genome.fa.s7805.2.7.7.80.10.50.1000.4.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: VEPZ01007805.1 Hibiscus syriacus cultivar Beakdansim tig00110123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2708727

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

This is table  4  of  11  ( 1278 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)
992281--992350	27	2.6	27	88	2	95	38	4	11	45	1.60
992334--992408	28	2.6	27	78	15	87	45	2	12	40	1.55
992328--992407	30	2.7	29	78	12	92	41	3	12	42	1.60
992568--992604	17	2.3	17	86	9	51	51	2	8	37	1.46
993642--993683	19	2.2	19	86	4	57	57	0	0	42	0.99
993827--993860	9	3.7	9	92	4	50	23	5	17	52	1.66
998593--998634	14	3.3	13	81	18	61	61	2	0	35	1.09
998836--999189	80	4.4	80	82	0	393	27	19	15	36	1.92
1004693--1004734	13	3.3	13	83	6	59	28	23	21	26	1.99
1004983--1005029	2	23.5	2	91	0	76	53	0	0	46	1.00
1007335--1007451	39	3.0	38	74	16	96	3	33	8	54	1.47
1018718--1018773	3	19.7	3	75	17	57	60	1	0	37	1.07
1018887--1018923	20	1.9	19	89	10	58	45	10	24	18	1.81
1019077--1019107	15	2.1	15	93	0	53	54	0	0	45	0.99
1024197--1024234	19	2.0	19	85	10	51	39	5	2	52	1.38
1026408--1026486	19	4.2	19	95	0	140	24	29	25	21	1.99
1027827--1028226	199	2.0	199	97	0	746	26	35	20	18	1.95
1029150--1029184	18	1.9	18	88	0	52	40	5	8	45	1.58
1040528--1040688	66	2.5	65	85	8	204	31	23	18	27	1.97
1046466--1046560	44	2.2	44	81	11	106	28	24	18	28	1.98
1049255--1049375	64	1.9	65	87	5	183	28	22	21	28	1.99
1050474--1050647	36	4.8	36	88	2	235	42	20	19	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050834--1050865	13	2.5	13	94	0	55	40	0	0	59	0.97
1051993--1052036	2	22.0	2	100	0	88	50	0	0	50	1.00
1052736--1052781	23	2.0	23	87	4	67	50	2	0	47	1.13
1052773--1052813	17	2.3	18	80	16	50	34	0	4	60	1.18
1053873--1053937	30	2.2	30	83	5	78	10	24	26	38	1.88
1059987--1060067	26	3.2	25	67	22	69	34	16	7	41	1.76
1060001--1060081	25	3.2	24	68	22	67	33	14	8	43	1.76
1059977--1060081	51	2.1	51	98	0	201	35	14	7	42	1.74
1060948--1061046	20	4.7	20	76	15	101	22	19	28	30	1.98
1060968--1061054	45	1.9	46	92	2	149	27	18	26	27	1.98
1061074--1061112	20	2.0	20	89	0	60	20	15	33	30	1.94
1062159--1062201	18	2.4	18	80	7	52	32	11	53	2	1.50
1069661--1069751	46	2.0	46	86	2	130	29	18	24	27	1.98
1074706--1074774	26	2.7	26	68	18	63	34	14	8	42	1.77
1074674--1074811	51	2.7	51	86	1	177	36	13	6	44	1.69
1074681--1074760	26	3.1	26	66	16	67	35	15	6	43	1.71
1074702--1074774	25	3.0	23	68	20	58	34	13	8	43	1.74
1075875--1075983	46	2.4	46	98	0	209	27	20	8	44	1.80
1083748--1083785	14	2.6	15	83	4	51	57	5	15	21	1.57
1085507--1085557	22	2.3	22	89	0	75	21	31	5	41	1.77
1085738--1086060	67	4.9	66	81	3	328	40	12	17	29	1.87
1085771--1086060	133	2.2	130	85	1	373	40	12	17	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091537--1091566	14	2.1	14	93	0	51	60	10	10	20	1.57
1092246--1092292	25	2.0	24	91	8	78	21	4	4	70	1.22
1092246--1092290	12	3.7	12	80	14	56	20	4	4	71	1.21
1093280--1093318	18	2.2	18	85	0	51	35	15	15	33	1.89
1093565--1093632	29	2.3	29	87	5	91	58	4	11	25	1.51
1093576--1093634	29	2.0	29	93	0	100	55	6	13	23	1.62
1097955--1098003	22	2.3	21	89	6	73	26	14	12	46	1.79
1099465--1099584	40	3.0	41	86	2	161	30	20	14	35	1.92
1106600--1106638	19	2.1	19	85	0	51	23	7	17	51	1.71
1109140--1109192	21	2.5	20	79	8	61	26	16	28	28	1.97
1111613--1111645	16	2.1	16	94	5	59	12	18	6	63	1.48
1111684--1111729	11	4.4	11	78	15	53	21	8	2	67	1.29
1111689--1111726	20	1.9	20	94	0	67	26	7	2	63	1.35
1116673--1116746	33	2.2	33	95	0	130	28	12	18	40	1.87
