genome.fa.s5546.2.7.7.80.10.50.1000.5.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: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1755203

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 904 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)
879320--880001	337	2.0	339	99	0	1341	35	13	11	38	1.81
889479--890120	325	2.0	325	100	0	1284	23	20	18	36	1.95
891653--891698	20	2.3	19	85	14	58	50	8	15	26	1.73
892850--892896	19	2.5	19	92	0	76	17	40	4	38	1.69
894237--894269	13	2.5	13	90	9	50	9	0	3	87	0.63
895016--895041	2	13.0	2	100	0	52	50	0	0	50	1.00
904862--904925	31	2.0	32	90	3	103	46	23	4	25	1.71
907053--907159	43	2.5	44	81	7	121	43	29	7	18	1.77
908083--908233	51	3.0	50	83	3	178	38	7	25	29	1.82
912559--912603	15	3.0	15	96	0	81	4	48	0	46	1.22
912681--912776	48	2.0	48	100	0	192	31	25	10	33	1.89
917344--917797	230	2.0	230	86	4	648	36	7	21	35	1.81
919346--919402	12	4.8	12	82	8	71	61	0	29	8	1.26
919346--919402	24	2.4	24	88	5	89	61	0	29	8	1.26
921274--921322	19	2.7	18	84	6	62	34	0	16	48	1.46
923922--924633	200	3.6	200	88	2	1013	38	13	14	33	1.85
924322--924361	20	2.1	20	86	9	57	50	2	17	30	1.59
925068--925109	17	2.4	18	92	4	68	21	38	2	38	1.67
937077--937140	6	10.8	6	81	9	78	32	3	14	50	1.58
938195--938232	18	2.1	18	100	0	76	10	31	10	47	1.72
940917--940958	2	21.0	2	100	0	84	50	0	0	50	1.00
945761--945809	21	2.3	21	96	0	89	36	4	44	14	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
946213--946249	19	1.9	19	100	0	74	43	5	13	37	1.67
946214--946264	19	2.6	19	87	9	68	47	3	13	35	1.62
946595--946620	9	2.9	9	100	0	52	53	0	23	23	1.46
948488--948930	226	2.0	226	93	0	751	31	17	14	35	1.91
955315--955378	17	3.9	17	68	12	53	25	0	26	48	1.51
955431--955507	24	3.2	25	80	14	90	24	0	27	48	1.52
955582--955676	25	3.8	25	81	1	109	25	0	24	50	1.49
955993--956145	25	5.7	29	81	14	115	56	9	8	24	1.59
955992--956129	53	2.6	52	87	8	190	56	8	8	26	1.58
955992--956129	27	5.2	26	80	13	149	56	8	8	26	1.58
956032--956144	25	4.4	25	88	4	154	54	9	10	24	1.64
955998--956144	51	2.8	53	83	10	160	55	10	8	25	1.62
960916--960970	16	3.3	16	79	20	60	34	0	1	63	1.05
962381--962559	90	2.0	91	88	1	270	36	10	6	45	1.65
969254--969429	90	2.0	90	91	2	291	36	11	6	44	1.68
979632--979700	35	2.0	35	82	5	86	31	18	27	21	1.97
980408--980467	21	2.9	21	82	0	75	26	21	28	23	1.99
981275--981331	18	3.0	19	75	14	55	52	1	0	45	1.11
981242--981325	43	2.0	40	82	11	98	53	2	0	44	1.13
981272--981353	39	2.1	40	84	6	105	50	1	1	47	1.16
981941--981988	24	2.0	25	83	4	62	52	4	10	33	1.55
982401--982426	7	3.7	7	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982618--982671	20	2.7	20	94	0	90	42	1	5	50	1.36
983702--983750	23	2.1	23	85	7	64	55	8	4	32	1.48
984507--984562	28	2.2	25	84	15	71	48	19	17	14	1.81
984925--984961	17	2.2	17	90	0	56	21	2	21	54	1.58
988640--988748	39	2.8	38	87	5	130	45	0	14	38	1.51
989448--989797	20	17.3	20	82	8	338	25	21	18	34	1.96
989448--989786	41	8.4	41	82	7	363	24	21	18	35	1.96
990660--990713	24	2.2	24	90	0	81	18	18	20	42	1.89
993183--993275	20	4.7	20	68	13	66	36	22	18	22	1.95
993249--993375	33	3.8	33	90	0	182	48	18	20	13	1.81
993281--993340	19	3.4	19	69	21	67	48	18	20	13	1.81
994707--994773	20	3.7	19	69	20	63	11	19	20	47	1.81
994707--994770	34	1.9	34	87	3	94	10	20	21	46	1.81
995317--995410	20	4.7	20	80	2	116	22	21	17	39	1.92
995407--995473	21	3.2	21	95	0	116	34	17	29	17	1.94
