	57	0	0	42	0.99
932207--932255	19	2.7	18	87	9	73	73	6	4	16	1.19
933562--933641	3	26.7	3	94	0	142	63	1	1	33	1.10
938014--938080	30	2.2	30	89	5	100	50	1	4	43	1.31
941232--941270	19	2.1	19	85	0	51	20	25	41	12	1.88
944893--944963	34	2.1	33	87	10	99	63	14	2	19	1.42
945003--945046	13	3.4	13	80	0	52	68	13	2	15	1.31
947943--948027	39	2.2	39	93	0	143	23	20	22	34	1.97
954249--954463	113	1.9	113	93	0	367	32	16	16	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
963299--963339	20	1.9	22	85	14	59	29	12	9	48	1.72
964595--964658	24	2.7	24	73	20	62	43	0	3	53	1.16
972003--972067	34	1.9	34	83	0	85	56	7	0	35	1.28
978734--978779	15	2.8	16	83	12	58	41	0	0	58	0.98
995523--995570	24	2.0	24	83	4	60	66	10	4	18	1.37
996067--996158	40	2.3	40	86	0	121	42	16	16	25	1.88
996093--996157	20	3.2	20	77	0	76	43	16	16	23	1.88
996206--996258	20	2.7	20	71	11	54	33	15	26	24	1.95
996117--996348	125	1.9	125	89	0	365	35	21	15	26	1.94
996285--996413	65	2.0	65	89	0	195	30	25	13	30	1.94
996483--996548	20	3.3	20	89	0	105	19	19	18	42	1.90
996476--996565	40	2.3	39	80	5	108	20	16	21	42	1.89
1002920--1002991	30	2.4	29	81	6	83	45	1	4	48	1.30
1007976--1008004	3	9.7	3	100	0	58	0	34	0	65	0.93
1013229--1013297	33	2.1	34	94	2	122	47	14	7	30	1.71
1013550--1013579	2	15.0	2	100	0	60	50	0	0	50	1.00
1016544--1016615	38	1.9	38	88	2	110	36	33	9	20	1.86
1017364--1017414	26	1.9	27	84	11	70	29	5	7	56	1.51
1023982--1024033	27	2.0	26	96	3	95	32	7	0	59	1.26
1025662--1025769	54	2.0	54	83	3	137	27	20	14	37	1.92
1030774--1031222	229	2.0	227	93	1	774	45	7	6	39	1.59
1031288--1031333	20	2.3	19	89	10	74	54	10	17	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031456--1031502	20	2.4	19	82	10	67	53	10	17	19	1.72
1031465--1031507	20	2.3	19	88	11	63	51	11	16	20	1.75
1033736--1033800	21	3.1	21	80	6	69	40	15	29	15	1.88
1033834--1033899	33	2.0	33	90	0	105	28	0	48	22	1.51
1035095--1035131	4	9.2	4	100	0	74	24	0	27	48	1.51
1035711--1035759	19	2.6	19	93	0	80	30	2	10	57	1.43
1035878--1036649	198	3.9	198	97	0	1436	37	15	16	31	1.90
1038115--1038176	18	3.4	18	79	0	79	37	9	35	17	1.83
1038115--1038206	6	15.3	6	79	0	67	36	7	34	20	1.81
1038130--1038210	3	27.0	3	75	0	72	35	6	34	23	1.80
1038118--1038194	36	2.1	36	90	0	118	35	9	35	20	1.85
1038118--1038206	12	7.4	12	84	0	88	35	7	34	21	1.82
1038115--1038206	18	5.1	18	77	0	76	36	7	34	20	1.81
1039702--1040751	183	5.7	183	98	0	2010	35	14	16	33	1.90
1043218--1043282	25	2.6	25	80	0	85	35	9	13	41	1.77
1043629--1043692	23	2.8	23	80	0	74	34	7	18	39	1.80
1043650--1043701	23	2.3	23	86	6	70	34	1	17	46	1.59
1043970--1044020	25	2.0	25	92	0	84	33	7	19	39	1.81
1044414--1044450	18	2.1	18	89	0	56	32	5	10	51	1.60
1044395--1044458	24	2.6	25	72	13	62	34	4	10	50	1.59
1044709--1044795	39	2.2	39	95	0	156	48	20	13	17	1.81
1045201--1045273	23	3.2	23	84	0	92	35	4	20	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045316--1045984	334	2.0	334	98	0	1293	42	7	11	38	1.70
1048962--1049016	26	2.1	26	83	6	67	60	1	1	36	1.18
1050515--1050543	2	15.0	2	92	7	51	48	0	0	51	1.00
1051173--1051223	20	2.5	20	96	0	93	33	13	13	39	1.84
1056950--1056981	2	15.5	2	93	6	55	46	0	3	50	1.17
1068318--1068355	17	2.2	17	100	0	76	18	47	23	10	1.79
1077228--1077277	2	25.0	2	84	8	66	48	2	4	46	1.32
1079615--1079653	21	1.9	20	89	5	60	56	0	5	38	1.22
1080513--1080632	42	2.9	42	97	0	222	16	20	18	44	1.87
1080821--1080881	22	2.8	23	82	7	65	47	0	0	52	1.00
1080832--1080983	31	5.1	30	66	28	85	46	0	1	51	1.14
1081167--1081236	20	3.5	20	96	0	131	35	14	10	40	1.79
1081167--1081245	40	2.0	40	89	0	122	35	15	8	40	1.78
1081219--1081285	15	4.5	15	83	3	73	34	16	7	41	1.76
1081219--1081290	30	2.4	29	90	2	117	31	16	6	44	1.74
1084489--1084548	29	2.1	28	84	6	77	46	6	10	36	1.64
1099180--1099417	117	2.0	117	99	0	469	23	19	25	31	1.98
1109446--1109489	14	3.2	14	75	18	56	61	0	6	31	1.22
1109755--1109813	29	2.0	29	90	0	91	16	35	25	22	1.95
1110043--1110100	26	2.3	26	84	3	73	43	8	37	10	1.70
1110109--1110148	13	3.0	13	88	3	62	62	0	37	0	0.95
1110691--1110725	3	11.7	3	87	0	52	5	31	0	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112076--1112202	31	4.0	31	88	6	193	18	17	23	40	1.91
1112076--1112202	64	2.0	62	92	3	209	18	17	23	40	1.91
1114821--1115074	127	2.0	126	93	6	442	35	10	23	30	1.88
1117281--1117314	15	2.2	16	94	5	61	38	0	5	55	1.24
1119532--1119652	59	2.1	56	89	4	179	48	8	4	38	1.52
1119756--1119845	25	3.6	25	76	18	87	43	8	2	45	1.47
1119753--1119862	11	9.0	12	73	14	84	42	9	1	46	1.46
1119816--1119860	23	2.0	23	90	0	72	37	6	4	51	1.49
1119737--1119845	14	8.4	14	74	15	99	42	9	2	45	1.50
1119981--1120217	49	4.8	49	96	0	420	46	12	0	40	1.44

Tables:   1   2   3   4   5   6   7   8   9   10   11   12