genome.fa.s7853.2.7.7.80.10.50.1000.4.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: VEPZ01007853.1 Hibiscus syriacus cultivar Beakdansim tig00110213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2309479

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 900 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)
987302--987351	21	2.3	23	79	6	59	42	18	0	40	1.50
995625--995684	21	2.9	21	89	0	102	23	20	18	38	1.93
995677--995771	20	4.8	20	84	5	122	37	24	16	21	1.93
995677--995771	40	2.4	40	89	1	138	37	24	16	21	1.93
995554--995786	20	11.6	20	72	12	111	32	22	15	29	1.95
996695--996748	24	2.2	24	90	0	81	22	16	20	40	1.91
999013--999051	18	2.2	18	90	0	60	58	20	2	17	1.50
999316--999358	20	2.2	20	95	0	77	41	23	18	16	1.89
999461--999601	61	2.2	64	83	8	173	51	15	1	31	1.53
1000971--1001060	21	4.3	21	74	5	83	22	20	33	24	1.97
1000971--1001070	42	2.4	42	78	6	103	23	18	33	26	1.97
1001467--1001519	21	2.5	21	81	0	70	30	33	15	20	1.93
1003405--1003455	22	2.3	22	86	0	75	23	11	41	23	1.87
1003583--1003627	20	2.2	20	92	0	72	20	15	24	40	1.91
1003974--1004008	13	2.7	13	90	0	52	54	2	0	42	1.15
1004381--1004415	18	1.9	18	94	0	61	48	2	0	48	1.16
1017664--1017695	17	1.9	17	93	6	57	56	6	6	31	1.49
1019170--1020718	519	3.0	512	97	2	2889	40	10	8	40	1.70
1023294--1023335	21	2.0	21	100	0	84	33	14	4	47	1.65
1023322--1023428	33	3.3	33	90	5	157	31	7	14	46	1.72
1023414--1023468	13	4.2	13	75	13	58	34	3	12	49	1.59
1023664--1023720	21	2.7	21	97	0	105	19	28	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024180--1024215	18	1.9	19	94	5	65	36	11	11	41	1.76
1024161--1024215	15	3.4	15	75	18	56	32	9	10	47	1.70
1024309--1024340	16	2.0	17	88	11	50	43	21	21	12	1.86
1024314--1024366	21	2.5	21	100	0	106	33	24	26	15	1.95
1024457--1024499	22	2.0	21	81	4	50	65	2	13	18	1.38
1033306--1033371	27	2.4	27	87	0	96	10	36	15	37	1.82
1038390--1038451	25	2.5	25	100	0	124	22	8	6	62	1.45
1040729--1040761	15	2.2	15	94	0	57	9	69	15	6	1.34
1046609--1046653	23	2.0	23	86	0	63	26	28	24	20	1.99
1046632--1047067	145	3.0	146	89	8	707	34	19	17	27	1.95
1047701--1047732	2	16.0	2	100	0	64	50	0	0	50	1.00
1048658--1048701	20	2.1	21	87	4	63	15	22	29	31	1.95
1061381--1061473	21	4.6	20	79	4	105	39	18	23	18	1.92
1061378--1061473	41	2.3	41	96	0	174	40	17	22	18	1.91
1061400--1061530	41	3.2	41	80	6	115	38	20	19	20	1.93
1061462--1061556	20	4.7	20	77	2	82	35	24	16	23	1.95
1061744--1061787	22	2.0	22	95	0	79	20	45	15	18	1.85
1062051--1062088	20	1.9	20	88	0	58	13	15	21	50	1.78
1063407--1063451	18	2.5	18	85	0	63	26	42	15	15	1.87
1063915--1063970	20	2.8	20	83	2	69	37	23	23	16	1.93
1063970--1064027	14	3.9	14	77	16	62	50	25	15	8	1.73
1063954--1064044	32	2.8	33	93	3	157	48	23	17	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064061--1064149	14	5.8	14	75	19	88	8	17	25	47	1.77
1064056--1064165	32	3.4	32	98	0	211	10	19	24	46	1.80
1064150--1064204	20	2.8	19	89	5	83	16	25	23	34	1.95
1066073--1066108	14	2.6	14	90	0	54	30	0	22	47	1.52
1066215--1066268	14	3.5	14	77	22	63	48	20	20	11	1.80
1066196--1066273	33	2.4	33	91	0	120	42	21	23	12	1.87
1066292--1066348	20	2.8	20	94	0	96	21	22	17	38	1.93
1066716--1066751	14	2.6	14	90	0	54	30	2	22	44	1.67
1067306--1067341	14	2.6	14	90	0	54	30	0	22	47	1.52
1066312--1067716	590	2.4	590	98	0	2731	32	12	18	36	1.89
1068585--1068643	24	2.5	24	80	0	64	30	16	16	35	1.92
1068818--1068842	12	2.1	12	100	0	50	72	0	28	0	0.86
1071136--1071233	19	5.7	19	69	22	90	43	19	24	12	1.85
1071136--1071229	33	2.8	33	98	0	179	43	19	24	12	1.85
