genome.fa.s8423.2.7.7.80.10.50.1000.6.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: VEPZ01008423.1 Hibiscus syriacus cultivar Beakdansim tig00111206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633377

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 890 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)
1058086--1058253	60	2.8	61	79	2	187	45	6	15	32	1.72
1059573--1059681	47	2.3	47	100	0	218	42	10	10	37	1.72
1060433--1060627	29	6.6	29	79	10	177	36	8	1	53	1.40
1060414--1060639	59	3.8	58	80	8	224	37	9	1	52	1.42
1060638--1060804	57	2.9	56	83	12	194	54	1	8	34	1.42
1060657--1060804	30	5.1	29	72	11	115	53	1	8	36	1.41
1060627--1060812	59	3.2	54	78	14	151	53	2	8	36	1.44
1060675--1060821	29	5.1	28	73	19	88	55	0	8	35	1.34
1060646--1060822	30	6.1	28	71	15	92	55	1	8	34	1.40
1063849--1063908	32	1.9	32	83	12	81	33	0	5	61	1.17
1063871--1063915	23	1.9	24	86	13	67	35	0	4	60	1.17
1063871--1063915	24	1.9	23	82	13	56	35	0	4	60	1.17
1064065--1064112	26	1.9	25	84	16	64	35	0	4	60	1.16
1071132--1071189	28	2.0	29	81	15	68	27	13	6	51	1.66
1071292--1071566	109	2.5	110	80	4	306	26	22	16	34	1.95
1071697--1071733	14	2.6	14	95	0	65	29	18	2	48	1.62
1074590--1074749	65	2.5	65	84	5	200	26	17	25	31	1.97
1074590--1074799	65	3.3	63	79	12	187	25	17	25	31	1.97
1077436--1077515	22	3.6	22	77	5	90	23	23	26	26	2.00
1077437--1077515	21	3.6	22	79	5	88	24	24	25	26	2.00
1077440--1077534	44	2.2	44	83	7	115	24	22	25	28	1.99
1081272--1081314	21	2.0	21	82	13	52	34	11	4	48	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083233--1083411	64	2.8	63	78	11	177	27	18	22	30	1.98
1091274--1091350	26	3.0	26	90	0	118	35	29	12	22	1.91
1093367--1093409	22	2.0	22	100	0	86	37	4	13	44	1.65
1098887--1098967	26	3.1	26	92	1	135	28	33	20	17	1.95
1099840--1099908	31	2.3	31	85	7	88	36	21	7	34	1.81
1104621--1104661	13	3.1	13	89	3	64	26	14	7	51	1.69
1104622--1104677	27	2.0	28	83	10	71	28	16	8	46	1.77
1115777--1115833	29	1.9	30	89	3	89	19	19	7	54	1.66
1117705--1117787	5	16.2	5	74	18	73	77	0	18	4	0.95
1117703--1117801	29	3.4	29	78	14	91	75	1	19	4	1.01
1117727--1117801	6	12.7	6	76	16	68	77	1	18	2	0.96
1117705--1117799	33	3.0	33	82	13	96	75	1	18	4	1.02
1117756--1117786	16	1.9	16	93	0	53	80	0	16	3	0.83
1117717--1117801	17	4.8	18	73	24	67	76	1	18	3	1.00
1122359--1122447	32	2.8	32	84	3	108	29	12	22	35	1.91
1122993--1123148	85	1.8	85	83	0	204	32	19	18	28	1.96
1123098--1123467	201	1.8	201	88	3	575	31	16	22	29	1.96
1123073--1123518	201	2.2	201	83	3	558	32	16	20	29	1.95
1123073--1123573	201	2.5	201	81	2	479	33	17	19	29	1.95
1132665--1132704	21	1.9	21	90	10	64	52	0	10	37	1.35
1136516--1136577	23	2.9	20	83	11	63	20	37	24	17	1.94
1136527--1136577	23	2.3	23	86	6	79	17	41	21	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136559--1136598	21	1.9	21	89	0	62	25	40	25	10	1.86
1139159--1139202	23	2.0	23	81	4	54	52	9	2	36	1.46
1139627--1139663	18	2.1	18	94	0	65	29	16	2	51	1.58
1148007--1148109	31	3.3	30	75	12	93	44	10	4	39	1.60
1150066--1150099	15	2.2	16	89	5	52	55	11	5	26	1.58
1150431--1150488	31	2.0	31	83	16	79	75	8	0	15	1.02
1150452--1150477	9	2.9	9	100	0	52	69	11	0	19	1.18
1150420--1150488	13	5.2	13	70	13	50	75	8	0	15	1.04
1150893--1150928	2	18.0	2	100	0	72	50	0	0	50	1.00
1159889--1159964	3	26.0	3	94	5	138	32	0	0	67	0.91
1159988--1160033	21	2.2	21	100	0	92	41	32	8	17	1.80
1169684--1169792	55	2.0	55	87	0	155	38	11	22	28	1.88
1175397--1175466	34	2.1	32	84	5	86	22	28	14	34	1.93