1119453--1119553	19	5.3	19	64	13	55	37	13	13	34	1.85
1119474--1119572	19	5.2	19	69	4	74	39	15	14	31	1.87
1119436--1119645	38	5.5	38	84	3	235	37	13	14	34	1.86
1119436--1119645	114	1.8	114	81	5	262	37	13	14	34	1.86
1120304--1120519	107	2.0	108	98	1	416	42	11	18	27	1.84
1121122--1121176	21	2.6	21	100	0	110	16	18	36	29	1.92
1122047--1122123	30	2.6	30	85	0	100	36	35	6	22	1.80
1130623--1130659	19	1.9	19	89	10	58	37	16	18	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131583--1131840	128	2.0	128	100	0	516	37	5	9	48	1.59
1133685--1133725	3	13.7	3	89	0	55	29	2	39	29	1.70
1133676--1133731	15	3.7	15	80	0	67	33	5	35	25	1.79
1133839--1133895	26	2.3	25	82	8	71	21	3	10	64	1.39
1133847--1133896	26	1.9	26	91	0	82	20	4	10	66	1.38
1133849--1133896	13	3.7	13	82	0	60	18	2	10	68	1.28
1138757--1138819	31	2.2	28	76	15	67	31	25	20	22	1.98
1140010--1140047	16	2.3	17	81	9	51	52	0	7	39	1.31
1140282--1140419	30	4.7	29	73	12	79	60	8	12	18	1.57
1141176--1141207	3	10.7	3	100	0	64	65	0	0	34	0.93
1141477--1142149	46	15.8	44	71	14	328	24	18	32	24	1.97
1141403--1142099	40	16.6	41	68	16	205	24	18	32	24	1.97
1141473--1141938	129	3.6	128	85	1	587	24	18	32	25	1.97
1141531--1142056	89	6.1	83	73	14	361	23	18	32	25	1.97
1141742--1142147	172	2.4	172	83	5	476	24	18	32	23	1.97
1142024--1142088	32	2.0	32	100	0	130	26	18	33	21	1.96
1142472--1142552	33	2.5	33	83	0	99	39	13	14	32	1.85
1142873--1143168	134	2.2	134	90	1	450	34	8	20	35	1.84
1142869--1143168	34	8.9	34	90	1	462	35	8	20	35	1.84
1143260--1143345	32	2.7	32	88	0	118	31	19	12	36	1.90
1144665--1144820	52	3.0	51	70	15	149	23	0	35	41	1.54
1144824--1144877	3	17.7	3	92	3	90	64	0	1	33	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148128--1148161	12	2.8	12	90	4	50	58	2	2	35	1.28
1151548--1151590	21	2.0	21	90	0	68	30	23	23	23	1.99
1155038--1155071	3	11.3	3	100	0	68	64	0	0	35	0.94
1155613--1155929	164	2.0	161	81	4	377	34	17	18	29	1.94
1155840--1155922	27	3.0	27	76	13	96	33	18	14	33	1.91
1155837--1156976	56	18.8	56	69	17	440	32	16	20	30	1.95
1155749--1156900	190	6.2	190	72	14	931	31	16	20	31	1.95
1155777--1156003	123	1.8	123	86	1	330	33	16	18	31	1.94
1155960--1157035	123	8.8	123	84	3	1300	32	16	20	30	1.95
1156396--1156477	27	3.0	27	79	15	96	35	17	15	31	1.91
1156641--1156875	29	7.9	29	69	17	135	29	16	22	31	1.96
1156598--1157035	56	7.0	63	71	18	292	32	16	21	29	1.95
1159314--1159342	2	14.5	2	100	0	58	48	0	0	51	1.00
1162180--1162231	24	2.2	24	89	0	77	19	19	23	38	1.93
1163891--1163926	18	2.0	18	88	0	54	58	0	2	38	1.13
1175214--1175238	13	1.9	13	100	0	50	8	4	24	64	1.38
1175744--1175782	6	6.5	6	100	0	78	33	51	15	0	1.44
1176281--1176325	6	7.5	6	97	0	63	0	15	57	26	1.38
1176407--1176473	20	3.3	20	91	8	102	20	22	19	37	1.95
1180871--1180945	3	25.0	3	88	0	105	40	0	0	60	0.97
1180878--1180954	15	5.6	14	77	17	81	42	0	0	57	0.99
1180966--1180998	13	2.4	14	95	5	59	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193684--1193755	9	7.9	9	82	10	76	83	0	16	0	0.65
1193692--1193754	10	6.2	10	80	10	74	84	0	15	0	0.63
1193684--1193754	19	3.7	20	82	16	80	84	0	15	0	0.62
1194078--1194114	16	2.3	16	90	9	58	32	8	5	54	1.53
1194912--1195841	85	11.0	85	96	0	1532	28	13	22	36	1.92
1194920--1195841	339	2.7	339	93	1	1575	28	13	22	36	1.91
1196633--1197181	113	4.8	113	89	2	771	37	14	19	28	1.91
1197121--1197221	40	2.4	42	90	4	152	48	9	21	19	1.78
1197007--1197334	156	2.1	153	87	1	458	40	13	20	26	1.89
1196893--1197447	269	2.1	266	89	1	842	39	13	19	27	1.90

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