genome.fa.s8016.2.7.7.80.10.50.1000.17.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  17  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)
3643632--3643690	31	1.9	31	89	0	91	44	5	6	44	1.52
3643713--3644449	22	33.5	22	77	10	639	47	9	0	43	1.38
3643713--3644449	44	16.7	44	85	4	794	47	9	0	43	1.38
3643713--3644449	66	11.2	66	83	4	869	47	9	0	43	1.38
3661765--3661799	12	2.8	13	91	8	63	37	5	8	48	1.58
3664087--3664142	21	2.7	21	83	5	69	32	16	28	23	1.96
3666141--3666165	12	2.1	12	100	0	50	24	32	16	28	1.96
3669599--3669628	14	2.1	14	100	0	60	60	0	13	26	1.34
3673180--3673231	21	2.6	21	81	6	63	34	15	17	32	1.91
3673247--3673297	19	2.6	20	81	6	59	43	11	11	33	1.78
3674967--3675016	20	2.5	20	90	6	75	8	8	2	82	0.93
3675041--3675073	10	3.2	11	87	12	52	66	0	6	27	1.15
3675379--3675416	19	2.0	19	89	0	58	68	7	7	15	1.37
3675769--3675802	16	2.1	17	89	10	54	70	5	0	23	1.09
3677455--3677508	3	17.7	3	92	3	90	29	0	70	0	0.88
3688540--3688573	2	17.0	2	100	0	68	50	0	0	50	1.00
3690467--3690579	56	2.0	56	98	0	217	24	35	15	23	1.94
3694776--3694815	20	2.0	20	95	0	71	45	12	5	37	1.64
3694829--3694868	20	2.0	21	85	5	55	45	12	5	37	1.64
3694882--3694920	20	2.0	20	94	0	69	41	17	5	35	1.72
3694772--3694921	53	2.9	52	94	3	266	48	12	6	33	1.66
3699486--3699525	20	2.0	20	90	9	64	47	10	5	37	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3699482--3699637	52	3.0	52	92	2	260	48	11	5	34	1.63
3699539--3699578	20	2.0	21	90	5	64	45	15	5	35	1.68
3699592--3699630	20	2.0	20	94	0	69	41	17	5	35	1.72
3701428--3701463	18	1.9	19	88	5	56	58	0	5	36	1.22
3701624--3701667	13	3.3	13	83	3	61	52	2	0	45	1.13
3701997--3702031	2	18.0	2	94	5	63	48	0	0	51	1.00
3702078--3702159	23	3.5	23	88	3	119	46	3	7	42	1.49
3702136--3702329	39	5.1	39	83	6	164	44	2	6	46	1.41
3702126--3702413	72	3.9	73	78	8	217	42	2	7	47	1.45
3702131--3702413	37	7.6	38	79	7	251	43	2	7	46	1.45
3702427--3702466	16	2.4	17	84	15	57	22	7	0	70	1.12
3703676--3703723	24	2.0	24	87	4	69	22	0	2	75	0.91
3703676--3703723	19	2.5	18	83	10	51	22	0	2	75	0.91
3709873--3709931	29	2.0	29	100	0	118	49	13	13	23	1.78
3716015--3716052	12	3.5	11	86	10	51	55	0	0	44	0.99
3716027--3716071	13	3.5	13	81	3	56	57	0	2	40	1.11
3727008--3727359	175	2.0	175	100	0	704	28	20	19	31	1.97
3730181--3730339	52	3.1	52	87	0	230	14	20	23	40	1.90
3730600--3730657	27	2.1	27	81	9	64	46	10	17	25	1.79
3733029--3733068	21	1.9	21	94	0	71	30	15	7	47	1.72
3733063--3733161	33	3.0	33	94	1	164	32	7	15	45	1.73
3733147--3733201	13	4.2	13	75	13	58	34	3	12	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3733394--3733450	21	2.7	21	91	0	96	19	26	26	28	1.99
3733634--3733684	17	3.0	17	97	0	93	39	11	11	37	1.79
3733615--3733687	17	4.6	15	85	6	74	34	12	12	41	1.80
3741651--3741685	17	2.1	17	88	0	52	20	14	31	34	1.92
3747319--3747363	22	2.0	22	86	4	63	31	33	26	8	1.87
3748186--3748281	32	3.0	31	79	14	115	29	18	17	34	1.94
3748273--3748425	30	5.1	30	95	0	263	21	21	25	31	1.98
3748698--3748729	2	16.0	2	93	0	55	46	0	3	50	1.17
3751513--3751557	21	2.1	21	83	0	54	31	31	24	13	1.93
3751586--3751630	22	2.0	22	86	4	63	31	33	26	8	1.87
3752451--3752546	32	3.0	31	79	14	115	29	18	17	34	1.94
3752538--3752720	30	6.1	30	97	0	332	21	22	25	30	1.99
3752993--3753024	2	16.0	2	93	0	55	46	0	3	50	1.17
3757860--3757899	21	1.9	21	85	10	55	27	17	0	55	1.43
3758293--3758366	18	3.9	18	84	10	103	27	31	21	20	1.98
