genome.fa.s8100.2.7.7.80.10.50.1000.6.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: VEPZ01008100.1 Hibiscus syriacus cultivar Beakdansim tig00110630_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1372717

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 729 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)
1073413--1073492	22	3.7	22	81	6	85	52	2	1	43	1.22
1074073--1074143	36	1.9	37	86	8	101	54	4	1	39	1.28
1075135--1075204	6	11.5	6	88	8	106	31	50	18	0	1.48
1075135--1075210	25	3.1	25	92	5	120	31	48	19	0	1.49
1086250--1086503	114	2.2	113	76	11	252	44	2	8	44	1.48
1086347--1086410	26	2.6	25	75	18	71	43	4	7	43	1.54
1086413--1086500	34	2.5	34	82	10	106	44	1	5	48	1.33
1086335--1086494	77	2.1	78	85	3	216	46	2	5	45	1.40
1086188--1086494	36	8.2	38	72	16	196	44	3	8	43	1.52
1086513--1086598	3	26.7	3	78	19	77	31	2	1	65	1.13
1086522--1086583	20	3.1	20	82	17	92	32	3	0	64	1.09
1086507--1086598	40	2.3	38	89	10	141	32	2	1	64	1.13
1086507--1086598	13	7.0	13	76	21	86	32	2	1	64	1.13
1087450--1087484	18	2.0	18	88	5	54	5	0	40	54	1.24
1087817--1087874	28	2.0	28	86	3	80	25	12	1	60	1.41
1087948--1087994	11	4.4	11	76	12	53	19	2	0	78	0.85
1087948--1087992	18	2.5	17	82	10	63	20	2	0	77	0.87
1092191--1092286	46	2.1	46	82	3	113	29	17	9	43	1.80
1092266--1092384	45	2.6	45	85	5	143	29	23	10	36	1.87
1095622--1095919	45	6.6	45	87	1	384	27	21	10	40	1.86
1095653--1095919	134	2.0	135	89	0	410	26	20	10	41	1.85
1096306--1096376	22	3.5	21	83	9	85	29	23	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099265--1099497	36	6.4	35	75	13	161	44	2	9	44	1.49
1099324--1099387	26	2.6	25	77	18	80	43	3	7	45	1.48
1099318--1099470	77	2.0	79	85	5	213	45	1	6	46	1.40
1099516--1099587	3	23.7	3	76	23	71	34	1	0	63	1.03
1099516--1099588	23	3.1	23	84	15	96	34	1	0	64	1.02
1099516--1099586	13	5.5	13	81	18	87	35	1	0	63	1.03
1104535--1104719	93	2.0	92	98	1	361	27	27	17	28	1.97
1107442--1107501	25	2.4	25	94	2	102	18	46	18	16	1.84
1107585--1107653	35	1.9	36	97	2	131	24	20	15	39	1.92
1107801--1108166	182	2.0	184	98	1	709	27	12	21	38	1.89
1111901--1112001	34	3.0	34	95	0	175	31	10	20	36	1.88
1113705--1113744	2	20.0	2	100	0	80	50	0	0	50	1.00
1115131--1115302	89	2.0	89	93	4	296	44	5	11	38	1.63
1126226--1126296	35	2.0	36	88	2	108	35	23	12	28	1.92
1126756--1126901	63	2.3	63	92	2	240	41	14	14	30	1.85
1128714--1128771	18	3.3	18	90	4	100	17	50	20	12	1.78
1128758--1128792	8	4.5	8	92	7	63	14	37	25	22	1.92
1128761--1128793	15	2.2	15	100	0	66	12	36	27	24	1.91
1131728--1131798	18	4.3	18	74	20	82	16	49	19	14	1.80
1131732--1131798	30	2.2	31	89	2	109	16	47	20	14	1.82
1131732--1131785	13	3.8	13	80	17	54	16	48	20	14	1.81
1131788--1131819	7	4.4	7	96	4	55	12	34	28	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133533--1133607	30	2.5	30	85	12	100	61	8	13	17	1.55
1134848--1134895	9	5.9	8	84	15	55	72	0	0	27	0.84
1135128--1135377	134	1.9	134	85	1	349	23	18	31	26	1.97
1135128--1135405	134	2.1	134	83	2	344	24	18	30	26	1.98
1135421--1135509	28	3.1	28	75	16	92	48	13	12	25	1.77
1135469--1135597	63	2.0	67	83	6	167	45	16	15	22	1.84
1135511--1135675	66	2.6	63	78	2	159	38	13	20	27	1.90
1135967--1136020	28	1.9	28	88	0	81	42	14	14	27	1.85
1136241--1136313	36	2.0	37	86	2	103	41	10	17	30	1.84
1143631--1143661	3	10.3	3	92	0	53	67	3	0	29	1.06
1143626--1143685	15	3.8	15	77	18	59	70	3	0	26	1.03
1147712--1147802	28	3.2	28	87	1	110	30	1	20	47	1.58
1147738--1147811	28	2.6	28	89	0	103	31	1	21	45	1.60
1148036--1148099	3	21.0	3	90	3	92	37	0	0	62	0.95
