genome.fa.s3805.2.7.7.80.10.50.1000.5.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: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2300233

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

This is table  5  of  11  ( 1239 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)
968805--968846	21	2.0	22	86	9	61	16	23	38	21	1.93
969825--969862	18	2.1	18	90	0	58	2	26	28	42	1.69
971442--971500	21	2.7	22	81	2	75	18	27	30	23	1.98
975308--975347	21	1.9	21	85	10	55	35	10	2	52	1.48
977286--977327	19	2.2	19	100	0	84	26	21	28	23	1.99
977887--978344	45	10.2	45	89	0	664	43	12	22	22	1.86
980144--980317	45	3.9	45	93	0	285	23	21	15	39	1.91
984123--984156	5	6.8	5	100	0	68	20	0	0	79	0.73
986800--986833	18	1.9	18	94	5	61	38	17	11	32	1.86
988155--988198	23	2.0	23	86	4	63	27	25	9	38	1.86
988965--989400	55	7.9	55	79	6	382	26	22	19	31	1.98
989609--989770	37	4.4	37	83	5	204	23	22	18	35	1.95
990074--990338	37	7.2	36	86	1	305	24	18	17	39	1.92
990115--990326	110	1.9	110	85	3	293	24	17	17	39	1.92
992971--993106	42	3.3	41	79	10	152	2	15	1	80	0.87
992970--993099	6	21.7	6	74	19	96	2	15	1	80	0.88
992973--993106	26	4.7	28	74	19	100	2	15	1	80	0.88
995264--995301	20	1.9	20	88	0	58	36	15	13	34	1.87
995296--995333	12	3.3	12	82	14	53	39	21	21	18	1.93
995401--995441	21	2.0	21	90	0	64	24	19	19	36	1.95
996338--996395	21	2.7	22	81	10	59	34	29	12	24	1.91
996351--996390	21	1.9	21	94	0	71	35	30	15	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
998558--998607	24	2.0	25	92	3	84	44	10	12	34	1.75
1000340--1000390	23	2.2	23	82	0	57	25	25	21	27	1.99
1002084--1002121	19	2.1	18	95	5	67	47	26	5	21	1.71
1002562--1002594	17	1.9	17	88	11	50	15	12	12	60	1.59
1002880--1002936	13	4.2	13	82	8	51	43	35	0	21	1.52
1002884--1002940	14	4.2	13	84	8	60	42	36	0	21	1.53
1004527--1004602	24	3.2	24	83	3	73	43	21	13	22	1.86
1004544--1004659	24	4.8	24	86	6	155	38	19	15	25	1.91
1005611--1005844	108	2.2	108	96	0	432	22	14	19	43	1.88
1006357--1006403	17	2.6	18	83	10	60	34	17	6	42	1.74
1007241--1007282	13	3.2	13	89	0	66	19	21	45	14	1.85
1010288--1010333	18	2.6	18	75	0	56	43	8	0	47	1.34
1010381--1010485	30	3.5	30	75	6	104	53	0	4	41	1.22
1010468--1010540	24	2.8	26	74	12	71	52	0	8	39	1.32
1010510--1010559	18	2.7	18	78	3	55	44	0	12	44	1.41
1011059--1011109	21	2.4	21	87	6	68	37	5	0	56	1.23
1011348--1011378	16	2.0	15	93	6	53	90	0	9	0	0.46
1013461--1013485	6	4.2	6	100	0	50	84	0	0	16	0.63
1013597--1013625	14	2.0	15	93	6	51	34	6	3	55	1.44
1015533--1015558	4	6.5	4	100	0	52	73	0	26	0	0.84
1020917--1020973	29	1.9	30	92	3	98	15	21	17	45	1.85
1022979--1023012	17	2.0	17	94	0	59	41	8	0	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023076--1023123	20	2.3	21	85	7	62	52	0	10	37	1.36
1026793--1026843	21	2.4	22	86	3	68	27	25	9	37	1.87
1029125--1029220	21	4.6	21	88	0	111	32	27	13	27	1.94
1030249--1030295	20	2.4	19	82	10	60	38	0	8	53	1.32
1031170--1031204	2	18.0	2	94	5	63	48	0	0	51	1.00
1036926--1036978	21	2.5	21	100	0	106	43	3	11	41	1.58
1036923--1037019	21	4.7	21	81	2	88	38	8	16	37	1.79
1038975--1039023	24	2.0	24	88	7	73	32	10	10	46	1.71
1044711--1044817	23	4.6	23	85	8	103	29	21	23	25	1.99
1044740--1044825	23	3.7	23	87	3	120	30	24	22	23	1.99
1045690--1045735	19	2.4	19	85	0	65	41	8	15	34	1.78
1046594--1046747	32	4.9	32	83	6	190	34	20	16	28	1.94
1054059--1054103	23	2.0	23	82	8	56	42	6	15	35	1.73
1054521--1054620	23	4.2	24	71	10	89	31	24	22	23	1.99
