genome.fa.s8245.2.7.7.80.10.50.1000.20.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   
          33   

This is table  20  of  33  ( 3922 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)
4102126--4102190	21	3.1	21	93	0	103	16	30	10	41	1.83
4104419--4104456	20	1.9	20	94	0	67	21	15	10	52	1.72
4104416--4104461	20	2.4	19	82	7	65	19	17	8	54	1.68
4104596--4104642	20	2.4	19	86	10	67	17	14	10	57	1.65
4104383--4104854	182	2.6	181	88	2	689	27	17	13	42	1.86
4104383--4104856	181	2.6	180	88	2	682	27	17	13	41	1.86
4105008--4105032	11	2.3	11	100	0	50	36	24	8	32	1.84
4105738--4105763	4	6.5	4	100	0	52	0	73	0	26	0.84
4106083--4106116	17	2.0	17	100	0	68	5	11	17	64	1.45
4109730--4109861	58	2.3	59	88	4	187	53	10	12	23	1.68
4112078--4112110	17	1.9	17	88	11	50	69	0	12	18	1.18
4112144--4112244	50	2.0	50	84	3	132	64	0	5	28	1.23
4112239--4112363	50	2.5	50	79	17	125	65	0	8	24	1.26
4113355--4113499	25	5.8	26	74	18	112	62	2	2	33	1.18
4113355--4113517	48	3.4	47	77	13	145	63	1	1	33	1.16
4113425--4113516	41	2.4	39	80	12	100	63	1	2	33	1.14
4113465--4113517	20	2.6	20	82	8	63	66	0	1	32	1.03
4113564--4113849	36	8.1	34	71	19	151	41	9	5	43	1.60
4113603--4113629	13	2.1	13	100	0	54	40	7	7	44	1.60
4113545--4113854	37	8.6	37	69	19	131	41	8	5	43	1.58
4113517--4113852	104	3.1	107	78	13	284	43	8	5	42	1.57
4113736--4113820	39	2.2	39	83	4	102	45	9	2	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4128765--4128792	12	2.3	12	100	0	56	25	17	10	46	1.80
4132590--4132674	37	2.3	37	91	0	143	34	43	11	10	1.76
4133092--4133151	27	2.2	27	100	0	120	26	16	20	36	1.93
4135111--4135187	2	39.5	2	71	19	56	49	2	5	42	1.39
4135145--4135197	19	2.8	19	82	5	63	49	1	5	43	1.37
4135243--4135293	12	4.3	12	75	5	50	43	1	7	47	1.43
4135283--4135330	18	2.6	19	79	20	57	58	6	0	35	1.23
4135276--4135332	27	2.2	26	87	3	78	56	5	0	38	1.22
4135283--4135331	20	2.3	20	86	6	62	57	6	0	36	1.24
4144154--4144200	21	2.2	21	92	0	76	23	6	38	31	1.80
4146737--4146797	21	3.0	21	85	9	90	19	36	29	14	1.92
4146737--4146797	20	3.0	20	88	7	88	19	36	29	14	1.92
4146763--4146847	34	2.5	35	92	3	138	20	34	27	18	1.96
4146790--4146846	15	3.5	15	72	25	53	19	35	24	21	1.96
4146959--4147000	21	2.0	21	95	0	75	23	16	28	30	1.96
4147030--4147069	20	1.9	21	85	10	55	37	37	10	15	1.80
4147284--4147353	34	2.1	32	84	5	86	32	14	30	22	1.94
4149827--4149877	12	4.3	12	75	5	50	43	1	7	47	1.43
4149867--4149914	18	2.6	19	79	20	57	58	8	0	33	1.28
4149860--4149916	27	2.2	26	83	3	69	56	7	0	36	1.27
4149867--4149905	20	1.9	20	89	5	60	56	10	0	33	1.33
4149868--4149914	20	2.2	20	85	7	58	59	8	0	31	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4156236--4156300	2	33.5	2	93	6	116	52	0	0	47	1.00
4158119--4158453	169	2.0	165	95	3	609	29	13	15	42	1.84
4159048--4159096	13	3.6	13	79	17	55	59	0	10	30	1.31
4159054--4159089	15	2.4	15	100	0	72	58	0	13	27	1.36
4164550--4164704	75	2.1	75	98	0	301	34	20	16	28	1.95
4166082--4166139	12	4.8	12	81	8	73	50	17	17	15	1.79
4166082--4166162	24	3.4	24	80	0	81	49	17	14	18	1.80
4166121--4166176	24	2.3	24	78	6	60	50	14	14	21	1.78
4178972--4179167	94	2.0	97	87	6	281	42	16	17	23	1.89
4180911--4180953	22	1.9	23	85	4	61	25	4	6	62	1.40
4183689--4183879	95	2.0	95	100	0	382	21	29	15	32	1.95
4188572--4188669	36	2.8	36	93	3	164	22	17	19	40	1.91
4192770--4192971	102	2.0	103	95	4	365	32	20	34	11	1.89
4199799--4199901	37	2.9	36	94	4	181	24	17	17	40	1.90
4200162--4200309	75	2.0	73	97	2	278	28	6	19	45	1.76
