genome.fa.s6235.2.7.7.80.10.50.1000.1.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: VEPZ01006235.1 Hibiscus syriacus cultivar Beakdansim tig00014862_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  996025

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 569 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)
1935--2620	136	5.1	135	84	3	824	34	17	21	26	1.95
1935--2620	271	2.5	271	84	2	860	34	17	21	26	1.95
2541--2719	95	1.9	96	83	1	234	34	18	16	29	1.94
2405--3110	231	3.0	233	92	1	1168	36	17	18	26	1.94
7574--7627	3	18.0	3	88	0	81	61	0	0	38	0.96
7774--8056	124	2.3	122	84	6	342	23	18	15	42	1.88
8003--8091	36	2.5	36	94	0	151	20	21	10	48	1.78
8145--8247	38	2.6	39	89	7	145	23	22	10	43	1.84
8173--8234	19	3.3	19	70	17	56	20	24	12	41	1.87
7986--8362	154	2.5	147	89	6	573	27	20	12	39	1.88
8190--9057	113	7.7	113	89	3	1252	27	19	14	38	1.91
8188--9057	451	1.9	450	97	0	1643	28	19	14	37	1.91
9758--10073	115	2.8	115	94	0	535	32	20	12	33	1.90
10025--10245	82	2.7	83	89	1	336	38	21	11	28	1.88
11228--11353	19	6.6	19	68	18	68	48	5	10	35	1.61
11206--11386	95	1.9	95	100	0	362	48	6	11	34	1.63
11206--11410	95	2.2	95	91	4	283	47	6	11	34	1.66
22249--22305	26	2.2	26	78	6	62	63	3	5	28	1.33
24375--24418	3	15.0	3	90	4	63	63	0	0	36	0.95
25569--25658	43	2.1	43	97	0	171	53	2	10	34	1.47
31871--31916	24	1.9	24	90	0	74	54	0	2	43	1.12
33249--33302	3	18.0	3	100	0	108	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46768--46827	28	2.1	28	96	0	111	28	3	6	61	1.37
47255--47303	21	2.3	20	90	10	80	67	0	0	32	0.91
47322--47358	17	2.2	17	86	13	51	37	8	0	54	1.30
47368--47412	23	2.0	23	86	8	65	62	0	2	35	1.08
49569--49620	15	3.3	16	76	12	54	40	13	15	30	1.86
68255--68294	13	3.2	13	89	3	64	15	55	15	15	1.71
68314--68405	2	49.0	2	69	12	52	52	0	0	47	1.00
68403--68445	12	3.6	12	77	0	50	23	46	16	13	1.83
72822--72884	32	2.0	33	93	6	112	33	12	15	38	1.86
76791--76828	2	19.5	2	94	5	69	47	0	0	52	1.00
82393--82424	2	16.0	2	100	0	64	50	0	0	50	1.00
85800--85848	19	2.7	18	75	12	55	51	8	2	38	1.43
90362--90408	19	2.5	20	83	16	57	42	0	10	46	1.38
94451--94488	3	12.7	3	100	0	76	65	0	0	34	0.93
96855--96904	20	2.7	18	79	17	57	64	0	32	4	1.12
96854--96904	19	2.5	19	81	18	59	64	0	31	3	1.11
102223--102263	20	2.0	21	95	4	75	48	4	0	46	1.23
102612--102659	20	2.4	20	85	0	60	10	20	0	68	1.18
108261--108306	13	3.6	13	88	2	58	15	2	32	50	1.56
108615--108648	15	2.3	15	100	0	68	5	5	20	67	1.33
108882--108963	42	1.9	43	95	5	148	29	17	10	42	1.83
110493--110556	33	1.9	33	93	6	112	39	12	1	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111285--111334	17	3.1	17	66	16	52	58	8	10	24	1.57
112506--112556	18	2.8	18	82	8	59	64	0	9	25	1.24
124562--124607	21	2.1	22	84	11	60	50	0	4	45	1.21
124570--124630	27	2.3	27	85	5	79	47	1	1	49	1.21
124595--124633	11	3.5	11	78	0	51	46	2	0	51	1.14
131796--132075	139	2.0	140	95	3	512	37	13	19	29	1.89
143645--144076	216	2.0	213	95	4	789	21	22	25	30	1.99
146566--146620	26	2.1	26	82	0	65	21	7	27	43	1.79
147835--147874	15	2.7	15	84	0	53	32	17	7	42	1.77
149066--149110	21	2.1	21	87	0	63	31	28	24	15	1.96
150557--150869	147	2.1	149	95	2	569	27	16	21	35	1.94
150837--150881	23	2.0	23	86	8	65	22	24	26	26	2.00
154357--154386	15	2.1	15	93	6	53	40	6	26	26	1.81
155524--155803	144	1.9	146	94	2	503	29	15	21	34	1.94
