genome.fa.s9582.2.7.7.80.10.50.1000.20.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  20  of  24  ( 2799 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)
3870867--3870927	23	2.6	23	82	7	77	40	4	1	52	1.33
3871629--3871667	2	19.5	2	100	0	78	51	0	0	48	1.00
3878685--3878796	55	2.0	55	98	0	215	41	17	11	29	1.85
3879298--3879419	63	1.9	64	83	8	160	28	18	19	33	1.95
3880295--3880346	21	2.5	21	96	0	95	21	23	38	17	1.93
3881718--3881765	19	2.5	20	82	3	62	29	12	6	52	1.63
3883898--3883939	17	2.5	17	96	0	75	42	4	28	23	1.74
3885677--3885739	26	2.4	26	89	0	99	49	23	7	19	1.74
3891108--3891160	2	26.5	2	100	0	106	49	0	0	50	1.00
3891167--3891213	20	2.3	21	85	7	62	48	6	4	40	1.48
3892377--3892422	17	2.7	17	83	12	51	34	0	2	63	1.07
3894187--3894224	20	1.9	20	84	10	51	76	0	15	7	1.01
3896230--3896279	20	2.5	20	93	0	82	34	16	28	22	1.95
3897824--3897926	54	1.9	54	84	4	136	36	16	13	33	1.88
3899260--3899309	21	2.4	21	96	0	91	20	20	4	56	1.58
3899692--3899740	21	2.5	20	80	16	57	71	18	0	10	1.13
3902403--3902806	202	2.0	202	99	0	792	26	21	8	44	1.80
3903923--3903963	15	2.7	16	81	7	50	24	0	24	51	1.49
3904314--3904347	3	11.3	3	100	0	68	32	0	0	67	0.91
3922096--3922169	29	2.5	30	86	6	107	43	18	5	32	1.73
3932488--3932525	15	2.5	15	87	12	51	34	0	2	63	1.09
3932543--3932567	3	8.3	3	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3933491--3933561	36	2.0	35	94	2	124	46	15	5	32	1.69
3933500--3933560	21	3.2	21	63	26	53	47	14	4	32	1.66
3937474--3937543	35	2.0	35	91	5	115	48	17	4	30	1.66
3937979--3938021	22	1.9	23	85	4	61	0	16	9	74	1.06
3938972--3939013	22	1.9	22	90	0	66	16	19	28	35	1.93
3939634--3939898	132	2.0	132	96	0	485	27	33	8	30	1.86
3939927--3939984	22	2.6	22	77	0	62	37	1	22	37	1.65
3944392--3944457	32	2.1	32	97	0	123	36	25	12	25	1.91
3945633--3945694	2	30.5	2	82	9	72	51	1	3	43	1.27
3945648--3945711	31	2.1	30	85	11	85	50	1	7	40	1.41
3949780--3949807	2	14.0	2	100	0	56	50	0	0	50	1.00
3949710--3949787	39	2.0	39	80	9	88	52	5	7	34	1.52
3952152--3952616	41	11.4	40	70	6	243	34	16	13	35	1.88
3952158--3952462	123	2.5	122	86	2	398	35	17	11	35	1.86
3952153--3952617	82	5.7	82	76	6	336	35	16	13	35	1.88
3952226--3952607	204	1.9	203	82	7	479	35	16	13	35	1.87
3958237--3958268	3	10.7	3	100	0	64	31	0	0	68	0.90
3960047--3960124	13	6.0	13	90	0	111	24	19	20	35	1.95
3964466--3964677	70	3.0	70	100	0	424	24	2	12	60	1.46
3972458--3972713	90	2.8	90	93	0	440	24	17	22	35	1.96
3972650--3972785	72	1.9	72	92	0	227	22	22	22	32	1.98
3972805--3973334	136	3.9	136	89	1	782	33	16	22	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3973273--3973548	105	2.6	105	88	4	394	40	15	19	23	1.91
3973474--3973641	91	1.9	89	89	2	264	43	14	19	22	1.87
3977763--3977789	12	2.2	12	100	0	54	59	0	40	0	0.98
3987093--3987134	20	2.1	20	100	0	84	21	4	23	50	1.68
3991493--3991565	35	2.1	35	97	0	137	42	5	17	34	1.73
3992220--3992435	117	1.9	116	83	6	285	36	14	20	28	1.92
3992407--3992649	117	2.1	117	100	0	486	33	21	17	26	1.96
4001918--4001989	2	36.0	2	97	0	135	50	0	1	48	1.09
4024178--4024219	22	2.0	22	85	4	59	35	0	9	54	1.33
4033626--4033673	21	2.3	21	100	0	96	27	29	8	35	1.86
4035998--4036105	44	2.5	44	96	0	198	61	8	9	21	1.53
4038809--4038958	75	2.0	74	90	3	239	40	16	10	33	1.82
4039785--4039818	17	2.0	17	94	0	59	2	11	23	61	1.43
4042316--4042352	19	1.9	19	94	0	65	45	8	13	32	1.73
4042404--4042552	48	3.1	48	99	0	289	34	16	19	30	1.93
