genome.fa.s8053.2.7.7.80.10.50.1000.21.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   28   29   30   31   32   

This is table  21  of  32  ( 3749 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)
4118311--4118405	44	2.2	43	86	5	129	38	30	15	14	1.88
4118311--4118470	66	2.4	65	83	2	185	38	27	15	18	1.91
4118311--4118499	21	8.8	21	81	6	164	37	26	15	20	1.93
4119196--4119251	23	2.4	23	96	0	103	26	26	14	32	1.95
4121746--4121774	14	2.1	14	93	6	51	34	10	0	55	1.34
4122108--4122170	23	2.7	23	77	0	72	30	25	25	19	1.98
4127245--4127299	23	2.4	23	90	0	92	29	23	29	18	1.98
4136040--4136089	22	2.3	22	85	0	64	30	0	28	42	1.56
4139777--4139874	41	2.4	41	92	1	160	19	16	17	46	1.84
4143526--4143565	14	2.9	14	82	14	55	17	10	12	60	1.59
4148250--4148288	20	2.0	20	89	0	60	23	2	2	71	1.10
4151281--4151382	30	3.4	30	93	0	168	20	20	40	18	1.92
4151526--4151627	50	2.0	50	100	0	204	25	1	15	56	1.50
4152641--4152673	3	11.3	3	87	6	50	3	36	0	60	1.12
4157469--4157587	31	3.9	30	75	9	98	24	29	29	16	1.97
4157469--4157591	61	2.0	61	82	6	151	25	28	29	17	1.97
4159102--4159136	18	1.9	18	88	0	52	28	17	0	54	1.43
4163195--4163270	31	2.4	31	80	2	89	26	31	27	14	1.95
4163148--4163270	63	2.0	63	82	6	151	25	29	28	17	1.97
4164780--4164814	18	1.9	18	88	0	52	28	17	0	54	1.43
4169451--4169815	184	2.0	184	100	0	730	37	16	15	30	1.90
4170627--4170668	21	2.0	22	86	9	61	23	14	28	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4171195--4171248	22	2.4	23	78	9	58	53	0	14	31	1.41
4171262--4171302	21	2.0	21	85	9	57	43	4	19	31	1.72
4171555--4171600	21	2.2	21	92	0	74	23	17	32	26	1.97
4172322--4172365	22	2.0	21	86	4	61	18	25	31	25	1.97
4173686--4173769	28	3.0	28	94	0	150	21	16	11	50	1.77
4177043--4177112	19	3.9	19	75	17	78	15	27	34	22	1.95
4178067--4178408	31	11.0	31	93	0	569	20	19	21	39	1.93
4181422--4181490	19	3.8	19	70	18	67	15	27	33	23	1.95
4182445--4182586	61	2.3	62	95	1	250	19	19	22	39	1.92
4182445--4182586	31	4.6	31	94	1	250	19	19	22	39	1.92
4183275--4183400	39	3.2	39	89	2	189	29	24	19	26	1.98
4188793--4188843	17	3.2	17	86	8	72	9	21	49	19	1.77
4188799--4188853	14	3.7	14	85	7	65	5	21	50	21	1.68
4188850--4188889	9	4.3	9	84	6	53	25	25	35	15	1.94
4188852--4188891	19	2.1	19	100	0	80	25	27	30	17	1.97
4197099--4197133	6	5.8	6	89	0	52	68	11	2	17	1.31
4197087--4197139	18	2.9	17	75	10	52	69	7	3	18	1.28
4197769--4197821	28	1.9	27	88	3	79	39	9	1	49	1.46
4197824--4197891	31	2.2	32	86	7	95	38	4	0	57	1.19
4198058--4198106	15	3.2	16	77	19	59	44	0	6	48	1.27
4198062--4198194	30	4.5	28	75	12	106	54	3	4	38	1.36
4198770--4198801	2	17.0	2	87	12	50	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)
4198770--4198815	12	3.7	12	83	11	56	50	0	0	50	1.00
4198800--4198848	21	2.3	21	85	0	62	44	10	0	44	1.37
4199368--4199892	43	11.9	42	71	14	204	28	17	4	49	1.66
4199369--4199624	128	2.0	129	81	8	299	27	18	5	48	1.69
4199368--4199631	43	6.1	42	76	11	207	28	18	4	48	1.69
4199438--4199852	230	1.8	228	87	4	629	27	18	5	49	1.68
4199711--4199871	85	1.9	84	83	8	211	28	19	3	47	1.67
4204752--4204930	90	2.0	91	96	3	335	27	22	13	36	1.91
4207472--4207545	28	2.5	30	80	14	91	54	0	2	43	1.14
4210091--4210205	43	2.7	43	86	2	142	27	18	22	31	1.97
4224888--4224927	21	1.9	21	89	0	62	10	25	40	25	1.86
4228745--4228784	21	1.9	21	85	10	55	35	10	2	52	1.48
4232995--4233032	20	1.9	20	88	0	58	39	5	23	31	1.77
4241530--4241622	3	31.0	3	72	4	62	61	1	1	36	1.10
4241945--4241990	23	2.0	22	84	12	58	15	23	6	54	1.64
