genome.fa.s5129.2.7.7.80.10.50.1000.1.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: VEPZ01005129.1 Hibiscus syriacus cultivar Beakdansim tig00011547_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  545926

Tables:   1   2   3   

This is table  1  of  3  ( 290 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)
434--467	17	2.0	17	94	0	59	32	32	0	35	1.58
1468--1513	20	2.2	21	96	3	85	26	17	19	36	1.94
8176--8270	48	2.0	48	81	4	111	17	12	23	46	1.82
16778--16874	24	4.0	24	95	0	167	36	20	26	16	1.94
20393--20444	14	3.8	14	78	17	56	34	7	0	57	1.27
20391--20441	26	1.9	27	96	4	95	33	7	0	58	1.27
20395--20459	26	2.4	26	84	7	76	38	6	0	55	1.25
20642--20683	22	2.0	22	86	13	61	71	4	0	23	1.05
21915--21974	3	20.0	3	96	0	111	33	1	0	65	1.03
23410--23456	14	3.5	13	80	13	51	40	2	2	55	1.24
34772--34837	9	7.0	9	83	14	80	84	0	15	0	0.61
34775--34837	10	6.5	10	83	7	76	85	0	14	0	0.59
34772--34837	19	3.6	18	84	12	89	84	0	15	0	0.61
34775--34837	26	2.5	26	84	5	85	85	0	14	0	0.59
35960--36452	83	5.9	83	95	0	862	27	13	22	37	1.91
37187--38075	113	7.9	113	92	1	1464	37	13	19	30	1.89
38375--38427	3	17.7	3	96	0	97	33	1	0	64	1.05
45452--45498	7	6.7	7	100	0	94	12	0	42	44	1.42
47791--48037	123	2.0	123	98	0	476	27	11	19	40	1.87
48083--48127	23	2.0	23	86	0	63	26	24	22	26	2.00
50140--50197	30	2.0	30	86	3	82	37	6	12	43	1.69
50520--50559	20	1.9	21	85	10	55	37	32	10	20	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53627--53684	30	2.0	29	86	10	82	36	3	15	44	1.63
55070--55111	6	7.0	6	100	0	84	16	33	0	50	1.46
60638--60670	16	2.1	16	100	0	66	30	27	0	42	1.56
64912--64990	2	39.5	2	100	0	158	49	0	0	50	1.00
65313--65347	7	5.0	7	100	0	70	28	0	28	42	1.56
68880--68914	2	17.5	2	100	0	70	51	0	0	48	1.00
69568--69659	45	2.0	45	97	0	175	34	10	22	31	1.89
69714--69750	2	18.5	2	100	0	74	48	0	0	51	1.00
71571--71626	23	2.6	21	83	16	62	58	5	19	16	1.56
72046--72096	20	2.5	20	96	0	93	25	13	11	49	1.76
72740--72802	18	3.5	19	80	18	73	14	11	4	69	1.32
72740--72785	6	7.7	6	88	11	60	13	15	2	69	1.28
74437--74492	27	2.1	27	100	0	112	33	12	25	28	1.92
78068--78149	22	3.7	22	68	12	60	35	18	17	29	1.93
79268--79301	16	2.1	17	88	5	52	41	17	2	38	1.65
79983--80024	21	2.0	21	90	4	68	35	26	11	26	1.91
79981--80043	22	2.9	22	79	15	78	31	25	15	26	1.96
81490--81541	17	3.0	17	77	20	54	21	28	19	30	1.97
82473--82510	19	2.0	20	94	5	69	63	2	34	0	1.09
82883--82926	20	2.2	20	80	4	54	45	0	2	52	1.13
84265--84297	17	2.0	17	94	5	59	57	0	0	42	0.98
95676--95712	18	2.1	18	89	0	56	29	18	24	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
95902--96188	143	2.0	143	97	0	538	33	17	12	35	1.88
98932--98987	17	3.3	17	85	5	69	33	16	28	21	1.95
98939--98987	18	2.8	17	84	3	62	34	14	26	24	1.94
99598--99651	26	2.1	26	89	3	83	38	11	7	42	1.68
100377--100422	23	2.0	23	82	0	56	30	10	4	54	1.55
100426--100473	19	2.5	20	82	3	62	29	12	6	52	1.63
101927--101986	30	2.0	30	96	0	111	41	20	6	31	1.78
104964--105053	3	29.7	3	97	2	171	33	0	0	66	0.92
106280--106306	6	4.5	6	100	0	54	18	18	0	62	1.32
106320--106366	23	2.0	23	87	0	67	19	25	8	46	1.77
109936--109981	21	2.2	21	96	0	83	34	8	26	30	1.86
116571--116625	25	2.2	24	87	9	83	80	1	18	0	0.81
116572--116625	13	4.3	13	92	2	85	79	1	18	0	0.82
117750--117825	33	2.3	33	86	2	109	32	10	17	39	1.83