1175936--1175980	23	1.9	23	90	4	72	11	24	44	20	1.83
1178951--1179020	34	2.1	32	86	5	95	24	27	15	32	1.95
1179304--1179345	21	2.0	21	90	0	66	30	26	16	26	1.97
1180526--1180611	23	3.8	23	85	3	102	22	31	25	20	1.98
1180538--1180611	23	3.3	22	90	5	112	20	33	24	21	1.97
1184222--1184276	20	2.7	20	91	5	83	32	14	14	38	1.87
1184916--1185092	45	3.9	47	85	4	254	27	22	20	29	1.98
1184910--1185092	92	2.0	92	93	0	312	27	22	20	29	1.98
1185100--1185258	45	3.5	45	84	1	201	25	23	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184977--1185203	121	1.9	122	87	1	339	25	22	20	32	1.98
1184932--1185435	166	3.0	166	90	1	776	25	21	19	32	1.97
1185150--1185377	121	1.9	119	84	3	305	25	21	18	33	1.96
1185271--1185414	45	3.2	44	85	3	164	27	20	17	34	1.95
1185648--1185699	3	18.0	3	92	7	90	32	0	0	67	0.91
1185648--1185699	23	2.3	23	96	0	95	32	0	0	67	0.91
1190051--1190114	7	9.0	7	75	3	56	20	4	0	75	0.99
1193139--1193181	15	2.9	15	83	10	54	81	4	9	4	0.97
1193130--1193194	34	1.9	34	84	12	89	80	4	12	3	0.99
1194780--1194882	44	2.3	44	98	0	197	31	28	20	20	1.97
1194684--1194831	77	1.9	77	84	5	201	27	26	21	25	1.99
1194904--1195343	201	2.2	201	85	0	585	33	17	20	27	1.95
1195769--1195946	65	2.7	65	89	4	270	39	20	16	24	1.92
1197232--1197272	18	2.3	18	91	0	64	14	0	0	85	0.60
1197241--1197272	10	3.4	10	91	8	50	9	0	0	90	0.45
1202565--1202600	18	2.1	17	89	5	54	27	0	0	72	0.85
1203484--1203568	20	4.0	20	68	24	57	44	3	5	45	1.45
1203531--1203703	90	1.9	89	90	5	278	45	5	10	38	1.62
1214332--1214568	118	2.0	118	98	0	456	33	24	11	31	1.90
1218976--1219117	45	3.2	45	91	0	239	20	21	11	46	1.82
1227295--1227486	45	4.3	45	87	2	278	25	21	9	43	1.83
1227295--1227486	89	2.1	90	93	1	323	25	21	9	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227403--1227470	21	3.1	21	67	19	57	25	23	8	42	1.82
1227412--1227484	24	3.2	23	68	18	62	27	20	8	43	1.80
1234410--1234443	6	6.0	6	93	6	54	82	0	0	17	0.67
1234412--1234442	16	1.9	16	100	0	62	83	0	0	16	0.64
1243174--1243210	6	6.2	6	96	0	65	81	2	0	16	0.81
1245545--1245576	11	2.9	11	100	0	64	84	6	0	9	0.78
1248768--1248851	21	4.0	21	80	9	109	40	25	15	19	1.90
1249005--1249052	22	2.2	22	92	0	78	25	43	10	20	1.83
1249429--1249502	20	3.8	20	74	3	78	17	17	22	41	1.89
1249440--1249531	39	2.3	40	90	1	141	14	15	23	46	1.82
1249494--1249536	20	2.2	20	91	0	68	16	13	18	51	1.77
1251073--1251103	12	2.6	12	89	0	53	38	22	19	19	1.93
1254814--1254855	22	2.0	22	82	13	54	2	9	7	80	0.97
1265394--1265428	15	2.4	14	90	4	52	68	0	8	22	1.16
1270138--1270233	33	2.9	33	89	4	140	25	15	20	38	1.92
1272261--1272312	25	2.1	25	85	7	70	23	26	11	38	1.89
1276331--1276363	16	2.0	17	94	5	59	42	18	0	39	1.50
1279589--1279625	16	2.2	17	90	4	58	67	8	0	24	1.17
1286009--1286041	17	1.9	17	93	0	57	39	0	30	30	1.57
1288066--1288116	22	2.3	22	93	0	84	25	19	23	31	1.98
1290831--1290922	14	6.3	15	70	16	68	36	11	0	51	1.39
1290843--1290896	22	2.5	22	84	0	63	35	14	0	50	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291008--1291053	24	1.9	24	86	8	67	50	0	13	36	1.41
1290940--1292536	570	2.9	559	87	6	2275	48	6	12	33	1.66
1292483--1292533	20	2.5	20	78	15	59	45	1	9	43	1.48
1292524--1292656	26	5.4	25	75	15	107	51	2	9	37	1.46
1292543--1292669	7	19.0	7	73	11	72	51	2	9	37	1.47
1292589--1292662	13	5.8	13	76	12	57	51	1	8	39	1.40
1292573--1292673	33	2.9	34	81	11	116	50	1	7	39	1.43
1292597--1292673	11	6.8	12	74	21	60	51	1	7	38	1.39
1292692--1292779	13	6.4	14	74	18	53	54	2	6	36	1.40
1292746--1292852	8	14.5	8	74	22	69	53	1	8	36	1.42

Tables:   1   2   3   4   5   6   7   8