genome.fa.s8011.2.7.7.80.10.50.1000.6.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: VEPZ01008011.1 Hibiscus syriacus cultivar Beakdansim tig00110474_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1648842

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 811 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)
1025206--1025340	61	2.2	61	85	2	173	47	6	11	34	1.65
1028193--1028242	23	2.1	24	92	3	84	46	4	0	50	1.20
1028264--1028321	22	2.5	22	83	11	71	41	1	0	56	1.09
1030841--1030938	43	2.3	42	84	10	126	42	0	5	52	1.23
1031058--1031109	20	2.6	20	96	0	95	38	26	13	21	1.90
1031165--1031358	20	9.6	20	76	8	76	35	25	19	19	1.95
1031161--1031358	40	5.0	39	81	4	200	35	26	19	19	1.95
1031165--1031357	60	3.2	60	83	0	251	35	25	19	19	1.95
1031739--1031809	33	2.2	33	92	0	115	11	22	18	47	1.80
1031930--1031965	14	2.6	14	100	0	72	38	25	27	8	1.84
1031977--1032074	19	5.7	19	70	22	81	10	24	22	42	1.84
1031999--1032088	14	5.7	14	74	23	81	8	25	23	42	1.83
1031982--1032096	33	3.5	33	95	0	212	9	24	20	45	1.81
1033795--1034266	185	2.6	185	99	0	926	22	12	18	46	1.83
1033795--1034266	93	5.1	93	98	1	912	22	12	18	46	1.83
1034310--1034438	19	7.3	19	75	17	125	45	28	17	8	1.77
1034346--1034438	33	2.8	32	91	4	150	46	27	18	7	1.76
1034310--1034438	52	2.5	52	74	14	140	45	28	17	8	1.77
1034434--1034568	19	7.6	19	75	16	128	11	19	23	45	1.82
1034456--1034512	14	3.7	14	77	20	60	10	21	22	45	1.82
1034439--1034531	33	2.8	33	95	0	168	10	20	21	47	1.80
1036473--1036508	14	2.6	14	95	0	63	33	0	22	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036615--1036716	19	5.6	19	84	13	151	44	17	23	14	1.86
1036745--1037037	19	16.4	19	83	14	392	14	20	18	47	1.83
1036723--1037037	52	5.9	53	85	11	350	14	20	18	46	1.83
1036745--1037009	128	2.1	122	84	12	194	14	21	16	47	1.83
1039320--1039344	12	2.1	12	100	0	50	0	28	0	72	0.86
1039519--1039565	24	2.0	24	87	8	69	38	21	14	25	1.92
1040248--1040616	20	18.5	20	86	5	451	20	18	26	34	1.96
1044623--1044680	21	2.8	21	91	0	89	17	51	5	25	1.65
1044676--1044804	33	3.8	36	80	9	153	24	46	5	24	1.73
1044743--1044800	18	3.4	18	69	13	59	27	43	1	27	1.65
1046980--1047021	22	2.0	21	95	4	75	40	14	21	23	1.90
1050444--1050494	5	9.6	5	93	6	75	0	19	56	23	1.42
1053303--1053372	35	2.0	35	91	5	115	45	22	0	31	1.53
1055933--1056040	32	3.4	32	89	0	171	32	16	19	31	1.94
1062217--1062290	35	2.1	35	85	9	98	33	0	21	44	1.53
1069538--1069794	125	2.1	125	87	1	372	31	10	15	42	1.80
1070131--1070652	198	2.6	199	81	4	565	41	13	14	30	1.84
1070667--1070813	64	2.3	64	86	2	206	34	10	9	44	1.72
1070794--1070845	23	2.3	23	79	0	59	40	13	5	40	1.68
1075886--1075920	16	2.2	16	89	0	52	25	5	20	48	1.71
1080048--1080077	14	2.1	14	93	0	51	23	33	6	36	1.81
1106964--1106994	7	4.6	7	96	4	55	90	0	9	0	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111155--1111212	21	2.7	21	86	5	80	43	8	17	31	1.79
1111226--1111263	14	2.7	14	100	0	76	36	18	7	36	1.80
1115836--1115883	21	2.3	21	96	0	87	41	12	18	27	1.86
1123907--1123944	20	1.9	20	94	0	67	39	10	26	23	1.87
1123907--1123950	20	2.3	19	88	7	63	40	9	27	22	1.84
1125799--1125841	14	2.9	14	83	16	52	41	2	11	44	1.53
1126066--1126115	15	3.3	15	88	0	73	18	22	32	28	1.97
1135857--1136077	111	2.0	110	96	0	406	35	8	11	44	1.71
1155362--1155418	30	1.9	30	92	0	96	49	8	1	40	1.44
1162663--1162690	10	2.8	10	100	0	56	60	0	0	39	0.97
1162713--1162744	9	3.6	9	100	0	64	18	0	9	71	1.12
1167855--1167942	20	4.4	20	88	0	122	28	26	19	26	1.99
1168744--1168797	24	2.2	24	93	0	90	20	18	20	40	1.91