1071229--1071271	20	2.2	20	87	4	61	16	18	23	41	1.89
1071257--1071290	14	2.4	14	85	0	50	8	23	20	47	1.78
1071411--1071447	14	2.6	14	91	0	65	45	24	0	29	1.53
1072804--1072870	21	3.2	21	68	4	55	19	20	35	23	1.95
1072804--1072926	42	2.9	41	80	7	113	22	17	35	23	1.95
1074925--1075046	20	6.8	19	64	20	57	42	18	24	13	1.87
1074950--1075048	33	3.0	33	87	1	144	39	20	26	14	1.90
1075047--1075113	19	3.5	19	83	2	80	10	16	23	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075636--1075687	20	2.6	20	93	0	86	25	19	28	26	1.98
1075655--1075732	41	1.9	41	86	0	111	23	16	20	39	1.92
1075655--1075750	41	2.3	41	80	3	104	21	19	20	37	1.94
1077211--1077245	5	7.0	5	93	0	61	40	57	0	2	1.14
1094525--1094574	18	2.7	19	85	14	77	56	2	0	42	1.11
1097182--1097207	10	2.6	10	100	0	52	65	19	15	0	1.27
1098081--1098169	19	4.3	20	77	17	101	35	5	28	30	1.80
1098557--1098607	21	2.4	21	93	0	84	29	29	19	21	1.98
1098625--1098675	20	2.5	20	83	0	75	25	23	27	23	2.00
1098623--1098756	20	6.6	20	72	10	56	26	20	22	31	1.98
1098743--1098796	20	2.7	21	71	8	58	25	16	29	27	1.97
1098771--1098816	19	2.4	19	85	3	56	21	17	30	30	1.96
1098782--1098818	19	1.9	19	94	0	65	21	16	29	32	1.95
1100164--1100226	31	2.0	31	84	6	83	42	15	15	25	1.87
1109040--1109098	29	2.0	29	100	0	118	37	16	16	28	1.92
1109592--1109658	31	2.2	31	81	10	75	43	5	2	47	1.43
1109939--1110135	30	6.8	29	70	17	99	39	7	1	52	1.38
1110056--1110135	32	2.6	31	86	9	110	36	6	2	55	1.39
1110183--1110330	76	1.9	79	82	6	187	36	6	3	53	1.44
1110257--1110356	30	3.4	28	81	15	112	39	5	1	55	1.29
1110254--1110351	31	3.2	30	85	11	135	40	5	1	53	1.30
1110423--1110555	31	4.3	29	76	10	122	57	2	4	36	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110402--1110555	62	2.5	60	79	9	170	57	1	3	36	1.28
1111460--1111508	24	2.1	23	85	11	64	28	0	4	67	1.09
1114015--1114075	32	1.9	31	83	9	79	49	9	1	39	1.46
1119633--1119660	2	14.0	2	100	0	56	50	0	0	50	1.00
1122498--1122561	6	10.7	6	93	0	110	15	31	32	20	1.94
1123640--1123779	72	1.9	72	85	2	192	25	31	10	32	1.90
1123806--1123971	87	1.9	87	88	4	255	17	32	6	43	1.75
1123924--1124133	72	2.9	71	85	5	264	24	33	9	33	1.87
1124207--1124347	66	2.1	66	82	0	174	20	31	11	36	1.88
1123908--1125177	243	5.3	243	86	3	1732	20	32	8	37	1.83
1124418--1124611	72	2.7	72	81	0	226	22	32	8	36	1.85
1124685--1124855	72	2.4	72	86	2	236	21	32	11	34	1.90
1124927--1125076	72	2.1	72	82	2	185	24	30	10	34	1.89
1125295--1125482	96	2.0	96	94	0	331	19	35	5	39	1.76
1129611--1129643	16	2.1	16	94	5	59	36	0	0	63	0.95
1130943--1131004	27	2.3	27	85	0	79	24	14	38	22	1.91
1134113--1134158	2	23.0	2	86	0	65	43	0	6	50	1.28
1134126--1134168	14	3.1	14	89	0	59	34	0	13	51	1.42
1138006--1138151	72	2.0	72	89	2	222	29	25	26	19	1.98
1149973--1150020	18	2.7	18	90	0	78	25	10	29	35	1.89
1152721--1152779	24	2.5	24	83	5	75	38	23	23	13	1.91
1154644--1154691	18	2.7	18	90	0	69	25	12	27	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156140--1156297	21	7.8	20	72	7	86	38	25	17	18	1.92
1156264--1156533	20	13.5	20	80	6	260	37	24	17	20	1.94
1156303--1156533	40	5.8	40	91	4	288	35	24	17	22	1.95
1157215--1157261	24	2.0	24	87	8	69	25	14	21	38	1.92
1157436--1157471	12	3.0	12	100	0	72	75	0	25	0	0.81
1159752--1159961	33	6.2	33	77	16	184	45	18	21	14	1.84
1159766--1159967	19	11.7	19	73	21	194	45	17	21	15	1.86
1159794--1159967	52	3.3	52	95	1	305	44	16	22	15	1.85
1159957--1160073	53	2.2	52	95	1	207	13	23	17	44	1.85
1159976--1160073	19	5.4	19	83	13	134	14	21	17	46	1.83

Tables:   1   2   3   4   5   6   7   8