genome.fa.s8531.2.7.7.80.10.50.1000.6.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  6  of  19  ( 2279 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)
1076316--1076434	57	2.1	56	84	10	154	28	19	22	29	1.98
1079166--1079247	23	3.6	22	77	8	85	24	23	28	24	2.00
1079166--1079228	21	2.9	22	80	4	74	23	23	25	26	2.00
1079170--1079266	44	2.2	44	85	10	128	26	20	25	26	1.99
1085080--1085143	20	3.2	20	100	0	128	25	20	29	25	1.99
1088527--1088567	3	14.0	3	84	5	57	36	2	0	60	1.10
1089973--1089997	13	1.9	13	100	0	50	36	0	0	64	0.94
1090087--1090382	5	60.4	5	85	14	413	38	0	0	61	0.96
1093246--1093284	19	2.1	19	100	0	78	38	15	0	46	1.46
1096853--1096896	20	2.2	20	87	0	61	27	11	11	50	1.72
1101480--1101544	22	3.2	19	76	18	51	27	13	33	24	1.93
1101500--1101544	22	2.0	23	91	4	74	31	13	28	26	1.94
1101522--1101560	14	2.8	14	76	0	51	28	20	25	25	1.99
1101944--1101982	2	19.5	2	100	0	78	51	0	0	48	1.00
1102015--1102306	55	5.3	55	87	0	386	31	18	18	31	1.95
1102017--1102306	110	2.6	110	88	0	427	31	18	18	31	1.95
1102015--1102351	110	3.1	110	85	1	426	31	18	18	30	1.96
1108489--1108543	20	2.7	19	76	13	56	36	16	20	27	1.93
1108584--1108627	22	2.0	22	86	8	63	29	13	29	27	1.94
1108582--1108633	22	2.5	20	80	14	61	28	13	30	26	1.94
1109041--1109307	55	4.9	55	89	2	367	28	17	20	32	1.96
1114257--1114307	16	3.2	17	71	23	56	45	0	19	35	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116886--1116915	2	15.0	2	100	0	60	50	0	0	50	1.00
1117238--1117263	2	13.0	2	100	0	52	50	0	0	50	1.00
1117249--1117625	36	10.5	34	74	14	198	44	3	6	44	1.47
1117288--1117628	70	4.8	69	76	12	232	46	3	6	44	1.45
1117288--1117625	36	9.4	38	75	14	215	45	3	6	44	1.46
1118810--1118862	25	2.2	23	78	12	61	11	11	3	73	1.22
1118853--1118936	4	21.5	4	72	18	54	23	2	1	72	1.03
1119751--1119940	21	9.2	20	76	15	174	34	24	21	20	1.97
1119754--1119948	42	4.7	42	91	3	317	35	25	20	18	1.95
1119751--1119940	19	9.3	19	68	15	110	34	24	21	20	1.97
1128256--1128319	28	2.4	25	84	7	74	46	6	0	46	1.27
1128347--1128400	20	2.7	21	78	16	60	48	0	1	50	1.11
1128354--1128422	28	2.6	27	80	13	81	50	0	1	47	1.09
1131742--1131776	18	1.9	18	94	0	61	37	14	20	28	1.91
1134672--1134710	20	2.0	20	94	0	69	43	17	10	28	1.82
1134851--1134927	24	3.6	21	71	16	52	36	18	14	31	1.90
1134851--1134906	21	2.5	21	91	8	85	35	17	14	32	1.90
1137643--1137838	53	3.7	53	86	2	250	22	25	21	30	1.99
1138338--1138607	42	6.2	42	75	12	222	29	22	20	27	1.99
1138351--1138456	20	5.0	21	67	17	85	30	24	20	24	1.99
1138452--1138476	13	1.9	13	100	0	50	24	20	24	32	1.98
1143053--1143085	13	2.7	13	90	9	52	57	15	12	15	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147545--1147594	23	2.2	23	92	0	82	58	16	10	16	1.63
1151049--1151093	23	2.0	23	86	0	63	17	24	22	35	1.95
1151894--1151932	20	2.0	20	89	0	60	41	7	5	46	1.55
1154414--1154443	11	2.7	11	100	0	60	43	0	30	26	1.55
1155363--1155393	15	2.1	15	93	0	53	32	19	22	25	1.97
1159444--1159496	22	2.5	22	87	9	74	13	24	28	33	1.93
1160650--1160777	55	2.3	54	85	5	159	35	14	17	31	1.91
1161238--1161327	48	1.9	47	88	4	137	30	4	11	54	1.55
1161237--1161306	23	3.0	23	65	8	61	28	2	12	55	1.51
1161325--1161379	24	2.3	24	96	0	101	21	9	14	54	1.68
1162695--1162789	24	4.0	24	78	8	95	45	18	15	20	1.86
1162697--1162766	12	5.8	12	75	6	70	47	20	15	17	1.83
1165049--1165122	30	2.5	30	86	0	103	29	22	28	18	1.98
1171893--1171947	22	2.5	22	78	0	65	30	9	21	38	1.85
1175310--1175391	29	2.8	29	94	1	137	32	14	9	42	1.79
