genome.fa.s8876.2.7.7.80.10.50.1000.5.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: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1683876

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 708 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)
1034030--1034079	20	2.5	20	100	0	100	40	10	16	34	1.81
1034273--1034308	18	1.9	19	88	5	56	61	0	0	38	0.96
1034249--1034381	49	2.7	49	77	12	128	50	1	1	46	1.19
1034320--1034416	14	7.4	14	72	16	59	46	0	1	52	1.07
1034328--1034393	30	2.2	32	84	13	95	50	0	1	48	1.10
1034349--1034403	21	2.7	20	81	10	58	52	0	0	47	1.00
1034753--1035005	6	42.5	6	98	1	492	50	16	0	33	1.46
1036006--1036066	23	2.7	23	81	0	59	49	16	18	16	1.80
1037508--1037561	27	2.0	27	96	0	99	20	12	14	51	1.75
1044184--1044307	4	31.0	4	80	0	77	25	19	25	30	1.98
1044185--1044299	16	6.9	16	91	7	185	25	17	25	32	1.97
1044263--1044314	24	2.2	24	89	0	77	25	17	25	32	1.97
1049262--1049339	36	2.2	36	88	0	111	43	26	11	17	1.84
1053932--1053986	28	2.0	28	92	0	92	52	10	12	23	1.71
1054478--1054526	22	2.2	22	85	7	64	44	18	4	32	1.68
1056882--1056925	17	2.8	17	90	10	67	61	2	0	36	1.09
1056936--1056984	25	2.0	25	84	8	64	30	2	4	63	1.24
1059567--1059594	14	2.0	14	100	0	56	35	21	0	42	1.53
1075952--1075985	18	1.9	17	88	5	50	50	5	2	41	1.42
1076717--1076758	16	2.7	16	85	3	59	57	4	0	38	1.20
1078935--1079373	224	2.0	225	84	3	589	47	13	8	30	1.72
1080354--1080410	26	2.2	26	96	0	105	38	19	21	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083151--1083406	126	2.0	129	97	2	491	25	13	18	43	1.86
1084472--1084502	15	2.0	16	93	6	55	45	6	9	38	1.63
1084634--1084726	30	3.1	30	79	11	100	26	18	21	33	1.96
1084652--1084737	30	2.8	30	85	1	100	26	18	24	30	1.98
1084655--1084760	30	3.5	30	81	3	97	24	18	24	32	1.97
1085695--1085723	3	9.7	3	100	0	58	65	0	34	0	0.93
1096779--1096842	3	21.7	3	96	3	121	67	0	0	32	0.91
1100918--1100966	23	2.1	23	96	0	89	12	10	51	26	1.71
1104700--1104746	2	23.5	2	91	0	76	46	2	2	48	1.25
1106046--1106123	29	2.6	31	81	6	97	35	14	2	47	1.58
1106510--1106554	23	2.0	22	83	12	56	8	26	4	60	1.46
1107697--1107764	22	3.2	20	73	19	59	70	1	17	10	1.22
1107699--1107760	21	3.0	21	80	15	74	69	1	17	11	1.26
1108002--1108079	37	2.2	36	81	6	88	57	5	11	25	1.54
1108159--1108290	59	2.2	58	82	12	146	32	18	17	31	1.94
1111320--1111376	9	6.4	9	80	9	55	15	1	1	80	0.87
1111329--1111375	12	3.6	13	78	16	53	14	2	0	82	0.75
1111318--1111370	27	2.0	28	88	7	83	16	1	1	79	0.92
1117613--1117653	18	2.3	18	86	0	64	63	0	0	36	0.95
1117885--1117944	20	2.8	21	77	7	59	46	1	3	48	1.28
1118389--1118466	15	5.4	15	68	9	63	46	1	0	52	1.08
1118404--1118501	43	2.3	42	85	3	126	43	2	2	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119136--1119454	159	2.0	159	93	3	554	31	12	5	49	1.64
1121345--1121378	6	5.7	6	100	0	68	35	0	64	0	0.94
1123082--1123139	25	2.4	24	80	5	64	17	22	12	48	1.80
1123443--1123482	20	2.0	20	85	0	53	10	22	0	67	1.20
1126481--1126560	26	3.1	26	85	0	106	21	15	28	35	1.93
1135908--1135950	22	1.9	23	90	4	70	32	0	2	65	1.06
1136130--1136173	23	1.9	23	90	0	70	31	0	2	65	1.05
1138019--1138233	107	2.0	107	98	0	412	42	6	10	40	1.66
1140095--1140139	17	2.6	17	100	0	90	0	35	22	42	1.54
1143841--1143901	17	3.5	17	71	20	54	45	1	3	49	1.28
1152041--1152193	77	2.0	77	100	0	306	40	12	5	41	1.65
1154433--1154521	31	3.0	29	77	8	88	41	10	11	37	1.75
1157230--1157280	25	2.0	25	81	7	59	47	11	17	23	1.81
1165075--1165109	2	18.0	2	94	5	63	51	0	0	48	1.00
