genome.fa.s7725.2.7.7.80.10.50.1000.6.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: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3026330

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

This is table  6  of  14  ( 1646 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)
1041027--1041556	210	2.5	206	72	15	483	39	11	16	32	1.85
1045743--1045773	11	2.8	11	95	0	53	70	3	16	9	1.26
1048073--1048123	19	2.7	18	84	6	57	58	1	7	31	1.37
1048168--1048192	2	12.5	2	100	0	50	52	0	0	48	1.00
1048247--1048303	16	3.5	16	73	9	53	64	7	8	19	1.44
1050024--1050105	3	27.0	3	81	7	94	64	3	0	31	1.11
1050617--1050679	30	2.1	30	93	0	108	39	11	6	42	1.66
1051476--1051524	22	2.2	23	85	10	66	44	0	0	55	0.99
1053958--1053998	20	2.0	20	90	0	64	26	29	9	34	1.88
1056311--1056380	37	1.9	36	88	5	106	48	11	5	34	1.63
1057043--1057991	4	237.8	4	98	0	1821	49	24	0	25	1.55
1060664--1060713	23	2.2	23	100	0	100	44	4	4	48	1.40
1060661--1060724	23	2.5	25	82	17	87	45	3	3	48	1.34
1061998--1062023	3	8.7	3	100	0	52	34	0	0	65	0.93
1062713--1062784	32	2.3	32	78	7	85	51	1	13	33	1.50
1063544--1063589	21	2.1	22	92	4	76	36	0	0	63	0.95
1064267--1064381	60	1.9	60	81	0	140	33	13	7	44	1.73
1064565--1064699	60	2.2	60	85	5	182	40	4	23	31	1.75
1064602--1064699	31	3.2	30	68	21	78	39	3	23	33	1.70
1064565--1064719	60	2.6	60	82	6	181	40	5	22	30	1.77
1069031--1069064	15	2.4	14	90	9	52	67	0	0	32	0.91
1070429--1070459	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070818--1071142	36	9.3	36	69	14	146	38	12	20	28	1.88
1070748--1071106	101	3.5	102	90	2	560	37	11	20	30	1.88
1070917--1070991	39	1.9	39	83	0	96	40	12	21	26	1.88
1071032--1071104	21	3.8	21	69	22	70	38	12	23	26	1.90
1070917--1071238	137	2.3	138	89	3	466	37	11	20	30	1.89
1071149--1071231	39	2.1	40	84	2	105	37	13	20	28	1.90
1071208--1071363	36	4.4	35	69	8	109	41	14	15	29	1.86
1071262--1071374	36	3.1	36	69	9	113	39	15	15	29	1.88
1074411--1074462	21	2.4	21	78	9	52	9	32	9	48	1.69
1076989--1077070	43	1.9	43	97	0	155	52	7	12	28	1.65
1080374--1080516	71	2.0	71	100	0	286	34	18	19	27	1.95
1091810--1091834	13	1.9	13	100	0	50	64	0	16	20	1.30
1093646--1093706	31	2.0	31	87	6	88	14	42	0	42	1.46
1094299--1094352	17	3.4	17	65	15	51	42	3	44	9	1.54
1104445--1104497	23	2.3	23	86	0	79	15	20	26	37	1.92
1104458--1104504	23	2.0	23	83	0	58	21	23	23	31	1.98
1105504--1105545	18	2.4	18	76	4	50	54	4	16	23	1.61
1108423--1108502	22	3.7	22	78	3	74	16	26	31	26	1.96
1120426--1120467	20	2.0	21	86	4	59	54	2	4	38	1.34
1120422--1120475	19	2.8	19	81	8	74	51	3	3	40	1.37
1126994--1127039	22	2.1	22	84	4	58	32	15	32	19	1.93
1135661--1135728	28	2.5	25	76	19	64	11	20	4	63	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141044--1141082	18	2.2	18	85	0	51	58	15	0	25	1.37
1143448--1143494	22	2.1	22	84	0	58	21	40	14	23	1.90
1143840--1143870	15	2.1	15	100	0	62	51	16	19	12	1.76
1143874--1143928	20	2.8	19	86	2	74	20	16	16	47	1.83
1146054--1146150	21	4.6	21	79	7	99	23	30	20	24	1.98
1146048--1146165	42	2.8	41	84	2	155	21	34	18	25	1.96
1146077--1146165	21	4.2	21	75	4	72	20	37	19	23	1.94
1147517--1147665	64	2.3	64	92	0	244	29	2	17	51	1.57
1147994--1148034	18	2.3	18	91	0	64	19	2	24	53	1.57
1149202--1149238	18	2.1	18	89	0	56	51	10	5	32	1.60
1149624--1149673	25	2.0	25	92	0	82	46	22	6	26	1.74
1152430--1152476	24	2.0	24	95	0	85	34	17	21	27	1.95
1152434--1152485	24	2.2	24	85	0	68	36	19	19	25	1.95
1153398--1153485	20	4.5	19	80	12	74	35	13	23	27	1.93
1153438--1153492	20	2.8	20	86	10	85	34	12	25	27	1.92
