genome.fa.s9581.2.7.7.80.10.50.1000.6.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: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2551150

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1494 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)
986382--986464	22	3.8	20	76	18	69	68	1	2	27	1.09
986506--986594	31	2.9	31	85	11	130	50	6	2	40	1.41
986567--986803	39	6.2	38	80	10	200	45	7	3	43	1.49
996956--996988	5	6.6	5	96	0	57	36	21	3	39	1.69
1000038--1000145	32	3.4	32	73	10	96	33	17	15	33	1.92
1000039--1000163	63	2.0	63	82	6	155	32	18	18	31	1.95
1001755--1001783	2	15.0	2	92	7	51	48	0	0	51	1.00
1005463--1005494	2	16.0	2	100	0	64	50	50	0	0	1.00
1006853--1006936	37	2.3	37	83	8	100	14	13	36	35	1.85
1008268--1008299	14	2.1	16	88	11	50	56	0	6	37	1.25
1011672--1011701	2	15.0	2	92	0	51	50	0	3	46	1.18
1015572--1015622	24	2.1	24	92	0	84	15	19	17	47	1.83
1016113--1016161	21	2.3	21	89	0	71	22	55	0	22	1.44
1017184--1017393	65	3.3	63	80	11	221	30	24	18	26	1.97
1023164--1023244	24	3.6	23	70	18	71	23	23	23	29	1.99
1023182--1023264	44	1.9	43	87	2	121	25	21	24	28	1.99
1024783--1024826	21	2.1	21	82	0	52	9	43	15	31	1.79
1025914--1026073	65	2.5	66	81	5	184	31	23	18	27	1.97
1026045--1026093	19	2.6	19	84	9	57	24	28	20	26	1.99
1027745--1027795	24	2.1	24	88	0	75	17	15	15	50	1.78
1029886--1029918	5	6.8	5	86	6	50	0	18	57	24	1.40
1029886--1029912	14	1.9	14	100	0	54	0	14	59	25	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029885--1029927	19	2.3	19	80	8	52	2	23	53	20	1.57
1034234--1034263	8	3.8	8	95	0	51	33	23	16	26	1.96
1035110--1035139	13	2.2	14	94	5	53	26	30	26	16	1.97
1035110--1035139	7	4.4	7	91	8	53	26	30	26	16	1.97
1035143--1035179	19	2.0	18	89	5	56	29	27	29	13	1.94
1035866--1035906	17	2.4	17	95	0	73	31	19	4	43	1.72
1042921--1043054	6	22.3	6	100	0	268	66	0	0	33	0.92
1047135--1047179	21	2.1	21	87	0	63	31	28	24	15	1.96
1048285--1048320	18	2.0	18	100	0	72	11	22	33	33	1.89
1048417--1048509	30	3.1	30	93	1	152	20	21	26	31	1.98
1049383--1049477	2	47.0	2	88	6	138	47	0	4	48	1.21
1051357--1051401	21	2.1	21	87	0	63	31	28	24	15	1.96
1052507--1052543	19	2.0	19	89	5	58	10	18	35	35	1.86
1052640--1052735	30	3.2	30	91	1	158	22	19	25	32	1.98
1056354--1056406	24	2.2	24	86	3	72	39	9	15	35	1.79
1057868--1057917	25	2.0	25	84	7	66	40	16	16	28	1.89
1058581--1058617	20	1.9	19	89	10	58	45	10	24	18	1.81
1058732--1058779	17	2.7	18	74	9	53	41	2	4	52	1.32
1059857--1059937	36	2.2	36	97	0	153	29	17	20	32	1.96
1060377--1060417	12	3.1	13	80	19	57	46	14	17	21	1.84
1060371--1060416	12	3.6	12	81	16	56	45	17	19	17	1.85
1062679--1062718	21	1.9	21	94	0	71	30	15	7	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062713--1062810	33	3.0	33	91	4	155	31	7	15	45	1.73
1062796--1062844	13	3.7	13	74	15	55	34	4	12	48	1.59
1063385--1063416	16	2.0	17	88	11	50	43	21	21	12	1.86
1070961--1071255	105	2.8	104	80	7	292	34	15	24	26	1.95
1075484--1075607	40	3.1	40	98	0	239	32	8	14	45	1.74
1082722--1082777	28	1.9	29	89	7	87	48	1	0	50	1.11
1086144--1086216	27	2.7	27	97	0	128	35	20	13	30	1.91
1102613--1102647	17	2.1	17	94	0	61	48	0	2	48	1.16
1102616--1102653	17	2.3	17	86	4	51	47	0	5	47	1.24
1104382--1104433	14	3.7	14	72	10	52	48	11	0	40	1.40
1104381--1104448	28	2.4	28	97	0	127	48	14	0	36	1.44
1111034--1111072	19	2.1	19	90	0	60	35	28	5	30	1.79
1115960--1116019	29	2.1	29	90	0	93	41	10	6	41	1.65
1117375--1117429	24	2.3	24	83	0	74	52	18	10	18	1.73
1121636--1121880	9	26.9	9	69	19	111	16	7	1	74	1.10