1170238--1170315	23	3.3	23	78	8	86	33	21	20	24	1.97
1170330--1170520	103	1.9	103	90	0	310	37	24	12	26	1.91
1174887--1175048	64	2.5	64	77	7	159	32	19	20	26	1.97
1175791--1176008	103	2.1	103	97	0	409	25	13	23	36	1.92
1176025--1176090	23	2.9	23	81	0	69	22	22	24	30	1.99
1176015--1176092	23	3.3	23	73	8	68	24	19	21	34	1.96
1178584--1178626	18	2.4	18	96	0	77	53	20	4	20	1.63
1178796--1179143	20	18.7	20	75	14	298	33	22	18	24	1.96
1178804--1179073	54	4.9	54	88	5	380	34	24	17	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178857--1179143	94	3.1	93	77	5	310	34	23	18	24	1.96
1178911--1179143	74	3.1	74	84	4	270	33	23	19	24	1.97
1179136--1179174	20	2.0	20	94	0	69	12	20	20	46	1.83
1180733--1180828	42	2.3	42	78	3	113	26	17	36	19	1.94
1181383--1181430	20	2.4	20	89	0	69	18	18	27	35	1.95
1183176--1183263	20	4.4	20	82	1	88	44	22	17	15	1.86
1183865--1183958	20	4.7	20	82	0	107	24	23	25	26	2.00
1190723--1190873	45	3.4	45	85	3	205	43	20	23	12	1.86
1197911--1197953	9	4.8	9	82	0	59	18	51	2	27	1.59
1197910--1197969	24	2.3	26	83	8	79	20	46	3	30	1.66
1200652--1200682	2	15.5	2	100	0	62	48	0	0	51	1.00
1203143--1203304	80	2.0	81	90	3	254	44	3	8	44	1.49
1208383--1208422	14	2.7	15	84	7	55	55	2	0	42	1.13
1230687--1230720	11	3.1	11	91	0	50	35	47	0	17	1.48
1250217--1250278	31	2.0	31	84	6	81	22	3	1	72	1.08
1250929--1250971	21	2.1	20	82	4	50	46	11	6	34	1.67
1262632--1262684	19	2.8	18	82	5	61	47	1	1	49	1.23
1262632--1262677	18	2.5	19	85	3	58	50	2	2	45	1.26
1269455--1269514	2	30.0	2	100	0	120	50	0	0	50	1.00
1271514--1271560	23	2.0	23	100	0	94	19	46	12	21	1.82
1275395--1275459	23	2.8	23	83	0	85	18	26	23	32	1.97
1279819--1279852	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281347--1281371	2	12.5	2	100	0	50	52	0	0	48	1.00
1284977--1285020	2	22.0	2	90	0	70	50	2	0	47	1.13
1300896--1300934	19	2.1	19	95	0	69	20	38	15	25	1.92
1300833--1301041	65	3.2	63	82	8	208	29	25	17	27	1.97
1300882--1301042	65	2.5	65	85	3	209	30	25	16	27	1.96
1300833--1301062	64	3.6	64	80	6	216	29	25	17	27	1.98
1306744--1306799	22	2.7	21	83	10	62	30	23	17	28	1.97
1308336--1308379	21	2.1	21	86	0	61	9	36	15	38	1.80
1309403--1309441	19	2.1	19	95	0	69	20	38	15	25	1.92
1309359--1309548	65	3.0	63	83	6	222	30	25	16	27	1.97
1309389--1309548	65	2.5	65	87	2	225	30	26	16	26	1.96
1309347--1309568	63	3.5	64	80	6	227	29	25	18	27	1.98
1324886--1325125	87	2.8	87	84	2	299	43	6	12	37	1.68
1325078--1325125	23	2.1	23	88	0	69	35	6	18	39	1.76
1325127--1325806	200	3.4	199	85	4	883	32	15	13	39	1.85
1325907--1326000	30	3.2	30	79	11	81	50	1	1	47	1.15
1325918--1326004	14	6.2	14	69	9	52	47	1	1	50	1.16
1325932--1326000	28	2.5	28	74	6	70	49	1	1	47	1.19
1326169--1326223	2	27.5	2	100	0	110	49	0	0	50	1.00
1326405--1326448	21	2.1	21	82	0	52	36	13	2	47	1.56
1326729--1326830	14	7.2	14	69	15	50	48	2	0	48	1.23
1326794--1326838	14	3.1	15	84	6	58	55	2	0	42	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326847--1326894	21	2.3	21	89	3	71	47	0	0	52	1.00
1327153--1327202	23	2.2	23	92	0	82	36	18	8	38	1.80
1327135--1327363	86	2.7	86	88	0	323	34	14	8	42	1.75
1327316--1327533	23	9.7	23	75	9	155	35	15	8	40	1.78
1327229--1327533	133	2.3	133	88	0	457	34	13	9	42	1.77
1329204--1329233	2	15.0	2	100	0	60	50	0	0	50	1.00
1338126--1338177	22	2.3	23	80	9	63	42	3	0	53	1.19
1356278--1356316	18	2.2	18	100	0	78	35	10	5	48	1.59
1357433--1357539	40	2.7	40	81	9	119	31	21	19	27	1.97
1357458--1357540	42	2.0	42	90	4	132	33	19	19	27	1.96

Tables:   1   2   3   4   5   6   7