genome.fa.s8727.2.7.7.80.10.50.1000.6.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: VEPZ01008727.1 Hibiscus syriacus cultivar Beakdansim tig00111794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1388410

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 846 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)
991053--991094	15	2.8	15	85	0	66	19	4	33	42	1.72
994693--995061	54	6.8	54	91	0	576	32	17	16	33	1.93
1000042--1000263	2	111.0	2	77	14	183	46	4	2	45	1.37
1002710--1002807	21	4.7	21	92	2	153	28	14	17	39	1.88
1002877--1002948	35	2.1	35	94	0	126	37	18	11	33	1.86
1005459--1005491	16	2.1	16	94	5	59	27	27	0	45	1.54
1006964--1006990	2	13.5	2	100	0	54	51	0	0	48	1.00
1009321--1009365	13	3.5	13	96	3	83	48	15	0	35	1.45
1011889--1012052	83	2.0	83	92	0	274	35	21	15	27	1.93
1012811--1012954	74	1.9	74	84	8	195	27	18	12	42	1.86
1013251--1013283	11	3.0	11	100	0	66	27	18	36	18	1.94
1014616--1014668	26	2.0	26	92	0	88	30	3	18	47	1.67
1027323--1027734	156	2.7	152	84	7	494	46	5	18	29	1.71
1030382--1030858	55	8.5	55	86	6	636	30	15	17	36	1.91
1036350--1036399	20	2.5	20	90	6	75	30	16	30	24	1.96
1036811--1037380	55	10.4	55	87	1	793	30	15	17	36	1.91
1039264--1039308	20	2.2	20	88	7	65	33	26	0	40	1.57
1043875--1043971	42	2.3	42	92	0	158	43	1	24	30	1.61
1048083--1048134	20	2.5	21	84	9	63	38	25	0	36	1.56
1053906--1053951	24	1.9	24	86	0	65	76	0	13	10	1.03
1053960--1053984	3	8.3	3	100	0	50	68	0	0	32	0.90
1054480--1054504	5	5.0	5	100	0	50	20	0	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055391--1055503	44	2.6	44	94	0	190	28	15	15	40	1.88
1055475--1055766	130	2.2	131	80	1	318	33	18	15	32	1.92
1059434--1059495	27	2.3	27	97	0	115	61	1	3	33	1.22
1059460--1059511	21	2.5	20	76	11	52	57	0	1	40	1.10
1060257--1060343	33	2.6	33	96	0	156	19	40	24	16	1.91
1060983--1061041	3	20.0	3	84	10	77	64	0	1	33	1.04
1061200--1061795	73	8.1	73	91	2	942	32	21	19	26	1.97
1061200--1061795	147	4.0	147	92	2	953	32	21	19	26	1.97
1062459--1062511	22	2.4	22	83	0	70	39	11	15	33	1.83
1062881--1063015	54	2.5	54	82	0	153	33	21	12	32	1.91
1066030--1066075	8	5.8	8	85	7	58	0	13	0	86	0.56
1066030--1066076	17	2.8	17	90	3	69	0	12	0	87	0.55
1071749--1071812	27	2.3	29	89	10	114	60	0	3	35	1.12
1073305--1073367	3	22.0	3	80	9	69	60	1	1	36	1.16
1073300--1073367	23	3.0	23	89	4	93	58	1	1	38	1.16
1073307--1073366	20	3.0	20	87	2	77	60	1	1	36	1.17
1076241--1076385	74	1.9	75	88	1	220	43	20	7	28	1.79
1078606--1078633	9	3.1	9	100	0	56	78	0	0	21	0.75
1081434--1081483	24	2.1	24	85	7	66	26	2	12	60	1.43
1081958--1081991	17	2.1	16	88	5	50	14	8	0	76	1.01
1088338--1088380	20	2.1	21	87	8	63	18	13	0	67	1.23
1088337--1088386	20	2.5	20	75	15	59	18	18	0	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091643--1091692	24	2.1	24	85	7	66	26	2	12	60	1.43
1092167--1092200	17	2.1	16	88	5	50	14	8	0	76	1.01
1093117--1093189	21	3.5	21	79	3	85	23	34	21	20	1.97
1093593--1093637	19	2.4	19	96	0	81	28	0	8	62	1.25
1093687--1093748	29	2.2	29	86	11	85	33	0	12	53	1.39
1097721--1097784	28	2.4	28	80	17	73	28	15	7	48	1.73
1097849--1097965	25	4.6	24	69	18	76	35	35	1	27	1.67
1097842--1097965	52	2.4	51	86	1	158	35	36	1	26	1.67
1099042--1099123	39	2.1	39	93	0	137	32	12	13	41	1.81
1099456--1099487	13	2.5	13	100	0	64	46	9	6	37	1.61
1099821--1099894	23	3.2	23	82	0	76	50	13	18	17	1.79
1099924--1099952	11	2.5	12	94	5	51	86	0	6	6	0.72
1104572--1104631	32	1.9	31	89	3	93	33	6	8	51	1.58
1105530--1105559	11	2.7	11	89	0	51	80	0	0	20	0.72
