genome.fa.s8165.2.7.7.80.10.50.1000.5.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: VEPZ01008165.1 Hibiscus syriacus cultivar Beakdansim tig00110745_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2894944

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1265 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)
1074699--1074751	21	2.5	20	84	3	61	3	7	1	86	0.75
1074729--1074775	24	2.0	24	82	0	58	8	8	0	82	0.83
1074698--1074763	1	66.0	1	72	0	51	3	9	1	86	0.74
1077623--1077747	47	2.8	46	80	7	141	32	19	7	40	1.79
1082138--1082739	54	11.1	54	84	1	693	31	17	17	33	1.93
1083842--1084242	199	2.0	202	97	2	765	29	26	6	37	1.81
1089732--1089802	31	2.3	31	82	7	81	14	32	11	42	1.81
1094685--1094716	16	2.1	16	94	5	57	46	0	15	37	1.46
1101209--1101280	21	3.4	21	84	0	81	27	20	18	33	1.96
1115172--1115251	39	2.1	39	88	4	117	50	18	7	23	1.73
1115383--1115447	19	3.5	18	81	6	67	29	18	7	44	1.77
1119725--1120214	243	2.0	243	99	0	962	36	21	10	32	1.87
1120459--1120563	53	2.0	53	90	3	167	27	20	16	36	1.93
1121042--1121077	12	3.0	12	84	15	56	5	11	0	83	0.80
1121050--1121089	19	2.1	19	85	0	53	5	15	0	80	0.88
1121042--1121094	24	2.2	24	86	6	72	5	15	0	79	0.91
1126694--1126871	90	2.0	90	92	0	293	44	6	11	38	1.65
1133525--1133702	90	2.0	90	90	0	284	45	6	11	35	1.67
1137894--1137939	21	2.1	23	84	15	62	23	13	4	58	1.52
1137939--1138076	45	3.1	45	81	4	152	25	20	11	42	1.85
1138193--1138552	54	6.7	54	81	4	399	32	17	20	30	1.95
1138275--1138367	27	3.5	27	66	12	75	35	17	21	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138889--1138935	22	2.1	22	88	0	67	27	23	14	34	1.94
1140986--1141044	30	2.0	30	86	0	82	35	11	5	47	1.62
1144953--1145004	17	3.1	17	73	15	54	30	13	15	40	1.86
1145027--1145114	17	5.2	17	76	5	70	43	12	6	37	1.69
1147268--1147296	15	1.9	15	100	0	58	31	20	20	27	1.98
1150048--1150198	48	3.1	48	85	3	198	47	16	7	27	1.74
1150581--1150644	32	2.0	32	93	0	110	39	21	9	29	1.85
1150873--1150918	20	2.3	20	96	0	83	17	21	15	45	1.85
1157418--1157478	20	3.2	20	64	17	58	32	1	24	40	1.65
1157417--1157495	36	2.2	36	95	0	140	34	3	22	39	1.72
1159383--1159415	5	6.8	5	86	6	50	0	18	57	24	1.40
1159383--1159415	14	2.3	15	89	5	50	0	18	57	24	1.40
1159382--1159424	19	2.3	19	83	0	50	4	23	51	20	1.66
1159412--1159490	9	8.3	9	73	15	61	30	26	27	15	1.96
1159422--1159491	29	2.4	30	81	11	83	31	25	25	17	1.97
1166617--1166675	19	3.1	19	85	7	75	25	30	27	16	1.97
1174972--1175012	21	1.9	22	90	5	66	53	4	9	31	1.55
1184820--1184874	28	2.0	28	88	0	83	54	12	7	25	1.63
1193007--1193060	20	2.7	20	88	0	81	25	18	31	24	1.97
1193518--1193722	45	4.6	45	90	3	315	30	22	7	39	1.82
1194980--1195015	14	2.6	14	90	0	54	22	22	16	38	1.93
1197868--1197956	28	2.9	32	74	17	89	6	13	1	78	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197894--1197951	10	5.5	10	77	18	64	6	12	1	79	1.00
1200227--1200257	14	2.2	14	94	0	53	41	6	25	25	1.79
1200215--1200257	21	2.2	19	83	8	50	41	9	23	25	1.84
1200749--1200953	45	4.6	45	88	3	306	31	22	8	37	1.84
1210543--1210727	93	2.0	93	100	0	370	37	8	10	43	1.69
1211381--1211530	81	1.8	82	86	1	221	32	19	18	30	1.95
1211370--1211721	41	8.5	41	67	9	167	30	19	17	32	1.95
1211390--1211686	84	3.6	82	79	5	258	31	19	17	31	1.95
1216382--1216652	43	6.3	43	91	0	416	28	22	22	26	1.99
1217918--1217953	12	2.9	12	91	4	54	63	0	36	0	0.94
1222681--1222721	21	2.0	21	100	0	82	14	26	43	14	1.84
1222986--1223025	20	2.0	20	90	4	64	55	7	0	37	1.29
1224218--1224265	19	2.5	20	82	3	62	29	12	6	52	1.63
1224944--1224984	21	2.0	21	90	0	64	24	34	26	14	1.94
