genome.fa.s4846.2.7.7.80.10.50.1000.5.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: VEPZ01004846.1 Hibiscus syriacus cultivar Beakdansim tig00010927_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1467214

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 661 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)
930767--930810	20	2.2	20	92	8	72	29	20	15	34	1.94
932915--932971	21	2.7	20	75	20	62	15	21	33	29	1.94
934758--934842	2	43.0	2	72	23	65	48	2	3	45	1.32
939480--939525	2	23.0	2	100	0	92	50	0	0	50	1.00
942655--942741	35	2.5	34	80	12	97	55	10	8	26	1.61
943301--943346	18	2.6	18	93	6	76	23	23	26	26	2.00
945113--945140	10	2.8	10	100	0	56	42	0	32	25	1.55
949098--949275	90	2.0	90	90	0	284	36	12	6	43	1.70
955913--956088	90	2.0	90	90	0	280	37	10	5	46	1.63
966540--966606	26	2.6	26	97	0	125	46	19	11	22	1.82
969095--969136	21	2.0	21	90	0	66	52	0	0	47	1.00
972520--972990	127	3.7	127	90	3	736	22	22	21	33	1.98
973105--973412	63	4.8	63	81	12	392	37	2	23	36	1.68
973259--973359	31	3.2	31	68	18	100	39	0	23	36	1.55
973291--973390	23	4.6	23	70	16	79	43	0	21	36	1.53
973105--973480	196	1.9	196	96	0	689	36	3	23	35	1.71
973590--973661	34	2.2	33	87	2	99	37	5	6	50	1.53
974173--974240	21	3.2	21	80	13	86	20	25	33	20	1.97
975832--975888	24	2.4	24	82	8	64	63	1	0	35	1.05
975985--976080	30	3.3	30	73	11	74	58	1	0	40	1.05
985996--986073	37	2.1	37	90	0	120	32	15	25	26	1.95
987308--987354	16	2.9	16	100	0	94	38	12	19	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987405--987470	27	2.4	27	100	0	132	27	15	18	39	1.90
987459--987511	23	2.3	23	86	0	79	24	16	15	43	1.87
990427--990517	47	1.9	47	97	0	173	24	7	25	42	1.81
995832--995904	29	2.5	29	81	0	83	26	19	8	46	1.77
995873--996353	81	5.9	81	87	0	683	27	22	12	37	1.90
996303--996490	68	2.8	67	86	4	270	30	23	14	31	1.94
996633--996766	55	2.5	55	90	1	198	33	20	11	35	1.88
997130--997179	19	2.4	21	83	9	59	32	20	12	36	1.89
1000808--1000885	38	2.1	38	100	0	156	24	5	25	44	1.74
1003488--1003521	14	2.4	14	90	0	50	11	29	17	41	1.85
1006417--1006542	47	2.8	45	84	5	164	40	7	21	30	1.80
1012451--1012709	43	6.0	43	86	1	297	32	19	19	28	1.97
1017834--1017891	19	2.6	22	76	23	68	20	12	3	63	1.42
1017839--1017887	19	2.6	19	93	0	80	20	12	4	63	1.45
1019952--1019986	11	3.2	11	87	0	52	48	17	0	34	1.47
1023037--1023120	7	10.9	7	78	19	71	79	1	15	3	0.92
1023052--1023120	10	7.1	10	69	12	54	79	1	15	2	0.92
1023764--1023857	28	3.4	28	92	0	143	39	31	4	24	1.75
1025097--1025330	55	4.3	53	87	1	216	32	11	16	39	1.85
1025132--1025330	53	3.7	54	88	2	233	31	11	17	39	1.85
1030719--1030766	21	2.2	22	88	3	71	16	25	18	39	1.91
1033100--1033139	20	2.0	21	85	14	57	52	7	10	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034550--1034590	16	2.6	16	81	11	57	24	9	53	12	1.68
1034996--1035026	3	10.3	3	92	0	53	67	29	3	0	1.06
1035110--1035195	19	4.5	19	97	0	154	45	19	27	6	1.76
1041125--1041200	27	2.8	27	77	2	80	52	18	1	27	1.53
1041125--1041163	14	2.8	14	84	0	51	53	15	0	30	1.42
1041176--1041242	28	2.4	28	82	0	80	58	13	1	26	1.44
1042069--1042271	65	3.1	63	76	12	173	27	18	24	30	1.98
1050743--1050898	65	2.4	65	84	5	183	26	16	23	32	1.96
1050783--1050948	65	2.6	63	80	11	185	24	18	25	31	1.97
1051194--1051292	14	7.1	14	75	8	69	53	21	0	25	1.46
1051194--1051293	41	2.4	41	73	5	103	53	21	0	26	1.46
1051669--1051717	15	3.3	15	79	0	53	61	12	2	24	1.42
1051640--1051717	30	2.6	30	81	4	86	58	8	5	26	1.49
1055195--1055316	40	3.1	39	91	2	190	34	23	16	25	1.95
