genome.fa.s8016.2.7.7.80.10.50.1000.23.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  23  of  25  ( 2971 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)
5086789--5086821	12	2.9	12	91	8	52	54	0	0	45	0.99
5094459--5094508	14	3.8	12	84	10	55	80	0	14	6	0.90
5094857--5094894	18	2.1	18	95	0	67	31	7	5	55	1.51
5095570--5095623	22	2.5	22	87	0	81	35	16	12	35	1.87
5095570--5095632	22	2.9	22	81	9	74	38	14	14	33	1.86
5096020--5096474	123	3.7	122	88	4	682	40	14	18	25	1.89
5096830--5096895	3	22.0	3	74	22	59	33	0	0	66	0.92
5096835--5096895	13	4.7	13	79	18	56	34	0	0	65	0.93
5098332--5098364	15	2.1	16	88	5	50	42	0	0	57	0.98
5098588--5098633	23	2.0	23	82	0	56	47	2	2	47	1.26
5099890--5099937	20	2.4	20	100	0	96	25	0	41	33	1.55
5105416--5105452	19	1.9	20	94	5	67	43	0	0	56	0.99
5117580--5117630	24	2.1	24	96	0	93	35	19	7	37	1.81
5121585--5121642	2	31.5	2	78	16	54	55	0	0	44	0.99
5121566--5121607	22	2.0	21	85	4	57	61	0	0	38	0.96
5121557--5121632	28	2.6	29	86	14	104	57	0	0	42	0.98
5125439--5125576	20	6.8	20	86	8	181	37	23	18	19	1.94
5125357--5125590	20	11.6	20	76	13	133	33	24	17	24	1.96
5126478--5126524	24	2.0	24	91	0	76	29	21	14	34	1.93
5129217--5129266	25	2.0	25	96	0	91	26	8	22	44	1.80
5129636--5129688	24	2.2	24	89	0	79	37	1	13	47	1.54
5129948--5130034	39	2.2	39	97	0	165	47	20	14	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5130276--5130313	20	1.9	20	100	0	76	13	18	26	42	1.87
5132014--5132057	4	10.5	4	80	9	52	68	2	2	27	1.14
5132891--5132926	18	2.0	18	89	10	56	13	27	33	25	1.94
5132905--5132957	27	2.0	27	100	0	106	18	30	22	28	1.98
5133890--5134093	31	6.6	31	93	0	345	19	19	23	38	1.93
5137091--5137159	18	3.9	18	73	22	67	15	28	33	21	1.95
5138105--5138287	31	6.0	31	91	5	284	19	19	23	37	1.94
5138105--5138274	90	1.9	92	92	3	290	18	20	23	38	1.93
5139070--5139127	21	2.8	21	94	0	98	37	36	13	12	1.82
5140755--5140972	110	2.0	107	95	2	391	42	8	10	38	1.70
5141653--5141774	31	4.0	31	91	4	185	36	22	20	20	1.95
5141653--5141774	61	2.0	62	88	4	185	36	22	20	20	1.95
5145997--5146181	31	6.0	31	96	1	327	37	22	19	20	1.94
5147652--5147694	20	2.2	20	91	4	70	11	18	25	44	1.84
5147955--5148005	22	2.3	22	96	0	93	21	13	43	21	1.87
5148154--5148194	21	2.0	21	100	0	82	39	17	24	19	1.92
5148211--5148275	20	3.3	19	79	10	69	27	13	27	30	1.94
5148211--5148283	19	3.7	19	76	8	67	27	12	27	32	1.92
5152137--5152233	21	4.7	21	71	5	81	22	24	16	36	1.94
5152115--5152233	62	1.9	62	88	6	179	24	24	16	34	1.95
5152157--5152272	41	2.8	41	77	7	128	23	23	18	35	1.96
5152137--5152265	21	6.2	21	69	8	77	22	24	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5152261--5152333	20	3.5	20	85	7	76	36	20	19	23	1.95
5152887--5152931	19	2.4	19	92	0	72	48	26	15	8	1.74
5152927--5153087	19	9.1	19	75	17	134	12	22	21	43	1.86
5152932--5153062	33	3.9	33	78	17	135	11	22	22	42	1.86
5153001--5153062	29	2.0	31	90	9	101	12	24	25	37	1.91
5153030--5153087	20	2.9	20	80	10	64	13	24	18	43	1.87
5152948--5153078	69	1.9	69	87	6	194	12	22	23	41	1.88
5156554--5156589	14	2.6	14	95	0	63	30	0	25	44	1.54
5156714--5156768	14	3.6	14	73	21	56	45	21	23	9	1.80
5156696--5156773	33	2.4	33	95	0	147	43	20	24	11	1.85
5156696--5156756	19	3.5	19	74	21	69	44	21	22	11	1.84
5156778--5156906	65	2.0	65	92	3	215	19	23	16	41	1.90
5156785--5156909	32	3.8	33	78	7	148	18	23	16	41	1.90
5159378--5159431	24	2.2	24	86	0	72	42	20	14	22	1.88
5160210--5160261	21	2.5	21	81	3	61	40	15	23	21	1.91
5160227--5160337	20	5.4	20	72	5	71	38	20	18	21	1.93