1153418--1153551	61	2.2	60	81	9	148	32	13	23	31	1.93
1153438--1153551	20	5.7	18	75	18	77	31	14	23	30	1.94
1159648--1159742	3	31.7	3	95	0	172	33	1	1	64	1.08
1159738--1159769	11	2.8	11	95	4	55	56	0	0	43	0.99
1159990--1160026	14	2.6	14	100	0	74	5	45	24	24	1.74
1160238--1160267	15	2.0	15	100	0	60	80	6	13	0	0.91
1161891--1161941	18	2.9	17	72	18	50	25	0	1	72	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171705--1171749	16	2.8	16	83	10	56	28	8	6	55	1.56
1172488--1173291	248	3.2	248	92	1	1306	27	13	21	37	1.91
1172488--1173291	83	9.7	83	91	2	1258	27	13	21	37	1.91
1173968--1174801	227	3.6	229	89	4	1220	36	13	19	29	1.90
1173980--1174820	343	2.5	339	89	3	1260	37	13	20	29	1.90
1174957--1175033	3	25.7	3	97	0	145	33	1	0	64	1.01
1175029--1175060	11	2.8	11	95	4	55	56	0	0	43	0.99
1183346--1183380	15	2.3	15	100	0	70	14	14	22	48	1.79
1206025--1206057	2	16.5	2	100	0	66	48	0	0	51	1.00
1212151--1212337	96	1.9	96	86	2	268	33	25	15	25	1.95
1216170--1216219	19	2.6	19	93	0	82	18	30	36	16	1.92
1216162--1216195	14	2.4	14	90	0	50	14	29	38	17	1.90
1221153--1221202	19	2.6	19	93	0	82	18	30	36	16	1.92
1221145--1221178	14	2.4	14	90	0	50	14	29	38	17	1.90
1222356--1222390	18	1.9	18	88	0	52	54	0	17	28	1.43
1233709--1233733	13	1.9	13	100	0	50	0	40	0	60	0.97
1235057--1235129	18	3.9	18	82	7	101	19	21	30	28	1.98
1235054--1235130	38	2.0	38	92	0	127	20	22	28	28	1.98
1239523--1239618	20	5.0	20	76	10	110	22	22	29	25	1.99
1239524--1239616	18	4.9	18	83	7	114	21	22	30	25	1.99
1239524--1239618	38	2.5	38	87	0	154	23	22	29	25	1.99
1241056--1241097	22	1.9	23	85	9	61	33	9	0	57	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243045--1243119	15	4.9	15	79	6	87	22	32	25	20	1.98
1243067--1243131	32	2.0	32	93	0	112	26	33	21	18	1.96
1247345--1247376	2	16.0	2	100	0	64	50	0	0	50	1.00
1247565--1247609	17	2.6	17	85	3	54	51	24	0	24	1.49
1247900--1247955	18	3.1	18	78	14	62	0	28	23	48	1.51
1247907--1247960	18	3.0	18	81	7	65	1	25	24	48	1.61
1249544--1249593	23	2.2	23	96	3	93	18	24	38	20	1.93
1249544--1249604	23	2.7	23	89	2	70	19	26	31	22	1.98
1255525--1255554	11	2.7	11	89	0	51	46	0	3	50	1.18
1256806--1256851	6	7.8	6	87	4	67	54	2	0	43	1.12
1256805--1256845	17	2.4	17	87	4	55	56	2	0	41	1.13
1257842--1257890	21	2.3	21	92	0	80	14	18	22	44	1.85
1259910--1260009	24	4.2	24	82	5	94	23	15	18	44	1.86
1260080--1260147	35	2.1	32	86	10	93	8	27	29	33	1.87
1261504--1261576	36	2.0	36	97	0	137	42	19	17	20	1.89
1269255--1269299	21	2.1	21	100	0	90	26	37	17	17	1.93
1272685--1272793	52	2.1	54	89	3	168	19	21	14	44	1.86
1280192--1280299	34	3.1	34	69	10	110	48	2	10	38	1.52
1281081--1281121	20	2.0	20	90	0	64	9	19	19	51	1.74
1281084--1281133	20	2.5	20	83	0	55	16	22	16	46	1.84
1281633--1281677	2	22.5	2	100	0	90	51	0	0	48	1.00
1281727--1281753	14	1.9	14	100	0	54	44	3	22	29	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283993--1284037	22	2.0	24	83	16	60	51	4	4	40	1.42
1286261--1287015	390	1.9	390	89	0	1179	30	22	15	31	1.95
1288322--1288375	25	2.2	25	96	0	99	44	7	29	18	1.77
1288423--1288644	39	5.7	39	84	0	248	30	11	21	36	1.88
1292306--1292418	60	1.9	60	87	3	165	42	8	6	42	1.61
1297405--1297466	27	2.3	27	83	5	81	22	4	0	72	1.03
1301139--1301282	63	2.3	63	89	2	209	31	25	18	25	1.97
1301201--1301707	104	4.9	105	88	3	729	32	26	18	22	1.97
1301201--1301707	105	4.9	104	88	4	709	32	26	18	22	1.97
1304677--1304712	13	2.8	13	88	12	56	30	0	0	69	0.89

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