1178356--1178437	29	2.8	29	94	1	137	32	14	9	42	1.79
1179596--1179637	16	2.6	16	78	14	50	61	0	2	35	1.09
1180296--1180327	2	16.0	2	100	0	64	50	0	0	50	1.00
1185311--1185348	19	2.0	19	100	0	76	31	5	26	36	1.79
1186060--1186104	22	2.1	22	88	12	67	64	0	11	24	1.26
1188402--1188449	21	2.3	21	96	0	87	27	18	12	41	1.86
1193053--1193100	21	2.3	21	96	0	87	27	18	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195910--1195946	15	2.5	15	95	0	65	5	16	70	8	1.30
1199963--1200001	21	1.9	20	84	5	51	38	17	25	17	1.92
1201440--1201481	2	21.0	2	100	0	84	50	0	0	50	1.00
1202393--1202535	60	2.4	60	83	3	173	41	2	23	32	1.69
1202445--1202560	60	1.9	60	83	0	151	44	4	18	31	1.70
1211479--1211525	22	2.1	22	96	0	85	34	17	25	23	1.96
1211514--1211572	21	2.8	21	86	0	73	32	30	16	20	1.95
1211947--1212002	19	3.0	19	72	12	53	35	21	1	41	1.64
1215446--1215488	22	2.0	22	86	4	61	13	44	27	13	1.83
1216600--1217139	119	4.6	119	82	2	622	25	20	15	38	1.92
1219137--1219385	136	1.8	136	87	0	372	34	20	19	24	1.96
1225821--1225857	17	2.2	17	90	0	56	18	2	2	75	1.04
1236718--1236756	20	2.0	20	85	10	53	74	0	25	0	0.82
1237908--1238149	107	2.3	106	90	2	369	34	26	17	21	1.96
1238913--1238952	2	20.0	2	94	0	71	47	0	0	52	1.00
1240541--1240600	19	3.2	19	79	9	68	5	5	11	78	1.07
1242290--1242377	38	2.4	37	88	9	126	38	35	11	14	1.82
1242398--1242861	222	2.2	212	89	5	702	37	27	12	23	1.91
1247415--1247490	18	4.4	18	74	15	79	43	2	9	44	1.50
1247541--1247864	160	2.0	160	98	0	630	43	2	6	47	1.40
1253515--1253575	20	2.9	20	85	7	59	24	32	26	16	1.96
1255883--1255914	15	2.1	15	100	0	64	37	0	37	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260522--1260862	175	1.9	175	99	0	673	27	18	16	38	1.91
1260998--1261043	21	2.2	20	82	14	58	21	10	2	65	1.35
1264264--1264293	14	2.1	14	93	0	51	30	3	36	30	1.74
1265689--1266023	103	3.2	104	81	6	419	30	14	10	44	1.80
1266029--1266240	104	2.0	106	85	6	299	36	19	9	34	1.84
1265864--1266185	159	2.0	160	83	7	413	32	18	10	38	1.85
1266598--1266716	44	2.7	44	87	5	177	36	15	15	31	1.89
1269451--1269723	139	2.0	139	83	5	347	30	13	13	42	1.83
1270586--1270631	21	2.1	21	84	4	56	43	2	2	52	1.25
1272086--1272126	14	3.1	14	89	6	59	53	0	0	46	1.00
1272097--1272126	2	15.0	2	92	0	51	53	0	0	46	1.00
1273902--1274042	66	2.2	62	85	12	178	30	23	16	29	1.96
1284034--1284082	20	2.5	20	100	0	98	32	10	26	30	1.89
1284025--1284081	20	2.5	25	70	27	70	31	12	26	29	1.92
1286820--1286844	7	3.6	7	100	0	50	16	12	44	28	1.83
1288914--1288971	25	2.4	24	81	13	66	62	1	0	36	1.06
1290005--1290086	29	2.8	29	94	1	137	32	14	9	42	1.79
1292057--1292122	25	2.6	25	85	0	78	46	10	15	27	1.78
1293809--1293864	28	2.0	28	82	6	69	33	21	16	28	1.95
1294780--1294817	20	1.9	20	88	0	58	36	28	0	34	1.58
1294802--1294844	17	2.5	17	80	0	50	39	41	2	16	1.61
1296991--1297110	60	2.0	60	86	3	170	24	25	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298659--1298719	29	2.1	30	90	3	97	18	22	14	44	1.86
1299175--1299209	17	2.1	16	94	5	61	20	0	28	51	1.47
1299233--1299288	27	2.0	28	83	10	71	44	1	0	53	1.11
1308335--1308367	2	16.5	2	100	0	66	48	0	0	51	1.00
1322664--1322821	21	7.8	20	72	7	86	38	25	17	18	1.92
1322788--1323017	20	11.5	20	81	5	232	36	24	18	19	1.94
1323700--1323746	24	2.0	24	87	8	69	25	14	21	38	1.92
1326228--1326368	33	4.2	33	90	5	239	46	19	21	12	1.83
1326295--1326349	14	3.6	14	73	21	56	45	20	23	10	1.82
1326209--1326368	67	2.4	67	90	3	243	45	20	21	13	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19