genome.fa.s8569.2.7.7.80.10.50.1000.6.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: VEPZ01008569.1 Hibiscus syriacus cultivar Beakdansim tig00111493_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1513883

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 943 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)
1008489--1008534	20	2.3	19	82	10	56	50	0	0	50	1.00
1008492--1008537	21	2.2	20	84	3	56	50	0	0	50	1.00
1008525--1008596	37	2.0	36	83	8	92	63	2	2	30	1.22
1008725--1008752	6	4.7	6	100	0	56	17	0	0	82	0.68
1008725--1008767	18	2.4	18	84	0	50	23	2	0	74	0.93
1016844--1017229	190	2.0	188	85	5	521	44	10	6	38	1.64
1019998--1020044	21	2.2	22	88	3	69	51	10	8	29	1.66
1020003--1020057	21	2.8	19	84	12	76	52	9	9	29	1.63
1021026--1021063	19	2.0	20	94	5	69	36	13	5	44	1.66
1022575--1022640	34	2.0	33	87	3	96	25	24	13	36	1.92
1023004--1023041	20	1.9	20	88	0	58	23	18	34	23	1.96
1023097--1023150	20	2.7	20	77	11	56	31	18	27	22	1.97
1025006--1025046	19	2.1	20	90	4	66	41	12	0	46	1.41
1024939--1025118	88	2.1	87	89	3	272	44	10	6	39	1.63
1025521--1025581	27	2.3	26	80	8	61	32	6	8	52	1.57
1028614--1028689	21	3.6	21	98	1	143	42	5	9	43	1.59
1037046--1037125	32	2.5	32	78	14	83	47	3	1	47	1.28
1037278--1037322	23	2.0	23	86	0	63	53	2	2	42	1.25
1037393--1037433	20	2.0	21	90	4	66	51	0	0	48	1.00
1037339--1037431	32	2.8	32	71	19	84	49	2	0	48	1.13
1037415--1037468	28	1.9	28	88	7	83	51	1	0	46	1.11
1042156--1042265	37	3.0	37	93	0	184	39	10	15	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042763--1042842	25	3.3	23	79	10	79	23	5	5	66	1.32
1042811--1042932	38	3.2	36	79	16	97	27	1	3	67	1.16
1042852--1042939	45	2.0	45	84	13	119	27	1	1	70	1.01
1042878--1042998	8	13.9	8	76	15	91	19	0	2	76	0.94
1042851--1042942	38	2.3	39	85	7	114	27	1	1	70	1.01
1042876--1042987	52	2.2	52	84	9	140	19	0	2	76	0.95
1042833--1043018	10	17.7	10	68	20	73	22	2	2	72	1.08
1042914--1043018	41	2.5	41	81	7	115	17	2	1	78	0.97
1042912--1042997	9	8.9	9	77	17	68	16	1	2	80	0.88
1042984--1043030	21	2.2	22	85	11	62	21	8	0	70	1.14
1042919--1043057	61	2.2	62	78	8	140	16	6	2	74	1.12
1046121--1046185	15	4.4	15	70	16	55	80	3	13	3	0.96
1047265--1047327	32	1.9	33	90	3	101	31	12	23	31	1.92
1047270--1047341	32	2.2	32	82	0	90	30	15	23	30	1.95
1047864--1048376	110	4.7	110	91	0	812	35	21	16	26	1.94
1048698--1050119	711	2.0	711	99	0	2817	32	24	17	26	1.97
1050223--1050330	37	2.9	37	95	0	189	41	12	12	33	1.80
1050891--1051018	46	2.9	44	75	14	120	28	2	1	67	1.12
1050902--1051090	4	48.5	4	67	17	51	24	3	1	70	1.09
1050917--1051009	41	2.3	38	78	21	102	29	2	1	67	1.09
1050905--1051075	46	3.7	43	77	14	130	24	4	1	70	1.12
1050908--1051036	12	10.9	12	65	19	58	27	2	1	68	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050997--1051123	67	1.9	67	83	6	168	17	6	2	74	1.14
1051098--1051144	20	2.3	20	85	10	60	17	6	2	74	1.12
1052063--1052123	29	2.1	30	90	3	97	47	18	18	16	1.83
1052227--1052261	18	1.9	18	100	0	70	25	11	34	28	1.91
1055512--1055573	23	2.6	23	87	7	79	48	0	0	51	1.00
1055514--1055581	21	3.1	21	83	10	66	45	0	0	54	0.99
1055523--1055588	21	3.0	22	82	8	64	45	1	0	53	1.09
1061070--1061105	12	3.0	12	95	0	63	11	5	0	83	0.80
1064301--1064379	18	4.2	19	72	20	51	34	6	31	27	1.82
1065831--1065867	19	1.9	19	88	0	56	64	2	0	32	1.07
1067431--1067495	3	22.0	3	81	9	80	61	1	0	36	1.05
1067420--1067491	12	5.9	12	82	12	85	58	1	0	40	1.07
1067621--1068344	76	9.5	76	95	0	1259	34	21	20	23	1.97
1069018--1069072	22	2.5	23	85	8	78	38	14	12	34	1.84