1148119--1148158	18	2.2	18	86	0	53	40	45	7	7	1.61
1148856--1148892	19	1.9	19	88	0	56	48	0	40	10	1.38
1162201--1162371	79	2.2	79	89	4	256	36	15	18	28	1.92
1162274--1162689	118	3.6	118	88	0	577	36	16	21	25	1.94
1163035--1163079	23	2.0	23	95	0	81	42	4	2	51	1.34
1162974--1163052	3	26.3	3	78	14	83	37	0	0	62	0.96
1163819--1163855	19	1.9	19	88	0	56	48	0	40	10	1.38
1169126--1169252	51	2.5	51	83	2	139	18	29	30	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169309--1169375	29	2.3	29	84	5	82	40	38	2	17	1.65
1169444--1169484	21	2.1	21	86	13	61	36	0	2	60	1.10
1174181--1174231	23	2.2	23	96	0	93	49	9	9	31	1.69
1175142--1175193	13	3.8	13	71	14	50	69	1	0	28	0.99
1175139--1175211	29	2.5	29	91	6	112	68	4	0	27	1.07
1175140--1175193	21	2.6	19	76	23	56	70	1	0	27	0.98
1175407--1175484	40	1.9	41	86	2	113	20	34	25	19	1.96
1182685--1182873	78	2.4	79	91	1	326	30	23	11	34	1.90
1183290--1183336	20	2.2	22	85	7	62	31	25	12	29	1.93
1183399--1183450	19	2.5	22	81	9	65	23	28	17	30	1.97
1189633--1189831	34	5.2	34	64	23	101	28	25	9	36	1.87
1189585--1189910	157	2.1	158	90	1	503	27	24	10	36	1.88
1189619--1189910	79	3.7	79	93	0	489	28	25	10	36	1.89
1190379--1190556	94	1.9	94	80	6	209	28	20	16	34	1.94
1193806--1193841	2	18.0	2	100	0	72	50	0	0	50	1.00
1194701--1194800	21	4.8	21	78	0	83	34	16	19	31	1.93
1194698--1194800	42	2.5	42	77	0	107	34	15	18	31	1.92
1202595--1203170	74	8.0	74	76	10	487	36	9	19	34	1.84
1203071--1203210	40	3.7	37	72	16	101	40	7	16	35	1.78
1203117--1203210	40	2.4	38	82	12	102	39	7	14	38	1.75
1204150--1204185	16	2.3	16	95	4	65	36	25	16	22	1.94
1205556--1205603	21	2.3	21	85	0	69	52	12	18	16	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208007--1208048	14	2.9	14	82	17	50	64	0	14	21	1.29
1208087--1208148	24	2.6	24	75	17	67	58	1	1	38	1.18
1212571--1212674	31	3.2	31	69	21	86	40	23	17	19	1.91
1219621--1219672	27	1.9	27	88	7	79	36	9	15	38	1.80
1221939--1222002	23	2.8	23	97	0	119	29	6	17	46	1.72
1226368--1226422	23	2.4	23	100	0	110	18	10	34	36	1.86
1233901--1233954	22	2.5	22	90	0	90	27	16	25	29	1.97
1235732--1235763	14	2.3	14	94	0	55	28	9	25	37	1.87
1237717--1237758	17	2.5	17	96	0	75	38	28	4	28	1.77
1249532--1249583	22	2.4	22	93	0	86	50	11	0	38	1.39
1249532--1249616	4	21.2	4	90	0	107	49	7	1	42	1.37
1254373--1254399	2	13.5	2	100	0	54	48	0	0	51	1.00
1266220--1266261	20	2.1	20	86	8	59	33	0	7	59	1.25
1266768--1266941	87	2.0	87	92	2	287	33	12	10	43	1.77
1271071--1271219	31	4.7	31	78	5	131	26	24	30	18	1.98
1271071--1271229	63	2.5	63	81	2	176	27	24	28	18	1.98
1277032--1277403	20	18.2	20	77	8	304	39	25	18	16	1.91
1277035--1277400	62	6.0	61	83	6	388	38	25	19	16	1.92
1277115--1277394	82	3.4	81	84	8	354	37	26	18	16	1.93
1277468--1277519	19	2.7	19	84	3	59	11	19	26	42	1.85
1283888--1284191	54	5.5	54	78	8	279	25	25	21	26	2.00
1283895--1283987	27	3.4	27	70	14	91	23	29	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284061--1284137	27	2.8	28	71	11	77	22	28	20	28	1.98
1283888--1284137	55	4.5	55	80	8	236	26	25	22	26	2.00
1283891--1284104	115	1.9	116	90	1	349	26	25	22	25	2.00
1285000--1285078	37	2.2	36	84	4	106	50	8	1	39	1.42
1285205--1285253	17	2.8	18	81	6	57	18	12	16	53	1.73
1286201--1286248	24	2.0	24	87	0	69	14	8	14	62	1.53
1287625--1287671	23	2.1	23	84	4	60	59	14	14	10	1.61
1291802--1291840	21	1.9	20	84	5	51	12	0	17	69	1.19
1292399--1292443	23	2.1	21	84	15	58	24	26	8	40	1.84
1293995--1294033	20	2.0	20	85	10	53	35	0	28	35	1.58

Tables:   1   2   3   4   5   6   7