4209083--4209185	36	2.9	36	97	0	188	24	17	16	41	1.89
4226138--4226168	16	2.0	16	93	6	55	45	16	25	12	1.83
4232069--4232271	53	3.8	51	75	12	187	38	24	7	29	1.84
4232069--4232268	106	1.9	106	84	6	271	38	24	8	29	1.84
4233230--4233355	60	2.1	60	78	0	135	37	15	15	32	1.88
4233845--4233869	2	12.5	2	100	0	50	52	0	0	48	1.00
4237997--4238076	35	2.2	33	77	18	88	37	0	5	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4238019--4238078	18	3.4	18	64	13	52	33	0	5	61	1.17
4238081--4238123	15	2.8	16	89	6	63	44	0	0	55	0.99
4238115--4238151	14	2.6	15	87	8	51	32	2	0	64	1.07
4238324--4238349	13	2.0	13	100	0	52	53	0	0	46	1.00
4238804--4238828	12	2.1	12	100	0	50	52	8	0	40	1.31
4244717--4245039	175	1.8	175	90	1	522	30	14	11	43	1.81
4245124--4245636	73	7.0	74	90	1	750	35	13	12	38	1.83
4249804--4249868	31	2.1	31	100	0	130	43	10	3	43	1.55
4255451--4255508	31	1.9	29	82	6	71	56	3	8	31	1.46
4255985--4256030	20	2.3	20	88	3	67	47	19	17	15	1.82
4255848--4256213	202	1.8	202	92	0	624	42	14	16	27	1.86
4258654--4258697	21	2.1	21	95	0	79	40	11	34	13	1.81
4258972--4259010	18	2.2	18	95	0	69	58	0	38	2	1.12
4260906--4260943	15	2.5	15	95	0	67	39	26	10	23	1.87
4260960--4262097	200	5.7	199	83	2	1334	37	13	16	32	1.88
4263605--4263644	6	6.7	6	91	0	53	42	2	32	22	1.67
4264939--4264993	24	2.3	25	78	9	60	30	5	16	47	1.69
4264950--4265002	24	2.2	24	82	0	61	33	3	15	47	1.63
4266349--4266917	179	3.1	179	77	9	452	38	13	16	31	1.88
4266528--4267271	200	3.7	197	85	3	889	38	13	15	32	1.87
4268849--4268897	19	2.6	19	80	0	62	34	4	6	55	1.44
4271375--4272070	200	3.5	197	81	7	799	39	14	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4272088--4272250	87	1.9	87	93	0	281	33	15	10	40	1.81
4272172--4272216	23	2.0	23	86	0	63	42	17	6	33	1.76
4276655--4276693	20	2.0	20	89	0	60	38	10	15	35	1.81
4276731--4276761	7	4.6	7	92	8	55	12	12	12	61	1.58
4284099--4284125	13	2.1	13	100	0	54	40	14	29	14	1.86
4284775--4285459	186	3.6	192	82	8	757	31	28	16	24	1.96
4285648--4285754	30	3.3	30	90	9	151	27	46	12	14	1.79
4285635--4285708	30	2.8	24	75	21	76	25	50	8	16	1.72
4285708--4285734	12	2.2	12	100	0	54	25	44	14	14	1.84
4286721--4286763	23	1.9	23	85	4	61	30	4	2	62	1.28
4288250--4288288	18	2.2	18	100	0	78	10	15	46	28	1.78
4288268--4288342	30	2.5	30	100	0	150	13	10	49	26	1.74
4288230--4288355	24	5.0	24	76	20	98	15	11	46	26	1.79
4293293--4293330	20	1.9	20	88	0	58	36	10	18	34	1.85
4293321--4293369	20	2.5	20	82	0	62	46	20	10	22	1.80
4293624--4293674	26	1.9	28	84	11	72	27	0	3	68	1.07
4293881--4293939	20	3.0	20	92	0	100	49	18	15	16	1.80
4293949--4293999	20	2.5	20	77	0	57	15	15	19	49	1.80
4295310--4295408	42	2.4	42	91	3	155	29	35	19	16	1.93
4296138--4296173	18	2.0	18	94	0	63	16	0	25	58	1.38
4299401--4299488	20	4.4	20	67	8	63	37	11	22	28	1.89
4299472--4299532	20	3.0	20	85	2	77	31	14	24	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4299555--4299595	20	2.0	20	85	0	55	34	9	26	29	1.88
4300713--4300760	24	2.0	24	87	0	69	52	16	22	8	1.71
4303164--4303213	5	9.8	5	84	2	64	16	4	4	76	1.10
4304028--4304096	20	3.5	20	93	0	120	40	15	15	27	1.88
4304850--4304914	23	2.8	22	80	13	60	20	18	24	36	1.94
4308160--4308519	183	2.0	183	94	0	639	36	15	18	29	1.91
4309669--4309856	73	2.7	66	78	14	189	28	20	15	36	1.93
4310157--4311230	220	5.0	216	78	7	977	33	25	14	26	1.94
4310322--4311118	424	1.9	424	84	2	1071	33	25	14	26	1.94
4317516--4317611	44	2.2	44	96	0	174	62	6	10	20	1.49

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   
          33