1121672--1121852	6	30.2	6	70	24	66	16	6	1	76	1.05
1121636--1121881	5	47.8	5	73	18	129	16	7	1	74	1.10
1121636--1121881	24	10.2	23	72	22	127	16	7	1	74	1.10
1121629--1121881	45	5.5	44	74	17	180	16	7	1	75	1.09
1121641--1121905	81	3.1	81	79	13	234	15	8	1	74	1.11
1121765--1121927	31	5.5	29	72	21	81	14	8	2	74	1.15
1128140--1128180	21	1.9	22	85	5	57	36	14	17	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131902--1131929	12	2.3	12	100	0	56	53	0	7	39	1.28
1135051--1135250	95	2.1	96	85	3	278	33	17	18	31	1.94
1136409--1136772	106	3.4	106	85	5	459	34	24	18	22	1.96
1136898--1136973	36	2.1	36	90	0	116	27	21	11	39	1.88
1136992--1137146	37	4.1	36	71	18	93	29	18	10	41	1.85
1136899--1137088	103	1.9	102	95	3	346	29	17	10	42	1.83
1137025--1137265	83	3.0	82	77	12	248	29	17	11	41	1.85
1139206--1139312	4	25.0	4	69	22	58	23	6	0	69	1.18
1139248--1139488	5	47.4	5	71	17	94	17	7	1	73	1.15
1139310--1139512	35	6.1	33	73	14	141	14	9	1	73	1.18
1139312--1139443	6	22.8	6	77	16	70	16	8	1	73	1.15
1139256--1139478	122	1.8	121	80	8	265	17	7	1	73	1.15
1139481--1139512	11	2.8	12	95	4	57	9	18	0	71	1.12
1142888--1142946	14	4.3	14	75	18	52	74	0	6	18	1.03
1144566--1145491	165	5.6	163	79	5	749	23	20	25	30	1.98
1144628--1145491	413	2.1	413	93	0	1476	23	19	25	30	1.98
1144562--1145473	248	3.7	245	82	5	974	23	19	25	30	1.98
1149320--1149376	17	3.3	16	76	21	53	78	0	7	14	0.94
1149327--1149354	10	2.8	10	100	0	56	71	0	7	21	1.09
1149322--1149390	23	3.0	23	81	10	70	78	0	7	14	0.96
1149359--1149440	5	16.2	5	69	20	55	74	0	7	18	1.04
1149322--1149440	22	5.5	21	68	17	66	73	0	8	17	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149322--1149390	9	7.4	9	79	8	50	78	0	7	14	0.96
1149403--1149440	11	3.6	10	86	13	58	78	0	2	18	0.86
1149403--1149440	16	2.4	15	87	12	58	78	0	2	18	0.86
1149464--1149499	19	1.9	19	88	5	56	69	5	2	22	1.22
1154313--1154878	283	2.0	281	99	0	1114	37	21	19	21	1.95
1156252--1156393	72	2.0	72	97	0	266	46	25	15	12	1.81
1156658--1156829	54	3.1	54	61	23	124	30	17	13	38	1.89
1156648--1156875	110	2.1	110	99	0	447	31	17	16	34	1.92
1160537--1160576	10	4.0	10	84	12	55	32	27	0	40	1.57
1160701--1161033	111	3.0	111	94	0	576	36	6	10	45	1.66
1166808--1166921	49	2.3	51	83	8	137	21	24	35	19	1.96
1173883--1173924	18	2.3	18	84	8	50	50	2	2	45	1.27
1175607--1175753	71	2.1	71	100	0	294	40	8	13	37	1.74
1186107--1186517	205	2.0	205	100	0	822	32	14	27	26	1.94
1187789--1187847	29	2.0	29	96	0	109	22	13	15	49	1.79
1189268--1189339	36	2.0	36	100	0	144	27	19	25	27	1.99
1192470--1192528	29	2.0	29	100	0	118	23	13	13	49	1.78
1194303--1194329	2	13.5	2	100	0	54	51	0	0	48	1.00
1196016--1196137	58	2.1	58	87	3	174	43	4	12	39	1.64
1203789--1203851	24	2.5	26	82	5	76	42	1	1	53	1.19
1206034--1206139	21	5.0	21	73	15	94	23	20	21	33	1.97
1206041--1206138	42	2.3	42	96	0	187	22	20	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206232--1206266	5	6.6	5	90	9	52	22	57	20	0	1.41
1206783--1206832	22	2.3	22	100	0	100	34	28	16	22	1.95
1208347--1208531	92	2.0	92	100	0	370	17	21	29	31	1.96
1216499--1216525	2	13.5	2	100	0	54	48	0	0	51	1.00
1216491--1216562	20	3.2	24	77	16	73	34	0	0	65	0.93
1216620--1216682	33	1.9	33	90	0	99	42	14	11	31	1.80
1217032--1217119	38	2.3	37	77	11	90	26	4	1	68	1.16
1218934--1218986	26	2.0	27	96	3	99	7	13	33	45	1.71
1221074--1221177	2	52.0	2	100	0	208	0	50	0	50	1.00
1222882--1223038	20	7.8	20	73	6	93	38	25	17	19	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13