genome.fa.s7915.2.7.7.80.10.50.1000.6.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: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1667290

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  6  of  10  ( 1148 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)
966212--966263	20	2.6	20	96	0	95	21	13	26	38	1.90
967225--967269	16	2.8	17	77	12	51	17	6	2	73	1.15
967389--967419	6	5.0	6	92	7	53	32	0	3	64	1.09
968414--968452	18	2.2	18	85	0	51	23	5	5	66	1.32
968624--968667	18	2.4	18	84	0	61	59	4	2	34	1.30
974739--974823	30	2.8	30	82	8	93	50	2	0	47	1.14
974739--974794	22	2.4	23	85	8	69	46	1	0	51	1.11
974874--974959	27	3.1	27	71	18	70	47	1	2	48	1.22
975658--975717	30	2.0	30	83	0	75	38	26	0	35	1.57
976212--976265	21	2.5	22	85	8	76	61	0	1	37	1.07
976280--976330	2	25.5	2	100	0	102	49	0	0	50	1.00
978512--978553	13	3.2	13	82	0	57	80	7	2	9	0.97
980062--980971	105	8.7	105	96	1	1637	21	18	26	33	1.96
981701--981793	48	1.9	48	91	0	150	15	21	15	48	1.81
991230--991263	10	3.4	10	87	0	50	73	0	5	20	1.04
992473--992527	14	3.6	16	75	20	55	78	7	5	9	1.10
997262--997336	27	2.7	27	79	4	69	21	10	20	48	1.79
998207--998265	16	3.7	16	100	0	118	38	23	18	18	1.93
998184--998233	22	2.3	22	92	0	82	42	22	16	20	1.89
1004876--1004942	22	2.8	24	82	15	84	25	29	10	34	1.89
1009268--1009315	2	24.0	2	100	0	96	50	0	0	50	1.00
1010244--1010268	12	2.1	12	100	0	50	56	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010256--1010295	21	1.9	21	89	0	62	45	0	0	55	0.99
1014937--1014978	19	2.2	19	100	0	84	16	28	14	40	1.88
1020167--1020284	46	2.5	46	88	1	164	44	12	23	19	1.85
1020203--1020337	73	1.9	72	92	1	225	44	11	24	20	1.83
1020203--1020670	26	19.7	24	68	22	201	44	11	23	21	1.84
1020272--1020677	46	8.6	46	81	7	427	44	11	22	22	1.84
1020272--1020670	141	2.8	139	84	5	462	43	11	22	22	1.84
1020498--1020566	20	3.2	20	67	21	57	42	13	24	20	1.87
1020316--1020684	94	3.8	96	82	3	352	44	10	22	22	1.83
1021005--1021255	81	3.1	80	87	1	340	35	9	25	29	1.88
1021005--1021232	80	2.8	80	89	1	330	35	9	24	29	1.87
1021229--1021284	22	2.5	22	91	0	94	41	12	26	19	1.87
1023237--1023285	2	24.5	2	100	0	98	51	0	0	48	1.00
1026114--1026477	20	15.5	26	66	23	150	42	12	24	20	1.87
1026140--1026338	47	4.3	47	89	3	296	43	13	23	19	1.86
1026140--1026336	92	2.1	92	89	2	297	44	13	23	19	1.85
1026306--1026610	20	13.6	20	68	21	135	42	12	24	20	1.86
1026275--1026405	67	2.0	67	95	0	235	41	12	26	18	1.87
1026326--1026497	93	1.9	92	92	1	290	41	12	26	20	1.87
1026326--1026497	46	3.7	46	93	0	290	41	12	26	20	1.87
1026418--1026564	66	2.2	67	88	1	224	42	12	24	21	1.87
1026275--1026610	113	3.0	113	86	6	443	42	12	24	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026484--1026622	46	3.0	45	86	5	188	44	11	22	21	1.84
1026090--1026622	159	3.3	159	88	3	755	43	12	23	20	1.86
1026414--1026640	113	2.0	112	87	3	321	45	11	21	22	1.83
1026963--1027127	81	2.0	81	94	2	287	35	9	22	32	1.86
1028472--1028511	15	2.6	16	88	7	57	70	0	0	30	0.88
1030612--1030688	10	7.4	10	74	8	64	59	16	10	12	1.60
1030617--1030673	23	2.6	23	81	8	66	59	17	10	12	1.60
1030655--1030692	20	1.9	20	94	0	67	57	10	13	18	1.63
1031039--1031083	21	2.1	21	91	0	72	11	17	22	48	1.78
1032721--1032747	14	1.9	14	100	0	54	44	29	7	18	1.77
1033690--1033864	42	4.2	42	82	2	199	28	19	19	33	1.96
1033691--1033864	84	2.1	84	84	0	222	28	19	18	33	1.96
1037131--1037179	19	2.6	19	96	0	89	24	20	28	26	1.99
1050092--1050309	72	3.0	72	80	2	240	19	15	38	27	1.91
