genome.fa.s6936.2.7.7.80.10.50.1000.5.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: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2176229

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 982 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)
1194323--1194355	10	3.5	10	84	16	52	39	0	0	60	0.97
1194320--1194362	18	2.4	18	96	0	77	37	0	2	60	1.10
1199321--1199350	6	5.0	6	95	0	51	13	0	3	83	0.77
1203471--1203526	27	2.1	27	86	0	76	41	17	1	39	1.60
1204119--1204280	22	7.1	22	76	12	125	45	4	8	41	1.55
1204150--1204307	46	3.4	45	79	13	153	47	4	6	41	1.49
1204170--1204284	22	5.0	23	78	15	130	46	5	5	42	1.48
1204175--1204311	22	5.9	23	74	20	92	50	4	4	40	1.42
1204110--1204330	22	9.5	24	70	17	87	46	3	7	42	1.50
1204320--1204368	21	2.3	21	82	6	64	48	2	6	42	1.39
1204339--1204403	27	2.4	28	79	7	71	43	0	6	50	1.27
1204383--1204420	2	19.0	2	100	0	76	50	0	0	50	1.00
1205651--1205701	13	3.8	13	80	12	50	15	1	3	78	0.99
1209061--1209120	21	2.9	21	89	0	93	33	36	11	18	1.87
1215506--1215545	21	2.0	20	85	5	53	37	20	15	27	1.92
1229319--1229474	72	2.2	72	83	4	190	36	21	14	28	1.92
1230012--1230085	22	3.4	21	78	10	78	47	4	6	41	1.49
1230038--1230141	26	4.2	25	72	15	65	49	2	4	43	1.39
1230077--1230146	28	2.5	28	81	9	88	50	1	2	45	1.25
1230160--1230215	21	2.7	20	78	10	58	48	1	5	44	1.36
1230181--1230245	28	2.3	28	82	10	71	43	0	4	52	1.22
1231504--1231554	26	2.0	26	84	7	68	17	5	3	72	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232747--1232791	22	2.0	22	91	0	72	42	13	20	24	1.87
1233274--1233370	3	32.3	3	100	0	194	34	0	32	32	1.58
1233369--1233413	3	15.0	3	100	0	90	33	0	66	0	0.92
1235504--1235952	169	2.7	169	77	5	467	30	14	18	36	1.90
1236782--1236876	36	2.6	36	85	3	138	54	14	5	25	1.61
1238899--1238932	16	2.1	16	94	0	59	47	5	0	47	1.26
1238985--1239019	18	1.9	18	88	11	54	68	5	5	20	1.31
1241009--1241064	26	2.2	26	83	6	69	23	12	21	42	1.86
1241058--1241119	27	2.2	28	88	2	90	19	8	24	48	1.75
1241058--1241128	27	2.6	27	84	6	72	19	8	22	49	1.75
1242821--1242855	18	1.9	18	94	0	61	54	0	0	45	0.99
1242936--1242972	2	19.0	2	94	5	67	51	0	0	48	1.00
1243030--1243068	2	20.0	2	94	5	71	51	0	0	48	1.00
1243370--1243550	88	2.1	88	95	2	328	47	4	14	33	1.66
1244547--1244639	2	46.5	2	100	0	186	49	0	0	50	1.00
1245321--1245374	21	2.7	20	75	11	56	42	0	3	53	1.18
1245342--1245529	71	2.7	71	76	9	167	39	4	3	52	1.39
1245488--1245529	18	2.4	18	88	4	59	38	2	2	57	1.25
1245571--1245619	14	3.4	14	74	20	55	57	0	0	42	0.99
1245550--1245621	28	2.5	28	88	4	99	52	1	0	45	1.09
1245564--1245608	14	3.1	15	81	12	67	57	0	0	42	0.98
1249821--1249853	15	2.1	16	88	5	50	33	9	3	54	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251571--1251639	30	2.3	30	84	0	93	36	18	20	24	1.95
1252890--1253137	30	8.3	30	71	11	125	37	8	1	52	1.41
1252890--1253060	29	5.7	29	77	10	148	36	7	0	55	1.31
1252890--1253002	58	1.9	59	87	1	165	36	6	0	56	1.30
1252914--1253061	31	4.9	32	77	12	93	37	7	0	54	1.33
1253142--1253261	59	2.0	63	85	6	167	36	4	1	57	1.28
1253142--1253261	31	4.0	30	84	8	145	36	4	1	57	1.28
1255519--1255761	120	2.0	120	100	0	486	25	22	20	31	1.98
1262349--1262397	25	1.9	25	87	4	71	2	6	12	79	0.99
1268934--1268968	2	18.0	2	94	5	63	51	0	0	48	1.00
1268988--1269052	31	2.0	35	82	11	84	43	6	7	43	1.58
1269128--1269395	27	10.0	27	68	7	125	29	16	16	37	1.91
1269132--1269262	54	2.4	53	84	5	156	29	16	18	35	1.92
1269185--1269394	54	3.9	54	80	2	190	26	17	16	39	1.90
1269187--1269398	108	2.0	108	80	5	241	26	17	16	39	1.91