162111--162174	12	5.3	13	81	7	66	34	1	3	60	1.22
162119--162174	3	18.7	3	85	7	69	33	1	3	60	1.24
169593--169647	21	2.6	21	85	2	65	74	3	16	5	1.15
170646--170794	32	4.6	32	92	2	228	29	14	24	31	1.94
170911--171009	34	2.9	33	85	5	126	36	18	10	35	1.84
171182--171347	75	2.2	74	82	7	187	31	15	13	39	1.86
171314--171483	36	4.7	36	93	4	281	26	24	13	35	1.92
171347--171499	21	8.1	21	66	24	108	24	25	12	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
171419--171585	57	3.0	57	81	10	206	26	23	11	37	1.90
171383--171644	93	3.0	86	78	12	300	27	23	13	35	1.92
171474--171555	36	2.3	36	83	8	105	26	24	10	37	1.89
171550--171643	34	2.8	34	85	9	138	28	22	14	34	1.94
171707--172029	43	7.3	43	79	9	335	27	14	28	29	1.95
171707--172035	86	3.7	86	80	10	374	28	14	28	28	1.95
171841--172082	98	2.5	98	89	2	371	28	14	28	28	1.95
171896--172093	54	3.9	53	75	17	213	27	15	27	29	1.96
172117--172430	90	3.5	91	95	0	535	25	19	21	34	1.96
175684--175725	20	2.1	20	86	0	57	21	26	26	26	1.99
177680--177767	23	3.8	23	95	0	158	34	10	19	36	1.85
178161--178210	23	2.2	23	88	0	73	38	18	6	38	1.75
178145--178403	87	3.0	87	89	1	403	33	13	9	43	1.76
181079--181222	71	2.0	70	97	1	270	40	2	4	52	1.35
181243--181280	13	2.9	13	88	0	58	57	0	2	39	1.12
181365--181408	21	2.0	22	82	4	54	45	0	6	47	1.29
181581--181614	2	17.0	2	100	0	68	50	0	0	50	1.00
181624--181656	16	2.0	17	88	5	50	63	0	6	30	1.18
181658--181704	12	3.8	12	78	13	51	59	0	2	38	1.09
183044--183127	3	28.0	3	85	9	118	63	0	0	36	0.95
183284--183443	76	2.1	76	94	0	275	33	22	20	23	1.97
183453--183954	76	6.6	76	93	1	846	33	22	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
183958--184278	163	2.0	165	90	4	508	38	12	14	34	1.84
184794--184867	22	3.4	22	92	0	112	40	12	10	36	1.78
187057--187378	107	2.9	114	82	10	395	32	20	15	31	1.94
189476--189528	8	6.4	8	86	4	70	3	16	0	79	0.88
189479--189531	17	3.1	17	73	13	54	3	16	0	79	0.88
189515--189568	26	2.0	26	92	3	90	3	16	11	68	1.33
192316--192360	23	2.0	23	86	0	63	26	28	24	20	1.99
192340--192639	146	2.0	148	94	3	525	36	19	16	27	1.93
193266--193303	2	19.0	2	100	0	76	50	0	0	50	1.00
193539--193573	18	1.9	18	88	11	54	22	17	5	54	1.64
194146--194190	21	2.1	21	87	0	63	15	24	28	31	1.96
197281--197325	23	2.0	23	81	0	54	28	28	22	20	1.98
197305--197607	149	2.0	149	95	0	543	36	19	15	28	1.92
198237--198268	2	16.0	2	100	0	64	50	0	0	50	1.00
198505--198539	18	1.9	18	88	11	54	22	17	5	54	1.64
199124--199168	21	2.1	21	87	0	63	15	24	28	31	1.96
200637--200675	14	2.8	14	85	11	53	58	7	17	15	1.59
202945--203007	26	2.4	27	82	15	80	68	0	1	30	0.99
202945--203001	3	19.7	3	73	20	50	68	0	1	29	1.00
202945--203003	14	4.5	14	82	18	65	69	0	1	28	0.98
203616--203659	21	2.0	22	82	4	54	45	0	6	47	1.29
203863--203898	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
203920--203953	17	2.0	17	88	11	52	64	0	5	29	1.17
203959--203991	16	2.1	16	88	11	50	60	0	0	39	0.97
205095--205251	79	2.0	79	98	0	305	15	26	31	27	1.96
205435--205522	3	28.7	3	86	8	124	63	0	0	36	0.95
205890--206002	42	2.7	41	91	4	181	15	16	20	47	1.82
206197--206249	22	2.3	23	81	15	65	47	0	0	52	1.00
206280--206355	30	2.6	28	83	8	82	47	0	2	50	1.15
206360--206404	23	2.0	23	86	0	63	53	2	2	42	1.25
206436--206499	31	2.0	33	85	11	89	51	4	0	43	1.22
206491--206536	21	2.2	20	85	11	58	58	2	0	39	1.10

Tables:   1   2   3   4   5