1180985--1181014	2	15.0	2	100	0	60	50	0	0	50	1.00
1181430--1181467	10	3.9	10	82	3	51	10	2	0	86	0.66
1217686--1217730	2	23.0	2	95	4	83	51	0	0	48	1.00
1224023--1224165	60	2.4	60	78	2	144	41	4	21	31	1.74
1224529--1224599	31	2.3	31	87	0	97	22	11	15	50	1.75
1237195--1237234	4	10.2	4	83	5	55	25	0	25	50	1.50
1237198--1237226	15	1.9	15	100	0	58	31	0	20	48	1.50
1239240--1239303	27	2.3	29	78	5	78	31	1	10	56	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240773--1240894	54	2.3	54	85	0	154	21	25	30	22	1.99
1241174--1241198	2	12.5	2	100	0	50	0	0	48	52	1.00
1243209--1243379	84	2.0	84	90	2	272	23	16	19	39	1.91
1248060--1248092	15	2.1	17	88	11	52	18	0	18	63	1.31
1249528--1249561	13	2.8	12	86	8	50	47	0	2	50	1.16
1257397--1257457	29	2.1	30	87	3	88	47	14	19	18	1.82
1260084--1260134	18	2.7	19	96	3	95	23	0	35	41	1.55
1260701--1260797	40	2.4	41	81	6	99	37	23	12	26	1.91
1261035--1261135	22	4.7	22	80	6	91	28	12	25	32	1.93
1261077--1261137	22	2.8	22	94	0	104	24	11	26	37	1.89
1277946--1278003	28	2.0	29	93	3	100	48	13	12	25	1.77
1282624--1282682	29	2.0	29	96	0	109	50	11	13	23	1.74
1293186--1293252	28	2.4	28	97	2	127	44	34	8	11	1.73
1295130--1295466	41	8.2	41	97	0	620	20	21	26	31	1.98
1295826--1295889	31	2.1	31	96	0	119	37	12	25	25	1.91
1296321--1296614	41	7.1	42	94	2	506	31	25	20	21	1.98
1299015--1299060	22	2.0	22	83	12	56	34	0	8	56	1.30
1300784--1300885	39	2.6	39	90	3	152	49	0	17	33	1.47
1302631--1302655	2	12.5	2	100	0	50	52	0	0	48	1.00
1303108--1303190	21	4.0	21	75	12	89	22	20	24	32	1.98
1303190--1303357	42	4.0	42	84	6	218	33	24	19	22	1.97
1303193--1303358	21	8.0	21	73	11	146	34	24	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303193--1303358	82	2.0	83	87	6	239	34	24	19	21	1.97
1303363--1303415	21	2.5	21	90	0	79	18	20	30	30	1.97
1306992--1307058	35	1.9	35	87	0	98	46	1	14	37	1.55
1317238--1317277	18	2.2	18	90	0	62	37	27	15	20	1.92
1316963--1317423	189	2.4	188	85	2	586	28	19	27	23	1.99
1317250--1317326	18	4.3	18	72	9	59	36	23	18	22	1.95
1323282--1323415	64	2.1	64	94	1	234	28	11	13	47	1.77
1323547--1323594	21	2.3	21	80	13	55	39	14	0	45	1.45
1327318--1327476	82	2.0	77	93	6	273	33	22	15	28	1.94
1328246--1328378	59	2.2	60	80	7	155	31	24	3	41	1.70
1329416--1329478	13	5.5	13	65	27	52	19	26	26	26	1.99
1329412--1329491	22	3.6	22	98	0	151	18	27	28	25	1.98
1333890--1334205	157	2.0	158	97	2	600	39	8	23	29	1.83
1334206--1334238	9	3.7	9	84	15	50	66	0	12	21	1.23
1334206--1334241	18	2.0	18	100	0	72	66	0	11	22	1.22
1334431--1334493	13	5.5	13	65	27	52	19	26	26	26	1.99
1334427--1334507	22	3.6	22	96	1	144	18	27	29	24	1.98
1339077--1339101	12	2.1	12	100	0	50	0	16	0	84	0.63
1346124--1346192	2	34.5	2	100	0	138	50	0	0	49	1.00
1349135--1349184	3	16.7	3	100	0	100	68	0	0	32	0.90
1356186--1356326	73	1.9	74	89	4	223	33	4	15	46	1.65
1357160--1357229	30	2.3	30	100	0	140	21	38	2	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369068--1369179	39	2.9	39	86	2	145	38	11	0	50	1.39
1371263--1371324	29	2.1	30	93	3	108	19	11	41	27	1.85
1372985--1373024	19	2.0	19	85	9	53	57	5	5	32	1.42
1373121--1373171	27	1.9	27	84	4	68	25	7	7	58	1.53
1374034--1374076	17	2.5	17	92	0	77	16	46	23	13	1.83
1375542--1375566	13	1.9	13	100	0	50	16	4	0	80	0.87
1377069--1377099	1	31.0	1	100	0	62	0	0	0	100	0.00
1381673--1381719	22	2.1	23	96	4	87	14	21	34	29	1.93
1387232--1387299	25	2.8	24	81	4	73	76	0	13	10	1.02
1387253--1387290	17	2.2	18	90	4	60	86	0	5	7	0.69

Tables:   1   2   3   4   5   6