genome.fa.s8521.2.7.7.80.10.50.1000.5.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: VEPZ01008521.1 Hibiscus syriacus cultivar Beakdansim tig00111388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1601068

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 737 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)
994908--994942	15	2.3	15	95	0	61	28	31	22	17	1.96
996460--996618	25	6.5	24	75	9	124	36	0	13	49	1.46
996475--996567	12	7.6	12	79	4	105	33	1	10	54	1.42
996464--996568	37	2.8	37	82	4	140	34	0	11	53	1.43
996561--996605	13	3.6	13	80	17	51	42	0	13	44	1.43
996692--996717	2	13.0	2	100	0	52	50	0	0	50	1.00
1000958--1001023	20	3.3	21	74	19	61	31	27	12	28	1.92
1001893--1001921	12	2.4	12	100	0	58	58	24	0	17	1.38
1002051--1002106	24	2.3	24	87	0	76	28	16	16	39	1.89
1004364--1004399	18	2.0	18	88	0	54	55	22	2	19	1.56
1004580--1004627	20	2.4	20	92	0	78	39	16	20	22	1.92
1004635--1004672	20	1.9	20	100	0	76	21	21	21	36	1.95
1004685--1004728	20	2.2	20	83	0	52	25	15	20	38	1.92
1004787--1004935	64	2.3	64	91	0	235	51	16	2	29	1.56
1006159--1006234	21	3.7	20	76	3	62	25	21	32	21	1.97
1006623--1006672	21	2.4	21	79	0	55	32	34	14	20	1.92
1007840--1007892	19	2.7	20	80	16	65	50	20	13	15	1.76
1008258--1008315	22	2.6	22	91	0	98	17	13	44	24	1.85
1008450--1008500	20	2.5	20	93	0	84	17	9	25	47	1.78
1008450--1008540	20	4.5	21	82	5	73	19	10	28	40	1.86
1011522--1011570	23	2.1	23	88	7	73	18	8	10	63	1.50
1011555--1011587	13	2.4	14	90	10	50	24	12	6	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017406--1017467	23	2.7	23	97	2	115	46	9	0	43	1.36
1019075--1019126	27	1.9	27	92	7	88	34	21	17	26	1.95
1023405--1023490	29	2.9	30	73	14	81	32	19	4	43	1.72
1023405--1023519	60	1.9	60	89	5	180	30	20	5	43	1.74
1023410--1023540	60	2.2	60	83	5	158	29	22	6	41	1.78
1027352--1027386	16	2.1	17	94	5	63	37	0	20	42	1.52
1030091--1030248	52	3.0	52	95	1	273	35	15	21	27	1.94
1034722--1034843	64	1.9	64	81	3	147	36	20	16	27	1.94
1034749--1034884	64	2.1	63	81	8	150	36	22	14	27	1.93
1035456--1035528	18	3.9	18	72	13	67	24	19	27	28	1.98
1039464--1039512	19	2.5	20	81	12	57	24	26	18	30	1.98
1045257--1045342	40	2.2	40	97	0	163	25	22	17	34	1.95
1045621--1045669	24	2.1	23	88	3	71	44	8	4	42	1.53
1053692--1053746	28	2.0	27	89	3	83	40	34	10	14	1.81
1084745--1084817	18	3.9	18	84	7	101	27	31	20	20	1.97
1084744--1084820	38	2.0	38	92	0	127	27	29	20	22	1.98
1086060--1086085	2	13.0	2	100	0	52	50	0	0	50	1.00
1091633--1091667	18	1.9	18	100	0	70	25	34	22	17	1.96
1093840--1094009	32	5.4	32	84	3	186	30	17	21	30	1.96
1093904--1094010	31	3.4	32	80	3	92	29	16	22	30	1.96
1093820--1094011	32	6.1	31	81	4	172	29	17	20	32	1.96
1094783--1094823	21	1.9	22	90	5	66	21	21	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095157--1095220	27	2.3	29	81	10	80	50	1	1	46	1.20
1095393--1095436	22	2.0	21	86	4	61	50	2	0	47	1.13
1104416--1104447	17	1.9	16	93	6	55	65	0	0	34	0.93
1115255--1115352	51	1.9	50	83	6	126	58	5	12	24	1.54
1115548--1115573	2	13.0	2	100	0	52	50	0	0	50	1.00
1117473--1117508	14	2.6	14	100	0	72	36	0	38	25	1.56
1117792--1117846	22	2.4	22	81	9	65	52	0	0	47	1.00
1118254--1118311	30	1.9	30	96	0	107	43	15	8	32	1.77
1120557--1120607	19	2.5	20	84	6	68	27	21	19	31	1.97
1120563--1120624	21	3.0	21	83	4	74	25	20	22	30	1.98
1121025--1121102	20	3.8	20	78	15	79	32	29	6	32	1.83
1127200--1127257	3	19.7	3	75	10	57	32	1	3	62	1.22
1132067--1132488	64	6.6	64	91	0	621	36	20	11	31	1.89
1132516--1132734	121	1.8	121	93	0	384	34	26	15	22	1.95
