genome.fa.s7992.2.7.7.80.10.50.1000.4.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: VEPZ01007992.1 Hibiscus syriacus cultivar Beakdansim tig00110442_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1314873

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 534 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)
832326--832410	36	2.4	36	82	2	91	21	9	17	51	1.73
836808--836916	24	4.5	24	77	6	105	19	11	14	54	1.71
836824--836914	12	7.6	12	71	9	51	18	10	15	54	1.69
839603--839650	21	2.3	21	96	0	87	31	14	22	31	1.94
849188--849233	23	2.0	23	82	0	56	8	6	8	76	1.17
849201--849233	11	2.8	12	81	9	50	12	0	9	78	0.95
855449--855932	41	11.8	41	75	7	340	30	17	16	34	1.92
855449--855932	81	5.9	81	78	6	341	30	17	16	34	1.92
855451--855933	123	3.9	123	80	6	475	31	17	16	34	1.92
858565--858589	12	2.1	12	100	0	50	32	0	16	52	1.44
860056--860316	43	6.1	42	83	3	288	26	24	18	31	1.98
860056--860316	85	3.0	84	82	6	283	26	24	18	31	1.98
860285--860348	32	2.0	32	90	0	101	32	23	18	25	1.97
861130--861195	25	2.5	26	80	9	80	42	1	3	53	1.25
861129--861205	29	2.8	28	80	11	95	41	2	2	53	1.28
864421--864451	15	2.1	15	100	0	62	38	0	12	48	1.42
864444--864502	29	2.0	29	96	0	109	23	13	11	50	1.74
874102--874140	21	1.9	20	85	15	53	23	7	2	66	1.30
874097--874171	27	3.3	22	75	20	73	24	6	1	68	1.22
874115--874171	27	2.1	27	100	0	114	26	7	0	66	1.17
883030--883084	20	2.8	21	81	10	62	34	21	18	25	1.96
883268--883301	13	2.7	13	90	4	52	35	0	14	50	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
888340--888401	15	3.9	16	83	12	74	0	8	11	80	0.90
888327--888401	33	2.2	34	83	6	91	0	9	12	78	0.96
888338--888401	8	8.0	8	76	13	69	0	7	10	81	0.88
912454--912535	27	3.0	27	80	5	94	30	4	17	47	1.68
912457--912547	27	3.4	25	80	7	83	30	4	16	48	1.66
912812--912862	15	3.3	15	79	15	59	23	3	13	58	1.52
912864--912935	27	2.7	27	84	2	83	33	6	15	44	1.73
912944--912987	15	2.7	17	82	13	65	27	4	11	56	1.53
912943--912995	15	3.4	15	73	19	54	30	3	11	54	1.53
913075--913129	26	2.1	26	86	0	74	41	5	5	47	1.49
913842--913907	21	3.2	20	76	8	69	43	10	15	30	1.80
918368--918395	13	2.2	13	100	0	56	50	21	0	28	1.49
919442--919487	15	3.1	15	87	3	67	21	26	23	28	1.99
926213--926282	12	5.8	12	80	12	72	12	12	18	55	1.68
926223--926284	7	10.0	7	70	22	50	12	11	17	58	1.63
926217--926284	24	2.8	24	84	6	93	13	11	17	57	1.65
926530--926626	27	3.3	27	70	22	86	31	22	10	35	1.88
927424--927484	2	30.5	2	96	0	113	49	0	1	49	1.10
927651--927745	24	4.0	24	73	10	86	47	16	13	22	1.82
930281--930382	19	5.6	19	80	9	124	18	34	26	20	1.96
930343--930390	14	3.4	14	88	0	69	18	35	29	16	1.93
932699--932740	7	5.7	7	89	10	66	14	33	28	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
932699--932740	22	1.9	22	100	0	84	14	33	28	23	1.94
932699--932739	15	2.7	15	88	11	66	14	34	26	24	1.94
935205--935259	24	2.3	25	75	9	60	25	14	16	43	1.86
935240--935308	12	5.8	12	79	3	77	15	14	17	52	1.75
935217--935310	24	4.0	24	81	5	102	21	12	17	48	1.79
937340--937396	18	3.2	18	82	0	69	21	47	17	14	1.82
944501--944681	97	1.9	97	86	0	263	40	10	5	43	1.62
957159--957200	16	2.4	18	80	7	52	7	7	14	71	1.29
963758--963810	2	26.5	2	100	0	106	50	0	0	49	1.00
970622--970667	19	2.4	19	85	0	65	28	17	28	26	1.98
970661--970861	65	3.1	65	77	5	174	28	17	20	33	1.96
986667--987551	56	15.8	56	80	4	865	28	17	18	35	1.94
991271--991864	56	10.7	56	83	7	653	28	19	17	35	1.94
991307--991837	273	1.9	273	87	3	764	28	19	17	34	1.95
992192--992248	20	2.7	22	86	5	73	29	28	14	28	1.95
