genome.fa.s8933.2.7.7.80.10.50.1000.6.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: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2862162

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1568 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)
966958--967031	29	2.5	28	77	12	69	27	6	14	51	1.68
966966--967031	29	2.3	29	82	12	82	27	7	15	50	1.71
968314--968363	18	2.8	18	84	0	64	30	22	28	20	1.98
968927--968995	31	2.2	31	82	5	86	33	15	7	43	1.75
973975--974013	19	2.1	19	95	0	69	51	15	23	10	1.73
994412--994523	44	2.5	44	86	0	152	39	8	20	31	1.83
1011306--1011345	17	2.4	16	84	12	53	57	0	2	40	1.12
1011386--1011472	45	2.0	44	82	11	106	54	0	3	42	1.17
1014094--1014131	18	2.1	18	90	0	58	47	0	0	52	1.00
1015792--1015973	91	2.0	91	97	0	346	35	20	12	31	1.90
1018967--1019025	31	1.9	31	89	0	91	44	1	8	45	1.44
1020979--1021208	114	2.0	114	100	0	460	26	25	21	26	2.00
1022154--1022291	60	2.3	60	80	7	147	33	14	16	35	1.89
1028373--1028407	6	5.8	6	86	0	52	22	0	42	34	1.54
1028377--1028407	12	2.6	12	100	0	62	22	0	41	35	1.54
1030055--1030117	25	2.5	25	73	2	63	47	3	1	47	1.27
1030837--1030879	21	2.2	19	83	8	50	51	2	0	46	1.13
1031641--1031707	27	2.5	27	100	0	134	40	13	16	29	1.87
1035043--1035273	115	2.0	116	97	2	439	48	6	13	31	1.69
1038498--1038573	25	3.0	26	90	7	120	39	21	14	25	1.91
1038943--1038986	19	2.2	20	88	8	63	31	6	6	54	1.53
1039697--1039784	32	2.8	32	92	0	131	28	31	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042113--1042187	3	25.0	3	100	0	150	66	0	33	0	0.92
1044978--1045002	13	1.9	13	100	0	50	48	4	8	40	1.51
1048366--1048410	21	2.1	21	88	8	65	42	33	2	22	1.66
1048366--1048401	14	2.6	13	87	12	54	41	36	2	19	1.66
1049235--1049397	60	2.7	60	85	4	204	31	20	4	42	1.73
1050530--1050574	20	2.2	20	84	11	56	53	0	2	44	1.13
1051505--1051574	20	3.7	20	71	23	69	25	34	17	22	1.96
1053538--1053638	50	2.0	50	98	0	193	28	5	14	50	1.67
1053809--1053847	18	2.2	18	100	0	78	33	17	23	25	1.96
1055010--1055045	7	5.1	7	86	0	54	44	2	25	27	1.68
1056240--1056268	14	2.0	15	93	6	51	13	13	13	58	1.63
1058964--1059180	30	7.2	30	82	3	213	16	28	13	41	1.86
1059013--1059202	30	6.3	29	81	9	170	14	30	14	41	1.86
1059013--1059202	60	3.2	60	85	6	233	14	30	14	41	1.86
1071650--1071692	20	2.2	20	82	0	50	32	9	13	44	1.76
1073157--1073297	72	2.0	71	82	2	174	34	13	19	33	1.90
1073859--1073897	19	2.1	19	95	0	69	15	28	12	43	1.83
1082517--1082559	20	2.2	20	82	0	50	32	9	13	44	1.76
1083989--1084083	49	1.9	49	100	0	190	36	10	20	32	1.86
1098316--1098358	20	2.2	20	82	0	50	32	9	13	44	1.76
1099768--1099862	49	1.9	49	100	0	190	36	10	20	32	1.86
1112840--1112921	40	2.0	41	97	2	157	30	9	25	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113782--1113850	28	2.4	27	77	15	77	52	7	1	39	1.38
1114152--1114289	69	2.0	69	100	0	276	40	8	11	39	1.72
1122301--1122381	28	2.8	28	75	14	76	35	16	6	41	1.73
1126707--1126735	2	14.5	2	100	0	58	48	0	0	51	1.00
1127928--1127986	29	2.0	29	86	0	91	38	8	16	35	1.80
1128148--1128186	18	2.2	18	95	4	71	33	2	12	51	1.54
1132515--1132568	2	27.5	2	92	3	92	48	0	1	50	1.11
1136179--1136349	44	3.9	45	76	6	163	42	21	12	23	1.87
1140522--1140598	40	1.9	40	83	2	100	38	22	15	23	1.92
1140981--1141082	42	2.4	43	80	4	118	35	17	17	29	1.93
1141085--1141179	41	2.3	41	80	5	104	38	16	16	27	1.91
1143446--1143477	16	2.0	16	93	0	55	50	15	3	31	1.60
1145363--1145400	15	2.4	17	82	13	53	57	2	21	18	1.52
1147979--1148102	63	2.0	63	82	6	153	27	28	25	18	1.98