1134288--1134325	19	2.0	20	89	5	60	42	0	0	57	0.98
1137481--1137522	22	2.0	22	85	4	59	47	7	0	45	1.30
1139884--1139915	15	2.1	15	94	0	55	46	6	3	43	1.44
1154283--1154446	88	1.9	87	82	5	204	37	11	14	37	1.82
1160320--1160397	3	26.0	3	96	0	138	34	1	0	64	1.02
1162384--1162413	15	2.0	15	100	0	60	26	0	20	53	1.46
1166358--1166415	21	2.8	21	100	0	116	37	24	20	17	1.93
1166449--1166485	19	1.9	19	88	0	56	24	35	29	10	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166963--1167177	103	2.1	103	94	0	376	25	13	24	37	1.91
1167196--1167264	23	3.0	23	82	4	86	24	23	24	27	2.00
1173303--1173345	21	2.0	21	86	0	59	32	30	23	13	1.93
1173892--1174105	103	2.1	103	93	0	374	23	13	25	37	1.91
1174125--1174188	23	2.8	23	85	0	83	21	25	26	26	2.00
1175884--1175938	19	2.9	19	80	0	65	30	18	30	20	1.96
1182938--1183015	31	2.5	31	81	8	104	21	8	15	53	1.69
1191749--1191795	24	2.0	24	86	0	67	46	2	0	51	1.13
1199172--1199221	24	2.1	24	85	7	66	28	2	12	58	1.45
1202692--1202788	37	2.6	37	88	0	149	30	13	15	40	1.86
1203518--1204996	106	14.0	106	88	1	2082	23	17	24	34	1.96
1205800--1205869	22	3.2	22	87	0	113	22	14	25	37	1.92
1206491--1206540	16	3.6	14	82	17	68	0	14	6	80	0.90
1211007--1211108	37	2.8	37	89	0	141	31	15	12	40	1.85
1211374--1211483	35	3.1	34	67	27	93	28	13	23	34	1.93
1214394--1214524	37	3.6	37	79	11	137	39	3	11	45	1.59
1214410--1214504	37	2.5	37	88	5	138	43	4	9	43	1.56
1220165--1220209	17	2.4	18	89	10	65	35	13	31	20	1.91
1221400--1221456	26	2.2	26	90	6	89	29	22	12	35	1.91
1231988--1232065	35	2.2	35	90	0	120	43	24	1	30	1.62
1233025--1233110	35	2.4	36	86	3	129	31	1	24	43	1.62
1247795--1247836	18	2.4	18	84	4	50	28	19	16	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249010--1249070	26	2.3	27	81	16	74	32	0	3	63	1.10
1249383--1249454	22	3.4	22	92	3	112	47	2	0	50	1.15
1249392--1249454	2	32.5	2	93	6	112	49	0	0	50	1.00
1251065--1251117	21	2.5	21	84	0	70	20	26	18	33	1.96
1251107--1251274	20	8.3	20	84	3	196	34	19	18	27	1.95
1251092--1251274	41	4.5	41	81	3	201	33	19	18	28	1.95
1251096--1251274	61	2.9	60	79	8	209	34	19	17	29	1.95
1252898--1253051	31	5.0	31	95	1	256	37	22	19	20	1.94
1254185--1254220	13	2.6	15	79	20	51	61	0	36	2	1.11
1254548--1254601	24	2.2	24	93	0	90	20	18	20	40	1.91
1257141--1257234	33	2.8	33	93	0	152	45	18	23	12	1.83
1257121--1257232	19	6.4	19	68	20	73	44	18	23	13	1.85
1257323--1257359	14	2.6	14	86	0	56	45	18	0	35	1.50
1259229--1259355	19	6.8	19	75	12	102	46	18	21	13	1.83
1259229--1259326	39	2.5	39	88	1	133	47	18	21	12	1.80
1259253--1259352	33	2.8	36	83	8	116	46	19	22	13	1.83
1259352--1259437	20	4.4	19	82	7	93	10	18	23	47	1.79
1259361--1259437	19	3.9	20	86	5	95	7	19	23	49	1.74
1259352--1259443	39	2.4	39	83	3	105	10	19	21	47	1.80
1259362--1259443	20	4.2	19	87	4	101	8	20	20	50	1.74
1259534--1259898	94	4.1	94	87	10	530	46	19	12	22	1.83
1259651--1259824	83	2.1	82	97	1	330	45	19	13	21	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259557--1259898	177	2.0	173	91	3	560	45	18	12	22	1.83
1260262--1260336	21	3.7	21	67	19	52	14	14	41	29	1.86
1261593--1261655	20	3.2	20	77	8	74	47	17	22	12	1.81
1261696--1261752	14	3.7	14	72	20	51	10	22	22	43	1.84
1261680--1261760	33	2.5	33	93	0	135	9	20	22	46	1.80
1261744--1261815	20	3.5	20	84	5	92	12	16	19	51	1.76
1262375--1262420	21	2.2	21	88	0	65	36	17	28	17	1.92
1263754--1263835	43	1.9	43	87	9	123	29	10	19	40	1.86
1271718--1271743	3	8.7	3	100	0	52	30	0	0	69	0.89
1271742--1271779	20	1.9	20	88	0	58	26	7	2	63	1.35

Tables:   1   2   3   4   5   6   7