3758290--3758366	39	2.0	39	94	0	136	27	29	20	22	1.98
3763111--3763150	21	1.9	21	85	10	55	27	17	0	55	1.43
3763541--3763620	21	4.0	21	88	8	121	23	30	21	25	1.99
3763541--3763620	39	2.0	41	87	7	119	23	30	21	25	1.99
3772598--3772649	26	2.0	26	100	0	104	23	26	7	42	1.81
3772861--3772898	17	2.1	19	90	9	62	34	5	15	44	1.69
3777389--3777415	14	1.9	14	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3788543--3788604	2	31.0	2	100	0	124	50	0	0	50	1.00
3789354--3789429	21	3.3	23	68	22	61	51	0	2	46	1.15
3803094--3803133	19	2.1	19	85	0	53	55	0	0	45	0.99
3803156--3803201	12	3.9	12	88	2	67	30	47	10	10	1.73
3803156--3803201	24	2.0	24	91	4	76	30	47	10	10	1.73
3804223--3804261	20	2.0	20	94	0	69	35	7	28	28	1.85
3805025--3805110	23	3.7	23	75	18	88	27	26	26	18	1.98
3806239--3806302	22	2.9	22	100	0	128	26	28	28	17	1.97
3808000--3808044	21	2.1	21	87	0	63	15	24	28	31	1.96
3811203--3811266	22	2.9	22	100	0	128	26	28	28	17	1.97
3812962--3813006	21	2.1	21	87	0	63	15	24	28	31	1.96
3814841--3814915	37	2.0	37	82	10	91	49	4	1	45	1.29
3819730--3819776	18	2.6	18	80	6	51	53	19	2	25	1.56
3820154--3820196	21	2.0	21	81	0	50	58	9	0	32	1.30
3820313--3820367	22	2.3	25	84	12	71	50	1	0	47	1.11
3821359--3821520	21	7.7	21	83	0	216	35	25	19	20	1.96
3831066--3831220	5	31.0	5	100	0	310	60	0	0	40	0.97
3836359--3836445	33	3.0	27	79	17	86	29	18	29	21	1.97
3836386--3836479	33	2.8	33	90	3	136	35	17	25	22	1.95
3836943--3836985	21	2.1	21	91	4	70	60	0	0	39	0.97
3842112--3842158	12	3.9	12	78	10	51	19	0	51	29	1.47
3847359--3847412	2	27.0	2	100	0	108	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3847772--3847832	23	2.7	23	84	0	77	19	26	24	29	1.99
3852185--3852214	2	15.0	2	100	0	60	50	0	0	50	1.00
3852569--3852636	23	3.0	23	86	0	100	17	26	26	29	1.98
3856883--3856909	14	1.9	14	100	0	54	44	11	14	29	1.80
3863264--3863301	20	1.9	20	94	0	67	23	23	10	42	1.85
3868281--3868309	3	10.0	3	92	7	51	0	34	0	65	0.93
3868798--3868836	11	3.6	11	93	3	62	69	10	20	0	1.17
3873037--3873084	25	1.9	25	86	0	69	39	4	4	52	1.40
3884939--3884978	21	1.9	21	85	10	55	35	10	2	52	1.48
3889113--3889227	37	3.1	37	93	1	185	11	7	39	41	1.70
3889607--3889652	18	2.6	17	79	3	56	28	28	6	36	1.82
3899324--3899399	38	2.1	38	83	14	97	55	7	5	31	1.51
3899730--3899840	49	2.2	53	81	9	126	58	0	5	35	1.27
3899829--3899870	2	21.0	2	95	0	75	50	2	0	47	1.14
3899868--3899903	18	2.1	18	89	5	56	66	2	5	25	1.27
3900300--3900397	34	2.8	35	90	4	153	27	15	12	44	1.82
3900950--3901507	107	5.3	106	88	4	788	22	18	25	33	1.97
3900950--3901507	212	2.7	206	88	3	821	22	18	25	33	1.97
3902098--3902504	65	5.9	67	74	12	233	39	12	20	28	1.88
3902244--3902524	36	8.0	35	78	12	281	40	14	19	25	1.89
3902192--3902505	138	2.3	137	87	1	450	40	13	19	26	1.89
3902386--3902558	36	4.8	36	85	4	163	39	16	20	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3903417--3903467	22	2.3	22	93	0	84	23	11	29	35	1.90
3904122--3904188	16	4.3	15	77	21	59	0	14	7	77	0.97
3904125--3904192	22	3.0	22	79	16	59	0	13	8	77	0.98
3904123--3904192	23	3.0	23	79	10	63	0	14	8	77	0.99
3907800--3907842	18	2.5	17	85	7	61	67	2	4	25	1.22
3908235--3908336	34	2.9	36	85	7	154	28	15	11	44	1.82
3926530--3926561	2	16.0	2	93	0	55	50	3	0	46	1.17
3930922--3930954	2	16.5	2	100	0	66	51	0	0	48	1.00
3933984--3934107	60	2.1	59	83	4	151	37	14	13	33	1.86
3934252--3934311	26	2.3	26	91	2	95	56	1	6	35	1.35

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