genome.fa.s8539.2.7.7.80.10.50.1000.22.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  22  of  31  ( 3630 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)
4169940--4170004	10	6.4	10	75	13	62	81	3	15	0	0.81
4172082--4172412	114	2.9	113	92	1	554	32	15	20	31	1.93
4174776--4174831	23	2.5	23	85	2	78	33	14	14	37	1.86
4175346--4175669	165	2.0	167	91	2	537	35	13	12	38	1.82
4175673--4176082	76	5.4	76	96	0	739	24	19	22	34	1.96
4176236--4176319	3	28.0	3	79	11	75	42	0	0	57	0.99
4176238--4176319	14	5.7	15	78	17	68	42	0	0	57	0.98
4176236--4176319	22	4.0	22	82	14	115	42	0	0	57	0.99
4177592--4177662	15	4.6	15	69	19	56	28	5	1	64	1.24
4177709--4177741	15	2.3	15	89	5	50	42	0	0	57	0.98
4178110--4178143	17	2.1	15	89	10	50	61	0	2	35	1.11
4188798--4188921	21	5.8	21	72	9	81	36	21	17	24	1.95
4188835--4188914	42	1.9	42	87	5	117	37	16	18	27	1.92
4191110--4191139	6	5.0	6	95	0	51	16	46	0	36	1.47
4191359--4191390	16	2.0	16	93	0	55	40	6	21	31	1.78
4193097--4193199	21	4.9	21	80	2	118	35	25	14	24	1.93
4193097--4193199	42	2.5	42	90	0	161	35	25	14	24	1.93
4193064--4193195	21	6.1	21	74	4	93	36	23	14	25	1.93
4195648--4195739	31	3.0	30	77	6	87	34	6	17	41	1.75
4195816--4195871	23	2.5	22	77	8	58	23	16	26	33	1.95
4195832--4195939	23	4.7	23	71	13	62	25	13	25	35	1.93
4201108--4201202	23	4.1	23	85	5	95	26	21	22	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4201118--4201223	23	4.6	23	77	9	74	29	18	18	33	1.95
4201407--4201434	12	2.3	12	100	0	56	21	0	32	46	1.52
4206815--4206867	20	2.7	20	93	0	88	32	18	20	28	1.97
4207407--4207462	21	2.6	22	85	2	78	23	26	21	28	1.99
4215287--4215316	13	2.4	13	94	5	53	26	30	0	43	1.55
4218389--4218480	30	3.1	30	95	0	157	35	21	17	25	1.95
4219851--4219885	13	2.7	13	90	0	61	74	0	25	0	0.82
4220605--4220650	18	2.6	18	77	12	51	34	15	0	50	1.44
4221108--4221135	2	14.0	2	100	0	56	50	0	0	50	1.00
4223764--4223828	31	2.1	31	82	0	76	35	20	18	26	1.95
4225870--4225927	26	2.3	25	80	13	66	12	13	10	63	1.51
4234511--4234579	29	2.4	29	85	2	95	37	24	10	27	1.88
4237607--4237646	18	2.2	18	100	0	80	20	17	20	42	1.89
4256867--4256929	29	2.2	29	97	0	117	17	31	0	50	1.46
4265732--4265849	24	4.9	24	87	4	166	23	15	19	41	1.89
4265969--4266061	43	2.2	43	96	0	168	16	11	36	35	1.85
4292921--4292968	18	2.7	18	93	3	80	31	8	31	29	1.87
4293387--4293825	240	1.9	230	89	6	673	39	19	12	28	1.87
4296671--4296711	19	2.1	20	82	13	50	36	14	9	39	1.79
4297963--4298151	61	3.1	60	77	8	152	35	21	3	38	1.72
4298037--4298152	60	1.9	60	84	6	155	37	25	1	35	1.66
4298301--4298453	60	2.5	59	77	8	166	45	4	19	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4299109--4299155	2	24.0	2	95	4	87	48	0	0	51	1.00
4299264--4299306	18	2.4	19	80	7	54	34	2	0	62	1.08
4299247--4299303	29	2.0	29	89	6	89	35	1	0	63	1.05
4301298--4301367	34	2.1	32	89	5	104	61	2	0	35	1.11
4304562--4304600	16	2.4	16	86	0	51	23	25	17	33	1.96
4304624--4304654	16	1.9	16	93	0	53	22	6	16	54	1.64
4304813--4304851	18	2.2	18	86	9	53	38	2	5	53	1.37
4305165--4305262	18	5.3	18	75	19	87	43	0	6	50	1.27
4305183--4305437	2	124.0	2	65	23	86	44	2	7	45	1.45
4305346--4305439	7	14.1	7	72	20	51	43	1	8	46	1.41
4305380--4305445	11	6.3	11	69	22	52	40	1	7	50	1.40
4305344--4305437	27	3.5	27	70	24	65	44	1	7	46	1.38
4305471--4305570	11	9.4	11	73	16	77	35	4	10	51	1.54
4305637--4305889	2	135.0	2	63	23	70	46	1	3	47	1.32
4305741--4305897	22	7.7	21	70	18	91	47	2	1	48	1.26
4305649--4305897	83	3.0	82	76	14	221	46	2	4	47	1.32
