genome.fa.s9036.2.7.7.80.10.50.1000.6.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: VEPZ01009036.1 Hibiscus syriacus cultivar Beakdansim tig00112443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1934717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1002 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)
1064244--1064332	34	2.6	33	77	11	92	73	3	10	13	1.22
1064384--1064422	18	2.2	18	85	0	51	71	0	5	23	1.05
1064384--1064440	13	4.3	13	77	18	55	70	0	7	22	1.11
1065388--1065970	200	2.9	199	85	3	717	26	19	20	33	1.96
1066028--1066227	86	2.3	85	87	0	283	23	22	24	30	1.99
1066026--1066180	42	3.6	42	69	13	109	21	22	24	30	1.99
1065998--1066244	85	2.9	85	83	3	300	22	22	23	31	1.99
1070369--1070433	10	6.6	10	79	11	64	80	0	3	16	0.85
1070368--1070459	10	7.9	11	75	21	57	77	1	5	16	1.01
1070381--1070460	31	2.6	31	86	7	101	76	1	6	16	1.05
1070407--1070467	5	11.8	5	76	11	52	77	1	6	14	1.05
1071251--1071275	12	2.1	12	100	0	50	48	8	0	44	1.32
1071391--1071575	87	2.1	87	86	2	255	24	16	30	28	1.97
1072222--1072256	13	2.8	13	91	4	54	57	0	0	42	0.99
1075248--1075288	8	5.2	8	82	5	57	34	0	29	36	1.58
1075356--1075960	126	4.8	126	98	0	1183	22	26	19	31	1.98
1076345--1076444	33	3.0	34	83	2	139	39	3	4	54	1.35
1076967--1077047	21	3.9	21	95	1	128	20	23	37	18	1.94
1077057--1077104	21	2.3	21	85	0	60	22	12	39	25	1.89
1078826--1078903	31	2.4	33	83	14	99	61	1	0	37	1.04
1089525--1089568	23	1.9	23	95	0	79	40	15	29	13	1.86
1089610--1089673	3	21.0	3	84	9	85	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089594--1089673	34	2.3	36	81	16	98	32	0	0	67	0.91
1089598--1089673	27	2.8	28	88	4	111	32	0	0	67	0.91
1091253--1091307	27	2.0	27	86	6	76	47	1	0	50	1.11
1091060--1091282	120	1.9	119	84	4	299	37	8	8	45	1.66
1093385--1093414	14	2.1	14	93	0	51	23	13	3	60	1.48
1093395--1093442	14	3.4	14	77	11	53	16	18	8	56	1.65
1093501--1093569	6	11.7	6	75	3	59	23	13	5	57	1.57
1093514--1093571	29	2.0	29	93	0	98	20	12	5	62	1.49
1093501--1093540	12	3.3	12	100	0	80	25	15	7	52	1.68
1095763--1095915	68	2.2	68	100	0	306	33	20	17	28	1.95
1095831--1096014	90	2.0	90	97	0	350	34	16	20	27	1.95
1098500--1098833	114	2.9	114	93	0	553	34	14	19	31	1.92
1099757--1100103	151	2.3	150	94	1	604	33	16	21	28	1.95
1101545--1101599	22	2.5	22	87	0	83	34	14	14	36	1.87
1102035--1102785	113	6.6	113	94	0	1263	37	15	20	27	1.92
1103055--1103122	3	22.0	3	79	11	66	32	0	0	67	0.91
1103046--1103122	28	2.7	29	82	11	88	31	0	0	68	0.90
1103056--1103122	25	2.8	24	80	12	77	32	0	0	67	0.91
1104342--1104386	3	15.0	3	81	9	56	26	4	0	68	1.08
1104347--1104386	16	2.6	15	92	4	62	25	5	0	70	1.08
1104666--1104720	27	2.0	27	86	6	76	47	1	0	50	1.11
1104473--1104695	120	1.9	119	83	4	290	36	8	8	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106452--1106532	24	3.4	23	72	6	63	51	18	11	18	1.74
1111056--1111133	12	6.5	12	69	8	52	52	19	10	17	1.73
1111051--1111133	24	3.5	24	81	5	87	51	19	9	19	1.73
1111957--1112032	12	6.3	13	75	11	65	52	19	10	17	1.73
1111957--1112032	24	3.2	24	78	0	80	52	19	10	17	1.73
1111964--1112045	36	2.3	36	80	2	94	51	19	9	19	1.74
1110388--1112096	905	1.9	897	90	2	2359	38	19	13	27	1.90
1117670--1117712	22	2.0	22	81	9	52	48	0	6	44	1.29
1118247--1118425	59	3.0	59	76	14	152	33	17	4	44	1.69
1123954--1123993	21	1.9	21	94	0	71	35	25	20	20	1.96
1125768--1125827	29	2.0	31	90	6	97	41	16	6	35	1.75
1127078--1127125	19	2.5	20	82	3	62	29	12	6	52	1.63
1128338--1128379	21	2.0	21	90	0	66	26	21	21	30	1.98