1057058--1057095	20	1.9	20	84	10	51	55	5	0	39	1.23
1058698--1058729	6	5.3	6	100	0	64	31	0	68	0	0.90
1059790--1059839	23	2.2	23	89	7	75	44	0	0	56	0.99
1059801--1059847	23	2.0	23	84	8	60	48	0	0	51	1.00
1060998--1061033	17	2.1	17	90	10	56	41	0	5	52	1.24
1061590--1061684	42	2.3	42	83	7	122	26	31	20	22	1.98
1061671--1061719	21	2.4	21	75	3	55	22	32	28	16	1.95
1062186--1062251	35	1.9	34	87	3	96	45	12	3	39	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062996--1063074	33	2.4	33	97	0	149	27	36	8	26	1.86
1063029--1063370	138	2.5	138	84	2	418	35	24	15	24	1.94
1063522--1063559	17	2.3	17	86	4	51	42	28	0	28	1.56
1067843--1067880	19	2.0	19	85	10	51	39	5	2	52	1.38
1068462--1068611	3	50.7	3	97	2	286	66	0	0	33	0.92
1070429--1070468	20	2.0	21	95	5	73	27	22	15	35	1.94
1071667--1072138	118	4.1	118	74	9	452	38	13	17	30	1.88
1071741--1072247	226	2.2	227	89	2	770	38	13	16	30	1.87
1072431--1072886	200	2.3	200	88	1	664	34	13	12	39	1.83
1072431--1073002	200	2.9	199	81	7	658	34	13	12	39	1.82
1072906--1073155	130	1.9	129	81	8	301	32	15	12	40	1.83
1075701--1075765	20	3.2	20	77	14	71	27	15	12	44	1.82
1075930--1076297	178	2.1	177	82	3	436	32	16	13	37	1.88
1076110--1076565	199	2.3	199	83	6	566	33	12	14	39	1.84
1082223--1082269	15	3.0	15	76	17	51	12	27	0	59	1.34
1084086--1084113	2	14.0	2	100	0	56	50	0	0	50	1.00
1085381--1085440	20	2.9	20	95	5	102	43	18	10	28	1.82
1085182--1085634	219	2.1	219	84	4	574	34	15	15	34	1.88
1085401--1085765	199	1.8	199	82	2	473	35	14	13	35	1.86
1092379--1092944	199	2.9	196	74	6	531	29	16	12	41	1.85
1093726--1093875	42	3.5	42	81	5	176	26	14	20	38	1.92
1106077--1106106	15	2.1	15	93	6	53	30	6	30	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106471--1106626	60	2.6	60	79	5	163	39	20	10	28	1.86
1106582--1106937	121	2.9	121	85	2	480	38	24	14	22	1.91
1107497--1107529	3	10.7	3	93	6	57	33	0	0	66	0.92
1109422--1109460	16	2.4	17	82	4	53	25	5	10	58	1.51
1113503--1113693	26	8.0	26	71	19	166	22	22	10	43	1.84
1113529--1113701	46	3.8	46	92	1	285	22	22	10	44	1.83
1113555--1113680	20	5.7	20	70	20	90	21	25	10	42	1.84
1113471--1113614	72	2.0	72	90	2	227	22	21	11	45	1.83
1114112--1114168	22	2.6	22	88	0	87	28	15	15	40	1.88
1120440--1120675	46	5.1	46	86	2	312	24	22	10	43	1.83
1120459--1120742	66	4.2	66	74	16	285	23	23	10	42	1.85
1120551--1120755	112	1.8	112	90	0	329	24	22	9	43	1.83
1120663--1120754	46	2.0	46	91	0	148	23	22	9	43	1.83
1120450--1120695	138	1.8	136	86	5	365	23	23	10	42	1.85
1124565--1124618	28	1.9	28	85	14	60	51	0	11	37	1.37
1124579--1124640	22	2.9	22	79	11	58	51	1	9	37	1.45
1124559--1124653	29	3.4	28	80	15	90	50	1	8	40	1.40
1124689--1124757	22	3.4	21	69	15	54	40	7	5	46	1.55
1124813--1125216	13	29.8	13	69	18	143	55	1	6	35	1.38
1124810--1125212	22	18.7	21	70	21	166	55	1	6	35	1.37
1124867--1124978	32	3.6	32	72	18	87	53	3	7	35	1.46
1124870--1124957	40	2.2	40	76	9	92	53	3	7	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124988--1125154	65	2.5	64	82	8	183	58	2	6	32	1.37
1124811--1125163	134	2.6	135	76	17	351	56	2	7	34	1.39
1124988--1125136	65	2.2	70	84	7	191	58	2	7	32	1.37
1125129--1125380	2	125.0	2	69	20	107	41	5	2	50	1.39
1125265--1125459	94	2.1	89	89	5	291	38	6	3	50	1.46
1125402--1125444	22	2.0	21	90	4	68	37	9	4	48	1.56
1125410--1125494	36	2.3	37	77	16	88	36	8	2	52	1.44
1125438--1125462	8	3.1	8	100	0	50	36	12	0	52	1.39
1125316--1125464	29	5.1	29	70	20	78	38	6	4	51	1.47
1125414--1125459	20	2.3	20	85	7	58	39	8	2	50	1.46

Tables:   1   2   3   4   5   6