genome.fa.s8292.2.7.7.80.10.50.1000.6.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: VEPZ01008292.1 Hibiscus syriacus cultivar Beakdansim tig00110956_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1591938

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 906 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)
1053491--1053525	18	1.9	18	94	0	61	34	28	14	22	1.93
1055452--1055664	110	2.0	104	86	8	295	43	10	8	37	1.70
1055953--1056068	51	2.3	51	89	1	171	18	31	34	15	1.92
1059127--1059157	14	2.2	14	100	0	62	12	12	6	67	1.40
1060317--1060398	15	5.5	15	88	2	121	37	7	19	35	1.80
1060317--1060398	30	2.8	30	94	1	139	37	7	19	35	1.80
1060312--1060398	45	2.0	44	93	2	147	40	6	19	33	1.78
1060381--1060450	20	3.5	20	100	0	140	40	10	15	34	1.81
1060707--1060750	22	2.0	23	86	4	63	54	0	0	45	0.99
1060711--1060767	21	2.6	22	81	10	64	52	0	0	47	1.00
1060647--1060767	54	2.3	51	77	19	133	50	0	0	47	1.12
1060956--1061071	42	2.8	42	94	0	205	44	18	18	17	1.87
1066388--1066477	30	3.0	30	91	0	144	32	22	20	25	1.98
1069042--1069089	22	2.2	22	92	0	78	29	25	16	29	1.97
1069101--1069133	15	2.2	15	100	0	66	27	33	24	15	1.95
1069741--1069810	35	2.0	35	88	5	106	21	28	31	18	1.97
1071273--1071321	21	2.3	21	85	0	71	42	24	0	32	1.55
1071329--1071373	14	3.3	14	87	6	65	46	17	0	35	1.49
1080843--1080869	2	13.5	2	100	0	54	48	0	0	51	1.00
1081768--1081814	23	2.0	24	87	4	69	29	4	0	65	1.11
1081773--1081812	11	3.3	13	83	16	50	27	5	0	67	1.11
1081768--1081823	23	2.5	24	80	11	64	32	5	0	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1081771--1081823	12	4.6	12	76	23	51	32	5	0	62	1.19
1083460--1083493	17	1.9	18	88	5	52	61	0	0	38	0.96
1090134--1090377	27	8.8	28	66	19	120	26	22	26	25	2.00
1090134--1090380	55	4.5	55	81	8	286	26	22	25	25	2.00
1090080--1090401	55	5.8	55	75	15	265	27	21	25	25	2.00
1090497--1090653	81	1.9	81	92	0	260	30	22	31	15	1.95
1098700--1098741	21	2.0	20	86	4	57	73	0	0	26	0.83
1103395--1103456	18	3.5	17	78	8	61	40	6	20	32	1.78
1104533--1104564	2	16.0	2	100	0	64	50	0	0	50	1.00
1105672--1105739	34	2.0	34	82	5	84	42	2	1	52	1.25
1105801--1105850	22	2.3	22	82	6	57	54	2	4	40	1.31
1108934--1108996	19	3.3	19	79	18	76	9	3	7	79	1.04
1108926--1108988	30	2.0	32	88	11	96	11	3	9	76	1.13
1108943--1108988	11	4.3	11	81	15	51	8	4	8	78	1.09
1108933--1108988	10	5.7	10	84	14	64	10	3	8	76	1.12
1112138--1112168	15	2.0	16	93	6	55	38	0	0	61	0.96
1122149--1122235	42	2.1	42	86	0	120	28	19	19	32	1.96
1122149--1122277	42	3.1	42	80	2	107	28	18	18	34	1.95
1122260--1122299	21	1.9	21	85	10	55	42	12	27	17	1.85
1122214--1122340	63	2.0	63	90	0	200	31	15	22	29	1.95
1122277--1122391	42	2.7	42	84	6	126	29	20	20	29	1.98
1124242--1124327	37	2.3	37	77	18	97	44	0	3	52	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124471--1124523	20	2.7	20	96	0	97	22	24	9	43	1.83
1125741--1125801	21	3.2	21	69	26	71	47	14	4	32	1.66
1125723--1125802	36	2.2	36	91	2	126	45	17	5	32	1.70
1127081--1127186	45	2.3	46	81	10	121	36	19	15	28	1.92
1127593--1127702	29	3.8	29	88	7	161	43	16	20	20	1.88
1127789--1127835	18	2.6	18	89	0	67	17	23	38	21	1.93
1134558--1134667	29	3.8	29	90	2	177	46	15	20	18	1.84
1134786--1134830	18	2.5	18	100	0	90	15	24	42	17	1.88
1139462--1139511	21	2.4	21	89	0	82	46	20	6	28	1.74
1141943--1142062	42	2.9	42	97	0	222	16	20	19	44	1.87
1142251--1142364	22	4.8	23	72	19	74	50	0	0	48	1.13
1142262--1142340	31	2.5	32	80	16	92	48	1	0	50	1.08
1142282--1142424	29	5.0	28	69	19	89	47	1	1	49	1.18
