genome.fa.s8075.2.7.7.80.10.50.1000.7.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: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1947163

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

This is table  7  of  10  ( 1176 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)
1175269--1175391	21	6.0	21	75	9	119	24	20	21	34	1.97
1175269--1175391	42	3.0	40	81	4	147	24	20	21	34	1.97
1175296--1175391	40	2.3	42	91	3	160	23	18	20	36	1.95
1175472--1175496	6	4.2	6	100	0	50	36	32	0	32	1.58
1175493--1175529	6	6.2	6	100	0	74	35	48	16	0	1.46
1176075--1176155	21	3.9	21	82	4	76	34	20	20	23	1.97
1182779--1182814	15	2.4	15	85	0	54	44	0	22	33	1.53
1183237--1183329	30	3.1	30	90	1	143	21	21	25	31	1.98
1183742--1183870	2	66.0	2	89	4	192	49	3	0	46	1.23
1184435--1184609	93	1.9	94	90	1	280	44	0	12	43	1.41
1184851--1184918	2	34.0	2	100	0	136	50	0	0	50	1.00
1186044--1186090	21	2.3	20	82	10	60	48	2	2	46	1.25
1187378--1187565	78	2.4	77	84	5	227	36	10	27	26	1.89
1199678--1199775	44	2.3	42	75	18	94	29	1	5	64	1.22
1199803--1199866	27	2.4	27	84	2	85	51	10	6	31	1.62
1199791--1199863	27	2.6	27	82	4	83	49	12	5	32	1.63
1200830--1201178	20	17.5	20	85	4	427	34	26	18	19	1.95
1202080--1202104	12	2.1	12	100	0	50	72	0	28	0	0.86
1204400--1204489	20	4.8	20	81	15	122	44	16	24	14	1.85
1204372--1204485	53	2.2	53	87	6	160	46	19	21	13	1.83
1204372--1204465	34	2.8	33	88	6	136	46	20	20	12	1.82
1204518--1204562	19	2.4	19	100	0	90	15	20	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204527--1204570	19	2.3	19	92	0	70	18	20	15	45	1.85
1204669--1204705	14	2.6	14	91	0	65	45	21	0	32	1.52
1206611--1206662	19	2.7	19	87	3	59	46	26	15	11	1.80
1206627--1206744	19	6.8	18	72	18	72	47	22	19	10	1.79
1206666--1206722	14	3.7	14	77	20	60	47	22	19	10	1.80
1206648--1206739	33	2.8	33	90	1	150	47	21	19	10	1.80
1206740--1206867	19	7.3	19	73	19	116	8	17	28	45	1.78
1206740--1206830	33	2.8	33	91	5	141	7	18	28	45	1.77
1206910--1207556	90	7.1	93	95	4	1194	46	19	12	21	1.83
1206910--1207556	182	3.5	186	95	3	1194	46	19	12	21	1.83
1209245--1209355	33	3.4	32	91	6	188	44	21	24	9	1.83
1209250--1209360	14	6.8	18	73	24	95	42	22	25	9	1.84
1209372--1209426	14	3.6	14	73	21	56	9	25	23	41	1.83
1209356--1209426	33	2.2	33	94	0	124	8	22	25	43	1.81
1209367--1209448	33	2.5	33	89	2	119	9	25	21	42	1.84
1209379--1209467	20	4.8	20	72	19	75	12	24	19	43	1.85
1209550--1209618	32	2.2	32	91	0	111	46	20	21	11	1.82
1209569--1209618	16	3.0	18	69	22	54	44	22	22	12	1.85
1209798--1209852	22	2.5	22	81	0	74	20	16	40	23	1.91
1209998--1210190	20	9.6	20	82	5	219	19	19	25	35	1.95
1209998--1210190	60	3.2	60	83	0	251	19	19	25	35	1.95
1210246--1210297	20	2.6	20	96	0	95	21	13	26	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212814--1212846	2	17.0	2	93	6	59	51	0	0	48	1.00
1213198--1213233	15	2.3	17	86	13	51	44	2	0	52	1.15
1222029--1222068	16	2.6	16	92	4	64	32	20	10	37	1.85
1222412--1223237	4	210.0	4	96	3	1473	48	24	1	25	1.58
1223346--1223385	18	2.2	18	100	0	80	45	10	12	32	1.75
1235087--1235126	21	1.9	21	90	10	64	0	20	7	72	1.08
1235569--1235645	3	25.7	3	97	0	145	64	0	1	33	1.01
1235962--1236354	116	3.4	116	91	2	607	29	20	12	37	1.89
1236287--1236419	65	2.0	65	95	0	239	30	18	13	37	1.89
1236352--1237349	113	8.8	113	98	0	1944	30	21	12	36	1.90
1238108--1238746	83	7.7	83	94	0	1091	35	23	12	27	1.91
1239508--1239544	19	2.0	19	94	5	67	54	5	5	35	1.47
1239508--1239553	16	2.6	18	86	10	60	56	4	6	32	1.45
1247220--1247252	16	2.1	16	94	5	59	42	6	18	33	1.75
