genome.fa.s8282.2.7.7.80.10.50.1000.7.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: VEPZ01008282.1 Hibiscus syriacus cultivar Beakdansim tig00110944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1335609

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 878 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)
1099197--1099249	28	1.9	27	88	3	79	32	1	16	49	1.57
1099196--1099260	27	2.3	29	82	10	82	36	1	15	46	1.55
1099311--1099366	28	2.1	27	83	12	71	44	0	8	46	1.34
1099318--1099372	28	2.0	28	82	10	69	45	0	7	47	1.30
1099452--1099491	21	1.9	21	100	0	80	27	0	15	57	1.38
1102028--1102119	14	6.6	14	68	20	59	48	14	0	36	1.43
1102027--1102119	24	4.0	25	68	14	81	48	13	0	37	1.43
1102047--1102452	59	7.3	49	72	25	212	46	13	0	40	1.46
1102092--1102516	59	7.2	60	91	6	706	45	14	0	40	1.47
1102047--1102165	49	2.6	45	84	11	145	48	11	0	39	1.40
1102092--1102516	119	3.6	119	95	3	777	45	14	0	40	1.47
1102260--1102513	10	25.8	10	67	22	67	44	14	0	40	1.48
1105557--1105610	28	1.9	28	96	0	99	57	12	0	29	1.36
1105553--1105617	28	2.3	28	84	10	96	55	10	0	33	1.35
1106273--1106426	30	5.1	30	88	2	220	11	18	47	23	1.80
1106353--1106399	10	4.7	10	75	19	53	8	17	51	23	1.72
1106407--1106493	29	3.0	29	84	0	120	14	29	39	16	1.88
1106376--1106493	58	2.0	60	88	3	177	12	26	41	19	1.87
1111252--1111307	25	2.3	23	77	17	58	50	3	3	42	1.37
1112704--1112739	3	11.7	3	88	5	54	63	2	0	33	1.08
1112713--1112759	16	2.8	16	87	6	58	57	4	2	36	1.30
1112804--1113042	39	6.6	37	73	15	146	46	5	2	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112779--1113002	34	6.5	32	74	19	145	45	4	3	45	1.42
1112785--1113048	34	7.3	36	74	17	144	45	4	3	46	1.40
1112804--1113113	37	8.6	37	70	20	151	45	5	3	46	1.42
1112804--1113113	35	8.5	37	71	17	145	45	5	3	46	1.42
1112785--1113116	39	9.2	36	66	21	121	44	5	3	46	1.43
1114084--1114120	18	2.0	19	89	5	58	56	0	0	43	0.99
1114789--1114831	15	2.8	16	92	7	79	13	27	32	25	1.94
1116854--1116912	24	2.5	24	100	0	118	37	16	3	42	1.66
1119152--1119217	23	2.9	23	75	8	80	16	24	25	33	1.96
1119228--1119297	24	2.9	24	91	0	104	21	22	21	34	1.97
1122415--1122460	22	2.1	22	100	0	92	32	4	21	41	1.73
1125855--1125889	2	17.5	2	88	11	54	45	0	2	51	1.16
1125849--1125890	12	3.5	11	84	15	57	42	0	4	52	1.22
1129354--1129531	51	3.5	51	88	1	266	26	24	16	32	1.96
1129526--1129876	54	6.5	54	93	0	594	19	26	19	35	1.95
1130253--1130376	37	3.4	37	80	2	133	25	20	21	33	1.97
1140696--1140729	16	2.1	17	88	5	52	32	0	5	61	1.20
1150014--1150062	21	2.4	20	79	3	53	44	0	4	51	1.20
1150207--1150251	22	2.0	23	87	12	67	53	4	2	40	1.33
1160109--1160185	3	25.7	3	100	0	154	33	0	0	66	0.92
1163832--1163893	32	2.0	32	93	3	108	14	16	9	59	1.60
1165294--1165369	26	3.2	26	71	17	83	23	22	11	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165291--1165380	46	2.0	45	93	2	153	23	24	12	40	1.89
1165976--1166010	17	2.1	16	89	5	52	68	5	25	0	1.11
1165982--1166031	15	3.2	16	75	16	52	70	4	24	2	1.15
1167769--1167886	36	3.3	36	81	8	141	34	15	12	37	1.85
1167769--1167903	71	1.9	72	81	4	166	33	18	14	34	1.91
1168044--1168282	105	2.3	102	81	9	263	30	20	12	36	1.90
1168244--1168347	36	3.0	36	80	4	115	32	20	12	34	1.90
1167877--1168509	273	2.3	270	83	6	753	32	17	12	38	1.86
1168661--1168758	29	3.5	29	86	5	139	26	11	15	46	1.79
1168647--1168770	29	4.4	28	83	8	137	25	10	15	48	1.77
1168802--1168873	36	2.0	36	91	0	117	44	8	11	36	1.70
1169030--1169247	120	1.8	119	81	6	271	32	13	11	42	1.81
1169501--1169582	28	2.9	28	83	3	94	24	12	13	50	1.76
1169640--1170020	43	8.7	43	74	13	305	25	30	19	24	1.98