1053730--1053764	16	2.2	16	89	0	52	25	8	25	40	1.84
1063445--1063477	17	1.9	17	93	0	57	33	0	0	66	0.92
1064628--1064675	22	2.2	22	81	7	53	68	2	0	29	1.01
1064821--1064871	26	2.0	26	96	0	93	52	11	7	27	1.65
1066797--1066870	20	3.6	20	83	7	85	35	28	8	28	1.86
1066859--1066918	20	2.9	21	80	9	79	28	28	15	28	1.96
1067006--1067052	21	2.1	23	84	7	62	57	2	4	36	1.30
1067164--1067219	20	2.7	22	89	8	82	32	14	26	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068047--1068114	9	6.6	11	70	21	58	8	27	26	36	1.86
1068070--1068115	20	2.3	20	92	0	74	8	26	26	39	1.85
1068870--1068929	31	2.0	30	86	3	84	25	16	16	41	1.89
1069705--1069974	22	12.3	22	85	0	378	47	11	0	41	1.40
1069714--1069977	44	6.0	44	92	0	447	46	11	0	42	1.40
1069961--1070000	12	3.6	12	77	16	50	52	0	2	45	1.14
1074911--1074950	3	13.7	3	94	5	73	32	0	0	67	0.91
1074913--1074950	20	1.9	20	100	0	76	31	0	0	68	0.90
1074994--1075056	24	2.5	26	76	7	67	38	28	12	20	1.89
1076432--1076482	22	2.3	23	80	13	61	31	0	1	66	1.03
1076441--1076485	14	2.8	17	75	25	53	28	0	0	71	0.87
1082549--1082609	2	31.0	2	96	3	115	50	0	0	49	1.00
1084523--1084594	21	3.3	20	73	21	65	34	27	13	23	1.93
1093637--1094120	62	7.7	62	81	6	480	26	22	16	35	1.95
1093637--1094178	186	2.9	192	79	8	524	26	21	16	35	1.95
1094211--1094645	89	4.9	87	84	4	541	29	19	22	28	1.98
1095041--1095067	3	9.0	3	100	0	54	33	0	0	66	0.92
1098033--1098089	21	2.8	20	75	15	55	40	3	0	56	1.17
1098036--1098069	18	1.9	18	94	5	61	38	2	0	58	1.13
1104654--1104992	85	4.0	85	87	2	477	34	20	17	26	1.95
1104669--1105052	85	4.5	85	84	4	267	34	20	16	28	1.94
1107958--1108016	21	3.1	19	79	13	66	22	23	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114817--1114894	39	2.0	39	94	0	138	17	24	29	28	1.98
1114821--1114894	18	3.9	18	84	10	103	17	24	31	27	1.97
1116048--1116127	9	8.7	9	73	10	63	13	1	8	76	1.08
1116048--1116127	13	5.8	12	73	19	52	13	1	8	76	1.08
1116101--1116139	17	2.4	17	86	4	53	15	2	7	74	1.15
1116680--1116744	32	2.1	32	97	2	123	40	1	0	58	1.07
1116680--1116734	15	3.4	16	77	7	67	41	1	0	56	1.10
1124898--1124941	21	2.1	21	100	0	88	36	4	18	40	1.71
1129310--1129361	2	26.0	2	100	0	104	50	0	0	50	1.00
1139934--1140352	208	2.0	210	99	0	824	27	17	22	32	1.97
1141027--1141064	19	2.0	20	89	5	60	44	21	13	21	1.85
1142854--1143192	170	2.0	170	84	1	437	23	20	26	30	1.98
1145622--1145668	20	2.6	19	81	15	55	4	21	0	74	0.99
1145629--1145668	20	2.1	20	86	9	57	5	22	0	72	1.04
1151099--1151139	21	2.0	20	90	4	64	24	26	21	26	2.00
1153063--1153185	31	4.0	31	89	2	176	21	17	21	39	1.93
1153063--1153182	62	1.9	62	91	0	195	22	17	20	39	1.93
1153360--1153460	31	3.3	31	88	0	157	26	17	21	33	1.96
1154161--1154209	21	2.3	21	92	0	89	24	20	28	26	1.99
1159957--1160137	51	3.5	51	78	0	182	19	14	12	53	1.72
1161926--1161958	16	2.0	17	94	5	59	33	12	30	24	1.91
1164104--1164147	23	1.9	23	95	0	79	70	0	29	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1164104--1164150	14	3.2	14	87	6	58	72	0	27	0	0.85
1164104--1164161	16	3.6	17	74	4	50	75	0	24	0	0.80
1166477--1166660	30	5.5	35	67	21	124	27	15	14	41	1.87
1166585--1166691	29	3.4	29	72	19	99	27	18	14	40	1.89
1166470--1166776	66	4.7	66	83	4	372	28	16	14	40	1.87
1166470--1166776	130	2.3	131	84	3	386	28	16	14	40	1.87
1166688--1166879	102	1.9	103	90	3	307	33	16	12	36	1.87
1167665--1167788	31	4.0	31	76	8	117	29	21	18	29	1.97
1168649--1168693	21	2.1	21	87	0	63	15	24	28	31	1.96
1172187--1172270	30	2.8	30	81	0	96	30	28	21	19	1.97

Tables:   1   2   3   4   5   6   7   8   9   10