genome.fa.s8138.2.7.7.80.10.50.1000.6.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

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

This is table  6  of  18  ( 2117 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)
1086034--1086082	12	4.2	12	82	12	57	57	4	2	36	1.30
1086034--1086082	24	2.1	24	84	3	64	57	4	2	36	1.30
1093365--1093421	28	2.0	28	86	0	78	10	12	19	57	1.63
1093767--1093991	101	2.2	103	94	1	400	37	12	15	34	1.85
1101624--1101704	42	1.9	42	100	0	162	25	17	19	37	1.94
1105463--1105645	69	2.7	68	82	2	215	36	14	8	39	1.77
1106192--1106239	18	2.7	19	78	21	59	64	6	4	25	1.35
1106855--1106889	11	3.2	11	95	0	61	77	0	14	8	0.99
1107433--1107481	25	2.0	25	95	0	89	14	18	20	46	1.83
1110653--1110721	17	3.9	17	77	5	75	37	15	7	39	1.76
1111642--1111681	20	2.1	19	95	4	71	35	30	2	32	1.71
1111659--1111708	24	2.0	25	88	3	75	34	24	0	42	1.55
1116049--1116154	3	34.3	3	76	16	101	59	0	2	37	1.12
1117141--1117189	22	2.2	22	96	0	89	36	16	14	32	1.89
1117900--1118004	40	2.5	42	78	6	133	29	23	17	29	1.97
1132567--1132723	85	1.8	85	85	6	219	31	13	21	34	1.92
1133207--1133251	23	2.0	23	90	0	72	51	6	15	26	1.68
1134260--1134594	42	8.0	42	87	0	472	35	16	21	27	1.94
1136699--1136754	26	2.2	24	81	9	67	28	5	8	57	1.52
1143592--1143698	21	5.1	21	86	0	133	42	19	33	4	1.72
1143582--1143715	63	2.1	64	80	6	157	43	20	31	5	1.74
1144121--1144335	43	5.0	43	79	2	198	33	22	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144194--1144372	86	2.1	87	81	4	209	29	25	15	29	1.96
1148598--1148638	18	2.3	18	100	0	82	24	17	19	39	1.92
1151913--1151941	14	2.1	14	100	0	58	31	20	20	27	1.98
1155036--1155194	59	2.7	60	76	12	148	43	5	18	32	1.74
1167689--1167721	17	2.0	17	94	5	59	54	0	12	33	1.37
1167690--1167731	17	2.6	16	82	10	50	54	0	9	35	1.33
1167926--1167971	19	2.5	19	96	3	85	17	13	10	58	1.62
1177481--1177567	11	7.9	11	72	10	52	54	18	12	14	1.72
1177482--1177568	22	4.0	22	78	0	84	54	18	12	14	1.72
1177482--1177568	33	2.6	33	81	0	102	54	18	12	14	1.72
1177605--1177662	30	1.9	30	92	0	98	56	18	6	17	1.62
1178317--1178346	15	2.0	15	100	0	60	73	0	0	26	0.84
1179640--1179689	22	2.3	22	85	0	73	46	6	2	46	1.39
1185808--1185847	20	2.0	21	90	5	64	32	20	20	27	1.97
1192509--1192607	24	4.1	24	90	5	164	20	15	28	36	1.92
1194920--1194974	21	2.8	20	83	8	76	34	20	16	29	1.94
1198800--1198852	29	1.9	29	88	11	85	49	3	0	47	1.19
1201610--1201644	2	17.5	2	100	0	70	48	0	0	51	1.00
1205812--1205878	3	22.7	3	77	19	70	35	0	0	64	0.94
1205812--1205864	26	2.1	25	92	3	88	35	0	0	64	0.94
1207175--1207208	13	2.6	14	90	9	54	26	5	0	67	1.13
1207379--1207420	20	2.2	19	86	4	57	33	0	2	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208416--1208455	16	2.5	16	100	0	80	50	27	0	22	1.50
1217042--1217260	114	1.9	113	90	0	348	34	15	20	30	1.93
1217999--1218646	113	5.7	112	82	7	675	38	13	18	28	1.90
1217999--1218521	229	2.3	224	93	3	881	37	13	19	29	1.90
1218442--1218769	124	2.7	122	86	4	437	41	14	17	26	1.89
1218993--1219063	3	23.7	3	83	16	94	33	0	0	66	0.92
1221371--1221541	80	2.1	80	98	0	333	40	4	12	42	1.64
1221907--1221960	22	2.4	22	76	17	58	46	12	0	40	1.42
1222319--1222365	22	2.2	22	85	11	62	34	14	4	46	1.64
1222587--1222669	38	2.2	37	80	6	96	48	9	4	37	1.57
1223247--1223284	3	12.7	3	94	0	58	60	0	34	5	1.19
1224739--1224911	91	1.9	91	86	2	249	41	8	12	38	1.73
1225555--1225579	4	6.2	4	100	0	50	24	0	0	76	0.80
1226758--1226801	22	2.0	23	86	8	65	29	18	25	27	1.98
1228814--1228856	21	2.0	22	86	13	63	41	13	16	27	1.86