1169641--1169939	89	3.4	89	98	0	571	26	29	19	24	1.98
1169601--1169939	178	1.9	172	92	3	570	25	30	19	24	1.98
1169819--1170206	134	2.9	132	90	3	602	25	31	18	25	1.98
1170372--1170430	3	19.7	3	96	0	109	35	0	0	64	0.94
1172086--1172146	29	2.1	30	84	3	79	14	14	6	63	1.49
1172307--1172355	25	2.0	25	88	8	73	20	14	0	65	1.27
1176294--1176326	16	2.1	16	94	0	57	24	12	21	42	1.86
1177972--1178016	23	2.0	23	91	8	74	22	11	0	66	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180852--1180883	2	16.0	2	93	0	55	53	0	46	0	1.00
1185525--1185571	18	2.7	17	83	3	58	36	8	27	27	1.86
1191187--1191233	12	4.0	12	83	5	69	19	10	31	38	1.86
1191188--1191232	23	2.0	23	95	0	81	20	11	31	37	1.87
1191231--1191329	11	8.5	11	69	24	60	22	27	25	25	2.00
1191240--1191330	24	3.8	24	100	0	182	20	29	24	25	1.99
1191251--1191318	13	5.5	13	68	25	58	19	29	26	25	1.98
1192754--1192781	6	4.7	6	100	0	56	46	0	0	53	1.00
1196676--1196773	21	4.8	20	76	10	74	37	21	19	21	1.94
1196760--1197029	60	4.5	60	86	4	332	37	25	17	20	1.94
1196741--1197029	20	14.4	20	86	4	293	37	25	17	19	1.93
1200254--1200415	33	4.7	33	73	17	132	46	17	20	14	1.83
1200254--1200476	53	4.2	52	93	1	349	46	17	21	15	1.84
1200254--1200476	19	12.7	19	73	19	207	46	17	21	15	1.84
1200240--1200419	86	2.1	84	84	12	224	46	17	21	13	1.83
1200307--1200470	33	4.8	33	71	19	138	46	16	21	14	1.83
1200448--1200561	52	2.2	53	85	4	160	19	23	19	37	1.94
1200467--1200581	52	2.2	52	96	0	212	13	24	19	42	1.87
1200485--1200581	19	5.4	19	83	12	132	14	22	18	44	1.86
1200688--1200724	14	2.6	14	91	0	65	45	21	0	32	1.52
1202637--1202809	19	9.6	19	74	15	143	45	22	20	11	1.83
1202712--1202804	33	2.8	33	90	0	150	45	20	22	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202821--1202847	14	1.9	14	100	0	54	7	14	29	48	1.71
1202805--1202928	33	3.8	32	88	3	158	8	16	26	47	1.76
1202805--1202896	19	5.4	18	73	24	83	7	16	27	48	1.72
1202976--1203442	93	5.1	93	97	1	886	46	19	12	22	1.83
1205119--1205215	20	5.2	20	72	18	100	46	17	24	11	1.81
1205117--1205181	21	3.1	21	82	4	96	47	15	26	10	1.78
1205166--1205222	14	3.7	14	72	20	51	45	22	22	8	1.80
1205117--1205239	33	3.5	33	88	8	156	47	18	23	10	1.80
1205256--1205312	14	3.7	14	75	20	60	8	24	22	43	1.81
1205251--1205319	33	2.1	33	100	0	138	8	23	20	47	1.77
1205300--1205372	21	3.5	21	76	10	87	15	20	17	46	1.84
1205452--1205522	33	2.2	33	92	0	115	49	16	22	11	1.78
1205900--1206092	20	9.6	20	85	5	246	18	19	27	34	1.95
1206086--1206135	21	2.4	21	80	9	50	28	18	18	36	1.94
1206822--1206861	2	20.0	2	100	0	80	50	0	0	50	1.00
1207070--1207110	21	2.0	21	85	9	57	60	0	4	34	1.18
1207420--1207585	85	2.0	84	96	1	305	37	25	4	32	1.75
1209184--1209246	31	2.0	31	100	0	126	26	31	9	31	1.88
1212946--1212989	21	2.0	21	82	4	52	38	13	6	40	1.71
1214997--1215184	41	4.6	41	89	5	267	21	18	22	36	1.95
1214994--1215135	20	6.9	20	72	5	115	18	19	24	38	1.93
1215001--1215115	21	5.6	21	73	4	117	19	19	26	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215127--1215178	21	2.6	19	78	6	59	21	19	23	36	1.95
1215252--1215286	6	6.0	6	96	3	63	31	51	17	0	1.45
1215784--1215827	6	7.5	6	97	2	81	0	15	52	31	1.44
1215939--1216011	22	3.5	21	73	16	62	35	28	17	17	1.93
1215936--1216055	42	2.9	42	83	6	136	35	25	15	22	1.94
1215981--1216067	42	2.1	42	97	0	165	32	25	11	31	1.91
1215981--1216076	21	4.6	21	89	0	138	34	25	12	28	1.92
1216909--1216960	17	3.2	17	75	10	54	50	13	3	32	1.60
1222489--1222523	15	2.3	15	95	0	61	77	2	0	20	0.90
1226542--1226578	18	2.0	19	89	5	58	56	8	29	5	1.51

Tables:   1   2   3   4   5   6   7   8