genome.fa.s7882.2.7.7.80.10.50.1000.1.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: VEPZ01007882.1 Hibiscus syriacus cultivar Beakdansim tig00110260_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1274288

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 577 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)
5743--5898	82	1.9	82	100	0	312	28	17	5	47	1.71
7035--7074	20	2.0	20	90	0	62	27	27	7	37	1.84
12664--12692	12	2.3	13	94	5	51	62	0	0	37	0.96
21746--21803	23	2.7	20	75	17	62	31	18	15	34	1.93
25234--25291	24	2.4	24	76	0	62	41	17	6	34	1.76
26505--26851	55	6.3	55	83	2	414	27	18	19	34	1.95
31054--31216	90	1.8	89	93	1	281	38	11	6	44	1.66
34727--34776	20	2.5	21	78	15	61	40	14	18	28	1.89
35275--35392	57	2.1	57	84	6	150	38	4	16	39	1.69
35576--35640	24	2.8	24	85	2	87	24	21	21	32	1.98
41108--41295	57	3.3	57	81	5	227	37	4	18	39	1.71
41398--41477	23	3.4	23	71	6	72	23	23	25	27	2.00
41390--41448	23	2.5	23	77	2	64	22	25	23	28	1.99
41391--41490	47	2.1	47	81	7	114	26	25	22	27	2.00
43008--43111	35	2.9	35	82	1	136	31	17	20	30	1.95
44359--44407	23	2.1	23	84	0	62	24	36	22	16	1.94
53740--53819	21	3.8	21	75	19	60	16	25	35	23	1.95
53760--53821	20	2.9	21	85	7	72	17	25	33	22	1.96
70336--70369	12	2.8	12	86	13	52	35	0	20	44	1.52
75907--75977	21	3.4	21	86	0	70	39	19	21	19	1.93
80134--80190	5	11.6	5	81	10	73	21	1	1	75	0.98
107117--107150	17	2.0	17	88	0	50	23	5	0	70	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109827--109868	22	1.9	23	85	9	61	50	14	4	30	1.63
116183--116222	20	2.0	21	85	5	55	37	12	7	42	1.71
117273--117314	22	1.9	22	90	0	66	16	21	33	28	1.95
119045--119085	2	21.0	2	95	5	75	48	0	0	51	1.00
127110--127163	24	2.2	24	90	0	81	35	20	22	22	1.96
127321--127456	57	2.4	57	81	6	150	41	17	3	36	1.67
133566--133617	24	2.2	24	82	0	59	50	17	11	21	1.77
133586--133703	24	4.9	24	88	6	159	40	19	17	22	1.91
133589--133720	48	2.7	47	80	11	151	42	18	16	21	1.89
136153--136184	7	4.4	7	92	7	55	25	28	34	12	1.92
136154--136200	15	3.3	15	91	5	71	21	25	38	14	1.92
136184--136258	18	4.5	17	76	20	86	13	20	48	18	1.81
136176--136253	31	2.5	31	95	0	138	15	20	46	17	1.84
136161--136233	13	5.1	13	78	18	65	17	21	43	16	1.87
138414--138465	24	2.2	24	82	0	59	50	17	11	21	1.77
138434--138551	24	4.9	24	88	6	159	40	19	17	22	1.91
138437--138568	48	2.7	47	80	11	151	42	18	16	21	1.89
140998--141029	7	4.4	7	92	7	55	25	28	34	12	1.92
140999--141045	15	3.3	15	91	5	71	21	25	38	14	1.92
141029--141103	18	4.5	17	76	20	86	13	20	48	18	1.81
141021--141098	31	2.5	31	95	0	138	15	20	46	17	1.84
141006--141078	13	5.1	13	78	18	65	17	21	43	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144995--145341	55	6.3	55	84	2	423	34	19	19	27	1.96
146555--146612	24	2.4	24	76	0	62	34	6	17	41	1.76
148147--148219	2	36.5	2	100	0	146	50	0	0	49	1.00
150097--150154	23	2.7	21	75	17	64	34	15	18	31	1.93
150079--150175	42	2.3	42	81	12	101	29	16	21	31	1.95
155860--155899	21	1.9	21	100	0	80	20	22	25	32	1.98
158969--159065	42	2.3	43	78	10	110	49	1	1	48	1.14
166004--166159	82	1.9	82	100	0	312	47	5	17	28	1.71
175946--175971	5	5.2	5	100	0	52	23	57	19	0	1.40
177737--177761	3	8.3	3	100	0	50	0	0	32	68	0.90
178716--178873	42	3.8	42	81	8	166	27	22	18	31	1.97
178734--178873	42	3.4	42	84	5	169	25	21	19	34	1.96
182509--182763	43	6.0	43	78	6	232	26	21	17	34	1.95
