genome.fa.s7733.2.7.7.80.10.50.1000.5.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: VEPZ01007733.1 Hibiscus syriacus cultivar Beakdansim tig00109987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1979160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 996 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)
1096911--1096939	15	1.9	15	100	0	58	48	0	0	51	1.00
1097595--1097621	12	2.2	12	100	0	54	18	0	29	51	1.46
1100051--1100114	31	2.0	32	90	3	103	40	15	23	20	1.90
1103137--1104979	235	7.9	235	84	6	2346	24	14	21	40	1.90
1103223--1104979	690	2.5	696	86	6	2368	24	14	21	40	1.90
1105943--1106068	63	2.0	63	95	0	225	39	15	19	26	1.90
1106012--1106229	117	1.9	117	92	0	364	35	20	21	22	1.96
1115693--1115749	19	2.8	20	76	12	55	52	0	3	43	1.18
1115935--1115964	2	15.5	2	93	6	53	50	0	0	50	1.00
1118795--1118833	17	2.4	17	87	8	55	41	2	12	43	1.56
1119545--1119631	31	2.8	31	77	5	86	42	12	4	40	1.63
1125496--1125570	35	2.1	35	92	0	123	34	29	26	9	1.88
1125653--1125742	23	3.8	23	82	4	108	37	20	16	25	1.93
1128230--1128272	15	2.8	15	92	3	68	27	23	34	13	1.93
1128230--1128272	8	5.6	8	81	10	54	27	23	34	13	1.93
1128260--1128294	18	1.9	18	94	0	61	14	20	45	20	1.85
1128272--1128320	13	3.8	13	91	0	80	16	18	46	18	1.84
1134701--1135288	293	2.0	293	98	0	1140	37	18	13	30	1.89
1136512--1136554	19	2.3	19	88	8	61	83	6	0	9	0.80
1136765--1136801	15	2.5	15	95	0	65	10	29	35	24	1.89
1138659--1138853	107	1.8	107	86	2	284	29	18	9	42	1.83
1139927--1139961	18	1.9	18	94	0	61	5	22	40	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142192--1142234	20	2.2	20	87	4	61	51	13	11	23	1.74
1142219--1142270	20	2.6	20	78	0	59	38	13	17	30	1.88
1144001--1144125	65	1.9	66	86	1	180	30	20	5	44	1.74
1144518--1144571	27	2.0	27	96	0	99	25	9	25	38	1.86
1145583--1145611	15	1.9	15	100	0	58	6	37	20	34	1.80
1146278--1146449	94	1.8	95	83	3	231	34	26	11	27	1.91
1148665--1148942	139	2.1	131	87	5	394	41	15	11	31	1.82
1149653--1149683	3	10.3	3	100	0	62	67	0	0	32	0.91
1150377--1150428	6	8.7	6	82	0	68	19	3	0	76	0.93
1156118--1156166	20	2.5	20	100	0	98	22	14	24	38	1.91
1160585--1160611	2	13.5	2	100	0	54	48	0	0	51	1.00
1166469--1166691	54	4.1	54	86	4	263	34	28	11	26	1.91
1175996--1176085	47	1.9	47	90	0	144	53	12	5	28	1.60
1182301--1182337	16	2.2	17	95	4	67	35	0	5	59	1.20
1183012--1183075	2	32.0	2	100	0	128	50	0	0	50	1.00
1183846--1184046	44	4.6	43	77	7	194	46	5	21	26	1.74
1184052--1184229	43	4.1	43	77	8	148	57	7	12	23	1.60
1184588--1184616	2	14.5	2	100	0	58	48	0	0	51	1.00
1184671--1184720	22	2.2	22	85	3	64	28	2	20	50	1.59
1191481--1191527	23	2.0	23	87	0	67	38	8	19	34	1.82
1193724--1193774	23	2.2	23	85	0	66	25	17	21	35	1.95
1193812--1193881	34	2.1	34	94	0	122	42	24	5	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209960--1210007	11	4.4	11	81	0	60	56	20	8	14	1.64
1209966--1210018	22	2.4	22	87	0	79	56	22	5	15	1.60
1209957--1210045	33	2.6	34	76	3	99	55	17	6	20	1.65
1210015--1210068	23	2.3	23	80	0	72	55	11	5	27	1.57
1214130--1214451	162	2.0	162	97	0	608	41	14	20	23	1.89
1215365--1215412	21	2.3	21	81	0	60	43	8	2	45	1.45
1215978--1216009	15	2.2	15	94	5	57	34	3	0	62	1.11
1216073--1216150	22	3.7	22	70	16	67	44	3	2	48	1.34
1216356--1216419	18	3.5	17	73	26	51	51	1	1	45	1.20
1216727--1216764	3	12.7	3	100	0	76	65	0	0	34	0.93
1217265--1217314	25	2.0	25	88	0	73	58	14	14	14	1.65
1219772--1219848	31	2.5	31	80	4	93	48	14	15	22	1.81
1222339--1222381	20	2.3	19	88	8	61	37	25	6	30	1.82
1222348--1222389	20	2.2	20	86	4	59	40	23	4	30	1.75