4305737--4305897	61	2.6	62	78	13	154	47	2	1	48	1.26
4309348--4309391	22	2.2	19	84	15	54	27	22	11	38	1.88
4320425--4320454	11	2.8	11	95	5	53	10	16	6	66	1.41
4325743--4325790	11	4.4	11	76	10	53	45	2	2	50	1.25
4325866--4325899	15	2.3	15	94	0	59	50	5	8	35	1.58
4325909--4326091	11	17.8	10	68	19	69	45	3	2	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4325842--4326039	9	20.7	9	67	23	79	48	4	3	43	1.38
4325752--4326050	20	14.9	20	71	14	134	46	4	4	44	1.43
4325901--4326081	20	9.3	19	75	16	122	46	3	2	46	1.33
4325901--4326116	9	24.3	9	67	26	81	45	3	1	49	1.29
4340360--4340430	37	1.9	37	88	5	108	39	0	0	60	0.97
4341771--4341806	19	2.0	17	89	10	54	52	0	0	47	1.00
4342666--4342863	108	1.8	108	81	6	249	40	6	7	45	1.57
4344217--4344390	60	2.9	59	76	3	161	39	5	22	32	1.78
4346304--4346339	2	18.0	2	100	0	72	50	0	0	50	1.00
4347575--4347611	20	1.9	19	89	10	58	45	10	24	18	1.81
4348775--4348818	4	11.0	4	90	0	61	43	0	0	56	0.99
4348775--4348818	6	7.3	6	89	0	61	43	0	0	56	0.99
4348775--4348818	10	4.4	10	91	0	61	43	0	0	56	0.99
4348909--4349051	62	2.3	62	98	0	277	34	11	6	46	1.66
4349450--4349512	33	1.9	32	96	3	117	20	14	44	20	1.86
4349821--4349854	15	2.3	15	89	0	50	50	11	8	29	1.69
4350117--4350154	4	9.8	4	88	5	60	23	0	2	73	0.95
4350232--4350335	17	5.9	17	68	17	61	22	3	0	73	1.06
4350194--4350319	40	3.3	39	73	11	102	23	3	0	73	1.00
4350221--4350304	34	2.7	32	78	14	86	25	3	0	71	1.02
4350327--4350400	21	3.7	19	74	13	60	12	9	1	77	1.07
4352368--4352480	43	2.7	43	80	4	131	27	23	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4352551--4352763	44	4.8	44	84	2	257	30	15	24	29	1.96
4352551--4352789	88	2.7	85	78	7	230	29	16	24	29	1.96
4356283--4356379	41	2.4	41	85	3	124	31	23	19	24	1.98
4357737--4357790	27	2.0	27	85	0	72	25	18	12	42	1.86
4363659--4363705	18	2.6	18	96	3	85	42	4	25	27	1.73
4369878--4370080	95	2.1	96	85	4	279	31	17	24	26	1.97
4369899--4370106	95	2.2	95	84	0	245	33	16	23	26	1.96
4370443--4370767	55	5.9	55	88	1	445	28	17	20	33	1.95
4376909--4376964	22	2.7	20	78	10	67	26	16	30	26	1.96
4376833--4377019	95	2.0	96	86	5	263	31	17	24	27	1.97
4376838--4377045	95	2.2	96	82	4	242	33	17	22	27	1.96
4377384--4377673	55	5.3	55	88	0	427	27	18	21	31	1.97
4377423--4377707	55	5.2	55	81	6	137	30	17	20	31	1.96
4377388--4377707	165	1.9	165	85	3	439	29	18	20	31	1.96
4377384--4377707	110	2.9	109	84	1	387	29	18	20	31	1.96
4398619--4398730	33	3.3	33	80	17	133	38	38	9	13	1.78
4398427--4399027	330	1.8	330	83	9	805	39	23	11	25	1.88
4402342--4402429	31	2.8	31	79	3	97	21	31	25	21	1.98
4406842--4406907	33	2.0	33	100	0	132	48	24	9	18	1.76
4411556--4411787	43	5.5	41	83	4	248	33	23	22	20	1.97
4411566--4411782	85	2.6	85	84	1	274	33	23	23	19	1.97
4415298--4415511	60	3.6	60	96	1	385	39	26	3	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416821--4417066	42	5.8	42	89	2	359	32	25	24	17	1.97
4416833--4417066	85	2.8	85	89	3	355	32	25	25	17	1.96
4416821--4417066	127	1.9	129	89	3	381	32	25	24	17	1.97
4420545--4420762	60	3.7	60	94	1	359	38	25	3	31	1.73
4422401--4422493	21	4.5	21	78	4	100	39	18	24	17	1.91
4422482--4422576	20	4.7	20	77	2	82	34	23	17	24	1.96
4422401--4422493	41	2.3	41	100	0	186	39	18	24	17	1.91
4422479--4422556	41	1.9	41	83	0	102	39	20	16	23	1.92
4422764--4422807	22	2.0	22	95	0	79	20	45	15	18	1.85
4423086--4423128	20	2.2	20	91	0	68	9	16	18	55	1.67

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