genome.fa.s8523.2.7.7.80.10.50.1000.16.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  16  of  18  ( 2060 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)
3957613--3957688	21	3.7	21	83	3	109	11	25	17	46	1.82
3957768--3957838	33	2.2	33	89	0	106	49	18	21	11	1.78
3958018--3958072	22	2.5	22	81	0	74	20	16	40	23	1.91
3958219--3958372	20	7.7	20	81	7	168	18	18	26	37	1.93
3958218--3958372	40	3.8	40	82	4	186	18	18	26	37	1.93
3958359--3958441	21	4.0	21	73	6	78	25	16	24	33	1.96
3958339--3958437	42	2.4	43	77	11	100	21	18	23	37	1.94
3959465--3959936	237	2.0	235	97	0	881	34	25	16	23	1.95
3969453--3969485	15	2.1	16	88	5	50	9	24	15	51	1.72
3970228--3970261	16	2.1	16	94	0	59	32	26	8	32	1.87
3972751--3973450	136	5.1	136	84	4	831	30	12	16	40	1.85
3972751--3973518	274	2.9	271	86	4	994	30	12	16	41	1.85
3979972--3980030	30	2.0	30	86	0	82	47	5	5	42	1.47
3980767--3980852	35	2.5	35	84	0	100	40	20	1	37	1.61
3980821--3980863	21	2.0	21	100	0	86	46	13	0	39	1.44
3980986--3981019	16	2.0	18	88	11	54	26	2	5	64	1.30
3981457--3981704	130	1.9	130	92	0	415	36	13	14	35	1.85
3999587--3999626	20	2.0	21	90	5	64	42	15	25	17	1.88
4006721--4006754	11	3.1	11	91	8	52	47	0	2	50	1.16
4008160--4008206	22	2.1	22	88	7	69	51	4	2	42	1.33
4021765--4021816	24	2.1	26	85	7	72	17	11	17	53	1.72
4022078--4022118	20	2.0	20	90	0	64	7	12	21	58	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4022065--4022116	10	5.3	10	74	4	52	3	9	25	61	1.44
4029010--4029050	8	5.2	8	82	5	57	34	0	29	36	1.58
4029118--4030003	128	6.9	128	98	0	1684	22	25	19	32	1.98
4030394--4030492	33	3.0	34	82	4	130	39	3	4	53	1.35
4031011--4031080	21	3.3	21	88	7	106	21	27	32	18	1.97
4031087--4031134	21	2.3	21	88	0	69	25	12	37	25	1.91
4032853--4032932	34	2.5	31	83	8	97	61	1	0	37	1.04
4032856--4032930	31	2.4	33	77	11	84	60	1	0	38	1.06
4034607--4034643	2	18.5	2	100	0	74	51	0	0	48	1.00
4034664--4034701	15	2.5	16	79	12	53	47	0	0	52	1.00
4035257--4035290	17	2.0	17	94	0	59	26	20	11	41	1.87
4040156--4040229	21	3.3	21	66	20	60	31	21	10	36	1.88
4040134--4040230	46	2.1	46	100	0	194	29	22	10	37	1.87
4054852--4054904	23	2.3	21	76	17	52	50	0	1	47	1.12
4060218--4060269	23	2.3	23	83	12	63	57	1	11	28	1.44
4062663--4062699	11	3.3	11	88	7	56	67	0	0	32	0.91
4062663--4062696	12	2.9	12	91	4	52	64	0	0	35	0.94
4083528--4083573	22	2.0	23	87	8	67	58	0	4	36	1.18
4088222--4088280	23	2.6	23	78	7	66	64	1	1	32	1.13
4092818--4092844	12	2.2	12	100	0	54	85	0	7	7	0.75
4093129--4093172	14	3.1	14	76	0	52	52	29	0	18	1.46
4093134--4093177	21	2.2	20	83	4	52	54	22	0	22	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4096228--4096271	12	3.8	12	77	17	56	38	25	15	20	1.92
4096222--4096271	23	2.2	23	92	0	82	36	24	18	22	1.95
4097188--4097224	2	18.5	2	94	0	65	48	0	2	48	1.15
4103568--4103649	41	2.0	41	97	0	155	37	24	23	14	1.92
4112039--4112092	27	2.0	27	85	7	74	72	0	1	25	0.95
4112039--4112108	27	2.5	27	79	9	70	67	0	2	30	1.05
4112220--4112247	2	14.0	2	100	0	56	50	0	50	0	1.00
4112422--4112470	24	2.0	25	84	11	66	36	2	2	59	1.21
4114292--4114566	4	68.8	4	100	0	550	50	24	0	25	1.50
4123052--4123106	28	2.0	28	96	0	101	34	23	14	27	1.94
4134548--4134946	200	2.0	196	81	4	469	40	18	18	22	1.91
4139548--4139678	69	1.9	69	80	3	156	22	22	24	30	1.99
4143620--4143790	18	9.4	18	81	11	197	11	40	28	19	1.87
4143730--4143758	14	2.1	14	100	0	58	6	44	34	13	1.71
4143634--4143781	55	2.7	53	83	12	185	12	42	26	18	1.86