1105525--1105582	21	2.6	22	78	8	64	67	0	1	31	1.01
1105608--1105660	23	2.4	23	87	6	74	75	3	1	18	1.05
1106255--1106431	76	2.6	67	79	19	206	59	10	1	28	1.41
1106283--1106451	76	2.2	76	88	4	243	57	10	2	29	1.45
1113431--1113480	23	2.2	23	88	0	73	76	0	4	20	0.95
1114106--1114167	19	3.2	19	76	2	61	56	11	0	32	1.35
1114125--1114289	76	2.2	76	86	3	235	56	10	2	30	1.45
1119655--1119715	23	2.7	23	89	0	95	26	27	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121394--1121437	21	2.1	21	86	0	61	15	22	27	34	1.95
1122149--1122368	104	2.1	105	89	1	334	37	10	13	38	1.79
1124649--1124681	14	2.4	14	94	0	57	33	12	3	51	1.54
1125360--1125389	3	10.0	3	100	0	60	0	0	66	33	0.92
1127741--1127804	32	2.0	32	84	6	85	50	7	17	25	1.72
1130845--1130908	31	2.1	31	91	5	103	35	14	26	23	1.93
1131014--1131099	45	1.9	45	83	4	111	39	4	2	53	1.34
1131311--1131425	56	2.1	56	88	0	167	28	16	24	30	1.96
1131989--1132068	31	2.6	30	80	5	97	31	21	11	36	1.88
1132195--1132286	43	2.1	43	86	4	123	53	21	4	20	1.63
1134780--1134859	34	2.3	34	89	2	124	41	1	6	51	1.35
1138475--1138597	58	2.1	58	82	5	142	39	11	13	35	1.81
1139154--1139309	20	7.7	20	72	9	118	25	24	21	28	1.99
1139484--1139525	22	1.9	22	85	0	57	28	40	11	19	1.87
1139912--1140018	20	5.4	20	85	3	110	14	16	24	44	1.84
1141659--1141708	18	2.8	18	100	0	100	32	20	6	42	1.76
1141926--1141972	18	2.5	19	89	6	69	19	19	27	34	1.96
1143393--1143419	14	1.9	14	100	0	54	7	18	29	44	1.77
1144494--1144559	20	3.3	20	91	0	96	28	22	24	24	1.99
1144501--1144604	20	5.2	20	88	4	104	26	21	21	30	1.98
1144589--1144647	21	2.7	22	81	5	84	32	18	25	23	1.97
1144501--1144655	20	7.6	20	80	9	100	30	20	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147012--1147054	15	2.9	15	83	16	54	60	0	32	6	1.23
1150863--1150922	29	2.0	31	90	6	97	35	6	16	41	1.75
1150987--1151053	19	3.5	19	86	8	91	40	11	13	34	1.81
1151160--1151199	21	1.9	21	94	0	71	22	17	30	30	1.97
1151228--1151267	20	1.9	21	85	10	55	37	37	10	15	1.80
1155887--1156341	37	12.0	36	82	12	511	46	3	5	44	1.43
1155845--1156341	75	6.5	75	81	12	530	46	3	5	45	1.42
1156223--1156251	2	14.5	2	100	0	58	51	0	0	48	1.00
1156188--1156288	47	2.2	46	91	7	168	47	1	6	43	1.41
1156157--1156327	82	2.1	81	85	10	233	45	2	7	43	1.47
1156411--1156474	28	2.3	26	79	12	67	29	1	0	68	0.99
1157708--1157831	9	14.1	8	68	18	52	20	5	0	73	1.08
1157732--1157823	4	21.8	4	76	16	64	21	6	0	71	1.08
1157716--1157849	18	7.5	17	72	24	82	21	5	0	72	1.09
1157732--1157836	40	2.6	40	75	14	110	22	5	0	71	1.07
1157791--1157851	21	2.9	21	83	11	63	26	1	0	72	0.94
1157775--1157849	36	2.1	36	85	5	98	25	2	0	72	0.98
1158950--1158999	26	1.9	26	87	0	73	30	0	2	68	1.01
1163066--1163195	17	7.5	17	77	10	93	37	11	8	42	1.72
1163054--1163195	35	4.1	35	80	5	155	38	11	8	41	1.71
1163059--1163193	69	1.9	70	85	7	186	37	11	8	42	1.71
1169903--1169992	35	2.6	35	80	1	110	37	8	11	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170948--1171052	37	2.8	37	83	0	129	41	15	12	30	1.84
1171470--1171516	23	2.0	23	84	15	62	27	2	0	70	0.99
1171744--1171799	22	2.5	22	80	13	69	30	3	0	66	1.09
1171744--1171822	23	3.4	21	77	16	59	29	3	0	67	1.08
1171765--1171834	23	3.1	21	76	21	63	25	2	0	71	1.00
1171744--1171834	45	2.0	44	81	10	105	28	4	0	67	1.10
1171775--1171832	28	2.1	27	81	9	64	27	3	0	68	1.05
1171925--1171954	15	2.0	15	93	0	51	23	6	0	70	1.11
1176908--1176961	22	2.5	22	100	0	108	37	22	12	27	1.91
1177923--1179197	106	12.0	106	91	0	1967	34	25	17	22	1.96

Tables:   1   2   3   4   5   6   7   8