4241849--4242096	122	2.0	120	83	6	313	25	20	14	39	1.91
4241895--4242256	181	2.0	181	98	0	706	25	19	15	38	1.92
4242083--4242571	124	4.0	124	94	0	831	24	18	15	41	1.88
4243746--4243780	18	1.9	18	100	0	70	57	5	5	31	1.46
4244143--4244189	14	3.3	14	80	11	51	12	8	0	78	0.95
4244140--4244219	11	8.1	10	72	21	62	13	11	0	75	1.06
4244163--4244226	24	2.9	23	80	20	82	14	12	0	73	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4254899--4254956	28	2.2	26	84	6	71	60	1	5	32	1.29
4255771--4255827	18	3.3	18	72	18	50	64	7	1	26	1.28
4257155--4257222	3	23.0	3	75	3	66	63	1	1	33	1.13
4260621--4260663	17	2.5	17	100	0	86	37	6	16	39	1.75
4261970--4262041	16	4.5	16	71	10	58	27	0	4	68	1.08
4262114--4262157	21	2.1	21	86	0	61	25	0	0	75	0.81
4261977--4262190	117	1.8	119	85	5	308	28	3	10	57	1.47
4262094--4262140	16	3.0	16	84	3	60	23	0	4	72	1.02
4263177--4263202	6	4.3	6	100	0	52	84	0	0	15	0.62
4263363--4263389	14	1.9	14	100	0	54	81	0	0	18	0.69
4263267--4263504	125	1.9	125	90	1	379	44	14	17	23	1.86
4273701--4273725	2	12.5	2	100	0	50	52	0	48	0	1.00
4274701--4274852	44	3.5	44	69	16	118	23	15	10	50	1.75
4274676--4274840	87	1.9	88	83	6	219	24	13	10	51	1.72
4274549--4274824	43	6.4	42	71	17	158	26	12	7	53	1.64
4274818--4274887	35	2.0	35	85	2	95	25	17	11	45	1.81
4278393--4278475	2	44.5	2	86	13	124	49	0	0	50	1.00
4278393--4278475	31	2.5	35	90	9	131	49	0	0	50	1.00
4285519--4285580	2	31.0	2	100	0	124	50	0	0	50	1.00
4289107--4289286	54	3.3	54	92	0	306	28	11	20	39	1.88
4289980--4290005	6	4.3	6	100	0	52	15	0	53	30	1.42
4290328--4290388	25	2.5	25	78	7	63	32	0	4	62	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4294341--4294541	103	2.0	103	82	4	244	43	22	9	24	1.83
4297106--4297146	21	2.0	21	100	0	82	48	9	4	36	1.58
4298270--4298351	31	2.7	30	80	9	87	35	18	2	43	1.63
4301719--4301769	20	2.5	20	96	0	93	23	7	37	31	1.83
4302099--4302134	14	2.6	14	95	0	63	30	5	11	52	1.59
4313486--4313542	28	2.0	29	89	3	89	70	0	8	21	1.14
4313591--4313629	3	13.0	3	100	0	78	66	0	0	33	0.92
4315273--4316149	84	10.5	84	84	3	1042	25	18	22	33	1.97
4315273--4316136	167	5.2	166	85	4	1005	25	18	22	33	1.97
4315273--4316149	248	3.5	247	85	3	1084	25	18	22	33	1.97
4317017--4317136	32	3.8	32	92	2	179	29	23	16	30	1.96
4320787--4320852	29	2.3	29	100	0	132	45	16	10	27	1.80
4321302--4321339	20	1.9	20	84	10	51	55	2	13	28	1.51
4321417--4321470	26	2.0	26	92	7	90	70	0	9	20	1.14
4325475--4325738	136	1.9	136	90	2	424	21	14	25	39	1.91
4325979--4326238	135	1.9	135	84	4	346	24	10	21	43	1.83
4329326--4329377	13	4.0	13	84	0	68	26	21	17	34	1.95
4329384--4329571	85	2.2	85	85	5	256	29	21	17	31	1.96
4329616--4329682	2	33.5	2	100	0	134	49	0	0	50	1.00
4334661--4334737	30	2.6	30	100	0	154	38	3	10	46	1.56
4337952--4337991	22	1.9	20	90	10	62	5	7	5	82	0.94
4337944--4337991	10	4.5	10	77	12	51	6	8	6	79	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4338359--4338397	11	3.5	11	86	6	51	79	2	10	7	1.02
4342874--4342913	16	2.6	16	88	4	55	45	2	2	50	1.28
4344400--4344436	18	2.1	18	90	10	58	24	32	18	24	1.97
4349739--4349775	18	2.1	18	89	0	56	27	29	18	24	1.98
4353544--4353580	18	2.1	18	100	0	74	40	5	5	48	1.49
4360559--4360657	24	4.4	22	72	15	76	31	26	16	26	1.96
4360551--4360657	23	4.7	23	78	11	114	30	26	17	25	1.97
4367437--4367519	24	3.7	21	83	12	78	30	28	18	22	1.97
4367452--4367520	23	2.9	24	89	4	104	28	27	18	24	1.98
4374776--4374838	23	2.6	24	78	19	60	52	0	0	47	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   28   29   30   31   32