4152094--4152126	3	11.0	3	100	0	66	33	0	0	66	0.92
4164182--4164255	38	2.0	38	94	2	132	14	6	35	43	1.72
4163961--4164488	254	2.1	251	87	7	749	22	11	27	38	1.89
4165053--4165098	18	2.7	18	83	6	60	28	26	6	39	1.81
4165302--4165347	18	2.8	16	83	6	56	28	28	6	36	1.82
4165550--4165595	18	2.8	16	83	6	56	28	28	6	36	1.82
4165045--4165784	248	3.0	249	99	0	1457	33	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4170873--4170913	20	2.0	20	85	9	55	41	2	0	56	1.13
4171300--4171341	17	2.6	17	85	7	52	64	0	4	30	1.14
4173722--4174145	228	1.9	227	87	2	636	40	15	12	31	1.85
4186580--4186638	28	2.1	28	90	0	91	44	3	6	45	1.47
4190452--4190514	15	4.4	14	75	18	58	52	6	0	41	1.27
4193117--4193197	23	3.6	22	85	6	108	23	14	7	54	1.66
4198874--4198917	22	2.0	22	95	0	79	47	4	20	27	1.69
4217123--4217157	18	1.9	18	94	0	61	28	22	22	25	1.99
4221037--4221085	19	2.8	18	76	17	50	38	0	2	59	1.09
4227901--4227928	2	14.0	2	100	0	56	50	0	0	50	1.00
4229194--4229244	16	3.1	17	75	16	54	45	5	0	49	1.26
4229250--4229299	23	2.0	26	85	11	70	52	0	2	46	1.12
4230502--4230535	17	2.0	17	94	0	59	73	5	2	17	1.16
4231445--4231489	23	1.9	23	82	13	56	15	26	6	51	1.68
4231429--4231948	112	4.6	113	93	1	850	29	19	12	38	1.89
4231429--4232010	224	2.6	224	89	0	869	29	19	13	36	1.90
4231912--4232102	92	2.1	92	90	0	301	30	19	15	34	1.93
4231800--4232215	204	2.0	205	85	0	555	29	18	15	36	1.92
4232004--4232417	113	3.7	113	94	0	668	27	18	14	39	1.90
4232819--4232871	22	2.4	22	87	0	79	39	15	13	32	1.85
4235439--4235703	83	3.2	83	95	1	460	36	21	13	27	1.92
4237931--4237971	7	6.0	7	86	11	50	0	14	0	85	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4237938--4237974	11	3.2	11	92	7	56	0	13	0	86	0.57
4237931--4237982	18	2.8	19	82	11	63	0	17	0	82	0.66
4241249--4241302	14	3.8	14	85	2	63	51	9	14	24	1.71
4242855--4242913	16	3.5	17	80	15	52	66	3	1	28	1.18
4243347--4243397	16	3.1	17	75	16	54	45	5	0	49	1.26
4243399--4243449	22	2.3	23	83	6	70	52	0	3	43	1.19
4244639--4244672	17	2.0	17	94	0	59	73	5	2	17	1.16
4245387--4245425	17	2.4	17	95	4	71	43	0	5	51	1.24
4246331--4246382	21	2.5	21	81	3	61	38	19	25	17	1.93
4246371--4246484	20	5.7	20	83	6	113	31	25	18	24	1.97
4246368--4246484	61	1.9	61	85	0	162	33	24	17	23	1.97
4246998--4247064	19	3.5	19	83	2	89	50	23	16	8	1.73
4247060--4247211	19	8.1	19	80	11	170	11	21	20	46	1.83
4247060--4247211	39	4.1	38	80	12	170	11	21	20	46	1.83
4247122--4247186	34	1.9	34	90	3	105	10	24	23	41	1.86
4247154--4247211	20	2.9	19	82	7	62	13	24	18	43	1.87
4249197--4249319	42	2.9	42	80	2	122	22	36	17	22	1.95
4249253--4249319	21	3.2	21	66	6	55	23	35	20	19	1.95
4250679--4250714	14	2.6	14	90	0	54	30	2	22	44	1.67
4250893--4251043	19	8.7	19	64	21	80	15	22	20	41	1.89
4250897--4251023	33	3.9	32	87	8	193	14	22	19	42	1.88
4250890--4251022	66	2.0	66	97	0	248	16	22	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4253311--4253376	19	3.4	19	83	4	87	37	24	22	15	1.92
4253350--4253423	32	2.3	33	90	2	114	47	22	17	12	1.81
4253366--4253437	14	4.9	14	79	12	81	50	25	15	9	1.74
4253471--4253528	14	3.9	14	79	16	71	10	17	24	48	1.78
4253454--4253544	32	2.8	33	93	3	157	12	17	21	48	1.80
4253530--4253572	20	2.2	20	87	4	61	18	23	20	37	1.94
4253538--4253583	20	2.3	20	88	0	65	15	21	26	36	1.93
4254057--4254101	18	2.5	18	88	0	72	13	15	44	26	1.83
4255420--4255462	20	2.2	20	95	0	77	53	18	18	9	1.70
4255952--4256024	20	3.7	20	92	0	119	26	19	28	26	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18