genome.fa.s121.2.7.7.80.10.50.1000.6.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: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2099483

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

This is table  6  of  10  ( 1170 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)
1044737--1044844	42	2.6	41	83	4	135	50	14	12	22	1.77
1048952--1049003	26	2.0	26	100	0	104	53	0	11	34	1.37
1055259--1055318	12	5.0	12	71	15	52	23	1	6	68	1.22
1055336--1055408	33	2.2	34	85	9	98	21	2	15	60	1.47
1061963--1062054	23	4.3	21	77	9	80	27	27	21	23	1.99
1061979--1062059	23	3.7	23	77	8	96	25	25	24	23	2.00
1061963--1062054	44	2.1	42	86	7	123	27	27	21	23	1.99
1061979--1062075	44	2.3	42	80	7	106	25	24	25	23	2.00
1064054--1064091	2	19.0	2	100	0	76	50	0	0	50	1.00
1071337--1071366	15	2.0	15	93	0	51	23	6	0	70	1.11
1072026--1072051	2	13.0	2	100	0	52	50	0	0	50	1.00
1073967--1073995	11	2.5	12	88	11	51	31	0	10	58	1.31
1073971--1073997	11	2.5	11	100	0	54	37	0	7	55	1.28
1081097--1081185	20	4.4	20	87	2	126	35	24	21	17	1.95
1081231--1081326	33	2.8	33	87	3	120	14	22	19	42	1.88
1081428--1081464	14	2.6	14	86	0	56	48	21	0	29	1.50
1082817--1082924	42	2.6	42	79	5	121	22	17	37	22	1.94
1083400--1083456	20	2.8	20	100	0	114	40	24	19	15	1.90
1083428--1083517	33	2.7	34	80	3	119	45	23	17	13	1.84
1083588--1083751	20	8.5	20	84	9	207	20	20	21	38	1.94
1085626--1085693	20	3.4	20	85	0	73	44	22	16	17	1.87
1085739--1085785	20	2.3	20	88	0	67	21	19	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086357--1086427	20	3.5	20	92	0	124	22	21	19	36	1.95
1086354--1086469	20	5.7	21	82	7	78	31	18	20	29	1.97
1086424--1086469	21	2.2	20	88	7	65	39	17	26	17	1.91
1088221--1088265	9	5.0	9	94	0	81	75	2	0	22	0.91
1094065--1094114	20	2.5	20	96	0	91	26	8	28	38	1.84
1094452--1094507	20	2.7	22	78	15	57	32	12	26	28	1.93
1102029--1102116	21	4.2	21	91	5	124	19	23	37	19	1.94
1102120--1102167	21	2.3	21	85	0	60	22	12	39	25	1.89
1107831--1107863	2	16.5	2	100	0	66	51	0	0	48	1.00
1111135--1111335	103	2.0	102	96	1	375	35	10	12	40	1.78
1112451--1112525	31	2.5	28	83	12	80	36	9	13	41	1.76
1112483--1112541	28	2.1	28	87	0	82	37	8	11	42	1.72
1117299--1117329	11	2.7	11	95	5	53	54	0	38	6	1.26
1117869--1117925	22	2.6	22	97	0	105	19	24	19	36	1.94
1125063--1125120	24	2.4	24	100	0	116	46	10	24	18	1.80
1125427--1125463	19	1.9	19	88	0	56	48	8	8	35	1.62
1127741--1127773	16	2.1	16	88	5	50	42	0	3	54	1.15
1127833--1127878	20	2.3	20	72	24	51	47	0	0	52	1.00
1127838--1127904	27	2.4	27	82	5	71	50	1	0	47	1.10
1128833--1128895	27	2.4	24	73	21	63	46	3	0	50	1.17
1128988--1129033	20	2.3	20	72	24	51	47	0	0	52	1.00
1128993--1129059	27	2.4	27	82	5	71	50	1	0	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129990--1130052	27	2.4	24	76	21	63	47	1	0	50	1.10
1130145--1130190	20	2.3	20	72	24	51	47	0	0	52	1.00
1131131--1131181	19	2.7	19	78	6	59	39	1	0	58	1.09
1131133--1131174	13	3.2	13	78	15	50	40	0	0	59	0.97
1131132--1131192	27	2.3	25	81	18	70	44	1	0	54	1.10
1131285--1131330	20	2.3	20	72	24	51	47	0	0	52	1.00
1131290--1131358	27	2.5	27	83	4	75	50	1	0	47	1.09
1135318--1135376	28	2.1	28	84	6	75	42	11	8	37	1.72
1135762--1135814	26	2.0	26	96	0	97	45	13	15	26	1.82
1136090--1136162	5	14.8	5	76	2	76	26	1	0	72	0.93
1136090--1136145	15	3.7	15	87	0	85	28	0	0	71	0.86
1136090--1136159	30	2.4	30	90	2	106	27	1	0	71	0.94
1137486--1137513	13	2.2	13	100	0	56	28	0	0	71	0.86
1139455--1139503	25	2.0	25	84	8	64	59	2	8	30	1.38