117745--117858	32	3.5	32	81	4	113	31	12	18	37	1.88
118694--118826	67	2.0	66	81	7	153	33	18	8	39	1.80
119552--120028	106	4.5	106	87	6	678	33	24	19	23	1.97
124128--124187	31	1.9	32	89	3	95	46	11	13	28	1.78
125331--125413	34	2.7	30	77	9	87	53	12	6	28	1.62
125523--125578	3	18.7	3	89	7	87	32	0	1	66	1.03
126942--127000	27	2.2	26	84	6	73	42	1	0	55	1.09
127644--127693	24	2.1	23	85	3	64	34	2	2	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
130980--131011	15	2.1	15	94	0	55	25	18	9	46	1.79
138303--138357	1	55.0	1	77	0	56	89	9	1	0	0.57
138303--138357	11	5.2	11	84	6	69	89	9	1	0	0.57
138303--138357	21	2.7	21	88	5	78	89	9	1	0	0.57
138304--138356	26	2.0	27	88	7	81	88	9	1	0	0.58
139505--140218	165	4.3	165	95	1	1220	27	13	21	37	1.91
139505--140218	248	2.9	246	92	2	1157	27	13	21	37	1.91
140935--141726	113	7.0	112	84	5	1040	37	13	18	30	1.89
140937--141725	228	3.5	228	96	0	1399	37	13	18	30	1.89
141691--141874	84	2.2	82	82	3	208	38	16	17	27	1.92
142039--142097	3	19.7	3	89	6	93	32	0	1	66	1.02
144678--144717	12	3.3	12	96	0	71	27	17	50	5	1.67
144932--144960	12	2.5	12	94	5	51	62	10	0	27	1.28
150011--150049	20	2.0	20	89	0	60	25	7	28	38	1.83
150017--150095	41	1.9	42	82	12	101	25	11	27	35	1.90
150650--150694	6	7.5	6	100	0	90	66	0	0	33	0.92
150713--150824	32	3.5	32	80	7	111	55	10	9	24	1.64
150752--150805	18	3.2	17	72	20	51	57	12	7	22	1.60
151871--151919	22	2.2	22	92	0	80	34	18	10	36	1.85
152083--152165	32	2.5	34	73	13	84	48	3	1	46	1.27
152115--152223	53	2.1	53	81	10	125	48	0	1	48	1.18
152264--152334	19	3.7	18	72	20	56	49	1	1	47	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
152229--152314	27	3.1	27	75	18	79	46	0	2	51	1.13
152329--152373	23	2.0	23	86	0	63	53	2	2	42	1.25
153212--153288	38	2.0	38	94	0	136	20	7	36	35	1.82
154074--154249	64	2.8	64	96	0	316	31	11	32	23	1.91
156415--156462	21	2.3	20	79	10	51	14	10	6	68	1.37
158853--158916	31	2.1	31	85	5	85	60	1	1	35	1.15
159229--159279	16	3.1	16	74	2	57	62	0	0	37	0.95
159790--159858	25	2.8	25	77	0	75	36	11	10	42	1.75
160042--160084	18	2.4	17	88	11	68	27	0	6	65	1.18
160079--160125	16	2.9	17	81	12	64	40	0	0	59	0.97
160079--160132	7	7.0	8	76	14	51	42	0	0	57	0.98
161413--161458	20	2.3	20	88	7	67	26	8	28	36	1.86
165895--165922	14	2.0	14	100	0	56	71	0	0	28	0.86
165882--165922	19	2.2	19	90	0	64	70	0	0	29	0.87
166118--166191	31	2.4	31	84	4	87	50	9	9	31	1.67
168970--169001	12	2.4	14	85	15	50	75	0	12	12	1.06
170048--170095	25	1.9	25	91	0	78	47	10	0	41	1.37
173823--173876	22	2.5	21	74	11	56	33	3	0	62	1.12
174673--174785	37	3.1	37	97	0	208	46	9	5	38	1.60
177433--177469	20	2.0	20	89	10	60	48	10	21	18	1.78
178147--178209	20	3.1	20	93	2	99	15	17	7	58	1.60
183458--183487	10	3.0	10	95	0	51	0	26	20	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
183663--183702	10	4.0	10	83	0	53	22	32	32	12	1.91
183665--183704	20	2.0	20	95	0	71	22	27	35	15	1.94
183664--183709	20	2.5	17	78	18	56	23	30	32	13	1.93
183716--183762	18	2.6	18	96	0	85	10	23	48	17	1.77
194155--194246	46	2.0	46	91	0	148	27	7	32	32	1.85
194155--194228	23	3.2	23	69	14	62	22	8	33	35	1.84
195461--195511	26	1.9	27	84	11	70	49	1	0	49	1.12
195467--195522	26	2.2	25	78	9	60	57	0	0	42	0.99
203774--203818	23	2.0	24	86	8	67	37	6	13	42	1.70
209487--209526	21	1.9	22	90	10	66	40	2	0	57	1.12

Tables:   1   2   3