1142260--1142423	28	5.9	27	68	19	90	47	1	1	50	1.16
1142590--1142659	20	3.5	20	96	0	122	35	12	10	41	1.77
1142642--1142728	15	5.9	15	84	2	104	33	18	6	41	1.77
1142590--1142668	40	2.0	40	87	0	113	35	13	8	41	1.76
1142658--1142723	15	4.4	15	92	0	114	37	19	6	36	1.77
1142642--1142723	30	2.8	30	92	1	130	35	18	7	39	1.78
1144922--1145003	29	2.8	29	84	1	101	34	10	10	43	1.75
1149042--1149091	21	2.2	21	86	10	64	20	14	14	52	1.75
1149059--1149101	21	2.0	21	86	9	59	13	16	16	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151469--1151529	22	2.8	22	100	0	122	50	13	0	36	1.41
1151491--1152045	54	10.4	54	84	6	618	51	12	0	35	1.41
1151513--1152122	32	20.4	32	66	28	237	52	11	0	36	1.40
1151547--1151595	22	2.2	22	85	3	62	55	12	0	32	1.37
1151599--1151641	22	2.0	22	100	0	86	51	13	0	34	1.42
1151601--1151649	22	2.2	22	88	3	71	55	14	0	30	1.40
1151653--1151695	22	2.0	22	95	0	77	51	11	0	37	1.39
1151655--1151703	22	2.2	22	85	3	62	55	12	0	32	1.37
1151809--1151856	14	3.1	15	72	21	53	54	6	0	39	1.26
1151841--1151901	22	2.8	22	97	0	113	49	13	1	36	1.52
1151917--1151959	22	2.0	22	100	0	86	51	13	0	34	1.42
1151919--1151967	22	2.2	22	88	3	71	55	14	0	30	1.40
1151971--1152013	22	2.0	22	95	0	77	51	11	0	37	1.39
1151973--1152021	22	2.2	22	85	3	62	55	12	0	32	1.37
1152057--1152099	22	2.0	22	95	0	77	51	11	0	37	1.39
1152102--1152249	15	9.5	15	80	10	172	50	2	0	46	1.17
1152057--1152157	22	4.5	22	71	7	76	52	7	0	39	1.31
1151752--1152189	54	8.3	49	81	12	160	51	9	0	38	1.39
1152102--1152267	45	3.6	44	82	9	172	49	2	0	47	1.19
1159043--1159077	10	3.5	10	84	0	52	31	25	0	42	1.55
1159125--1159165	18	2.3	18	91	4	66	29	4	2	63	1.28
1161365--1161436	26	3.0	24	68	27	62	26	6	4	62	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169130--1169221	38	2.5	37	87	1	139	35	40	11	11	1.79
1169260--1169292	16	2.1	16	100	0	66	51	18	12	18	1.76
1169276--1169661	211	1.8	212	90	0	630	36	25	12	25	1.91
1169632--1169688	27	2.1	28	86	3	80	47	28	8	15	1.75
1169411--1169874	244	1.9	241	92	2	770	36	26	12	24	1.91
1186881--1187036	64	2.4	64	79	8	174	35	19	17	27	1.94
1187415--1187495	29	2.8	29	96	3	146	44	16	22	17	1.86
1194283--1194363	29	2.8	29	94	3	137	43	16	23	17	1.88
1194447--1194481	15	2.3	15	95	0	61	20	17	28	34	1.95
1197747--1197785	15	2.5	16	87	4	53	41	0	0	58	0.98
1205101--1205170	24	2.9	24	84	0	95	0	65	0	34	0.93
1205110--1205154	14	3.5	14	77	20	53	0	68	0	31	0.89
1205120--1205160	20	2.0	20	90	0	64	0	65	0	34	0.93
1205122--1205162	10	4.1	10	87	0	55	0	63	0	36	0.95
1206978--1207072	45	2.1	45	100	0	190	42	6	35	15	1.73
1208416--1208507	40	2.3	41	77	9	98	38	11	4	45	1.61
1213040--1213072	13	2.7	13	90	9	52	18	9	3	69	1.28
1213093--1213127	13	2.6	13	90	4	52	17	2	14	65	1.38
1217332--1217361	14	2.1	14	93	0	51	46	0	0	53	1.00
1221823--1221862	20	2.0	20	85	5	53	32	2	30	35	1.71
1235243--1235291	24	2.1	22	85	7	62	48	2	14	34	1.55
1235354--1235616	44	6.0	44	79	4	253	47	6	18	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240317--1240541	41	5.2	44	74	15	168	55	5	14	24	1.61
1240331--1240511	44	4.3	41	80	10	163	54	6	13	25	1.61
1240347--1240509	85	1.9	85	84	9	217	54	5	12	27	1.59
1240331--1240541	84	2.5	81	75	14	203	55	6	13	24	1.61
1240501--1240566	29	2.3	29	81	7	80	60	9	10	19	1.56
1247013--1247079	28	2.5	28	78	9	77	61	5	7	25	1.46
1260447--1260506	28	2.1	28	84	6	77	53	10	11	25	1.68
1261641--1261675	8	4.4	8	96	0	61	45	0	8	45	1.34
1262908--1262951	21	2.0	22	82	4	54	36	2	4	56	1.32
1264403--1264432	15	1.9	16	93	6	53	16	0	0	83	0.65

Tables:   1   2   3   4   5   6   7   8