genome.fa.s7761.2.7.7.80.10.50.1000.6.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: VEPZ01007761.1 Hibiscus syriacus cultivar Beakdansim tig00110030_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1497221

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 824 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)
1159879--1160074	20	9.6	20	73	7	126	26	25	19	29	1.99
1160678--1160785	20	5.4	20	84	4	103	14	16	22	46	1.84
1162761--1162867	40	2.7	39	81	5	135	20	20	24	34	1.96
1162761--1162856	20	4.8	20	92	0	138	20	20	23	34	1.97
1163381--1163463	42	2.0	42	83	4	105	21	36	19	22	1.95
1164858--1164919	14	4.3	14	77	6	61	38	0	14	46	1.45
1165018--1165071	20	2.7	20	85	0	72	44	25	18	11	1.83
1165136--1165378	20	12.8	20	73	14	165	27	18	20	32	1.97
1165065--1165378	94	3.4	94	83	2	373	27	19	20	32	1.97
1165134--1165276	74	1.9	74	87	5	209	27	20	20	30	1.98
1165153--1165367	74	2.9	72	82	4	225	25	19	22	32	1.97
1165349--1165618	140	1.9	140	97	0	513	42	14	12	29	1.83
1165678--1165712	18	1.9	18	94	0	61	17	2	25	54	1.57
1167749--1167785	14	2.6	14	91	4	56	5	21	21	51	1.68
1167975--1168028	24	2.2	24	96	0	99	42	20	16	20	1.89
1168850--1168936	20	4.3	20	95	0	129	26	21	26	25	2.00
1168850--1169037	40	4.6	41	74	11	129	28	20	24	26	1.99
1168905--1168975	20	3.6	20	88	7	101	25	21	18	35	1.95
1170503--1170625	29	4.4	28	74	17	96	34	1	13	51	1.50
1170640--1170685	22	2.1	22	83	0	56	28	0	2	69	1.00
1174835--1174898	31	2.1	31	100	0	128	45	6	12	35	1.67
1181389--1181443	27	2.0	27	89	6	85	21	14	21	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183121--1183180	31	2.0	31	83	9	79	66	1	5	26	1.21
1183451--1183494	19	2.4	19	88	3	63	72	0	6	20	1.07
1184578--1184608	16	1.9	16	100	0	62	70	0	6	22	1.09
1184646--1184700	28	1.9	27	82	10	65	45	10	1	41	1.50
1190733--1190778	18	2.6	18	82	6	58	26	47	17	8	1.76
1190773--1190813	8	5.4	8	77	11	50	14	31	24	29	1.95
1193298--1193367	12	5.8	12	78	6	70	15	15	18	50	1.79
1193298--1193369	24	3.0	24	89	0	117	16	15	18	50	1.79
1193261--1193369	48	2.3	49	84	6	134	18	17	16	47	1.83
1197988--1198057	12	5.8	12	70	12	54	17	14	15	52	1.74
1197951--1198059	48	2.3	48	87	3	148	19	15	14	50	1.78
1197951--1198059	24	4.5	24	76	11	107	19	15	14	50	1.78
1200183--1200217	6	5.8	6	100	0	70	68	0	0	31	0.90
1200383--1200435	24	2.2	24	86	3	72	81	0	0	18	0.70
1200391--1200434	15	2.9	15	83	10	54	81	0	0	18	0.68
1200388--1200435	19	2.4	21	80	19	66	81	0	0	18	0.70
1209969--1210045	15	5.2	16	79	19	71	75	0	16	7	1.03
1209978--1210032	7	7.9	7	81	18	62	76	0	14	9	1.02
1209976--1210058	35	2.4	35	80	13	100	77	0	15	7	0.98
1209976--1210032	16	3.1	19	82	9	66	77	0	14	8	0.99
1209969--1210052	27	3.0	27	84	10	89	76	0	16	7	1.00
1209966--1210041	7	10.6	7	73	18	50	76	0	15	7	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211275--1211611	135	2.5	135	82	1	390	30	23	15	29	1.96
1212806--1212858	20	2.7	20	96	0	97	32	13	22	32	1.92
1213224--1213479	46	5.6	46	88	0	386	44	12	20	22	1.84
1213236--1213405	20	7.6	20	66	23	72	43	12	22	21	1.86
1213394--1213538	26	6.0	26	70	18	116	44	11	22	22	1.85
1213256--1213530	72	3.9	72	71	17	234	44	12	21	21	1.85
1214083--1214116	3	11.3	3	87	0	50	32	2	2	61	1.26
1214513--1215278	387	2.0	383	95	2	1392	34	14	22	29	1.93
1216324--1216659	131	2.6	131	84	4	446	35	11	16	37	1.84
1217393--1217422	2	15.0	2	92	0	51	53	0	0	46	1.00
1219141--1219178	19	2.0	20	84	5	51	34	0	21	44	1.52
1219141--1219178	20	1.9	20	88	0	58	34	0	21	44	1.52
1221411--1221437	14	1.9	14	100	0	54	14	0	7	77	0.97
1227332--1227381	21	2.4	21	86	6	75	30	2	0	68	1.01
