genome.fa.s6607.2.7.7.80.10.50.1000.5.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: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1995858

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 925 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)
952467--952865	211	1.9	211	100	0	798	27	23	19	30	1.98
961288--961377	46	2.0	44	86	4	126	26	18	24	30	1.98
962347--962376	11	2.7	11	94	0	51	26	3	0	70	1.03
972431--972469	18	2.0	20	85	9	55	48	0	5	46	1.24
976412--976470	24	2.5	24	77	5	57	16	20	18	44	1.87
976457--976488	16	2.0	16	100	0	64	18	12	18	50	1.78
978839--978893	19	2.8	20	83	10	60	18	36	23	21	1.95
981271--981348	24	3.2	24	69	7	68	19	11	16	52	1.74
981402--981511	55	2.0	55	87	0	157	13	20	30	36	1.91
987531--987575	20	2.2	20	100	0	90	24	31	11	33	1.90
998668--998763	48	2.1	45	83	12	117	34	2	14	48	1.56
1003180--1003226	16	3.1	15	76	17	53	59	6	6	27	1.46
1008002--1008042	3	13.7	3	100	0	82	34	0	0	65	0.93
1010601--1010780	87	2.1	86	81	6	202	26	13	20	40	1.89
1010591--1011417	45	18.7	45	75	8	526	23	14	20	42	1.88
1010628--1011399	135	5.8	133	79	5	675	23	14	19	42	1.88
1012189--1012518	134	2.5	134	83	1	446	31	17	18	32	1.94
1016050--1016104	4	13.8	4	88	0	74	49	23	3	23	1.66
1016825--1017099	46	6.0	46	86	0	388	22	21	14	41	1.89
1023274--1023338	26	2.5	26	97	0	121	63	9	3	24	1.39
1023870--1024127	46	5.6	46	85	1	338	22	19	15	42	1.88
1023874--1024127	138	1.8	138	87	1	375	22	19	15	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025476--1025516	2	20.5	2	100	0	82	51	48	0	0	1.00
1025647--1025816	4	41.5	4	74	11	67	41	19	1	38	1.59
1025673--1025804	17	7.5	17	70	18	83	40	18	0	39	1.56
1025673--1025809	21	6.4	21	69	17	86	40	19	0	38	1.57
1025613--1025790	49	3.8	48	75	15	156	38	17	2	40	1.65
1025713--1025804	33	2.8	34	83	1	107	42	18	1	38	1.58
1025760--1025828	25	3.0	24	85	8	90	43	20	0	36	1.52
1025760--1025828	21	3.1	21	85	8	84	43	20	0	36	1.52
1028029--1028536	193	2.6	191	79	10	523	34	21	4	40	1.73
1030363--1030440	2	39.0	2	100	0	156	50	0	0	50	1.00
1030567--1030615	9	5.3	9	75	4	53	32	4	0	63	1.13
1030570--1030620	14	3.6	14	71	10	50	31	3	0	64	1.11
1030557--1030633	37	2.1	35	88	4	109	27	7	0	64	1.20
1047545--1047574	15	2.0	15	93	0	51	23	6	36	33	1.81
1049186--1049212	12	2.2	12	100	0	54	40	0	29	29	1.57
1050492--1050530	6	6.5	6	93	0	60	84	0	10	5	0.76
1054846--1055173	164	2.0	164	98	1	640	46	18	20	13	1.83
1059586--1059671	29	2.9	29	94	1	145	38	5	10	45	1.63
1059752--1059807	21	2.7	21	91	0	94	19	33	19	26	1.96
1062988--1063046	30	2.0	30	96	3	111	35	6	13	44	1.71
1063201--1063274	20	3.7	20	92	0	121	21	36	16	25	1.94
1066126--1066189	32	2.0	32	93	0	110	28	21	10	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069530--1069611	34	2.4	34	100	0	164	63	0	20	15	1.31
1069559--1069598	21	1.9	21	85	10	55	62	0	20	17	1.33
1077741--1077793	5	10.6	5	100	0	106	60	0	20	18	1.36
1078008--1078048	13	3.2	13	82	0	55	2	14	2	80	0.92
1081143--1081190	19	2.3	20	79	17	53	39	4	6	50	1.47
1091668--1091730	21	3.0	21	97	0	117	12	28	34	23	1.92
1095028--1095062	18	1.9	18	88	0	52	48	5	2	42	1.41
1097568--1098003	6	72.7	6	97	0	827	17	16	32	33	1.93
1098007--1098222	6	35.2	6	84	6	236	44	31	3	19	1.68
1098715--1098770	21	2.7	21	85	0	76	17	26	33	21	1.96
1102073--1102107	18	1.9	18	88	0	52	48	5	2	42	1.41
1104497--1104540	2	22.0	2	100	0	88	50	0	0	50	1.00
1104528--1104604	31	2.5	31	83	10	88	46	10	3	38	1.56
1104627--1106433	6	301.5	6	98	1	3495	16	0	33	50	1.46