1274129--1275015	257	3.4	258	91	2	1342	32	15	17	33	1.92
1276687--1276714	2	14.0	2	100	0	56	50	0	0	50	1.00
1283133--1283451	134	2.4	134	82	2	363	32	18	18	30	1.95
1285435--1285528	28	3.3	27	83	7	107	40	1	13	44	1.51
1285481--1285644	29	5.7	29	79	8	147	39	4	7	48	1.52
1285508--1285644	58	2.4	58	84	0	193	39	5	5	48	1.51
1285511--1285672	87	1.8	88	81	5	202	38	6	6	48	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286372--1286433	30	2.1	30	96	0	115	40	16	14	29	1.88
1286604--1286844	45	5.4	45	82	5	276	40	20	16	22	1.91
1287188--1287292	42	2.5	41	77	6	113	33	20	20	24	1.97
1287687--1287733	20	2.3	20	96	0	85	27	23	27	21	1.99
1287980--1288083	42	2.5	41	75	3	109	30	22	21	25	1.98
1287110--1288205	258	4.2	257	82	8	1290	33	17	15	33	1.92
1292740--1292827	25	3.5	25	98	0	167	32	26	14	26	1.95
1292870--1292907	16	2.4	16	95	0	67	28	18	15	36	1.92
1294829--1294904	39	1.9	39	100	0	152	51	15	5	27	1.65
1295535--1295573	14	2.8	14	80	0	51	17	12	38	30	1.88
1295923--1296097	45	3.9	44	79	4	179	38	9	14	37	1.79
1296216--1296404	58	3.3	58	83	7	199	41	7	12	39	1.70
1296261--1296541	118	2.4	118	82	5	324	38	6	12	43	1.67
1296261--1296541	58	4.8	58	81	6	300	38	6	12	43	1.67
1296707--1296878	39	4.4	39	82	7	190	38	3	13	44	1.61
1296707--1296877	78	2.2	79	83	6	215	38	2	13	45	1.59
1300094--1300230	65	2.1	65	82	1	159	29	17	22	30	1.97
1300204--1300247	19	2.3	19	100	0	88	15	20	31	31	1.94
1300611--1300648	18	2.1	18	95	0	67	63	5	2	28	1.30
1302917--1302990	23	3.3	23	72	11	73	27	20	24	28	1.99
1302915--1303015	44	2.3	43	83	8	125	27	19	23	28	1.99
1307566--1307605	20	2.0	21	85	5	55	25	17	10	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309674--1309829	65	2.4	65	89	3	226	29	18	23	28	1.98
1310562--1310605	20	2.2	20	88	8	63	25	11	4	59	1.51
1311734--1311804	20	3.6	19	90	5	106	40	11	14	33	1.81
1311903--1311954	19	2.7	19	93	0	86	42	21	7	28	1.80
1313370--1314518	604	1.9	601	87	2	1669	36	14	15	33	1.88
1316359--1316620	54	4.9	54	75	3	168	29	17	14	38	1.90
1316325--1316620	81	3.7	81	75	1	254	29	18	13	38	1.89
1316325--1316592	27	9.9	27	77	2	216	29	17	13	38	1.88
1317918--1317942	9	2.8	9	100	0	50	8	56	24	12	1.62
1317991--1318037	19	2.4	20	75	3	51	17	23	34	25	1.96
1321103--1321152	23	2.2	23	100	0	100	24	8	34	34	1.84
1321126--1323866	996	2.8	996	98	0	5324	32	12	17	37	1.87
1325468--1325710	43	5.4	43	75	11	159	26	19	26	27	1.99
1325468--1325641	95	1.8	95	86	2	251	26	18	27	27	1.98
1325692--1325772	43	1.9	42	87	2	117	22	19	25	32	1.98
1326152--1326208	21	2.7	21	97	0	105	0	38	21	40	1.53
1326152--1326234	42	2.0	42	82	0	103	1	38	19	40	1.59
1326210--1326267	21	2.8	21	81	0	80	0	37	20	41	1.53
1333498--1333588	46	2.0	46	97	0	173	49	15	24	10	1.76
1334410--1334632	41	5.4	40	75	10	130	29	21	19	30	1.97
1334498--1334607	41	2.7	42	86	10	158	31	23	20	23	1.98
1334513--1334630	41	2.9	41	85	0	137	33	21	18	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334869--1335056	57	3.3	57	99	0	367	51	13	5	29	1.64
1346133--1346322	99	1.9	99	91	0	308	31	15	21	32	1.94
1348695--1348738	19	2.2	20	84	11	56	29	4	6	59	1.44
1348735--1348925	37	5.2	36	80	11	228	45	5	7	41	1.54
1348752--1348822	32	2.2	32	92	5	117	46	5	7	40	1.54
1348735--1348928	74	2.7	69	83	10	264	45	5	7	41	1.55
1348906--1348939	11	3.1	11	100	0	68	44	8	8	38	1.67
1348869--1348978	50	2.2	48	85	10	143	48	5	8	38	1.56
1348793--1349033	124	1.9	124	81	9	285	45	5	7	41	1.56
1348928--1349060	38	3.5	37	81	10	144	45	4	7	42	1.52

Tables:   1   2   3   4   5   6   7   8   9