996555--996611	19	3.0	19	75	10	62	28	1	19	50	1.57
1000205--1000412	36	5.7	36	74	5	132	33	12	17	36	1.88
1004005--1004029	2	12.5	2	100	0	50	48	0	0	52	1.00
1004219--1004260	16	2.6	16	81	7	50	30	9	0	59	1.29
1004674--1004709	15	2.4	15	95	0	63	19	11	27	41	1.85
1007695--1007735	20	2.0	20	95	0	73	7	14	39	39	1.74
1011680--1011714	11	3.2	11	91	0	52	54	0	2	42	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015759--1016107	46	7.7	46	94	1	587	49	10	10	29	1.70
1015759--1016107	91	3.8	92	92	1	587	49	10	10	29	1.70
1018400--1018441	21	2.0	21	86	4	59	30	30	7	30	1.84
1018515--1018595	30	2.7	30	80	1	110	37	23	17	22	1.94
1020367--1020425	19	3.1	19	75	4	57	69	0	6	23	1.12
1020367--1020416	19	2.5	20	83	6	66	70	0	8	22	1.13
1022173--1022226	27	1.9	29	88	7	85	33	11	12	42	1.79
1027366--1027392	9	3.0	9	100	0	54	22	11	11	55	1.66
1030640--1030681	15	2.7	16	81	7	50	66	2	4	26	1.23
1036568--1036617	19	2.5	20	83	6	66	68	0	8	24	1.16
1036551--1036641	24	3.5	25	74	14	60	62	0	9	27	1.26
1039845--1039900	21	2.6	22	72	8	53	23	19	28	28	1.98
1040362--1040482	59	2.1	59	93	0	206	46	10	19	23	1.81
1041393--1041421	15	1.9	15	100	0	58	20	6	10	62	1.50
1047590--1048311	81	8.9	81	84	0	897	29	21	11	37	1.89
1047590--1048311	323	2.2	323	89	1	1104	29	21	11	37	1.89
1048244--1048381	68	2.0	68	90	0	213	28	24	14	32	1.94
1048585--1048745	57	2.8	57	90	3	252	40	19	6	34	1.76
1049185--1049222	20	1.9	20	88	0	58	18	36	10	34	1.85
1051489--1051523	2	17.5	2	100	0	70	51	0	0	48	1.00
1051545--1051652	29	3.7	29	75	9	87	53	9	13	23	1.68
1052044--1052082	18	2.2	18	90	0	60	12	38	2	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055369--1055398	12	2.5	12	94	0	51	0	33	6	60	1.23
1057839--1057866	14	2.0	14	100	0	56	57	0	0	42	0.99
1057973--1058085	60	1.9	60	83	3	147	29	17	19	33	1.95
1058752--1058777	3	8.7	3	100	0	52	34	0	0	65	0.93
1066278--1066334	28	2.0	28	96	0	105	47	15	7	29	1.72
1069474--1069514	18	2.3	18	91	4	66	29	4	2	63	1.28
1071548--1071603	3	18.7	3	78	7	51	33	23	33	8	1.86
1071548--1071612	24	2.8	24	84	6	82	32	20	35	12	1.89
1077730--1077754	12	2.1	12	100	0	50	44	0	24	32	1.54
1079745--1079785	16	2.5	16	88	4	55	51	2	7	39	1.43
1085790--1085834	13	3.4	13	80	17	56	44	8	0	46	1.34
1085971--1086013	2	21.5	2	100	0	86	51	0	0	48	1.00
1087688--1087729	22	1.9	22	95	0	75	66	2	0	30	1.04
1091236--1091320	37	2.3	37	86	6	120	42	21	4	31	1.73
1095330--1095547	103	2.1	103	95	0	391	25	13	23	37	1.92
1095587--1095631	23	2.0	23	86	0	63	24	22	24	28	1.99
1100349--1100394	18	2.6	17	86	10	65	30	21	23	23	1.99
1101203--1101420	103	2.1	103	94	0	382	26	13	22	37	1.91
1101427--1101504	23	3.3	23	80	8	86	25	19	20	34	1.96
1103315--1103460	73	2.0	72	94	4	258	21	17	19	41	1.90
1103742--1103772	16	1.9	16	100	0	62	38	19	3	38	1.68
1104170--1104278	35	3.1	35	94	2	184	44	21	4	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1104217--1104277	21	3.2	21	65	29	64	42	21	4	31	1.74
1112414--1112446	15	2.2	15	94	0	57	30	15	36	18	1.91
1112418--1112446	15	1.9	15	100	0	58	31	13	34	20	1.92
1112663--1112696	10	3.2	10	91	8	50	85	0	2	11	0.71
1118057--1118109	25	2.1	25	92	0	88	37	0	15	47	1.45
1118514--1118816	101	3.0	101	91	1	502	26	18	26	28	1.98
1127255--1127293	4	10.0	4	89	10	55	23	0	0	76	0.78
1128805--1128846	10	4.1	10	77	17	50	47	2	14	35	1.57
1151237--1151326	27	3.2	29	72	12	71	12	25	1	61	1.38
1151925--1152223	151	2.0	151	92	7	500	33	21	14	31	1.93

Tables:   1   2   3   4   5   6   7   8