1224287--1224410	63	2.0	63	87	6	180	17	21	20	40	1.92
1226968--1227010	20	2.3	19	88	8	61	37	25	6	30	1.82
1226977--1227018	20	2.2	20	86	4	59	40	23	4	30	1.75
1229386--1229422	20	1.9	19	89	10	58	51	5	18	24	1.67
1229949--1230085	43	3.2	44	78	13	133	28	18	24	27	1.98
1230525--1230633	21	5.2	21	84	2	103	0	40	18	40	1.57
1239168--1239262	41	2.3	43	81	7	115	28	26	15	29	1.96
1239972--1240018	24	2.0	24	82	0	58	17	12	8	61	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240178--1240223	10	4.6	10	86	0	56	17	10	10	60	1.57
1240204--1240330	10	10.8	12	68	23	58	11	13	18	55	1.68
1240226--1240253	14	2.0	14	100	0	56	7	14	21	57	1.61
1240193--1240368	47	3.7	46	83	9	178	11	14	18	56	1.67
1240241--1240351	24	4.7	23	77	5	98	11	15	18	54	1.70
1240227--1240257	14	2.2	14	94	0	53	6	16	22	54	1.64
1240240--1240369	24	5.5	24	72	8	97	11	15	17	55	1.69
1244223--1244274	18	2.8	19	85	5	72	40	1	0	57	1.10
1245091--1245160	15	4.7	15	84	7	97	24	32	25	17	1.96
1245091--1245160	30	2.3	30	92	0	113	24	32	25	17	1.96
1248914--1249025	34	3.2	34	67	22	97	26	37	23	12	1.90
1249609--1249634	2	13.0	2	100	0	52	50	0	0	50	1.00
1249871--1249920	17	2.9	17	81	3	55	64	0	2	34	1.05
1250243--1250341	48	2.0	49	83	9	123	52	9	13	25	1.69
1250351--1250488	20	6.8	20	80	11	131	1	23	13	60	1.41
1250348--1250495	3	45.7	3	72	16	100	1	25	12	60	1.40
1250554--1250632	40	2.0	40	100	0	158	48	6	7	37	1.57
1256280--1256314	16	2.2	16	94	0	61	48	20	31	0	1.50
1257198--1257287	29	3.0	30	66	16	78	34	22	3	40	1.70
1257184--1257296	60	1.9	60	88	3	174	34	22	4	38	1.74
1266427--1266464	9	4.2	9	86	0	58	0	44	2	52	1.14
1266479--1266536	9	6.8	9	76	11	50	12	34	15	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266487--1266549	12	5.5	12	75	11	60	9	34	14	41	1.78
1266479--1266542	21	3.0	21	88	0	92	10	34	15	39	1.83
1267960--1268044	30	2.8	30	92	0	134	44	12	17	24	1.84
1268563--1268604	21	2.0	20	86	4	57	35	21	14	28	1.92
1268626--1268717	40	2.3	40	74	7	105	31	20	10	36	1.87
1268688--1268737	18	2.6	19	81	9	66	34	24	8	34	1.84
1268872--1268909	16	2.5	15	84	12	51	31	0	2	65	1.06
1269964--1270156	30	6.4	30	96	0	350	33	23	18	24	1.97
1269964--1270179	90	2.4	90	93	0	333	34	23	18	23	1.96
1270766--1270852	2	43.5	2	100	0	174	50	0	0	49	1.00
1271356--1271393	20	1.9	20	88	0	58	10	31	34	23	1.89
1271421--1271463	21	2.0	21	81	0	50	16	25	30	27	1.97
1274801--1274985	30	6.2	30	94	0	316	34	22	18	25	1.96
1274818--1275010	90	2.1	90	91	0	305	34	23	18	23	1.96
1274971--1275063	31	3.0	31	80	3	107	35	21	16	26	1.94
1275237--1276148	4	230.2	4	97	1	1734	50	25	0	24	1.52
1277021--1277058	20	1.9	20	88	0	58	10	31	34	23	1.89
1278157--1278210	24	2.2	24	90	0	81	22	16	20	40	1.91
1280095--1280155	31	2.0	31	96	3	115	32	6	18	42	1.76
1280301--1280368	20	3.4	20	87	0	82	19	27	22	30	1.97
1281430--1281465	18	2.0	18	88	0	54	55	22	2	19	1.56
1282336--1282380	23	2.0	23	90	0	72	24	26	26	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282397--1282614	103	2.1	103	95	0	391	37	23	13	25	1.91
1285084--1285139	2	28.5	2	96	3	105	50	0	0	50	1.00
1287477--1287545	23	3.0	23	86	0	93	27	26	26	20	1.99
1287561--1287883	103	3.1	103	94	0	547	37	22	13	26	1.91
1291767--1291864	21	4.7	21	84	3	126	25	19	33	21	1.97
1292181--1292238	21	2.8	20	66	7	53	36	34	8	20	1.84
1292436--1292534	42	2.4	42	81	5	110	21	18	31	29	1.97
1293988--1294026	20	2.0	20	94	0	69	43	20	17	17	1.88
1293991--1294034	20	2.2	20	87	0	61	43	22	18	15	1.88
1294041--1294099	20	3.0	20	92	0	100	15	15	18	50	1.78

Tables:   1   2   3   4   5   6   7   8   9