genome.fa.s9460.2.7.7.80.10.50.1000.7.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: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2853300

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  7  of  14  ( 1601 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)
1170498--1170553	20	2.8	20	89	5	78	23	12	21	42	1.86
1170477--1170670	40	4.8	39	72	17	148	22	14	22	41	1.89
1170518--1170684	20	8.4	20	81	12	134	20	15	23	40	1.91
1170514--1170709	60	3.3	60	76	11	229	20	16	22	39	1.92
1170477--1170700	120	1.9	121	89	0	351	22	14	21	41	1.90
1170680--1170745	20	3.2	20	66	19	55	27	18	21	33	1.96
1172882--1172946	24	2.7	23	79	11	60	67	3	0	29	1.05
1174838--1174919	32	2.6	32	86	1	112	39	25	21	13	1.90
1175680--1175744	20	3.0	21	75	8	69	27	7	3	61	1.38
1186335--1186403	34	2.0	35	88	2	104	28	18	20	31	1.96
1186713--1186787	21	3.6	21	88	0	114	22	20	26	30	1.98
1187028--1187086	22	2.7	23	86	5	86	11	27	16	44	1.83
1187426--1187493	20	3.4	20	84	8	93	42	25	14	17	1.87
1187649--1187687	16	2.5	15	84	8	51	28	5	0	66	1.12
1188423--1188476	24	2.2	24	93	0	90	20	18	20	40	1.91
1190735--1190771	18	2.1	18	94	0	65	56	24	2	16	1.53
1190787--1191042	127	2.0	127	100	0	512	27	10	18	43	1.82
1191185--1191233	20	2.5	20	93	0	89	42	22	20	14	1.88
1191267--1191317	20	2.5	20	87	6	77	13	21	23	41	1.89
1191392--1191441	14	3.8	13	72	17	50	26	8	22	44	1.80
1191391--1191440	25	2.0	25	92	0	82	28	8	20	44	1.79
1191818--1191870	24	2.2	24	86	0	70	35	1	13	49	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192940--1193083	66	2.2	64	93	2	243	50	17	1	30	1.54
1193207--1193259	24	2.2	24	100	0	106	43	33	0	22	1.54
1194486--1194584	21	4.7	21	74	9	85	23	21	31	24	1.98
1194485--1194584	42	2.4	43	75	11	107	24	21	31	24	1.98
1194944--1195041	42	2.3	42	74	6	101	34	36	11	17	1.85
1199031--1199070	20	2.1	19	86	9	55	47	20	2	30	1.63
1202102--1202142	12	3.1	14	80	20	52	63	2	0	34	1.08
1202482--1202528	22	2.0	24	92	8	80	72	0	0	27	0.85
1205033--1205231	6	33.2	6	96	0	272	7	16	49	27	1.71
1205605--1205636	13	2.5	13	94	0	55	21	21	21	34	1.97
1211109--1211152	5	8.8	5	87	0	61	2	38	36	22	1.67
1211150--1211222	6	12.2	6	94	0	110	5	16	49	28	1.68
1211150--1211218	30	2.3	30	100	0	138	5	17	49	27	1.69
1215357--1215442	3	28.0	3	83	4	82	43	0	0	56	0.99
1215364--1215440	16	4.9	16	76	13	72	44	0	0	55	0.99
1220867--1220898	15	2.1	15	94	0	55	25	18	9	46	1.79
1227663--1227744	9	8.5	10	83	12	77	82	0	17	0	0.66
1227665--1227744	6	14.0	6	74	19	73	82	0	17	0	0.67
1227665--1227733	21	3.2	21	82	12	79	84	0	15	0	0.63
1227660--1227745	29	2.9	29	86	6	111	81	0	18	0	0.69
1228894--1229456	83	6.6	84	92	2	907	26	12	23	38	1.90
1228894--1229456	167	3.3	167	94	2	939	26	12	23	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228894--1229456	250	2.2	256	93	2	949	26	12	23	38	1.90
1230292--1230849	112	5.0	112	86	6	754	36	14	19	29	1.91
1230292--1230849	228	2.5	224	84	7	756	36	14	19	29	1.91
1230777--1230832	17	3.2	17	69	18	51	50	8	23	17	1.74
1231073--1231149	3	25.0	3	84	5	100	38	0	0	61	0.96
1232528--1232581	13	4.3	13	73	23	53	40	1	1	55	1.21
1234920--1235153	64	3.6	65	75	9	194	30	24	19	25	1.98
1234920--1235128	65	3.2	64	76	9	201	31	24	18	25	1.98
1248035--1248082	24	2.0	24	91	0	78	43	8	37	10	1.69
1248035--1248093	24	2.5	24	83	5	75	44	6	40	8	1.61
1253129--1253176	24	2.0	24	95	0	87	43	10	37	8	1.69
1256655--1256680	13	2.0	13	100	0	52	30	7	15	46	1.74
1256848--1256900	21	2.5	21	81	6	63	20	24	18	35	1.95
1256890--1256976	20	4.3	20	78	5	95	37	21	18	21	1.94
1257838--1257891	24	2.2	24	93	0	90	20	18	20	40	1.91
