genome.fa.s8466.2.7.7.80.10.50.1000.1.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: VEPZ01008466.1 Hibiscus syriacus cultivar Beakdansim tig00111280_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  685270

Tables:   1   2   3   4   

This is table  1  of  4  ( 439 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)
3688--3717	15	2.0	15	100	0	60	13	46	26	13	1.80
8434--8494	27	2.3	27	82	0	68	32	13	11	42	1.79
9122--9190	33	2.1	33	100	0	138	53	11	14	20	1.71
20524--20593	31	2.3	31	82	5	79	41	5	10	42	1.62
22615--22831	53	4.2	53	87	2	316	35	11	19	33	1.89
24978--25032	12	4.6	12	83	0	74	10	14	49	25	1.76
25092--25130	2	20.0	2	94	5	71	48	0	0	51	1.00
25144--25180	12	3.0	12	92	4	56	10	16	54	18	1.71
27585--27652	32	2.1	32	94	0	118	44	17	11	26	1.83
40778--40802	13	1.9	13	100	0	50	52	8	0	40	1.31
41191--41289	13	7.1	14	70	17	64	68	1	3	27	1.10
41189--41248	28	2.2	26	79	5	66	66	1	1	30	1.11
41257--41306	18	2.7	19	78	6	57	76	2	2	20	0.99
41273--41343	31	2.5	29	75	22	71	73	1	4	21	1.08
41385--41427	18	2.4	18	92	0	68	72	0	6	20	1.08
42294--42336	4	10.2	4	80	9	50	72	0	6	20	1.08
42511--42546	14	2.8	12	84	15	54	30	8	5	55	1.52
43021--43056	2	18.0	2	94	0	63	47	0	0	52	1.00
43353--43391	2	19.5	2	100	0	78	48	0	0	51	1.00
44651--44720	30	2.4	29	86	9	97	72	1	4	21	1.09
44656--44723	24	2.8	23	75	18	66	75	1	4	19	1.06
45387--45453	3	22.3	3	88	11	102	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46374--46682	123	2.5	124	87	2	444	25	15	24	34	1.94
46638--46744	34	3.2	34	68	15	105	22	16	26	34	1.95
46590--46871	66	4.4	66	73	13	266	24	17	24	34	1.96
46474--46871	189	2.1	189	90	2	622	24	16	24	34	1.95
46377--46995	313	2.0	313	88	1	929	25	16	24	34	1.95
46656--47384	124	5.9	124	90	0	1131	26	16	23	33	1.96
46656--47384	371	2.0	370	91	0	1181	26	16	23	33	1.96
46656--47387	247	3.0	247	89	2	1139	26	16	23	33	1.96
51321--51371	17	3.2	15	78	13	57	60	1	0	37	1.08
51408--51467	15	4.0	14	79	14	66	73	1	5	20	1.11
51411--51469	25	2.4	24	83	8	66	74	1	5	18	1.09
52138--52189	3	17.3	3	88	11	72	71	0	0	28	0.87
53053--53082	2	15.0	2	100	0	60	50	0	0	50	1.00
56823--56904	23	3.6	22	78	8	94	24	26	24	24	2.00
59536--59574	20	2.0	20	94	0	69	30	35	15	17	1.91
59587--59747	65	2.5	65	86	1	234	29	23	14	31	1.95
66408--66476	23	3.0	23	75	8	77	34	24	24	15	1.95
67984--68072	23	3.9	23	86	0	115	19	26	23	30	1.98
74197--74238	2	20.5	2	95	4	75	50	0	2	47	1.14
74760--74788	2	15.0	2	92	7	51	51	0	0	48	1.00
76435--76522	26	3.3	26	68	13	72	53	14	10	21	1.70
78847--78914	32	2.1	32	94	0	118	44	17	11	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80575--80648	37	2.0	37	94	0	130	31	13	21	33	1.92
83134--83237	45	2.3	45	95	1	183	21	18	19	41	1.91
83794--83878	44	1.9	44	85	0	116	20	21	15	43	1.88
94038--94096	31	1.9	31	85	0	82	67	1	1	28	1.10
94059--94110	28	1.9	26	84	7	68	67	0	1	30	1.02
94187--94245	30	1.9	31	83	13	77	76	1	5	16	1.05
94334--94376	18	2.4	18	88	0	59	72	0	9	18	1.11
95267--95305	20	1.9	21	89	5	62	53	2	5	38	1.37
95301--95378	34	2.3	34	82	8	88	44	8	3	42	1.54
95453--95488	14	2.8	12	84	15	54	30	8	5	55	1.52
95964--96016	2	26.5	2	100	0	106	50	0	0	49	1.00
97538--97588	25	2.1	24	88	3	75	62	3	1	31	1.24
97611--97680	30	2.4	29	86	9	97	72	1	4	21	1.09
97616--97682	24	2.7	23	76	19	64	74	1	4	19	1.07
97618--97681	29	2.1	30	85	5	94	75	1	4	18	1.06