1054947--1055021	37	2.0	37	97	0	141	41	21	6	30	1.79
1057222--1057277	13	4.4	13	81	2	60	32	26	12	28	1.93
1057340--1057377	19	2.0	20	84	5	51	21	18	21	39	1.93
1057991--1058030	16	2.5	16	100	0	80	22	0	17	60	1.37
1061259--1061290	2	16.0	2	100	0	64	50	0	0	50	1.00
1065695--1065727	16	2.1	15	94	5	57	36	0	3	60	1.12
1068370--1068439	2	35.0	2	100	0	140	50	0	0	50	1.00
1079788--1080010	123	1.8	123	81	1	277	39	20	13	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081090--1081131	17	2.4	18	92	4	68	23	4	0	71	1.05
1081171--1081235	3	22.3	3	77	22	59	26	3	0	70	1.01
1081171--1081235	15	4.2	16	74	21	68	26	3	0	70	1.01
1081180--1081284	5	19.4	5	84	7	66	20	6	0	71	1.14
1081264--1081346	31	2.6	31	79	5	78	15	8	1	74	1.11
1081443--1081494	24	2.3	23	83	6	61	28	3	0	67	1.08
1082091--1082132	20	2.1	20	95	0	75	38	26	2	33	1.69
1090633--1090719	40	2.2	40	100	0	174	33	14	17	34	1.91
1090630--1090701	20	3.6	20	78	14	94	30	13	19	36	1.91
1090653--1090719	20	3.3	20	76	15	84	34	16	14	34	1.90
1091861--1092238	187	2.0	190	96	3	710	39	12	13	33	1.83
1094938--1095073	31	4.4	31	81	3	157	12	25	30	30	1.93
1098952--1098988	14	2.6	15	83	8	51	8	16	2	72	1.19
1105524--1105630	36	3.0	35	86	10	146	33	14	14	36	1.88
1109638--1109745	36	3.0	35	90	8	173	35	15	14	34	1.89
1111329--1111373	12	3.6	12	85	11	63	44	17	20	17	1.87
1111335--1111374	12	3.1	13	86	13	64	45	15	17	22	1.85
1113254--1113293	21	1.9	21	94	0	71	30	15	7	47	1.72
1113811--1113864	17	3.6	15	76	13	58	33	12	12	40	1.82
1113828--1113861	18	1.9	18	94	5	61	38	11	11	38	1.79
1113955--1113986	16	2.0	17	88	11	50	43	21	21	12	1.86
1122816--1122858	22	2.0	22	81	9	52	37	2	0	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122833--1122896	29	2.2	30	83	8	78	48	0	4	46	1.23
1125822--1125935	50	2.2	54	76	16	125	41	7	0	50	1.35
1125830--1125919	25	3.6	24	70	16	67	42	8	1	47	1.42
1125870--1125937	28	2.3	30	82	12	88	42	7	0	50	1.30
1125914--1126089	63	2.8	63	94	3	300	38	5	3	53	1.40
1126198--1126281	31	3.0	26	70	23	71	39	9	0	51	1.35
1126162--1126303	57	2.5	56	84	7	178	40	8	0	50	1.33
1125888--1126265	31	12.7	31	72	10	209	39	7	1	51	1.41
1126346--1126398	17	3.4	17	67	20	51	58	0	1	39	1.09
1126316--1126412	30	3.2	30	94	1	158	60	0	3	36	1.12
1129719--1129759	19	2.1	19	86	4	55	39	17	14	29	1.89
1131384--1131430	21	2.1	23	84	7	62	63	2	4	29	1.25
1132463--1132511	14	3.5	13	79	20	55	63	2	0	34	1.06
1132457--1132515	23	2.6	22	86	10	75	62	1	0	35	1.05
1132457--1132588	28	4.7	28	75	15	98	56	3	0	39	1.23
1135307--1135626	45	7.1	45	83	4	367	32	16	8	41	1.79
1135307--1135663	135	2.6	135	82	6	413	32	17	8	40	1.81
1136082--1136123	22	1.9	22	90	0	66	28	30	9	30	1.89
1140007--1140054	24	2.0	24	95	0	87	37	18	12	31	1.88
1141303--1141341	16	2.4	16	91	0	60	25	35	17	20	1.95
1142249--1142558	45	6.9	45	89	1	451	31	20	9	39	1.83
1142249--1142595	45	7.7	45	87	1	446	31	20	9	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148452--1148480	3	9.7	3	100	0	58	68	0	0	31	0.89
1148512--1148543	10	3.2	10	95	0	55	75	0	6	18	1.01
1148999--1149023	7	3.6	7	100	0	50	16	32	0	52	1.44
1149253--1149290	18	2.1	19	85	14	53	7	36	23	31	1.84
1149674--1149717	23	1.9	23	86	9	63	65	2	2	29	1.16
1149683--1149865	17	10.6	18	71	22	103	55	3	1	38	1.28
1149675--1149883	19	10.5	21	74	14	151	55	3	1	38	1.29
1149683--1149874	7	27.1	7	73	17	139	56	3	1	38	1.26
1151473--1151538	28	2.4	28	86	0	96	40	36	7	15	1.75
1160619--1160656	3	12.3	3	88	5	58	28	0	2	68	1.03

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