genome.fa.s9611.2.7.7.80.10.50.1000.15.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  15  of  27  ( 3214 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)
3980919--3981012	7	13.6	7	69	8	50	75	0	15	8	1.03
3983196--3983376	36	5.0	36	87	5	267	33	22	22	22	1.97
3983380--3985077	205	8.2	205	90	3	2560	32	16	20	31	1.94
3983907--3984004	42	2.4	40	79	6	106	25	19	24	30	1.98
3984125--3984222	42	2.3	42	87	0	142	22	26	21	29	1.99
3984326--3984427	42	2.5	41	81	1	123	25	22	21	30	1.99
3983380--3985077	623	2.7	623	91	2	2727	32	16	20	31	1.94
3984735--3984847	42	2.7	42	83	2	147	24	23	22	30	1.99
3984950--3985022	20	3.5	20	66	14	58	21	23	21	32	1.98
3984954--3985051	42	2.3	42	96	0	178	21	24	21	32	1.98
3983445--3985077	829	2.0	829	94	0	2899	31	16	20	31	1.94
3991025--3991190	57	2.9	58	87	3	221	24	9	20	45	1.81
3999010--3999045	2	18.0	2	100	0	72	50	0	0	50	1.00
3999297--3999331	16	2.2	16	94	0	61	34	22	0	42	1.54
4001772--4001837	13	5.3	13	79	20	63	16	48	21	13	1.80
4001768--4001831	18	3.6	18	95	0	119	17	51	20	10	1.75
4001813--4001859	8	6.5	8	77	22	50	14	36	25	23	1.93
4001829--4001860	7	4.4	7	92	7	55	12	31	28	28	1.93
4001829--4001857	15	1.9	15	100	0	58	13	27	27	31	1.94
4004102--4004182	23	3.5	24	86	1	103	28	14	19	37	1.92
4004222--4004296	35	2.1	35	92	0	123	9	28	29	33	1.88
4005954--4005993	17	2.2	20	86	13	59	25	0	2	72	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4007351--4007507	64	2.5	64	79	10	178	35	19	19	26	1.95
4007884--4007964	29	2.8	29	88	3	128	46	16	19	17	1.84
4012011--4012149	29	4.8	29	94	1	244	45	15	20	17	1.86
4013824--4014017	105	1.9	104	92	1	325	37	23	20	19	1.95
4021559--4021636	29	2.7	29	97	0	147	48	10	10	30	1.70
4034090--4034125	5	7.2	5	96	0	54	13	61	0	25	1.33
4035684--4035713	15	2.0	15	100	0	60	33	26	0	40	1.57
4041908--4041983	21	3.7	20	75	13	75	43	0	1	55	1.08
4041939--4041993	29	2.0	27	82	7	65	49	0	1	49	1.11
4058487--4058526	20	2.0	20	100	0	80	25	15	10	50	1.74
4058894--4058939	21	2.2	20	88	3	65	34	0	0	65	0.93
4058891--4058943	11	4.8	12	78	17	53	35	0	0	64	0.94
4077437--4077469	15	2.2	15	100	0	66	24	9	33	33	1.87
4077663--4077693	2	15.5	2	100	0	62	48	0	0	51	1.00
4079102--4079166	33	2.0	33	96	0	121	46	18	6	29	1.73
4083763--4083807	18	2.5	18	85	0	63	37	4	13	44	1.64
4089196--4089245	24	2.1	24	88	7	75	58	14	2	26	1.47
4090384--4090429	21	2.2	21	88	3	67	2	13	0	84	0.71
4091580--4091622	14	3.0	15	83	10	54	76	6	0	16	0.99
4094833--4094882	24	2.1	24	88	7	75	58	14	2	26	1.47
4097214--4097256	14	3.0	15	83	10	54	76	6	0	16	0.99
4100471--4100520	24	2.1	24	88	7	75	58	14	2	26	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4103807--4103835	2	14.5	2	100	0	58	51	0	0	48	1.00
4105380--4105441	30	2.1	30	90	0	97	35	25	9	29	1.88
4119207--4119255	25	2.0	25	84	8	64	26	4	6	63	1.36
4126611--4126672	32	2.0	32	90	3	99	48	0	3	48	1.17
4126607--4126685	31	2.6	29	80	11	95	46	1	3	48	1.28
4130026--4130070	21	2.1	21	87	0	63	15	24	28	31	1.96
4133205--4133519	149	2.1	149	96	1	578	33	21	18	26	1.96
4134264--4134304	2	20.5	2	100	0	82	48	0	0	51	1.00
4135159--4135204	21	2.2	21	88	0	65	17	23	28	30	1.97
4150540--4150587	18	2.6	17	81	18	53	41	0	0	58	0.98
4150543--4150590	17	2.8	17	77	22	55	41	0	0	58	0.98
4151088--4151118	15	2.1	15	94	5	55	74	0	6	19	1.03
4155970--4156225	29	8.3	30	70	15	148	40	5	1	52	1.34
4156132--4156196	28	2.3	29	84	7	80	44	1	0	53	1.09
4156445--4156521	30	2.6	30	85	8	95	57	2	6	33	1.38