1128531--1128590	29	2.0	31	90	6	97	41	16	6	35	1.75
1132703--1132746	2	22.5	2	95	4	81	50	0	0	50	1.00
1133191--1133249	22	2.7	22	94	0	100	10	27	35	27	1.89
1137514--1137550	2	18.5	2	100	0	74	48	0	0	51	1.00
1141822--1141854	14	2.4	14	90	5	50	36	15	6	42	1.71
1143613--1143646	12	2.7	13	86	9	52	44	8	5	41	1.60
1143994--1144045	20	2.6	20	90	0	86	28	19	25	26	1.98
1147104--1147147	21	2.1	21	86	0	61	38	4	0	56	1.20
1152544--1152573	15	2.0	15	93	0	51	6	20	63	10	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155464--1155508	20	2.5	18	80	19	58	24	24	11	40	1.87
1155477--1155514	20	1.9	20	100	0	76	23	28	10	36	1.88
1166963--1167031	23	3.0	23	76	0	75	20	27	23	28	1.99
1175033--1175165	34	3.7	34	80	13	151	43	3	8	45	1.49
1175003--1175169	73	2.3	72	84	9	200	42	4	8	43	1.57
1174993--1175223	34	6.9	33	71	20	146	43	3	8	44	1.53
1175135--1175192	23	2.5	23	94	0	98	44	3	6	44	1.47
1175099--1175285	59	3.2	56	87	7	248	43	3	7	44	1.50
1175158--1175227	35	2.0	35	94	0	122	44	4	7	44	1.51
1175099--1175285	58	3.2	58	90	4	270	43	3	7	44	1.50
1175193--1175249	23	2.5	23	91	0	87	45	5	5	43	1.49
1175216--1175318	36	2.9	36	83	0	134	44	4	7	42	1.54
1175325--1175374	11	4.4	12	76	20	54	28	0	0	72	0.86
1175324--1175375	8	7.0	7	79	18	52	28	0	0	71	0.87
1175344--1175381	18	2.1	18	85	9	51	28	0	0	71	0.87
1175324--1175381	29	2.0	30	86	3	82	29	0	0	70	0.87
1177518--1177550	16	2.1	17	88	11	52	57	0	0	42	0.98
1178294--1178343	25	2.0	25	100	0	100	36	4	16	44	1.66
1182611--1182711	32	3.2	32	73	0	103	45	24	8	20	1.80
1183598--1183837	80	2.9	83	87	6	355	40	2	11	45	1.54
1185850--1185896	22	2.1	22	92	0	76	38	2	10	48	1.50
1189255--1189283	13	2.2	13	100	0	58	72	6	0	20	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189478--1189524	3	15.7	3	95	0	85	2	34	29	34	1.70
1191558--1191629	29	2.5	29	81	14	87	62	4	1	31	1.23
1191595--1191628	17	1.9	18	88	5	52	64	5	0	29	1.17
1193965--1194018	28	1.9	28	84	0	72	50	3	9	37	1.52
1196746--1196786	21	2.0	20	86	13	57	4	24	4	65	1.32
1197326--1197376	2	25.5	2	100	0	102	50	0	0	49	1.00
1197701--1197789	29	2.9	29	78	6	79	48	5	1	44	1.33
1197701--1197789	31	2.9	29	75	12	81	48	5	1	44	1.33
1199461--1199566	31	3.4	31	84	2	124	54	9	12	23	1.66
1207050--1207089	21	1.9	21	85	10	55	35	10	2	52	1.48
1208907--1208943	20	1.9	19	89	10	58	18	24	32	24	1.97
1219070--1219203	59	2.3	59	80	6	148	34	25	14	25	1.94
1219070--1219217	19	7.6	20	78	6	135	33	25	14	27	1.94
1219070--1219217	40	3.8	39	75	11	101	33	25	14	27	1.94
1220104--1220157	24	2.2	24	93	0	90	20	18	20	40	1.91
1222399--1222434	18	2.0	18	94	0	63	55	25	2	16	1.55
1222864--1222913	25	2.0	25	96	0	91	26	8	22	44	1.80
1223300--1223336	18	2.1	18	89	0	56	32	5	10	51	1.60
1223292--1223344	24	2.2	24	86	0	70	35	3	13	47	1.61
1223605--1223691	39	2.2	39	95	0	156	47	19	14	18	1.83
1223991--1224131	61	2.2	63	83	8	171	50	17	1	31	1.54
1225506--1225578	21	3.5	21	72	7	67	20	19	34	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225506--1225605	42	2.4	42	80	6	112	23	18	34	25	1.96
1228220--1228253	18	1.9	17	88	5	50	29	0	5	64	1.17
1230670--1230703	18	1.9	17	88	5	50	29	0	5	64	1.17
1232175--1232215	20	2.1	20	90	4	66	9	19	24	46	1.80
1232477--1232571	22	4.3	22	94	0	145	24	10	40	25	1.87
1232699--1232742	20	2.2	20	95	0	79	18	18	22	40	1.91
1234567--1234631	32	2.0	32	88	5	96	40	6	1	52	1.36
1239014--1239040	2	13.5	2	100	0	54	51	0	48	0	1.00
1240071--1240095	13	1.9	13	100	0	50	56	0	8	36	1.29
1246196--1246251	17	3.4	16	85	7	58	35	0	1	62	1.06

Tables:   1   2   3   4   5   6   7   8   9