1228886--1228931	20	2.3	20	88	0	65	41	30	6	21	1.78
1228895--1228940	20	2.3	20	96	0	83	36	30	10	21	1.88
1230685--1230744	30	2.0	30	96	0	111	55	0	15	30	1.41
1231326--1231373	24	2.0	24	91	0	78	47	12	2	37	1.53
1232342--1232382	21	1.9	21	90	5	64	41	14	19	24	1.89
1233051--1233100	21	2.3	21	83	10	57	66	6	22	6	1.36
1237905--1237948	19	2.3	19	88	7	63	15	11	0	72	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239602--1239757	39	4.1	37	76	18	144	44	4	7	43	1.51
1239878--1239946	15	4.6	14	74	13	57	24	1	2	71	1.09
1241307--1241333	2	13.5	2	100	0	54	48	0	0	51	1.00
1241475--1241504	12	2.4	13	94	5	53	40	0	0	60	0.97
1243109--1243153	19	2.4	19	92	3	74	13	8	8	68	1.38
1246114--1246939	84	10.0	81	80	7	909	30	25	20	23	1.99
1246114--1246893	164	4.8	164	91	1	1138	30	24	20	24	1.99
1247530--1247684	39	4.1	37	77	17	151	45	4	7	43	1.51
1247805--1247873	15	4.6	14	74	13	57	24	1	2	71	1.09
1249391--1249420	12	2.4	13	94	5	53	40	0	0	60	0.97
1251026--1251070	19	2.4	19	92	3	74	13	8	8	68	1.38
1254028--1254853	84	10.0	81	80	7	900	29	25	20	24	1.99
1254028--1254807	164	4.8	164	91	1	1138	30	25	20	24	1.99
1255509--1255586	38	2.0	39	92	2	131	43	5	7	43	1.55
1255718--1255757	15	2.8	14	85	7	53	25	0	2	72	0.97
1255719--1255759	14	2.9	14	85	7	55	24	0	2	73	0.96
1257124--1257167	22	2.0	22	81	0	52	25	2	2	70	1.10
1257220--1257249	12	2.4	13	94	5	53	40	0	0	60	0.97
1257627--1258010	182	2.1	183	91	4	618	42	2	8	46	1.49
1271679--1271715	15	2.5	15	95	0	65	5	16	70	8	1.30
1271904--1271966	3	20.7	3	77	9	65	34	3	1	60	1.22
1271906--1271966	32	1.9	32	89	0	95	34	3	1	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271924--1271967	23	1.9	23	90	0	70	36	2	2	59	1.23
1271914--1271963	20	2.6	20	81	6	59	34	4	2	60	1.27
1273301--1273365	29	2.3	29	89	5	98	26	15	7	50	1.70
1273313--1273374	29	2.1	29	88	5	90	29	22	4	43	1.74
1273340--1273722	126	3.0	125	87	3	518	22	16	15	45	1.85
1273718--1273760	16	2.7	16	81	0	50	32	25	4	37	1.77
1283727--1283768	15	3.0	14	80	10	50	11	2	26	59	1.45
1287791--1287910	39	3.1	39	98	0	231	57	17	7	17	1.62
1288409--1288584	66	2.7	66	94	1	309	39	11	10	38	1.76
1289287--1289329	19	2.2	20	83	4	52	11	11	4	72	1.27
1290956--1291017	15	4.1	14	74	12	52	32	3	0	64	1.09
1291006--1291035	15	1.9	16	93	6	53	20	0	10	70	1.16
1293002--1293098	49	2.0	50	91	2	160	26	11	6	55	1.58
1296953--1296999	21	2.2	21	96	0	85	23	38	8	29	1.84
1301560--1301670	55	2.0	55	89	0	168	46	18	10	24	1.80
1302867--1302916	22	2.3	22	86	13	68	78	0	18	4	0.91
1302875--1302916	17	2.6	16	82	14	50	78	0	19	2	0.86
1302863--1302938	30	2.6	28	80	12	82	73	0	17	9	1.08
1303065--1303119	30	1.9	30	88	7	87	32	5	7	54	1.51
1303169--1303276	3	36.3	3	66	15	55	34	6	0	59	1.23
1303204--1303274	11	6.4	11	73	12	56	35	2	0	61	1.10
1304616--1304649	4	8.5	4	100	0	68	23	0	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311059--1311129	35	2.0	35	97	0	133	47	5	26	19	1.71
1311544--1311568	12	2.1	12	100	0	50	60	0	0	40	0.97
1320913--1321138	118	1.9	118	82	4	285	38	12	24	24	1.91
1325233--1325309	28	2.7	28	95	2	136	32	11	20	35	1.89
1325457--1325507	23	2.2	23	89	0	75	27	21	21	29	1.99
1325465--1325544	23	3.6	23	80	13	103	26	23	22	27	2.00
1328002--1328112	35	3.1	35	75	7	125	28	17	20	33	1.95
1330367--1330403	19	1.9	19	94	0	65	40	5	16	37	1.71
1335325--1335367	21	2.0	22	86	4	61	20	18	18	41	1.90
1335458--1335844	43	9.0	43	82	2	422	34	19	22	24	1.96

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