genome.fa.s8668.2.7.7.80.10.50.1000.5.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: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2122653

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1078 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)
835739--835876	57	2.4	56	89	2	204	32	22	15	29	1.94
836448--836507	21	3.0	20	90	4	93	30	13	25	31	1.93
836450--836518	20	3.4	20	78	4	66	30	11	24	33	1.91
837016--837053	2	19.0	2	100	0	76	50	0	0	50	1.00
840244--840312	30	2.3	30	92	0	111	62	20	8	8	1.50
864694--864776	41	2.0	41	100	0	166	44	16	21	16	1.86
866701--866741	2	20.5	2	100	0	82	48	0	0	51	1.00
866952--866991	11	2.9	15	75	24	52	20	12	0	67	1.22
867799--867844	3	15.3	3	90	0	65	30	0	4	65	1.12
876235--876265	2	15.5	2	93	0	53	45	0	54	0	0.99
881029--881827	160	5.0	160	92	1	1309	28	20	15	35	1.93
881910--881946	18	2.1	18	94	0	65	5	40	18	35	1.74
882830--882881	27	1.9	27	88	0	77	13	25	44	17	1.85
884466--884520	7	7.7	7	77	18	51	10	1	5	81	0.92
884481--884521	15	2.7	15	88	0	55	17	2	2	78	0.98
884497--884528	15	2.1	15	94	0	55	18	0	9	71	1.12
892893--892953	28	2.2	28	78	0	68	40	13	3	42	1.60
896324--896386	33	1.9	33	83	0	81	42	0	39	17	1.49
900984--901162	89	2.0	89	100	0	358	42	20	11	26	1.85
907824--907922	41	2.6	38	82	12	121	49	7	0	43	1.29
907865--907931	31	2.3	29	80	12	75	47	7	0	44	1.31
907881--907955	31	2.3	32	88	8	109	45	8	1	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
908533--908573	21	2.0	21	85	9	57	21	14	4	58	1.55
908957--909003	18	2.8	17	93	6	78	31	6	31	29	1.83
909532--910132	244	2.4	238	86	8	787	36	27	11	24	1.90
909820--909912	38	2.4	38	91	3	152	36	40	11	10	1.77
910034--910227	95	2.0	95	100	0	388	26	34	16	22	1.95
910162--910253	38	2.4	37	87	5	139	36	41	11	9	1.75
909785--910433	349	1.9	339	87	8	952	34	29	12	24	1.92
913755--913796	21	2.0	21	90	4	66	52	0	9	38	1.34
914831--914881	24	2.2	24	85	3	68	43	15	13	27	1.85
916656--916681	12	2.2	12	100	0	52	15	50	0	34	1.45
925905--925937	16	2.0	17	94	5	59	36	6	21	36	1.78
933303--933360	29	2.2	24	82	17	64	29	13	10	46	1.77
937991--938049	29	2.0	29	100	0	118	23	13	13	49	1.78
944061--944279	109	2.0	109	100	0	438	26	23	16	32	1.96
955040--955233	96	2.0	96	93	0	334	31	9	15	43	1.79
964699--964923	41	5.5	41	73	10	138	33	27	11	28	1.91
964698--964923	20	11.1	20	71	14	122	33	27	11	27	1.91
964739--964924	21	9.0	21	74	12	134	31	26	11	30	1.91
964907--965035	20	6.4	20	69	15	70	29	21	11	37	1.89
964945--965035	40	2.3	40	79	9	105	31	19	10	37	1.87
965193--965229	16	2.3	16	90	0	56	27	2	0	70	1.01
968225--968260	18	2.0	18	94	0	63	55	25	2	16	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969958--969995	20	1.9	20	88	0	58	18	13	21	47	1.82
970321--970369	22	2.2	22	92	0	80	18	22	44	14	1.85
970473--970510	20	2.0	20	84	5	51	47	10	13	28	1.76
970556--970688	20	6.5	20	73	10	90	30	14	24	30	1.94
977852--977905	2	27.0	2	100	0	108	50	0	0	50	1.00
982719--982800	29	2.8	29	94	0	146	43	23	9	23	1.83
982800--982825	7	3.7	7	100	0	52	23	30	30	15	1.95
982801--982869	31	2.2	31	87	10	97	17	24	42	15	1.88
982825--982861	13	2.8	13	100	0	74	10	24	48	16	1.77
982815--982883	17	4.2	17	78	17	83	13	23	44	18	1.84
989987--990067	29	2.8	29	94	0	144	44	22	9	23	1.82
990069--990100	7	4.6	7	100	0	64	25	28	31	15	1.96
990076--990144	31	2.2	31	87	10	97	17	24	42	15	1.88
990100--990136	13	2.8	13	100	0	74	10	24	48	16	1.77
990090--990158	17	4.2	17	78	17	83	13	23	44	18	1.84
