genome.fa.s8226.2.7.7.80.10.50.1000.1.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: VEPZ01008226.1 Hibiscus syriacus cultivar Beakdansim tig00110860_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  835745

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 494 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)
7229--7360	21	6.3	21	83	3	122	43	21	34	0	1.58
7268--7360	21	4.4	21	88	0	123	43	21	34	1	1.60
7757--8110	43	8.2	42	79	8	347	31	23	15	29	1.95
7757--8108	129	2.7	128	84	3	438	32	23	15	28	1.95
9914--9939	12	2.2	12	100	0	52	46	7	23	23	1.78
11029--11078	20	2.5	19	75	9	55	34	14	18	34	1.90
12060--12230	80	2.2	79	77	11	190	51	2	3	42	1.31
12120--12161	22	1.9	22	95	0	75	52	0	0	47	1.00
12146--12204	26	2.4	24	81	13	75	50	5	5	38	1.46
17185--17214	14	2.1	14	93	0	51	43	16	6	33	1.74
18719--18852	60	2.2	60	80	3	155	38	5	20	35	1.75
20942--20983	21	2.0	21	85	0	57	9	35	38	16	1.81
30279--31135	428	2.0	428	98	0	1642	37	11	17	33	1.86
32476--32568	12	7.8	12	75	9	73	17	13	18	50	1.78
32476--32570	24	4.0	24	84	0	118	17	13	17	50	1.78
32462--32570	48	2.3	48	85	3	139	17	15	17	49	1.80
34652--34678	2	13.5	2	100	0	54	51	48	0	0	1.00
41609--41660	3	17.0	3	96	4	95	32	0	0	67	0.91
41609--41676	19	3.5	21	80	11	58	36	1	0	61	1.05
42946--43006	11	5.1	12	79	13	72	24	1	3	70	1.11
42945--43005	17	3.8	16	73	18	54	26	1	3	68	1.14
43080--43133	12	4.2	12	79	15	56	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43078--43143	24	2.5	26	77	18	66	37	1	0	60	1.06
43346--43384	2	20.0	2	89	5	62	48	2	0	48	1.15
46411--46447	8	4.8	8	90	6	58	21	13	10	54	1.69
53294--53370	22	3.5	22	80	3	93	33	15	14	36	1.88
54034--54271	91	2.6	92	94	1	433	23	23	18	34	1.96
54034--54271	46	5.2	46	95	1	433	23	23	18	34	1.96
54157--54383	112	2.0	112	100	0	454	23	23	19	33	1.97
54250--54291	20	2.1	20	100	0	84	28	23	19	28	1.98
54270--54873	46	13.3	46	90	2	927	23	21	19	35	1.96
54204--54337	66	2.0	66	98	0	259	24	23	19	32	1.98
54113--54426	158	2.0	154	92	2	520	24	23	18	34	1.96
54270--54873	91	6.6	92	90	2	927	23	21	19	35	1.96
55101--55163	3	21.0	3	93	0	108	34	1	0	63	1.04
56493--56546	14	4.0	13	77	17	56	24	1	3	70	1.13
56871--56921	2	26.5	2	84	7	70	50	1	0	47	1.12
58685--58737	12	4.6	12	79	9	56	20	16	16	45	1.86
59785--59852	30	2.2	31	82	7	86	76	4	2	16	1.07
59805--59839	17	1.9	18	88	11	54	74	2	2	20	1.08
66954--67157	55	3.7	55	85	3	218	29	25	16	28	1.97
68287--68406	21	5.5	22	76	16	117	5	11	0	82	0.83
68287--68402	25	4.8	24	79	13	114	6	12	0	81	0.85
68287--68407	48	2.5	47	84	11	140	5	11	0	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68308--68389	1	82.0	1	74	0	56	4	9	0	85	0.73
68287--68407	24	5.6	21	76	15	115	5	11	0	82	0.83
77995--78123	45	2.8	45	86	1	177	37	21	11	28	1.89
80609--80643	2	17.5	2	100	0	70	51	0	0	48	1.00
80773--80799	2	13.5	2	100	0	54	51	0	0	48	1.00
91566--91604	13	3.1	13	77	7	53	10	12	0	76	1.01
92530--92675	74	2.0	75	95	4	269	36	12	10	41	1.77
96632--96673	21	2.0	22	90	4	68	59	4	0	35	1.19
97864--98083	28	7.6	29	79	3	185	35	3	15	46	1.61
99011--99347	117	2.9	117	90	0	512	20	15	31	32	1.93
106079--106157	32	2.5	32	78	0	86	25	17	22	34	1.96
107264--107326	26	2.4	27	83	2	83	39	14	1	44	1.55
108888--109353	112	4.1	112	87	1	671	45	13	13	27	1.81
108888--109353	227	2.1	224	88	1	689	45	13	13	27	1.81