1225917--1225961	20	2.2	20	84	0	63	33	13	20	33	1.91
1228071--1228164	2	47.0	2	82	8	93	44	5	4	45	1.45
1228508--1228547	20	2.0	20	85	0	53	60	15	0	25	1.35
1228997--1229031	16	2.2	16	89	0	52	28	14	28	28	1.95
1229971--1230012	18	2.3	18	80	8	50	47	2	0	50	1.14
1229999--1230097	27	3.6	29	74	16	102	50	1	1	47	1.14
1230001--1230069	18	3.9	18	72	9	61	47	1	0	50	1.09
1230054--1230105	22	2.3	22	83	3	59	51	0	1	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230886--1230963	31	2.5	31	89	0	120	25	10	11	52	1.69
1237914--1238019	45	2.4	45	88	3	160	40	20	15	23	1.90
1237914--1238035	45	2.7	46	82	5	115	41	19	16	22	1.90
1238008--1238260	38	6.9	38	78	11	233	36	18	17	26	1.94
1238121--1238176	29	1.9	29	85	0	76	23	21	25	30	1.99
1238083--1238215	67	2.0	67	89	0	203	31	19	20	28	1.97
1238891--1238994	42	2.5	40	85	3	145	30	24	21	24	1.99
1238743--1239374	260	2.5	255	92	2	1027	33	16	16	32	1.92
1256512--1256553	3	14.0	3	80	9	50	64	0	0	35	0.94
1257882--1257948	29	2.3	30	80	12	77	38	8	11	40	1.74
1258427--1258494	10	6.1	10	72	21	55	61	17	11	8	1.54
1258427--1258492	23	2.8	24	90	2	107	62	16	12	9	1.54
1258429--1258502	23	3.2	23	83	7	89	62	18	10	8	1.52
1258757--1258818	14	4.7	14	74	22	71	58	17	11	12	1.63
1274398--1274466	33	2.0	33	83	5	84	43	13	4	39	1.63
1274777--1275153	200	1.9	197	85	1	520	38	5	9	46	1.59
1275233--1275275	22	2.0	22	95	0	77	46	4	6	41	1.51
1277918--1278240	36	8.9	36	91	0	520	31	22	26	18	1.97
1277932--1278265	109	3.1	107	85	7	415	32	21	25	20	1.98
1280949--1281211	138	1.9	138	82	4	334	44	7	9	38	1.66
1288409--1289342	466	2.0	467	99	0	1834	35	17	11	35	1.86
1289404--1289783	45	8.4	45	88	3	498	30	20	10	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296458--1296659	45	4.4	45	85	2	244	31	21	9	37	1.86
1298800--1299060	137	1.9	137	91	1	425	23	30	9	36	1.87
1303276--1303328	16	3.3	15	76	10	52	24	37	24	13	1.91
1312098--1312179	20	3.9	21	76	13	71	24	35	25	14	1.94
1319366--1319513	51	2.9	50	80	1	161	17	25	33	23	1.96
1319504--1319616	41	2.8	41	86	0	145	12	25	38	23	1.89
1323540--1323585	3	15.3	3	90	0	65	32	34	0	32	1.58
1327134--1327174	22	1.9	22	85	14	59	14	24	53	7	1.66
1327962--1327989	12	2.3	12	100	0	56	7	50	17	25	1.72
1327958--1327992	18	1.9	18	88	0	52	8	48	17	25	1.75
1335609--1336037	5	86.2	5	68	24	159	41	1	5	52	1.32
1335612--1336006	2	208.5	2	68	25	204	41	1	5	51	1.31
1338726--1338768	22	2.0	22	95	0	77	46	9	0	44	1.35
1338763--1338801	18	2.2	18	90	0	60	46	2	7	43	1.46
1338780--1338876	26	3.8	25	70	16	65	43	2	1	53	1.19
1338835--1338871	14	2.6	15	83	12	51	43	2	0	54	1.14
1338895--1338938	22	2.0	22	100	0	88	40	0	4	54	1.21
1345330--1345625	2	161.5	2	66	25	122	41	1	4	52	1.28
1345360--1345530	23	7.9	22	72	19	85	41	0	4	53	1.24
1345415--1345623	5	41.8	5	69	21	109	44	0	3	51	1.23
1349157--1349196	21	1.9	21	89	0	62	55	7	7	30	1.56
1353007--1353083	23	3.5	22	71	7	75	27	24	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352987--1353083	44	2.2	43	85	5	124	29	24	19	25	1.98
1355954--1356002	21	2.3	21	100	0	98	20	30	22	26	1.98
1357630--1357663	18	1.9	17	88	5	50	29	17	26	26	1.98
1358072--1358142	22	3.2	22	89	0	97	19	15	23	40	1.90
1362805--1363175	185	2.0	185	99	0	733	43	14	13	29	1.83
1364157--1364242	44	1.9	45	84	11	115	17	26	26	29	1.98
1368977--1369019	13	3.4	12	83	6	50	67	0	0	32	0.91
1368972--1369007	13	2.6	14	91	8	65	63	0	0	36	0.94
1371788--1371848	24	2.5	24	97	0	113	44	21	13	21	1.86
1385946--1386082	45	3.0	45	94	1	229	38	5	22	33	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11