98350--98393	9	4.7	10	82	17	51	72	0	0	27	0.85
98349--98393	16	2.8	16	81	18	58	73	0	0	26	0.84
98350--98393	19	2.4	19	88	11	65	72	0	0	27	0.85
99318--99621	123	2.5	124	87	0	439	26	15	24	33	1.95
99529--99687	66	2.4	66	89	4	250	25	16	23	34	1.95
99413--99804	189	2.1	189	89	0	606	26	16	23	33	1.96
99318--99934	313	2.0	313	87	1	898	25	16	23	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
99595--100326	247	3.0	248	90	1	1141	26	16	24	32	1.96
99595--100360	124	6.2	124	89	1	1119	26	16	24	33	1.96
99595--100362	371	2.1	369	88	2	1121	26	16	24	33	1.96
104328--104353	11	2.4	11	100	0	52	73	0	0	26	0.84
104328--104386	29	2.1	27	87	6	82	66	3	0	30	1.08
104422--104478	14	3.9	14	78	19	62	71	1	5	21	1.14
104425--104482	24	2.4	26	80	13	70	72	1	5	20	1.13
105154--105195	3	13.3	3	90	9	50	71	0	0	28	0.86
105153--105192	21	2.0	20	95	5	71	72	0	0	27	0.85
106133--106170	20	1.9	20	100	0	76	50	18	5	26	1.68
108835--108904	24	2.9	24	89	0	113	32	18	15	32	1.93
109642--109695	24	2.2	24	96	0	99	18	0	20	61	1.35
114688--114732	16	2.8	16	83	9	56	51	4	0	44	1.21
120326--120363	20	1.9	20	88	0	58	31	36	13	18	1.89
120344--120533	64	3.0	64	83	6	188	31	23	16	29	1.96
120375--120537	65	2.5	65	90	1	265	30	23	16	30	1.96
126218--126300	23	3.7	23	74	11	82	25	27	22	24	2.00
128928--128966	20	2.0	20	89	0	60	30	33	15	20	1.94
135949--136047	23	4.5	22	71	13	69	35	26	21	17	1.95
135993--136055	23	2.7	23	72	0	63	38	23	23	14	1.92
137540--137624	23	3.7	23	84	3	109	16	23	27	32	1.96
137542--137654	23	5.1	22	78	9	106	16	21	27	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146557--146669	60	1.9	60	86	0	154	31	15	19	32	1.93
150420--150487	32	2.1	32	94	0	118	44	17	11	26	1.83
152146--152219	37	2.0	37	97	0	139	31	13	22	32	1.93
165813--165855	18	2.4	18	92	0	68	72	0	6	20	1.08
166944--166979	14	2.8	12	84	15	54	27	8	5	58	1.50
167341--167378	2	19.0	2	100	0	76	50	0	0	50	1.00
168902--168962	25	2.5	24	84	10	70	62	0	3	34	1.12
168918--168956	15	2.4	16	83	16	53	64	0	0	35	0.94
168993--169091	35	2.8	35	71	20	91	71	3	4	21	1.16
169005--169064	25	2.4	24	78	13	68	76	1	3	18	1.00
169622--169666	22	2.0	22	100	0	90	26	17	15	40	1.90
169760--169798	3	13.3	3	84	15	55	71	0	0	28	0.86
170725--171277	124	4.5	124	87	1	779	26	15	25	33	1.95
171234--171311	34	2.3	34	93	4	131	23	12	26	37	1.91
170987--171560	281	2.0	282	92	0	970	26	15	25	33	1.95
171103--171435	158	2.1	157	89	0	513	24	14	25	35	1.93
171268--171832	124	4.6	124	90	0	853	27	16	24	32	1.96
173045--173243	95	2.1	95	94	0	346	32	17	16	33	1.92
175899--175944	14	3.2	15	81	6	60	60	0	0	39	0.97
175900--175939	19	2.1	19	86	9	55	60	0	0	40	0.97
175982--176038	24	2.4	24	82	5	62	70	1	5	22	1.17
177017--177044	11	2.5	11	100	0	56	75	0	0	25	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
181663--181732	24	2.9	24	86	0	104	32	18	14	34	1.91
186698--186774	38	2.0	38	97	0	145	49	2	10	37	1.51
187450--187495	22	2.1	22	84	4	58	36	19	10	32	1.87
187423--187676	125	2.0	122	88	6	375	37	12	14	36	1.83
188058--188130	35	2.2	35	90	7	116	36	1	24	36	1.64
196789--196858	2	37.0	2	88	11	112	50	0	0	50	1.00
196789--196859	15	4.6	15	89	6	115	50	0	0	49	1.00
196789--196858	17	3.9	19	89	10	105	50	0	0	50	1.00
197063--197464	45	8.9	45	87	2	522	28	23	11	36	1.89
197587--197988	67	6.0	67	88	0	552	28	22	15	32	1.95

Tables:   1   2   3   4