genome.fa.s8489.2.7.7.80.10.50.1000.1.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: VEPZ01008489.1 Hibiscus syriacus cultivar Beakdansim tig00111331_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1108073

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 662 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)
2368--3174	183	4.4	183	96	1	1451	33	16	13	36	1.88
2368--3174	363	2.2	365	95	1	1467	33	16	13	36	1.88
4635--4691	9	6.3	9	83	0	60	24	33	5	36	1.78
4635--4709	12	6.2	12	87	0	87	22	33	6	37	1.80
4635--4697	6	10.5	6	84	0	72	23	33	4	38	1.76
4635--4701	24	2.8	24	90	0	107	23	32	5	37	1.79
4639--4712	6	12.3	6	82	0	67	20	33	6	39	1.79
6172--7448	198	6.5	198	97	1	2433	32	16	15	36	1.90
7571--7619	19	2.6	19	90	6	73	55	10	4	30	1.52
9405--9470	33	2.0	33	90	0	105	22	48	0	28	1.51
9504--9568	21	3.1	21	80	6	69	15	29	15	40	1.88
11793--11835	20	2.3	18	85	14	61	20	16	11	51	1.75
11798--11844	20	2.4	19	82	10	67	19	17	10	53	1.72
11966--12010	20	2.3	19	88	11	72	17	15	11	55	1.68
12077--12524	228	2.0	226	94	2	790	39	7	8	45	1.62
23835--24173	3	114.0	3	97	2	641	66	0	0	33	0.92
24845--25141	85	3.5	85	91	1	436	28	19	19	32	1.96
33316--33362	18	2.6	18	100	0	94	23	12	29	34	1.92
33867--34339	49	9.6	49	87	0	649	33	12	22	31	1.91
40385--40431	21	2.1	23	88	7	71	61	0	27	10	1.29
50444--50474	3	10.0	3	93	6	53	3	0	32	64	1.09
50925--50982	22	2.6	22	91	0	98	41	13	15	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51366--51836	49	9.6	49	88	1	678	35	11	21	31	1.90
52486--52542	27	2.1	27	86	0	78	28	14	14	43	1.83
54178--54261	30	3.2	24	77	15	69	53	0	5	40	1.25
66128--66338	42	5.1	42	69	18	147	31	22	16	29	1.96
66097--66449	122	2.8	124	86	6	451	29	22	17	30	1.97
66274--66337	22	3.0	21	68	17	60	31	23	18	26	1.98
66385--66883	215	2.3	216	86	1	678	32	20	14	33	1.92
72629--74675	683	3.0	683	96	0	3760	32	19	14	33	1.91
75676--75754	4	18.8	4	79	10	86	68	1	1	29	1.05
75684--75751	22	2.8	26	79	20	92	66	1	1	30	1.10
75688--75747	22	2.7	22	94	0	102	65	1	1	31	1.13
75676--75755	22	3.8	21	80	8	90	68	1	1	28	1.05
87462--87493	16	2.0	16	93	0	55	21	9	0	68	1.17
88712--88745	4	8.5	4	86	0	50	2	20	47	29	1.65
88715--88758	8	5.5	8	86	0	52	2	20	47	29	1.62
88715--88765	24	2.1	24	85	0	66	5	17	45	31	1.72
99921--99961	21	2.0	21	90	0	64	14	2	26	56	1.51
109609--109643	17	2.1	17	88	0	52	22	0	2	74	0.95
110055--110098	21	2.1	21	86	0	61	38	9	0	52	1.33
114578--114664	35	2.5	34	80	12	97	56	9	6	27	1.56
114898--114937	3	13.3	3	89	0	62	5	35	27	32	1.79
114888--114934	15	3.1	15	87	0	58	10	36	21	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115240--115293	27	2.0	27	85	0	72	22	18	44	14	1.86
116994--117045	8	6.1	9	73	13	56	63	1	1	32	1.16
116991--117043	16	3.2	17	84	10	65	66	1	1	30	1.13
116997--117046	17	3.0	17	91	2	75	60	4	2	34	1.27
118441--118487	22	2.1	22	84	7	60	59	0	2	38	1.09
118938--118984	25	1.9	25	86	4	69	70	6	6	17	1.30
120346--120408	33	1.9	33	87	12	94	26	0	4	68	1.10
127982--128020	21	1.9	20	84	5	51	33	28	7	30	1.85
137030--137235	103	2.0	103	100	0	412	18	25	20	35	1.95
139567--139636	27	2.6	27	100	0	140	30	14	11	44	1.80
141432--141868	196	2.2	199	80	3	479	36	19	9	34	1.84
142415--142452	2	20.0	2	89	10	62	47	0	0	52	1.00
142650--143031	190	2.0	192	98	1	750	38	13	8	39	1.74
145068--145134	25	2.6	25	73	4	71	59	5	5	28	1.45
148859--148936	41	1.9	41	94	0	138	35	6	5	52	1.49