1227401--1228648	6	210.0	6	96	3	2316	33	0	16	50	1.46
1233945--1233993	3	16.7	3	95	4	91	32	0	0	67	0.91
1237187--1237219	12	2.8	12	90	0	57	9	21	15	54	1.68
1248401--1248476	33	2.3	32	78	13	82	7	17	1	73	1.13
1263355--1263732	178	2.1	180	90	6	590	41	3	8	46	1.51
1264519--1264545	2	13.5	2	100	0	54	51	0	0	48	1.00
1268715--1268778	21	3.0	21	86	4	92	28	23	25	23	2.00
1269047--1269075	14	2.0	15	93	6	51	13	13	13	58	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273138--1273335	90	2.2	92	88	4	285	28	26	24	19	1.99
1279276--1279365	15	6.0	15	94	0	162	48	0	0	51	1.00
1279276--1279434	45	3.3	45	78	17	169	44	0	3	51	1.19
1279351--1279453	22	4.5	22	72	7	98	38	0	8	52	1.33
1279388--1279705	32	10.4	32	68	24	188	34	0	11	52	1.45
1279306--1279462	69	2.3	67	88	7	221	42	0	5	52	1.25
1279388--1279903	54	9.4	54	79	15	514	34	0	12	52	1.43
1279465--1279507	22	2.0	22	95	0	77	34	0	11	53	1.37
1279510--1279557	22	2.4	18	73	23	51	33	0	14	52	1.42
1279433--1279888	166	2.7	166	91	2	702	33	0	13	52	1.45
1279388--1279903	220	2.3	219	88	5	758	34	0	12	52	1.43
1279388--1279839	134	3.3	136	81	10	430	34	0	12	52	1.44
1279676--1279723	22	2.4	18	73	23	51	33	0	14	52	1.42
1279732--1279871	32	4.7	32	79	16	174	34	0	12	52	1.40
1279765--1279807	22	2.0	22	100	0	86	34	0	13	51	1.42
1279851--1279893	22	2.0	22	100	0	86	34	0	13	51	1.42
1279918--1279976	31	1.9	31	92	0	100	42	10	6	40	1.65
1280260--1280310	24	2.1	24	96	0	93	23	19	13	43	1.87
1283163--1283219	3	19.3	3	77	10	55	35	0	3	61	1.13
1283176--1283224	18	3.1	15	82	11	55	30	0	2	67	1.02
1285132--1285497	132	2.8	131	87	3	520	31	12	16	39	1.85
1293441--1293522	21	3.8	22	81	7	89	21	35	24	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305660--1305736	7	10.9	7	97	2	145	71	0	14	14	1.15
1305660--1305746	21	4.2	20	92	7	124	72	0	14	12	1.12
1307031--1307458	133	3.2	133	84	1	570	29	23	17	29	1.97
1308570--1308766	107	1.8	108	80	9	242	19	13	17	49	1.79
1309091--1309129	17	2.4	16	86	4	51	20	7	5	66	1.36
1309604--1309958	131	2.7	131	86	0	507	31	11	16	40	1.84
1310534--1310570	19	1.9	19	89	10	58	51	0	0	48	1.00
1310543--1310578	15	2.3	15	90	4	54	61	0	0	38	0.96
1310543--1310579	16	2.3	16	90	0	56	62	0	0	37	0.96
1312323--1312908	292	2.0	293	93	0	1003	34	17	13	34	1.88
1314752--1314784	17	1.9	17	88	11	50	66	0	0	33	0.92
1316005--1316063	25	2.3	26	94	5	111	50	16	13	18	1.77
1323456--1323529	32	2.3	32	100	0	148	24	12	21	41	1.87
1327342--1327392	25	2.0	26	84	7	68	39	21	9	29	1.85
1327677--1328589	225	4.0	225	89	2	1335	38	20	13	27	1.90
1332244--1332397	77	2.0	75	93	5	265	25	15	15	43	1.86
1333648--1333686	13	3.1	13	85	3	53	69	7	5	17	1.32
1335731--1335795	12	5.1	12	74	20	60	64	1	0	33	1.03
1335729--1335790	29	2.1	30	88	11	92	64	1	0	33	1.03
1338040--1338067	6	4.7	6	100	0	56	85	0	0	14	0.59
1338703--1338734	9	3.7	9	95	4	57	9	6	0	84	0.78
1339557--1339616	12	5.1	12	94	6	65	68	0	3	28	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339571--1339620	3	16.7	3	100	0	100	68	0	0	32	0.90
1339743--1340364	134	4.7	134	86	0	818	29	15	23	31	1.95
1340480--1340520	14	2.9	14	81	0	55	29	4	24	41	1.75
1340985--1341577	190	3.1	191	83	6	693	32	17	15	34	1.91
1341755--1341854	42	2.4	41	77	9	112	35	20	20	25	1.96
1341362--1341936	229	2.5	227	86	6	798	33	17	16	32	1.92
1341932--1341968	17	2.2	17	100	0	74	21	24	0	54	1.45
1343727--1343792	6	10.7	6	84	12	73	0	16	0	83	0.65
1343715--1343783	37	1.9	35	82	11	68	1	17	0	81	0.77
1343728--1343793	28	2.4	28	84	5	89	0	16	0	83	0.65

Tables:   1   2   3   4   5   6   7