996452--996501	22	2.3	22	96	0	91	40	16	20	24	1.91
999029--999065	6	6.2	6	93	0	56	35	37	0	27	1.57
1000673--1000721	22	2.3	21	79	10	55	46	0	6	46	1.27
1001333--1001381	24	2.0	24	100	0	98	38	16	8	36	1.78
1018337--1018514	29	6.3	29	76	8	143	46	16	1	35	1.55
1018444--1018496	17	3.4	17	70	20	60	50	18	0	30	1.47
1019293--1019412	43	2.8	43	82	6	138	44	15	17	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1020258--1020348	38	2.4	38	89	5	132	43	21	7	26	1.79
1025584--1025642	31	1.9	31	89	0	91	20	5	22	52	1.65
1032249--1032301	22	2.4	22	96	0	97	15	9	26	49	1.74
1032749--1032831	29	2.8	29	92	1	139	43	9	14	32	1.78
1037517--1037599	29	2.8	29	92	1	139	43	9	14	32	1.78
1049494--1049533	20	2.1	19	85	4	53	45	12	2	40	1.56
1052997--1053096	28	3.5	28	81	4	119	45	20	8	27	1.78
1053096--1053120	13	1.9	13	100	0	50	8	24	52	16	1.70
1053116--1053165	19	2.6	19	83	0	64	22	26	32	20	1.98
1054582--1054663	18	4.6	18	81	13	89	32	10	12	43	1.77
1056243--1056347	29	3.6	29	83	6	140	48	19	5	26	1.71
1063336--1063368	12	2.8	12	95	0	57	9	27	45	18	1.79
1074990--1075332	169	2.0	174	97	2	651	33	19	15	31	1.93
1076173--1076388	72	3.0	72	91	0	360	23	22	25	28	1.99
1076304--1076726	209	2.0	210	90	0	668	24	19	25	31	1.98
1085032--1085086	28	2.0	28	85	0	74	43	5	12	38	1.66
1085470--1085505	18	2.0	18	94	0	63	36	11	30	22	1.89
1085975--1086156	61	3.0	60	78	4	177	28	25	6	39	1.79
1086312--1086397	28	2.8	32	66	15	83	41	5	24	27	1.78
1086284--1086458	59	3.0	59	81	10	189	41	4	22	31	1.72
1086371--1086456	29	2.9	30	71	8	86	44	2	19	33	1.64
1086549--1086680	60	2.2	60	87	0	183	33	23	3	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086568--1086715	60	2.5	60	81	4	147	32	21	5	40	1.76
1088236--1088300	28	2.4	27	82	12	96	13	6	33	46	1.69
1088687--1088746	18	3.4	18	93	2	95	28	26	6	38	1.81
1088698--1088752	18	3.1	18	94	0	92	29	25	5	40	1.78
1089432--1089498	30	2.2	31	89	5	109	31	8	8	50	1.64
1089734--1089871	16	8.6	16	75	3	80	13	10	26	49	1.74
1089788--1089875	16	5.5	16	78	4	97	7	6	29	55	1.54
1089825--1089885	32	1.9	32	86	0	86	9	4	29	55	1.53
1089834--1089885	16	3.2	16	83	0	50	11	5	30	51	1.61
1092095--1092128	16	2.1	16	100	0	68	0	38	5	55	1.24
1092111--1092190	41	2.0	41	97	0	151	20	27	16	36	1.93
1092230--1092277	24	2.1	21	81	11	51	27	4	2	66	1.21
1092780--1092827	20	2.4	20	92	0	78	33	8	4	54	1.50
1097868--1097915	22	2.2	23	85	7	64	43	4	2	50	1.33
1102549--1102606	24	2.5	23	80	2	62	36	1	3	58	1.25
1112900--1112953	25	2.2	24	81	9	65	29	0	5	64	1.16
1113277--1113399	64	1.9	64	93	0	210	41	20	4	33	1.73
1116573--1116603	14	2.2	14	100	0	62	48	12	12	25	1.77
1118394--1118432	19	2.1	19	85	0	51	23	25	20	30	1.98
1120344--1120383	21	1.9	21	89	0	62	55	7	7	30	1.56
1122296--1122379	42	2.0	42	95	0	150	27	17	17	36	1.93
1126064--1126107	21	2.1	21	82	0	52	9	43	15	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127273--1127311	19	2.1	19	85	0	51	23	25	20	30	1.98
1130957--1131001	23	2.0	23	86	0	63	37	11	17	33	1.85
1144086--1144149	31	2.1	31	96	0	119	37	10	12	39	1.78
1153218--1153277	23	2.6	24	81	5	70	48	11	10	30	1.72
1153218--1153287	23	3.0	24	79	8	65	44	11	12	31	1.78
1153585--1153648	31	2.1	31	87	0	92	29	7	9	53	1.61
1166213--1166285	32	2.2	33	90	4	121	20	24	10	43	1.84
1169096--1169145	20	2.5	20	93	0	82	54	2	0	44	1.11
1169437--1169489	22	2.4	22	96	0	97	5	16	16	60	1.54
1170740--1170764	2	12.5	2	100	0	50	52	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9