184434--184482	20	2.5	20	83	6	55	28	18	16	36	1.92
186856--186900	2	22.5	2	81	0	54	48	0	8	42	1.34
186857--186897	6	6.8	6	97	0	64	51	0	9	39	1.35
187161--187190	15	2.1	14	93	6	51	56	20	6	16	1.62
188333--188407	26	2.9	26	80	7	82	53	2	4	40	1.34
188339--188407	25	2.7	26	82	12	81	53	2	4	39	1.36
188823--188862	19	2.1	19	90	0	62	12	5	5	77	1.09
195572--195607	16	2.1	18	90	10	58	50	0	2	47	1.15
205165--205212	20	2.4	20	89	0	69	37	12	0	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
208150--208195	24	2.0	24	95	4	85	39	21	21	17	1.93
208368--208449	40	2.0	40	95	0	146	43	18	7	30	1.77
208419--208448	15	2.0	15	93	0	51	43	16	6	33	1.74
208452--208505	15	3.5	15	75	9	54	44	22	3	29	1.70
208454--208491	17	2.2	17	90	0	58	47	23	2	26	1.65
215170--215248	25	3.3	24	82	5	97	34	24	21	20	1.97
215178--215248	25	2.9	25	87	2	99	32	25	22	19	1.98
219180--219229	20	2.5	20	96	0	91	22	14	8	56	1.64
223801--223843	19	2.3	19	95	0	77	23	32	20	23	1.98
228634--228695	23	2.8	22	81	13	74	24	32	22	20	1.98
232224--232262	20	2.0	20	89	0	60	30	33	15	20	1.94
234257--234312	29	1.9	29	85	7	78	19	8	12	58	1.60
236131--236903	84	9.3	84	75	4	620	30	23	20	26	1.98
236139--236917	165	4.7	165	76	5	687	30	23	19	25	1.98
236171--236962	250	3.2	250	86	1	1074	30	23	19	25	1.98
241591--241646	29	1.9	29	85	7	78	19	8	12	58	1.60
243506--243750	80	3.0	80	77	8	269	30	24	20	25	1.98
243507--243795	84	3.5	82	78	3	287	30	24	19	25	1.98
253401--253448	5	8.7	6	88	11	52	87	0	2	10	0.62
258522--258574	25	2.2	24	83	10	63	64	3	0	32	1.12
259693--259759	32	2.2	31	86	10	93	11	11	23	52	1.71
259662--259748	16	5.5	16	76	13	90	6	11	28	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
275521--275568	20	2.4	20	100	0	96	50	4	0	45	1.21
292185--292223	20	2.0	20	84	0	51	28	35	25	10	1.89
292570--292673	6	17.2	6	74	15	54	23	3	0	73	1.00
292572--292688	9	13.2	9	73	18	77	24	4	0	70	1.04
292572--292688	15	7.9	15	73	17	77	24	4	0	70	1.04
292896--292959	5	12.6	5	75	15	51	10	3	4	81	0.96
292894--292961	10	6.9	9	76	17	64	11	2	4	80	0.96
298090--298452	64	5.8	64	84	8	487	36	20	13	29	1.91
298327--298437	57	1.9	57	96	0	204	30	21	15	32	1.94
298803--299087	85	3.3	86	88	1	414	34	21	18	25	1.96
300759--300858	3	32.7	3	76	13	64	26	4	1	69	1.13
300757--300869	53	2.1	52	80	13	124	23	4	0	70	1.11
300819--300869	14	3.6	14	81	2	57	25	3	1	68	1.17
301008--301205	16	12.0	17	71	22	63	13	5	3	77	1.08
301020--301169	6	24.8	6	73	19	84	10	4	4	80	0.99
301029--301174	16	8.8	16	76	14	127	10	4	4	80	0.98
301009--301169	49	3.3	46	78	15	139	11	4	3	80	0.99
301009--301213	7	28.3	7	69	22	72	13	4	3	78	1.05
301011--301213	82	2.4	80	79	13	207	13	4	3	77	1.06
301009--301144	5	26.4	5	73	20	59	11	4	3	80	0.99
301002--301212	15	13.3	15	69	19	76	13	5	3	77	1.06
302477--302545	23	3.0	23	89	0	102	26	26	27	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308784--308814	2	15.5	2	100	0	62	51	48	0	0	1.00
313679--313716	20	1.9	20	88	0	58	31	18	13	36	1.89
327164--327208	22	2.0	22	82	4	54	33	33	24	8	1.86
328834--328879	24	2.0	24	82	4	58	26	26	23	23	2.00
334439--334488	9	5.6	9	83	9	57	26	2	18	54	1.54
334439--334488	18	2.8	18	84	0	64	26	2	18	54	1.54
335563--335658	38	2.5	38	87	0	138	26	20	28	25	1.99
335730--335819	30	3.0	30	86	0	126	42	11	15	31	1.82
338268--338374	16	7.4	14	71	17	76	76	4	17	0	1.01
338269--338373	13	7.3	13	71	24	61	76	4	18	0	1.02

Tables:   1   2   3   4   5