109224--109679	182	2.5	182	92	1	736	43	13	15	26	1.85
113025--113087	2	32.5	2	84	6	76	44	1	3	50	1.27
117261--117520	93	2.7	91	80	8	254	33	16	18	31	1.93
119041--119089	19	2.6	19	100	0	98	22	14	34	28	1.93
119447--119772	162	2.0	161	93	4	557	34	20	10	33	1.87
121780--121894	36	3.2	35	87	6	160	31	19	11	38	1.87
121929--121964	17	2.1	17	94	0	63	16	22	16	44	1.86
121862--122030	82	2.1	82	100	0	338	26	20	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121994--122286	36	8.3	36	72	10	183	25	20	13	40	1.88
121946--122283	174	1.9	174	89	1	525	25	19	13	41	1.88
122214--122272	21	3.1	20	68	27	56	25	20	15	38	1.91
123977--124026	15	3.3	15	75	25	52	34	4	4	58	1.36
124155--124214	31	1.9	31	83	6	77	15	13	0	71	1.14
124230--124268	18	2.1	19	90	4	62	15	2	7	74	1.15
124302--124427	9	13.7	9	66	20	64	11	10	3	74	1.18
124384--124435	18	2.9	17	75	11	50	9	7	1	80	0.97
124302--124435	27	4.9	27	68	19	80	11	9	2	75	1.15
130482--130522	21	2.0	21	85	9	57	31	2	0	65	1.05
134986--135017	16	2.1	16	88	11	50	43	0	0	56	0.99
135158--135195	19	2.0	19	89	0	58	42	0	0	57	0.98
135498--135550	13	4.0	13	73	4	52	43	1	3	50	1.30
139090--139137	23	2.1	23	88	0	69	35	12	18	33	1.89
139177--139845	333	2.0	335	97	0	1279	38	11	7	42	1.69
139898--139960	23	2.7	23	92	0	99	38	20	4	36	1.74
140361--140447	39	2.2	39	95	0	156	17	13	20	48	1.81
140704--140740	18	2.1	18	89	0	56	51	10	5	32	1.60
141448--141520	23	3.2	23	82	0	83	41	19	5	34	1.74
141865--141930	25	2.6	25	80	0	87	42	13	9	34	1.76
144394--145651	183	6.9	183	96	0	2282	33	16	14	35	1.89
147067--147120	3	18.0	3	84	0	72	25	33	3	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
147067--147124	12	4.8	12	93	0	80	25	32	5	36	1.78
147067--147135	18	3.8	18	86	0	75	23	33	5	37	1.79
147080--147132	12	4.4	12	92	0	70	22	33	7	35	1.83
148593--150149	197	7.9	198	98	0	2991	30	16	15	36	1.90
148593--150149	395	3.9	395	98	0	2996	30	16	15	36	1.90
150268--150316	19	2.6	19	93	0	80	57	10	2	30	1.43
152111--152171	32	1.9	32	89	0	95	22	47	0	29	1.52
152205--152269	21	3.1	21	80	6	69	15	29	15	40	1.88
154499--154541	20	2.3	18	85	14	61	20	16	11	51	1.75
154504--154550	20	2.4	19	82	10	67	19	17	10	53	1.72
157262--157287	3	8.7	3	100	0	52	69	0	30	0	0.89
158543--158584	14	3.0	14	100	0	84	50	0	0	50	1.00
179483--179554	31	2.3	31	95	0	135	36	29	4	30	1.76
180187--180236	26	1.9	26	84	8	66	32	20	26	22	1.98
184739--184796	22	2.8	22	78	19	63	48	3	3	44	1.36
185110--185134	2	12.5	2	100	0	50	48	0	0	52	1.00
186546--186590	21	2.1	22	95	4	83	46	4	8	40	1.55
186557--186599	21	2.1	21	82	4	52	48	9	4	37	1.56
189623--189650	2	14.0	2	100	0	56	50	0	0	50	1.00
190353--190411	2	29.5	2	100	0	118	49	0	0	50	1.00
195283--195376	24	4.0	23	83	2	100	31	25	22	20	1.98
205805--205867	23	3.0	21	81	6	74	15	23	34	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205805--205867	20	2.9	21	79	9	65	15	23	34	25	1.95
223279--223358	21	3.8	20	79	11	72	23	37	25	13	1.92
229955--230004	2	25.5	2	95	4	93	50	0	0	50	1.00
236641--236715	38	2.0	37	84	5	98	49	4	0	46	1.20
248182--248226	24	1.9	23	86	4	63	37	11	13	37	1.80
259513--259559	23	2.0	23	84	8	60	42	4	4	48	1.42
264233--264283	9	5.7	9	78	0	57	13	3	1	80	0.94
264233--264302	18	3.7	18	73	17	61	15	4	2	77	1.05
264226--264301	36	2.0	41	82	12	99	14	6	2	76	1.10
265577--265623	3	15.7	3	100	0	94	65	0	0	34	0.93

Tables:   1   2   3   4   5