genome.fa.s6936.2.7.7.80.10.50.1000.4.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: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2176229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 982 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)
798537--798578	18	2.3	18	87	0	66	11	52	21	14	1.73
799307--799394	32	2.8	32	92	0	140	19	23	31	25	1.98
801687--801737	14	3.6	14	78	5	57	29	31	15	23	1.95
802124--802158	17	2.0	18	88	5	54	45	8	20	25	1.79
802678--802732	27	2.0	28	89	3	85	40	23	16	20	1.91
812843--812872	15	2.0	15	100	0	60	26	13	33	26	1.93
816393--816562	46	3.8	44	80	11	191	22	3	5	68	1.27
816394--816562	93	1.8	90	89	3	266	22	3	5	68	1.27
816444--816620	46	3.9	46	79	13	138	24	2	6	66	1.27
816548--816613	13	4.7	14	78	16	66	28	0	7	63	1.21
824698--824821	22	5.7	22	90	4	164	27	32	26	13	1.94
827087--827113	13	2.1	13	100	0	54	40	14	0	44	1.46
836789--836823	2	18.0	2	94	5	63	51	0	0	48	1.00
840368--840403	16	2.3	15	95	4	63	19	0	8	72	1.10
847490--847523	14	2.3	15	90	5	52	26	2	0	70	1.01
847555--847591	12	3.0	13	80	11	51	18	2	0	78	0.87
853360--853569	59	3.7	58	78	12	247	32	11	17	39	1.85
853366--853570	111	1.8	111	91	2	340	32	11	18	38	1.86
853892--854184	136	2.1	137	87	2	410	34	18	20	26	1.95
854189--854479	39	7.5	39	95	0	503	31	17	16	34	1.93
856057--856110	12	4.5	12	78	0	54	20	1	3	74	1.07
857505--857573	20	3.5	20	72	7	68	30	11	21	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
857571--857615	20	2.2	20	84	0	54	37	28	6	26	1.82
863088--863138	23	2.2	23	83	16	61	31	0	9	58	1.30
868770--868823	26	2.1	26	83	13	67	70	1	14	12	1.25
869222--869268	23	2.0	23	100	0	94	55	25	4	14	1.58
869955--870012	24	2.4	25	80	13	75	12	10	0	77	0.99
881359--881435	40	1.9	40	82	10	95	29	3	9	57	1.48
884562--884626	34	1.9	34	84	6	87	30	16	27	24	1.97
894250--894355	20	5.6	18	70	18	72	29	16	13	41	1.85
894216--894434	38	5.6	38	85	6	235	29	13	13	43	1.83
894216--894426	79	2.7	76	80	8	201	29	13	13	42	1.83
895542--895671	63	2.1	64	86	4	185	21	22	10	46	1.81
896884--896913	4	7.5	4	100	0	60	76	0	23	0	0.78
911064--911113	22	2.3	22	96	0	91	16	12	32	40	1.84
912169--912254	30	2.9	29	83	13	97	63	8	9	18	1.48
913926--913971	20	2.3	20	88	0	65	23	23	19	32	1.97
915183--915223	21	2.0	21	100	0	82	24	39	2	34	1.69
917473--917506	17	2.0	17	88	0	50	11	29	32	26	1.92
917490--917538	23	2.2	22	88	3	71	18	20	36	24	1.94
927810--927856	20	2.3	20	100	0	94	19	27	8	44	1.79
931379--932190	406	2.0	406	94	0	1437	35	14	13	36	1.86
944707--944751	21	2.2	20	80	7	56	35	6	24	33	1.82
945347--945407	15	3.9	15	72	8	59	40	4	21	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
945561--945606	24	1.9	24	81	0	56	23	23	21	30	1.99
961029--961124	24	4.0	24	77	9	90	19	21	25	33	1.97
961094--961145	24	2.2	24	82	0	59	26	17	21	34	1.95
966670--966877	65	3.2	64	79	10	201	26	16	23	32	1.96
969519--969619	23	4.6	21	74	12	87	25	21	24	27	1.99
969523--969619	44	2.2	44	85	3	124	26	21	23	27	1.99
973419--973525	45	2.4	45	88	1	160	32	18	19	28	1.96
974852--974964	30	3.8	30	88	2	156	26	20	18	34	1.96
974852--974983	60	2.2	60	82	2	158	25	21	16	36	1.94
974852--974987	30	4.5	30	84	5	141	25	21	16	36	1.94
976671--976745	17	4.4	16	78	9	69	40	10	16	33	1.82
976661--976745	35	2.5	34	79	12	93	41	9	15	34	1.79
977515--977549	18	1.9	18	88	0	52	57	2	0	40	1.14
983922--983964	23	2.0	21	86	9	59	55	6	6	30	1.53
986188--986232	8	6.0	8	80	15	51	53	24	0	22	1.46