1107782--1107840	29	2.0	30	83	9	77	28	6	3	61	1.38
1113225--1113295	8	9.7	7	80	17	65	77	0	21	1	0.85
1113239--1113297	8	7.4	8	86	7	66	79	0	18	1	0.81
1113224--1113296	7	9.9	7	77	14	58	78	0	20	1	0.83
1113239--1113297	16	3.7	16	82	8	75	79	0	18	1	0.81
1113885--1113946	32	1.9	32	96	0	115	43	17	19	19	1.88
1116513--1116675	76	2.2	75	79	3	175	31	18	21	28	1.97
1118492--1118536	24	1.9	23	82	13	56	53	6	26	13	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118445--1119018	113	5.0	113	85	5	658	38	14	19	27	1.91
1118801--1119095	124	2.4	122	89	5	436	40	15	19	24	1.90
1119349--1119395	3	17.0	3	83	16	57	29	0	2	68	1.02
1119345--1119395	13	4.0	13	74	20	54	29	0	1	68	1.00
1119348--1119395	19	2.6	18	86	6	60	29	0	2	68	1.01
1119350--1119394	16	2.8	16	82	0	63	28	0	2	68	1.01
1119339--1119382	23	2.0	23	91	8	74	22	0	4	72	1.02
1120673--1120731	29	2.0	30	83	9	77	28	6	3	61	1.38
1121064--1121117	20	2.8	19	81	18	67	44	1	0	53	1.11
1121628--1122756	6	191.8	6	94	5	2040	33	0	17	49	1.46
1132336--1132375	19	2.1	20	86	9	57	42	2	27	27	1.68
1146987--1147016	11	2.7	11	94	0	51	26	3	0	70	1.03
1153951--1153991	21	2.0	21	85	0	55	14	12	14	58	1.63
1156701--1156797	24	4.0	23	71	12	70	19	16	17	46	1.84
1156863--1156968	54	2.0	54	82	0	131	13	19	30	36	1.90
1161312--1161469	60	3.0	48	73	21	129	18	13	18	48	1.81
1161334--1161458	12	10.4	12	67	8	58	19	16	17	47	1.83
1161324--1161446	60	2.0	60	100	0	246	18	14	18	47	1.82
1161377--1161466	24	3.8	24	75	0	90	18	14	17	48	1.81
1161532--1161641	55	2.0	55	87	0	157	13	18	30	38	1.89
1163304--1163686	191	2.0	191	98	1	750	27	22	18	31	1.97
1166554--1166591	17	2.2	17	100	0	76	26	13	31	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171778--1171818	14	3.0	14	83	13	50	65	0	29	4	1.13
1171796--1171837	7	5.7	7	83	10	57	71	0	26	2	0.98
1176121--1176219	23	4.4	23	69	11	71	16	19	26	38	1.92
1185605--1185633	3	9.7	3	100	0	58	34	65	0	0	0.93
1187330--1187492	65	2.5	66	78	12	176	26	16	25	31	1.97
1193636--1193812	90	2.0	89	93	1	300	44	6	11	37	1.67
1200284--1200447	90	1.8	89	93	1	283	46	6	12	35	1.66
1202614--1202640	8	3.4	8	100	0	54	37	40	11	11	1.76
1222450--1223282	45	18.8	45	76	8	363	23	14	19	41	1.89
1222450--1223277	90	9.3	90	74	9	492	23	14	19	41	1.89
1222455--1223282	135	6.2	131	79	6	658	23	14	19	41	1.89
1224045--1224369	134	2.4	134	84	1	418	30	18	18	33	1.95
1227978--1228252	46	6.0	46	85	5	376	21	21	14	41	1.89
1234910--1235186	46	6.0	46	88	0	403	20	19	16	43	1.88
1236539--1236569	4	7.8	4	92	0	53	45	25	3	25	1.69
1236539--1236602	12	5.3	12	78	0	56	40	20	10	28	1.86
1236592--1236686	29	3.4	27	81	11	104	38	21	2	37	1.65
1236587--1236681	25	3.6	25	79	10	91	38	21	2	37	1.65
1236711--1236756	17	2.8	17	80	12	51	43	0	23	32	1.54
1236826--1236856	2	15.5	2	100	0	62	51	48	0	0	1.00
1236880--1236986	28	3.4	32	82	13	125	38	20	0	40	1.59
1236885--1236956	28	2.6	28	97	0	135	36	20	0	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236976--1237029	21	2.6	21	84	0	72	44	14	0	40	1.46
1236950--1237017	25	2.7	25	76	0	73	44	19	1	35	1.60
1236950--1237028	25	3.3	23	70	13	54	44	18	1	35	1.59
1238830--1240846	586	3.4	588	98	0	3916	31	15	19	33	1.93
1241425--1241518	38	2.4	38	81	8	118	46	15	1	36	1.54
1241497--1241578	4	20.5	4	73	9	51	47	18	3	30	1.66
1241492--1241527	16	2.2	16	90	0	54	47	13	0	38	1.44
1241656--1241693	4	9.5	4	94	0	67	73	0	0	26	0.83
1242146--1242499	194	1.8	196	83	9	472	33	22	4	39	1.75
1242044--1242617	198	2.9	192	75	12	475	34	21	4	40	1.73

Tables:   1   2   3   4   5   6   7   8