1251235--1251281	13	3.5	13	77	13	51	55	2	2	40	1.24
1252210--1252276	21	3.2	20	77	12	64	1	22	8	67	1.27
1252721--1252782	3	20.7	3	96	0	115	64	0	1	33	1.03
1253576--1253784	20	10.9	20	81	8	222	26	26	21	25	1.99
1253659--1253812	71	2.2	71	98	0	299	25	26	21	26	1.99
1254384--1254444	20	3.1	19	69	6	50	19	16	19	44	1.87
1256329--1256376	20	2.4	20	92	0	78	33	27	20	18	1.96
1256419--1256514	20	4.8	20	92	0	147	18	17	23	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257015--1257119	21	5.0	21	72	3	86	20	37	20	22	1.95
1257040--1257122	42	2.0	42	83	4	105	21	38	19	20	1.93
1258511--1258549	14	2.8	14	88	0	60	41	2	10	46	1.51
1258513--1258567	29	1.9	28	81	3	65	38	1	12	47	1.52
1258686--1258724	20	2.0	20	84	0	51	51	20	17	10	1.74
1258767--1259044	20	14.9	20	73	15	218	26	18	21	33	1.96
1258727--1259044	74	4.3	74	78	6	286	25	17	21	34	1.95
1258733--1258869	34	3.9	34	75	12	114	24	20	20	35	1.96
1258878--1259039	53	3.0	53	85	1	225	24	16	24	35	1.94
1258900--1258965	33	2.0	33	93	0	114	21	15	27	36	1.93
1259015--1259284	140	1.9	140	96	0	504	41	14	14	28	1.85
1259344--1259378	18	1.9	18	94	0	61	17	2	25	54	1.57
1262891--1262924	12	2.8	12	90	0	50	55	29	0	14	1.40
1263049--1263102	24	2.2	24	90	0	81	22	18	18	40	1.91
1265369--1265404	18	2.0	18	94	0	63	55	22	2	19	1.56
1265726--1265784	20	3.0	20	89	0	82	38	22	18	20	1.93
1265922--1266020	52	2.0	49	86	9	139	51	15	1	32	1.50
1269651--1269690	20	2.1	19	85	4	53	12	17	22	47	1.81
1269959--1270001	22	2.0	22	85	0	59	27	13	34	23	1.93
1270141--1270277	20	6.8	21	73	12	99	27	16	24	32	1.96
1270799--1270854	26	2.2	26	100	0	112	32	3	21	42	1.70
1272638--1272705	3	22.7	3	100	0	136	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273180--1273245	19	3.5	19	81	6	64	72	7	18	1	1.15
1286644--1287356	52	13.7	52	98	0	1381	23	15	24	36	1.93
1288029--1288868	116	7.4	114	91	4	1079	36	13	19	29	1.91
1289004--1289077	3	24.7	3	100	0	148	33	0	0	66	0.92
1289550--1289617	19	3.5	19	83	2	73	72	7	19	1	1.16
1292796--1292830	17	2.1	17	88	0	52	54	5	0	40	1.24
1293870--1293955	35	2.5	35	82	0	91	40	19	1	38	1.60
1293924--1293966	21	2.0	21	100	0	86	46	13	0	39	1.44
1294089--1294121	16	1.9	18	88	11	52	27	3	6	63	1.32
1294583--1294838	128	2.0	124	90	3	404	37	12	13	35	1.83
1299359--1299400	22	2.0	22	90	4	68	64	4	9	21	1.42
1299359--1299410	22	2.3	22	83	9	61	61	3	7	26	1.41
1303778--1303844	35	1.9	35	87	0	98	35	11	14	37	1.84
1304432--1304456	13	1.9	13	100	0	50	56	16	8	20	1.65
1310178--1310275	45	2.1	47	88	5	146	38	19	12	29	1.88
1317279--1317394	14	8.8	14	64	15	50	58	4	12	24	1.52
1317294--1317358	26	2.5	27	72	22	68	63	4	12	20	1.46
1318428--1318518	46	1.9	49	84	10	127	28	19	14	37	1.91
1321424--1321496	3	24.7	3	86	8	105	65	2	0	31	1.06
1323689--1323764	36	2.1	36	85	7	100	47	1	3	47	1.29
1324925--1325030	38	2.8	38	97	0	203	24	5	23	46	1.74
1325518--1325565	23	2.1	23	88	0	69	37	8	16	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326141--1326588	182	2.5	181	90	1	666	27	15	12	43	1.83
1326464--1326924	112	4.1	112	88	2	642	26	14	12	46	1.80
1326464--1326924	225	2.1	221	87	1	652	26	14	12	46	1.80
1327576--1327644	35	2.0	35	97	0	129	39	20	13	27	1.89
1335660--1335684	13	1.9	13	100	0	50	20	16	16	48	1.82
1338056--1338095	21	1.9	21	94	0	71	30	15	7	47	1.72
1338090--1338188	33	3.0	33	94	1	164	32	7	15	45	1.73
1338174--1338243	27	2.6	27	100	0	140	34	4	12	48	1.61
1338174--1338255	13	6.2	13	72	16	69	34	3	13	48	1.60
1338454--1338499	21	2.2	21	88	0	65	26	26	19	28	1.99

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