5160551--5160618	20	3.4	20	68	8	66	41	23	19	16	1.90
5160535--5160638	40	2.9	34	76	15	109	41	22	21	15	1.90
5160645--5160712	19	3.8	19	87	12	101	13	22	17	47	1.82
5162741--5162860	19	6.9	18	73	17	94	45	23	20	11	1.83
5162740--5162828	33	2.5	34	77	18	101	44	22	20	12	1.84
5162780--5162855	14	4.8	14	73	20	53	47	23	18	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5162740--5162860	51	2.3	52	88	2	181	45	23	19	11	1.83
5162891--5162994	14	6.7	14	76	20	100	10	16	23	50	1.76
5162872--5162947	33	2.3	33	95	0	134	13	18	19	48	1.80
5162891--5162994	47	2.2	47	100	0	208	10	16	23	50	1.76
5162938--5163007	33	2.1	33	100	0	140	11	18	21	48	1.79
5162995--5163038	20	2.2	20	84	4	54	20	25	18	36	1.95
5163525--5163569	18	2.5	18	88	0	72	13	15	44	26	1.83
5164889--5164947	20	3.0	20	87	0	73	42	22	18	16	1.89
5165141--5165184	22	2.0	22	95	0	79	18	15	45	20	1.85
5165353--5165484	20	6.5	20	80	7	115	24	18	24	33	1.97
5165353--5165490	61	2.3	61	84	0	186	24	17	23	34	1.96
5165373--5165508	61	2.2	61	80	2	148	23	19	23	33	1.97
5180971--5181037	20	3.3	20	87	4	89	38	23	11	25	1.89
5180971--5181055	21	4.1	21	86	1	84	40	24	12	22	1.89
5185320--5185974	218	3.0	218	99	0	1294	40	17	14	28	1.88
5189497--5189560	25	2.4	27	80	17	71	31	1	1	65	1.11
5189503--5189685	29	6.7	27	70	25	75	32	1	1	64	1.13
5189583--5189607	2	12.5	2	100	0	50	48	0	0	52	1.00
5189522--5189685	49	3.3	50	79	14	148	31	1	1	64	1.14
5189518--5189669	31	5.0	30	69	23	97	32	1	1	63	1.14
5189611--5189729	21	5.9	20	72	22	90	24	2	0	72	1.03
5189662--5189713	17	3.3	16	79	10	54	19	1	1	76	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5189675--5189743	23	3.0	24	77	10	63	20	8	0	71	1.12
5192825--5192886	11	5.8	11	78	12	58	77	4	16	1	1.02
5192950--5193087	69	2.0	69	89	0	213	39	22	12	26	1.89
5194002--5194087	32	2.7	31	81	1	109	31	8	19	40	1.81
5195186--5195247	30	2.1	30	90	0	97	35	25	16	22	1.94
5195511--5195555	4	11.2	4	100	0	90	48	24	0	26	1.51
5196442--5196602	64	2.5	63	83	5	198	24	24	18	31	1.98
5197493--5197821	106	3.1	105	87	0	442	35	22	20	22	1.96
5198184--5198270	37	2.4	37	82	5	97	26	20	13	39	1.90
5198073--5198251	87	2.1	87	93	2	306	32	18	12	35	1.89
5198073--5198310	87	2.7	87	84	5	248	32	18	12	36	1.88
5198886--5198937	23	2.3	23	90	3	79	30	26	25	17	1.97
5198894--5198939	23	2.0	23	95	4	85	26	28	26	19	1.99
5199159--5199218	30	2.0	31	90	3	95	33	23	6	36	1.81
5199233--5199304	29	2.5	29	90	0	108	37	12	11	38	1.79
5199605--5199774	66	2.6	66	82	8	193	17	27	27	27	1.98
5205816--5205883	22	3.0	22	97	2	127	26	27	26	19	1.99
5206176--5206247	29	2.5	29	90	0	108	37	12	11	38	1.79
5206549--5206585	19	1.9	19	88	0	56	10	29	35	24	1.89
5206550--5206721	68	2.6	66	83	6	211	17	27	27	27	1.98
5207544--5207777	36	6.6	35	77	15	207	28	20	12	38	1.89
5207552--5207743	102	1.9	103	87	7	284	28	19	13	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5207763--5207856	39	2.6	36	79	15	104	41	24	6	27	1.79
5209015--5209370	132	2.7	132	92	1	581	42	8	8	40	1.66
5209517--5209561	22	2.1	22	88	12	67	66	4	0	28	1.11
5209795--5209831	2	18.5	2	94	0	65	51	2	0	45	1.15
5210878--5210929	26	2.0	26	88	0	77	65	0	1	32	1.04
5210875--5210932	21	2.7	22	77	20	61	63	0	1	34	1.04
5211283--5211620	121	2.9	122	80	11	352	27	18	14	39	1.90
5211417--5211681	113	2.4	112	89	1	406	29	19	13	37	1.90
5211656--5211707	17	3.1	17	71	15	54	23	19	7	50	1.73
5212088--5212145	22	2.6	22	83	0	80	37	15	13	32	1.87

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