1260318--1260406	20	4.4	20	87	2	126	34	23	22	19	1.96
1260411--1260498	19	4.8	19	78	16	105	46	18	20	14	1.84
1260358--1260498	53	2.7	52	85	3	174	41	19	22	16	1.89
1260671--1260707	14	2.6	14	86	0	56	48	21	0	29	1.50
1262298--1262361	23	2.8	23	80	4	85	28	26	25	20	1.99
1262377--1262594	103	2.1	103	98	0	418	37	25	12	24	1.91
1269223--1269286	23	2.8	22	90	4	92	28	26	25	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269302--1269519	103	2.1	103	98	0	418	37	24	13	24	1.92
1271187--1271268	42	2.0	42	82	4	103	20	17	40	21	1.91
1271759--1271805	20	2.3	20	100	0	94	40	25	19	14	1.90
1271846--1271894	20	2.5	20	86	0	71	34	24	20	20	1.96
1271939--1272082	20	7.5	20	86	9	192	19	20	21	38	1.93
1273968--1274037	20	3.5	20	84	3	79	41	24	18	15	1.89
1274081--1274127	20	2.3	20	88	0	67	21	19	23	36	1.95
1274530--1274581	20	2.6	20	96	0	95	38	26	13	21	1.90
1274572--1274669	21	4.8	20	71	6	70	35	21	20	22	1.96
1274637--1274829	20	9.6	20	80	5	210	35	25	19	19	1.96
1274637--1274829	60	3.2	60	81	0	242	35	25	19	19	1.96
1275211--1275281	33	2.2	33	92	0	115	11	22	18	47	1.80
1275402--1275456	14	3.6	14	73	21	56	41	23	25	9	1.83
1275402--1275472	33	2.2	33	94	0	124	43	25	22	8	1.81
1275468--1275570	19	5.9	19	74	19	100	10	24	21	43	1.84
1275468--1275573	52	2.0	52	94	0	185	10	24	20	44	1.83
1277272--1277836	185	3.0	186	98	0	1098	22	12	18	46	1.82
1277272--1277836	93	6.1	93	99	0	1098	22	12	18	46	1.82
1277880--1278008	19	7.3	19	75	17	125	45	28	17	8	1.77
1277916--1278008	33	2.8	32	91	4	150	46	27	18	7	1.76
1277880--1278008	52	2.5	52	74	14	140	45	28	17	8	1.77
1278004--1278138	19	7.6	19	74	16	119	11	18	23	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278026--1278082	14	3.7	14	77	20	60	10	21	22	45	1.82
1278009--1278101	33	2.8	33	93	0	159	11	19	21	47	1.81
1280063--1280098	14	2.6	14	95	0	63	33	0	22	44	1.53
1280205--1280306	19	5.6	19	84	13	151	44	17	23	14	1.86
1280335--1280641	19	17.4	19	80	16	376	14	20	18	46	1.83
1280335--1280574	71	3.4	71	86	11	373	14	20	17	47	1.83
1280297--1280641	142	2.5	137	90	5	516	14	20	18	46	1.84
1280335--1280613	52	5.2	52	93	4	388	14	21	17	46	1.83
1283122--1283168	24	2.0	24	87	8	69	38	21	14	25	1.92
1283851--1284199	20	17.5	20	87	4	454	20	18	26	34	1.96
1284464--1284525	18	3.0	22	68	18	60	17	14	38	29	1.89
1284736--1284845	20	5.4	20	87	2	157	21	20	21	35	1.96
1284842--1284887	21	2.2	21	84	0	56	39	17	26	17	1.91
1293725--1293767	20	2.2	20	86	0	59	34	23	13	27	1.93
1300400--1300446	18	2.6	18	100	0	94	8	17	10	63	1.49
1304651--1304728	2	39.0	2	100	0	156	50	0	0	50	1.00
1304877--1304929	21	2.5	21	90	0	79	30	28	22	18	1.98
1304944--1305055	21	5.5	21	72	8	115	19	18	25	35	1.95
1304963--1305030	19	3.5	19	74	7	64	19	19	22	39	1.92
1304944--1305051	40	2.7	40	97	0	198	19	18	25	36	1.95
1304982--1305064	21	4.0	21	67	6	62	21	21	25	31	1.98
1305148--1305186	6	6.5	6	100	0	78	33	51	15	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305686--1305725	6	6.7	6	100	0	80	0	17	47	35	1.48
1306382--1306436	27	2.0	27	86	6	76	23	32	16	27	1.96
1306563--1306668	27	3.7	27	72	18	97	27	16	31	25	1.96
1306805--1306858	27	2.0	27	85	0	72	24	18	33	24	1.97
1306430--1306925	249	2.0	249	89	1	762	26	22	22	28	1.99
1306961--1307069	27	3.8	27	78	13	119	30	15	28	25	1.96
1306980--1307100	33	3.8	33	80	10	128	31	14	26	27	1.95
1307440--1307610	88	2.0	88	92	1	290	36	14	9	39	1.78
1312629--1312673	13	3.5	13	87	0	63	71	11	2	15	1.24
1312625--1312697	26	2.8	26	81	6	67	69	9	2	17	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14