1150945--1151003	18	3.0	21	80	12	70	13	15	50	20	1.77
1150966--1151003	18	2.1	18	100	0	76	15	15	50	18	1.79
1153307--1153350	23	1.9	24	82	17	58	47	4	20	27	1.69
1157923--1158832	453	2.0	453	98	0	1766	34	18	19	27	1.95
1158820--1158883	18	3.6	18	91	0	101	12	15	53	18	1.73
1165629--1165667	2	19.5	2	100	0	78	48	0	0	51	1.00
1166299--1166330	16	2.0	16	100	0	64	50	18	0	31	1.48
1167879--1167991	51	2.2	52	91	3	183	40	10	23	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173929--1173960	16	2.0	16	100	0	64	50	18	0	31	1.48
1175553--1175585	16	2.1	16	100	0	66	39	18	30	12	1.87
1175569--1175678	54	2.0	55	96	1	204	39	11	23	25	1.89
1175579--1175675	27	3.5	28	67	18	78	35	12	24	27	1.92
1175589--1175675	27	3.2	27	66	18	81	35	11	24	28	1.90
1179791--1179851	29	2.1	29	96	0	113	49	6	19	24	1.72
1179791--1179859	29	2.4	29	92	0	102	47	5	20	26	1.72
1182203--1182310	32	3.4	32	77	1	110	39	7	9	43	1.65
1182757--1182819	29	2.1	30	91	2	101	39	4	15	39	1.69
1185607--1185714	32	3.4	32	79	1	119	40	7	8	43	1.63
1186309--1186351	21	2.0	21	100	0	86	39	37	4	18	1.72
1188080--1188138	29	2.0	30	90	3	93	40	5	15	38	1.69
1192798--1192858	29	2.1	29	100	0	122	49	6	21	22	1.72
1192798--1192866	29	2.4	29	95	0	111	47	5	21	24	1.72
1195265--1195372	32	3.4	32	79	1	119	40	7	8	43	1.63
1195966--1196013	22	2.2	22	100	0	96	41	37	4	16	1.68
1197741--1197799	29	2.0	30	90	3	93	40	5	15	38	1.69
1202458--1202518	29	2.1	29	100	0	122	49	6	21	22	1.72
1202458--1202526	29	2.4	29	95	0	111	47	5	21	24	1.72
1204927--1205034	32	3.4	32	79	1	119	40	7	8	43	1.63
1205626--1205673	22	2.2	22	100	0	96	41	37	4	16	1.68
1207400--1207458	29	2.0	30	90	3	93	40	5	15	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211239--1211274	18	2.0	18	89	10	56	72	0	2	25	0.98
1216112--1216170	2	29.0	2	96	3	109	49	1	0	49	1.11
1216416--1216449	18	1.9	18	88	5	52	55	2	5	35	1.39
1219033--1219061	2	15.0	2	92	7	51	51	0	0	48	1.00
1219441--1219515	37	2.0	37	82	10	91	48	4	1	46	1.29
1224583--1224633	13	3.9	13	75	10	50	45	0	0	54	0.99
1229145--1229239	50	1.9	50	84	0	127	38	17	15	27	1.91
1232770--1232846	31	2.5	31	87	4	102	25	15	9	49	1.74
1235585--1235653	12	5.8	12	71	6	50	52	18	10	18	1.73
1235583--1235646	24	2.7	24	77	0	74	53	18	10	17	1.72
1248415--1248444	3	10.0	3	92	0	51	70	0	0	30	0.88
1249683--1249730	3	15.0	3	82	8	51	31	4	0	64	1.12
1249689--1249729	10	4.1	10	81	12	57	29	2	0	68	1.03
1249682--1249730	16	3.0	16	87	3	71	30	4	0	65	1.11
1250775--1250813	19	2.1	19	85	0	51	25	2	2	69	1.14
1251053--1251122	34	2.1	32	86	5	95	22	30	15	31	1.95
1251485--1251552	21	3.3	21	95	2	120	27	17	35	19	1.94
1251612--1251669	21	2.8	21	100	0	116	24	18	36	20	1.95
1252329--1252383	20	2.7	21	88	2	76	30	18	30	20	1.96
1252404--1252459	20	2.6	22	83	5	71	25	17	30	26	1.97
1252561--1252620	30	2.0	30	90	0	93	43	20	5	31	1.73
1252689--1252867	89	2.0	89	100	0	358	38	11	14	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253980--1254027	19	2.5	20	82	3	62	29	12	6	52	1.63
1254881--1254950	34	2.1	34	86	5	99	22	30	15	31	1.95
1255315--1255390	21	3.7	21	94	1	127	28	18	32	19	1.96
1255410--1255510	21	4.8	21	83	8	116	23	17	34	23	1.96
1255591--1255650	30	2.0	30	93	0	102	43	21	5	30	1.74
1257372--1257422	12	4.3	12	76	18	54	31	0	1	66	1.03
1257384--1257540	64	2.5	63	90	6	248	43	0	1	54	1.16
1257380--1257486	12	8.7	12	67	19	60	42	0	1	56	1.10
1257466--1257511	24	1.9	24	86	0	65	47	0	0	52	1.00
1257535--1257596	19	3.3	19	78	15	58	37	1	0	61	1.06

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14