4157538--4157587	21	2.5	20	81	12	57	42	4	2	52	1.31
4158737--4158781	19	2.4	19	96	0	81	31	15	17	35	1.92
4159070--4159149	18	4.4	19	87	10	98	51	7	13	27	1.68
4159092--4159149	17	3.3	17	92	4	89	53	5	12	29	1.59
4159205--4159248	12	3.6	12	84	3	52	52	0	25	22	1.48
4159206--4159249	18	2.4	18	78	14	54	54	0	25	20	1.45
4159309--4159368	20	3.0	20	71	11	59	21	6	21	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4160824--4160900	2	40.5	2	87	10	117	49	1	0	49	1.09
4161181--4161278	23	4.3	23	74	7	92	19	23	24	32	1.97
4162812--4162847	3	11.7	3	94	5	63	33	0	0	66	0.92
4164027--4164224	100	2.0	100	100	0	396	30	19	29	20	1.97
4183429--4183473	2	24.0	2	80	13	51	46	0	2	51	1.13
4190683--4190743	22	2.8	22	85	5	79	27	19	26	26	1.99
4191053--4191085	16	2.0	17	88	5	50	45	0	24	30	1.53
4202790--4202854	21	3.1	20	90	0	85	21	40	18	20	1.92
4202874--4202986	20	5.7	20	92	0	190	15	30	24	28	1.96
4204018--4204059	22	1.9	22	100	0	84	38	19	14	28	1.90
4206335--4206392	21	2.8	21	89	0	98	18	39	17	24	1.92
4206412--4206461	20	2.5	20	90	0	73	20	30	20	30	1.97
4206519--4206567	21	2.3	21	96	0	89	26	30	20	22	1.98
4206849--4206918	34	2.1	32	84	5	86	31	15	28	24	1.96
4209892--4209952	22	2.8	22	80	5	70	27	19	24	27	1.99
4210262--4210294	16	2.0	17	88	5	50	45	0	24	30	1.53
4219086--4219125	20	2.0	20	100	0	80	35	0	15	50	1.44
4225314--4225378	27	2.6	25	77	15	71	52	1	0	46	1.10
4236775--4237102	180	1.8	180	96	0	611	31	23	20	24	1.98
4237074--4237126	24	2.2	24	96	0	97	18	28	26	26	1.98
4242856--4242887	2	16.0	2	100	0	64	50	0	0	50	1.00
4243940--4243992	24	2.3	22	93	6	88	41	3	0	54	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4244063--4244089	13	2.1	13	100	0	54	70	14	0	14	1.17
4244974--4245026	24	2.3	22	93	6	88	41	3	0	54	1.18
4247980--4248013	5	6.6	5	86	6	50	35	0	0	64	0.94
4247982--4248021	21	1.9	21	85	10	55	35	0	2	62	1.09
4247971--4248023	15	3.5	15	82	10	63	32	0	1	66	1.03
4252403--4252436	14	2.4	14	90	5	50	44	0	2	52	1.16
4253201--4253291	32	2.8	32	98	0	173	50	8	9	30	1.66
4254550--4254591	3	14.0	3	94	0	75	64	0	33	2	1.07
4257656--4257692	18	2.1	18	100	0	74	45	10	5	37	1.62
4259190--4259567	188	2.0	188	98	1	740	27	17	25	28	1.98
4263750--4263810	23	2.8	21	87	7	77	26	24	26	22	2.00
4265982--4266035	21	2.6	21	100	0	108	33	16	9	40	1.80
4268691--4268751	23	2.7	23	80	7	72	26	24	26	22	2.00
4277002--4277041	2	20.0	2	100	0	80	50	0	0	50	1.00
4280125--4280215	39	2.3	39	92	0	155	40	15	16	27	1.88
4293415--4293458	2	22.0	2	100	0	88	50	0	0	50	1.00
4294702--4295235	235	2.2	238	84	9	685	29	13	17	40	1.87
4298080--4298112	6	5.8	6	92	7	52	36	0	18	45	1.49
4298307--4298332	7	3.7	7	100	0	52	42	0	30	26	1.56
4299413--4299497	32	2.7	31	84	12	102	41	0	7	51	1.29
4299436--4299498	32	2.0	32	93	0	108	39	0	7	52	1.31
4313304--4313353	25	2.0	25	88	0	73	32	18	14	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4314721--4314860	45	3.2	45	65	17	130	23	6	20	49	1.72
4314699--4314872	87	2.0	87	100	0	348	24	6	21	47	1.75
4314723--4314856	42	3.1	42	64	17	112	24	6	20	48	1.73
4321758--4321899	68	2.1	69	98	1	277	25	22	16	35	1.94
4325492--4325555	30	2.1	30	82	5	76	17	21	37	23	1.94
4325749--4325958	105	2.0	105	93	0	357	30	24	23	22	1.99
4325941--4326030	39	2.3	39	84	0	108	34	18	22	24	1.96
4329123--4329205	29	2.8	29	92	1	139	43	9	14	32	1.78
4333744--4333826	29	2.8	29	92	1	139	43	9	14	32	1.78
4334474--4334502	2	14.5	2	100	0	58	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27