1071307--1071624	115	2.8	115	90	1	489	34	20	13	31	1.92
1071527--1071713	93	2.0	92	87	5	270	36	20	14	28	1.92
1076561--1076599	14	2.8	14	85	11	53	58	7	17	15	1.59
1079332--1079368	19	1.9	19	88	0	56	64	2	0	32	1.07
1080915--1080980	3	22.0	3	79	11	73	60	1	0	37	1.06
1080904--1080980	24	3.0	25	92	7	120	58	1	0	40	1.06
1087673--1087710	20	1.9	20	94	0	67	31	18	23	26	1.97
1091298--1091340	10	4.2	10	79	5	50	74	0	2	23	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091298--1091340	21	2.0	21	86	0	59	74	0	2	23	0.93
1091307--1091383	15	4.9	15	68	13	57	75	1	2	20	1.00
1091353--1091383	16	2.0	16	93	6	55	83	3	0	12	0.75
1092634--1092671	9	4.2	9	93	6	60	78	0	2	18	0.86
1092646--1092688	12	3.6	13	82	17	58	72	0	0	27	0.85
1092640--1092682	21	2.1	20	91	4	68	74	0	0	25	0.82
1092694--1092799	38	2.8	38	80	12	119	50	5	0	43	1.32
1092775--1092832	26	2.3	25	82	8	73	46	8	1	43	1.44
1092783--1092839	26	2.2	26	90	0	87	50	10	1	36	1.47
1092742--1092877	64	2.1	63	86	6	186	47	7	0	44	1.36
1092829--1092889	12	4.9	12	73	15	52	47	6	1	44	1.39
1092805--1092991	38	4.9	38	80	11	188	44	8	3	43	1.51
1092688--1092943	141	1.8	141	81	9	326	46	7	1	44	1.40
1092805--1092946	77	1.9	74	85	7	196	44	7	2	45	1.44
1092805--1092991	77	2.5	76	77	8	195	44	8	3	43	1.51
1092816--1093005	39	5.1	36	75	13	109	44	7	3	44	1.49
1093633--1093668	3	12.0	3	100	0	72	66	0	33	0	0.92
1100125--1100177	3	17.0	3	84	7	70	37	0	0	62	0.96
1100130--1100184	12	4.3	12	81	9	56	41	0	0	58	0.98
1104381--1104422	14	3.0	14	96	0	75	33	0	16	50	1.46
1105387--1105444	20	2.6	22	86	10	75	31	18	22	27	1.97
1106798--1106844	24	2.0	24	91	0	76	55	6	4	34	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109578--1109636	26	2.3	26	93	0	100	50	0	30	18	1.47
1117424--1117451	14	2.0	14	100	0	56	35	14	21	28	1.92
1117690--1117734	22	2.0	23	87	8	67	48	0	0	51	1.00
1117692--1117747	12	4.7	13	74	17	59	51	0	0	48	1.00
1117692--1117764	34	2.1	35	85	7	96	52	0	0	47	1.00
1122804--1122852	2	24.5	2	100	0	98	51	0	0	48	1.00
1124724--1124781	21	2.8	21	71	10	55	24	34	25	15	1.95
1125878--1125938	21	2.9	21	95	0	104	37	8	9	44	1.68
1125978--1126031	17	3.1	17	75	2	54	62	0	1	35	1.06
1129351--1129384	17	2.0	17	88	0	50	23	8	8	58	1.56
1130039--1130091	26	2.0	27	85	7	74	64	11	3	20	1.42
1130542--1130602	21	2.9	21	82	0	59	22	21	31	24	1.98
1131326--1131486	64	2.5	64	83	0	187	27	19	19	32	1.97
1134243--1134403	64	2.5	64	85	0	196	26	21	19	32	1.97
1137158--1137318	64	2.5	64	83	2	180	25	21	20	32	1.98
1140431--1140485	23	2.4	23	75	0	56	50	12	0	36	1.41
1142332--1142387	24	2.3	24	84	0	67	58	1	1	37	1.19
1146494--1146797	136	2.2	136	87	1	430	41	13	6	38	1.71
1146403--1146669	97	2.8	97	78	2	286	41	14	7	35	1.74
1146590--1146700	39	2.8	39	83	5	118	42	12	5	39	1.66
1146629--1146890	97	2.7	97	80	4	253	41	14	6	37	1.72
1146855--1146975	64	1.9	64	87	3	181	47	13	10	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147012--1147250	57	4.2	57	74	10	188	44	12	6	36	1.68
1147016--1147231	114	1.9	115	80	10	255	43	12	6	38	1.67
1147420--1147571	45	3.4	43	81	7	187	41	17	7	34	1.77
1147764--1147796	14	2.3	15	89	5	50	57	15	3	24	1.52
1148763--1148790	14	2.0	14	100	0	56	28	0	21	50	1.49
1148764--1148804	14	3.3	13	80	19	52	24	0	19	56	1.42
1152495--1152547	24	2.2	24	93	0	88	24	11	35	28	1.90
1154236--1154361	50	2.5	50	82	0	162	20	28	34	15	1.94
1157107--1157138	17	1.9	16	93	6	55	65	6	6	21	1.38
1157339--1157363	2	12.5	2	100	0	50	52	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8