1140694--1140720	3	9.0	3	100	0	54	66	0	0	33	0.92
1140853--1140892	22	1.9	21	85	10	55	57	5	5	32	1.42
1145087--1145190	37	2.8	37	82	0	118	43	11	13	31	1.80
1145608--1145654	23	2.0	23	84	15	62	27	2	0	70	0.99
1145823--1145907	33	2.5	34	76	19	88	27	2	3	67	1.19
1145862--1145929	26	2.7	25	73	22	63	27	4	1	66	1.20
1147208--1147244	19	1.9	19	88	0	56	10	24	0	64	1.25
1150504--1150563	20	2.9	22	80	12	72	78	6	11	3	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151385--1151447	24	2.8	21	77	13	63	33	11	6	49	1.64
1152174--1153436	106	11.9	106	93	0	2053	33	25	18	22	1.96
1154120--1154216	37	2.6	37	83	0	122	42	15	10	31	1.81
1154696--1154764	35	2.1	34	84	15	92	36	5	1	56	1.32
1154856--1154911	29	2.0	28	82	3	67	23	5	1	69	1.18
1155112--1155151	19	2.2	19	86	4	55	20	7	0	72	1.08
1157218--1157439	42	5.3	41	71	10	148	33	18	22	25	1.97
1157218--1157483	83	3.2	82	82	2	289	33	19	21	25	1.97
1157468--1157546	42	1.9	41	86	0	104	30	15	22	31	1.95
1158158--1158197	21	1.9	21	94	0	71	35	12	15	37	1.85
1159429--1159454	12	2.2	12	100	0	52	26	42	0	30	1.56
1167102--1167200	21	4.6	21	81	5	85	39	18	40	2	1.62
1167584--1167787	43	4.8	44	74	14	149	29	21	20	27	1.98
1169365--1169501	21	6.6	21	79	9	147	29	25	22	22	1.99
1169386--1169501	41	2.8	42	80	8	130	29	24	23	23	1.99
1169337--1169481	62	2.3	63	86	8	190	31	22	22	22	1.98
1169491--1169604	20	5.6	20	70	19	92	25	21	17	35	1.95
1169484--1169735	41	6.1	41	81	9	291	25	21	21	32	1.98
1169511--1169584	21	3.6	20	72	17	62	24	22	20	32	1.98
1169596--1169742	21	7.0	21	81	10	185	23	21	24	30	1.99
1169484--1169735	83	3.0	83	88	5	361	25	21	21	32	1.98
1171016--1171121	19	5.4	19	77	10	97	38	21	18	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170984--1171126	40	3.5	40	87	3	189	37	20	18	22	1.94
1171023--1171126	21	5.2	20	77	11	97	37	22	20	20	1.94
1177708--1177746	10	3.8	10	80	6	51	69	0	0	30	0.89
1177703--1177744	21	2.0	21	90	0	66	71	2	0	26	0.98
1182891--1182929	3	13.0	3	88	0	60	33	33	0	33	1.58
1184926--1184969	15	2.8	15	82	6	52	65	0	0	34	0.93
1185079--1185129	19	2.6	20	84	3	59	41	29	9	19	1.84
1186377--1186434	30	1.9	30	89	6	91	29	20	18	31	1.97
1187136--1187188	23	2.4	21	84	9	61	30	0	1	67	1.01
1191535--1191598	31	2.1	31	93	0	110	15	18	17	48	1.81
1217923--1217974	23	2.4	21	81	18	63	53	5	0	40	1.25
1221804--1221886	20	4.1	20	86	6	105	12	27	39	20	1.88
1221804--1221886	21	4.0	21	85	4	107	12	27	39	20	1.88
1221804--1221881	41	1.9	41	86	5	113	12	26	39	20	1.89
1222551--1222584	17	2.1	16	88	5	50	76	0	8	14	1.01
1234241--1234300	21	2.9	19	79	13	66	26	36	25	11	1.90
1234242--1234281	20	2.0	20	90	5	62	25	37	25	12	1.91
1236539--1236573	11	2.9	12	91	8	54	17	0	28	54	1.43
1236538--1236568	13	2.4	13	100	0	62	12	0	32	54	1.38
1236560--1236592	16	2.1	16	100	0	66	36	0	18	45	1.49
1237769--1237828	21	2.8	22	97	2	113	18	36	28	16	1.93
1238483--1238553	19	3.7	19	84	1	88	43	8	18	29	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239968--1240018	21	2.4	21	93	0	84	35	13	21	29	1.92
1245866--1245908	21	2.0	21	95	0	77	41	4	25	27	1.75
1248067--1248102	17	2.1	17	89	0	54	19	2	2	75	1.06
1248196--1248234	17	2.2	17	86	4	51	38	2	0	58	1.12
1249386--1249420	6	6.0	6	86	6	54	51	0	0	48	1.00
1251070--1251125	26	2.1	27	83	9	71	73	1	5	19	1.12
1257783--1258147	43	8.6	43	77	7	275	25	16	5	52	1.66
1259261--1259302	22	1.9	22	95	0	75	40	2	2	54	1.26
1260252--1260779	4	131.8	4	96	1	950	47	25	1	25	1.62
1263343--1263380	19	2.0	19	94	0	67	18	15	7	57	1.62

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