992201--992248	22	2.3	20	85	7	60	29	29	14	27	1.95
996063--996104	22	1.9	22	90	0	66	33	7	14	45	1.72
1003490--1003519	16	1.9	15	93	6	51	26	20	20	33	1.97
1008353--1008403	22	2.3	22	80	10	59	29	19	21	29	1.98
1015285--1015325	22	1.9	21	85	5	55	26	19	21	31	1.97
1015925--1016085	64	2.5	63	83	1	196	32	16	13	37	1.87
1017045--1017083	13	3.3	13	73	26	50	23	25	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021596--1021640	23	2.0	22	87	8	65	20	20	28	31	1.97
1027682--1027843	40	4.1	40	92	0	279	22	17	26	33	1.96
1027949--1028016	21	3.2	21	66	22	61	38	10	22	29	1.87
1027948--1028155	45	4.7	45	93	3	334	38	8	23	30	1.84
1030962--1031020	23	2.6	22	86	5	73	76	0	13	10	1.02
1034765--1034846	40	2.0	40	95	0	146	23	18	25	32	1.97
1034954--1035159	45	4.6	45	92	1	310	39	6	22	31	1.80
1043634--1043738	55	1.9	54	81	12	126	24	3	16	55	1.58
1043686--1043746	13	4.0	17	70	24	55	21	4	14	59	1.55
1043686--1043777	44	2.1	44	93	0	157	23	3	15	57	1.53
1043730--1043809	26	2.9	28	74	11	83	25	3	15	56	1.56
1043686--1043777	14	6.4	14	68	13	62	23	3	15	57	1.53
1043785--1043828	15	2.7	17	75	13	56	25	4	13	56	1.56
1044744--1044801	21	2.8	20	80	12	55	48	12	12	27	1.76
1044750--1044816	21	3.2	21	79	8	73	46	13	11	28	1.79
1054575--1054746	93	1.8	93	88	0	263	37	11	7	43	1.70
1058012--1058055	17	2.6	17	92	0	70	27	22	20	29	1.99
1059696--1059753	21	2.8	20	80	12	55	48	12	12	27	1.76
1059702--1059768	21	3.2	21	81	8	82	46	13	13	26	1.80
1065176--1065229	28	1.9	28	88	0	81	18	18	16	46	1.85
1070074--1070202	59	2.2	59	87	0	177	29	25	17	27	1.97
1071149--1071395	42	5.8	41	88	5	334	31	24	25	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071149--1071395	84	2.9	84	91	3	381	31	24	25	18	1.97
1072347--1072419	29	2.5	29	82	4	85	46	20	6	26	1.75
1075503--1075546	17	2.6	17	88	0	70	25	22	22	29	1.99
1086923--1086980	26	2.2	26	87	0	80	46	17	10	25	1.79
1089600--1089772	90	1.9	89	90	3	276	36	11	6	44	1.68
1089888--1089924	18	2.1	18	100	0	74	37	10	16	35	1.83
1096497--1096669	90	1.9	89	94	1	301	37	10	7	43	1.68
1096704--1096728	13	1.9	13	100	0	50	40	4	8	48	1.51
1096892--1096933	18	2.3	18	91	0	66	33	14	26	26	1.94
1096901--1096936	18	2.0	18	100	0	72	33	16	22	27	1.95
1099601--1099630	15	1.9	16	93	6	53	20	30	23	26	1.98
1102969--1103018	21	2.4	21	100	0	100	20	6	24	50	1.70
1103913--1103942	9	3.4	9	95	4	53	50	33	0	16	1.46
1105850--1105900	21	2.5	21	90	3	77	47	15	23	13	1.82
1106045--1106115	34	2.1	33	87	7	99	30	15	28	25	1.96
1108771--1108828	18	3.1	17	77	22	62	29	10	8	51	1.65
1108771--1108828	21	3.0	20	78	9	66	29	10	8	51	1.65
1109065--1109110	20	2.3	20	88	7	67	34	13	21	30	1.91
1109144--1109184	21	2.0	21	90	4	66	24	26	26	21	2.00
1109508--1109578	34	2.1	33	89	2	106	30	15	29	23	1.95
1122156--1122188	16	2.1	16	94	0	57	57	9	12	21	1.62
1126538--1126588	21	2.4	21	86	0	75	50	13	35	0	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129169--1129266	44	2.2	44	83	1	126	30	23	16	29	1.96
1142799--1142850	20	2.6	21	75	9	54	30	9	30	28	1.89
1153016--1153085	27	2.6	27	82	8	81	25	2	20	51	1.61
1153472--1153648	13	12.6	14	64	18	75	27	5	16	50	1.67
1153461--1153523	27	2.4	28	75	24	73	26	3	15	53	1.57
1153472--1153648	44	4.2	43	71	16	147	27	5	16	50	1.67
1153515--1153643	27	4.8	28	78	17	139	27	6	16	49	1.69
1153435--1153593	71	2.3	69	77	14	182	26	5	18	50	1.67
1153515--1153643	28	4.7	27	78	17	142	27	6	16	49	1.69
1156604--1156658	27	2.0	27	92	0	92	21	12	12	52	1.72

Tables:   1   2   3   4   5