986189--986229	21	2.0	21	90	0	64	56	24	0	19	1.42
988157--988208	21	2.5	21	81	3	61	25	23	26	25	2.00
989469--989517	21	2.2	23	82	17	75	42	8	8	40	1.64
989476--989518	21	2.0	21	100	0	86	41	11	9	37	1.74
991934--991976	20	2.2	20	83	8	52	30	13	4	51	1.62
993086--993128	21	2.0	21	95	0	77	27	9	30	32	1.88
995864--995903	21	1.9	21	90	10	64	52	5	10	32	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999710--999790	21	3.8	22	79	7	87	23	35	24	16	1.94
1000153--1000192	20	1.9	22	90	10	66	60	5	2	32	1.32
1003792--1003882	18	5.2	18	80	16	102	17	47	19	15	1.83
1003796--1003876	31	2.6	31	94	0	135	17	46	20	14	1.83
1003814--1003850	13	2.8	13	100	0	74	16	48	24	10	1.77
1005169--1005203	18	1.9	18	88	0	52	54	0	17	28	1.43
1008981--1009040	18	3.2	18	85	7	75	16	46	20	16	1.84
1009007--1009031	13	1.9	13	100	0	50	16	40	24	20	1.91
1009024--1009057	15	2.1	17	89	10	54	14	35	23	26	1.94
1010327--1010361	18	1.9	18	88	0	52	54	0	17	28	1.43
1016090--1016142	12	4.3	12	79	13	63	41	0	1	56	1.10
1016091--1016132	14	3.2	14	77	16	54	45	0	0	54	0.99
1016091--1016132	16	2.8	16	82	7	52	45	0	0	54	0.99
1036333--1036376	18	2.4	18	85	7	54	70	2	4	22	1.17
1038608--1038661	21	2.7	19	80	8	54	46	16	5	31	1.70
1039260--1039322	26	2.3	27	76	10	67	71	1	3	23	1.09
1042746--1042806	26	2.3	26	74	0	68	44	0	9	45	1.37
1043553--1043624	29	2.4	30	86	4	92	70	4	2	22	1.17
1044209--1044245	13	2.8	13	91	4	56	70	8	16	5	1.30
1065313--1065338	12	2.2	12	100	0	52	23	11	15	50	1.76
1073839--1073911	21	3.5	21	78	10	71	30	26	17	26	1.98
1073865--1073911	20	2.3	20	85	3	58	29	25	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079604--1079807	110	1.9	110	83	4	268	37	15	17	28	1.91
1080172--1080235	21	3.1	21	67	13	60	14	20	28	37	1.91
1080386--1080454	19	3.5	19	73	11	75	39	21	20	18	1.93
1080386--1080475	41	2.2	41	100	0	180	37	23	20	18	1.94
1080404--1080475	22	3.4	22	73	11	87	37	25	19	18	1.94
1080386--1080495	41	2.7	41	92	4	168	40	22	20	17	1.92
1084021--1084533	140	3.7	141	82	3	513	30	13	14	41	1.84
1091584--1091627	19	2.4	19	85	11	56	70	2	2	25	1.10
1092375--1092414	17	2.4	17	91	0	62	42	17	20	20	1.89
1094408--1094457	21	2.3	21	79	3	55	54	10	8	28	1.62
1095229--1095264	18	2.0	18	88	0	54	61	0	0	38	0.96
1108072--1108284	116	1.8	116	86	2	311	36	22	11	29	1.90
1117546--1117594	21	2.3	20	80	10	53	16	10	4	69	1.32
1126584--1126617	12	2.8	12	86	0	50	11	2	0	85	0.71
1127478--1127515	19	2.1	19	85	9	53	47	13	23	15	1.81
1132061--1132096	12	3.1	11	88	11	54	11	2	0	86	0.68
1132944--1132991	19	2.5	19	83	10	62	54	8	22	14	1.67
1141618--1141964	176	2.0	173	92	2	579	22	20	7	49	1.73
1147059--1147105	21	2.4	19	82	13	51	53	8	0	38	1.32
1148312--1148397	42	2.0	42	88	4	129	25	10	18	45	1.81
1150891--1151001	53	2.1	53	89	0	168	24	18	18	37	1.94
1154620--1154685	32	2.1	32	97	0	123	21	10	33	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157509--1157689	89	2.0	90	90	1	283	39	5	13	41	1.67
1157843--1157951	53	2.1	53	94	0	191	26	17	18	37	1.93
1159108--1159439	165	2.0	167	98	1	650	32	15	21	29	1.95
1160642--1160680	21	1.9	20	84	5	51	38	20	15	25	1.92
1167781--1167805	10	2.5	10	100	0	50	20	8	20	52	1.71
1174995--1175320	156	2.1	156	95	1	593	31	13	18	36	1.90
1180770--1180846	37	2.1	37	85	4	102	48	1	3	46	1.28
1180994--1181044	20	2.5	20	100	0	102	19	23	11	45	1.83
1182039--1182381	172	2.0	173	99	0	679	39	13	18	29	1.88
1186036--1186232	100	2.0	101	94	1	351	41	14	16	27	1.88

Tables:   1   2   3   4   5   6   7   8   9