4047973--4048080	52	2.1	52	100	0	216	31	19	20	28	1.97
4051144--4051218	37	2.0	37	87	5	107	46	0	1	52	1.09
4051359--4051432	20	3.8	19	89	7	112	27	25	8	39	1.84
4054449--4054482	10	3.4	10	87	0	50	64	17	17	0	1.29
4056530--4056585	28	2.0	28	96	0	103	28	26	10	33	1.90
4058791--4058894	24	4.5	24	63	27	71	29	0	10	58	1.38
4058776--4058972	69	2.9	68	86	3	252	31	1	10	57	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4059562--4059604	18	2.4	18	88	0	59	18	4	2	74	1.10
4059644--4059705	15	4.1	14	78	12	61	24	4	0	70	1.06
4059644--4059705	18	3.6	18	76	23	62	24	4	0	70	1.06
4061377--4061452	36	2.1	35	90	2	116	21	18	28	31	1.97
4062944--4062980	2	18.5	2	100	0	74	51	0	0	48	1.00
4064564--4064623	24	2.6	23	86	5	86	41	15	18	25	1.89
4065378--4065427	22	2.3	22	85	0	64	30	24	22	24	1.99
4065702--4065745	21	2.0	22	82	4	54	38	20	6	34	1.79
4068698--4068731	2	17.5	2	87	6	52	50	0	0	50	1.00
4073447--4073491	23	2.0	23	82	8	56	13	15	4	66	1.39
4075434--4075483	2	25.5	2	87	4	75	2	50	0	48	1.12
4076625--4076661	7	5.3	7	100	0	74	0	29	13	56	1.37
4083245--4084171	467	2.0	469	88	3	1402	33	16	15	33	1.91
4092574--4092610	17	2.2	17	100	0	74	27	10	5	56	1.55
4095775--4095834	20	3.0	20	77	0	66	13	20	33	33	1.91
4097779--4097826	16	3.1	16	74	14	55	47	25	16	10	1.78
4098219--4098280	16	3.9	16	83	6	72	53	30	9	6	1.59
4098214--4098286	16	4.5	15	80	10	65	52	31	8	8	1.61
4098367--4098402	12	3.0	13	88	11	51	30	0	0	69	0.89
4099296--4099397	46	2.2	47	84	11	140	49	19	12	18	1.80
4111346--4111441	37	2.6	37	86	0	138	40	16	12	30	1.86
4111505--4111546	21	1.9	23	85	9	61	57	14	23	4	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4112166--4112225	10	5.5	10	82	11	57	16	0	10	73	1.09
4112183--4112228	24	1.9	24	86	8	67	15	0	8	76	1.02
4112170--4112239	22	3.0	23	78	16	74	20	0	8	71	1.11
4112309--4112338	4	7.2	4	92	7	51	23	3	0	73	0.98
4112350--4112384	12	2.8	12	86	4	52	17	8	0	74	1.06
4116769--4116848	31	2.6	31	84	2	90	80	5	15	0	0.88
4116783--4116848	8	8.4	8	81	8	73	84	3	12	0	0.72
4116783--4116849	15	4.4	15	81	3	71	83	2	13	0	0.76
4116783--4116840	7	7.7	7	83	11	62	84	3	12	0	0.74
4117439--4117494	22	2.5	22	80	11	78	37	21	10	30	1.87
4118447--4119812	106	13.0	106	89	2	2026	34	25	17	22	1.96
4120510--4120614	37	2.8	37	83	0	129	41	14	13	30	1.84
4121081--4121172	21	4.3	21	72	15	82	33	3	2	60	1.25
4121373--4121421	12	4.3	12	77	10	50	30	4	4	61	1.33
4121439--4121468	2	15.0	2	100	0	60	50	0	0	50	1.00
4121476--4121563	9	10.1	9	72	17	53	18	9	0	72	1.10
4121471--4121565	30	3.1	30	75	18	90	17	8	0	73	1.07
4121471--4121538	19	3.6	20	74	20	58	19	5	0	75	1.01
4121487--4121534	23	2.1	22	81	11	53	16	6	0	77	0.97
4124365--4124423	9	6.0	9	85	14	73	83	0	16	0	0.66
4131416--4131483	3	23.0	3	85	8	95	30	2	0	66	1.07
4132680--4132719	20	2.0	20	85	9	55	37	2	2	57	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4132820--4132865	15	3.2	15	75	12	51	36	0	0	63	0.95
4136948--4136977	15	2.0	15	100	0	60	26	20	6	46	1.75
4144342--4144398	6	9.3	6	77	11	53	78	1	19	0	0.83
4144339--4144397	14	4.1	14	76	10	57	77	1	20	0	0.85
4144342--4144416	33	2.3	32	80	13	84	77	1	18	2	0.96
4145295--4145990	123	5.7	123	90	2	1001	39	16	18	25	1.91
4145313--4145990	242	2.8	245	89	2	1053	39	16	18	25	1.91
4146216--4146396	80	2.3	80	95	0	326	34	14	20	30	1.93
4146578--4146638	3	20.3	3	77	12	63	36	1	0	62	1.05
4146568--4146611	18	2.4	19	88	11	65	27	0	0	72	0.85

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