152701--153215	112	5.0	99	79	14	564	30	12	13	44	1.80
152678--153104	211	2.0	216	88	6	650	30	12	13	42	1.82
152980--153018	21	1.9	20	89	5	60	38	10	10	41	1.73
153009--153196	91	2.1	91	87	0	268	29	13	13	44	1.81
153302--153541	70	3.4	71	90	5	369	32	12	15	39	1.85
153761--153810	23	2.2	23	92	0	82	32	18	12	38	1.87
153606--154139	158	3.3	158	92	3	827	31	13	12	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
153919--153968	23	2.2	23	92	0	82	32	18	12	38	1.87
154077--154126	23	2.2	23	88	0	73	32	16	12	40	1.84
154102--154177	36	2.1	36	92	0	125	34	9	14	42	1.78
157273--157307	14	2.4	14	95	4	61	68	0	5	25	1.11
159963--160022	23	2.6	23	81	0	66	41	6	13	38	1.70
160050--160129	23	3.5	23	82	0	88	43	7	13	35	1.73
159963--160216	110	2.3	110	88	1	366	45	10	10	33	1.73
159858--160109	87	2.9	87	91	1	407	44	10	11	33	1.75
160089--160314	87	2.6	87	89	1	337	45	11	10	32	1.75
160160--160209	23	2.2	23	81	0	55	46	12	8	34	1.70
159894--160306	197	2.1	197	91	1	659	44	10	11	33	1.75
160247--160306	23	2.6	23	86	0	84	40	10	18	31	1.84
160828--160883	24	2.4	23	80	16	71	55	3	0	41	1.17
160890--161325	200	2.2	198	87	3	617	31	15	13	39	1.86
161426--161508	30	2.7	31	80	10	82	49	1	1	48	1.16
161426--161495	30	2.3	32	82	7	83	48	1	0	50	1.09
161503--161546	14	3.1	14	81	9	54	56	2	2	38	1.24
161538--161606	24	2.9	24	79	18	81	43	0	2	53	1.15
161988--162048	32	1.9	32	86	0	86	34	18	9	37	1.83
162972--163446	237	2.0	237	97	2	902	32	8	15	44	1.75
166646--166731	35	2.5	35	84	1	111	65	12	1	20	1.33
168747--168779	16	1.9	18	88	11	52	60	3	0	36	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170077--170189	35	3.2	34	88	5	163	42	23	0	33	1.60
171233--171344	35	3.2	35	88	0	161	36	0	21	41	1.60
171847--171888	14	3.1	14	80	16	52	47	0	0	52	1.00
171953--171983	15	2.0	15	93	6	53	32	0	0	67	0.91
172723--173071	167	2.1	171	96	3	645	38	8	16	36	1.79
174887--174998	20	5.6	20	71	16	72	32	28	14	25	1.94
174967--175017	20	2.5	20	96	0	93	45	25	11	17	1.83
175552--175590	20	2.0	20	100	0	78	51	20	12	15	1.76
177037--177133	42	2.3	42	89	3	142	28	34	18	18	1.95
177248--177297	21	2.4	21	86	0	73	18	14	34	34	1.90
177667--177739	21	3.5	21	90	3	103	21	41	19	17	1.91
179017--179052	18	2.0	18	88	0	54	22	2	19	55	1.56
181310--181363	24	2.2	24	90	0	81	38	20	20	20	1.93
182277--182311	18	1.9	18	88	0	52	42	8	20	28	1.81
182317--182524	20	10.4	20	70	11	59	33	11	25	30	1.90
182308--182386	40	2.0	40	90	5	124	36	11	21	30	1.89
182408--182524	40	2.9	41	81	7	114	30	11	25	31	1.92
184316--184371	24	2.3	24	100	0	112	23	30	16	30	1.96
185400--185513	59	2.0	57	86	8	160	34	11	12	42	1.78
185767--185799	2	16.5	2	100	0	66	48	0	0	51	1.00
186218--186268	24	2.1	24	100	0	102	19	17	29	33	1.95
187633--187683	2	25.5	2	100	0	102	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
189376--189473	49	2.0	49	100	0	196	42	16	12	28	1.84
197326--197374	25	2.0	25	95	0	89	42	16	22	18	1.88
197476--197511	18	2.0	18	100	0	72	38	0	16	44	1.48
197619--197657	15	2.5	15	83	8	51	33	5	2	58	1.33
198466--198558	12	8.6	10	85	9	64	76	0	3	20	0.93
198496--198614	4	30.0	4	91	5	143	68	0	0	31	0.96
198447--198502	15	3.6	15	74	13	51	76	0	10	12	1.01
198575--198603	2	14.5	2	100	0	58	51	0	0	48	1.00
198629--198682	21	2.8	18	81	15	56	62	3	3	29	1.29
198633--198683	18	2.6	19	79	11	59	62	3	3	29	1.31

Tables:   1   2   3   4   5   6