genome.fa.s8001.2.7.7.80.10.50.1000.17.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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

This is table  17  of  18  ( 2081 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)
3603571--3603636	23	2.9	23	81	4	80	22	16	24	36	1.94
3603606--3603662	24	2.4	24	81	0	60	29	21	21	28	1.98
3623088--3623126	5	8.0	5	91	5	62	43	0	0	56	0.99
3623088--3623145	24	2.5	23	81	10	64	37	5	0	56	1.21
3623200--3623296	29	3.4	27	74	17	81	23	4	3	69	1.21
3623497--3623560	4	15.2	4	75	15	58	26	4	0	68	1.09
3624529--3624560	4	7.8	4	96	3	55	25	3	0	71	1.00
3625163--3625206	22	1.9	23	82	17	56	47	15	20	15	1.82
3634721--3635129	109	3.9	107	79	9	346	33	26	19	19	1.96
3634757--3635277	105	5.0	104	79	9	508	33	26	20	19	1.96
3634868--3635232	203	1.8	202	92	1	615	34	25	20	19	1.96
3637134--3637197	4	15.2	4	78	15	67	25	4	0	70	1.06
3637166--3637220	17	3.2	17	81	2	56	20	5	3	70	1.22
3640070--3640098	2	14.5	2	100	0	58	48	0	0	51	1.00
3642519--3642588	35	2.0	35	83	5	88	31	14	25	28	1.95
3643390--3643485	21	4.6	21	74	0	84	25	15	19	39	1.91
3643498--3643547	20	2.4	21	90	3	75	20	18	30	32	1.96
3644201--3644234	16	2.1	17	88	5	52	38	2	17	41	1.65
3648688--3648770	30	2.8	30	85	5	98	33	28	19	18	1.95
3648745--3648839	31	3.1	31	76	8	104	34	18	17	28	1.94
3649497--3649529	2	16.5	2	93	0	57	45	0	3	51	1.16
3650020--3650180	64	2.5	62	83	8	180	26	20	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3653485--3653514	15	2.0	15	93	0	51	0	10	6	83	0.81
3653481--3653514	16	2.2	15	89	5	50	0	11	5	82	0.83
3656100--3656130	15	2.0	16	93	6	55	83	3	12	0	0.75
3665120--3665175	21	2.5	23	75	16	64	30	1	1	66	1.12
3668809--3668842	16	2.1	16	94	0	59	32	8	17	41	1.80
3668878--3668902	2	12.5	2	100	0	50	48	0	0	52	1.00
3670962--3671004	16	2.7	16	79	13	52	13	9	25	51	1.71
3672326--3672362	18	2.1	18	89	0	56	21	35	29	13	1.92
3672387--3672427	22	1.9	22	90	5	66	68	0	0	31	0.90
3685323--3685552	116	2.0	116	82	5	277	28	13	6	52	1.65
3686367--3686406	21	2.0	19	85	9	53	25	5	30	40	1.77
3690146--3690231	24	3.6	25	81	9	90	36	24	17	22	1.95
3690195--3690242	23	2.1	23	88	0	69	37	27	16	18	1.92
3690591--3690975	193	2.0	193	98	1	754	28	25	9	36	1.86
3691965--3692010	20	2.3	20	85	7	58	26	30	10	32	1.90
3692173--3692227	19	2.8	20	83	5	76	34	10	10	43	1.75
3695120--3695145	2	13.0	2	100	0	52	50	0	0	50	1.00
3695867--3695974	20	5.3	20	78	10	103	31	26	18	23	1.97
3695864--3695998	41	3.3	40	77	10	139	34	24	18	22	1.96
3696137--3696170	12	2.9	12	86	4	52	17	41	5	35	1.74
3699309--3699338	15	2.1	14	93	6	51	16	13	20	50	1.78
3701285--3701338	20	2.7	20	85	0	81	37	22	24	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3701414--3701503	32	2.8	32	86	5	128	11	17	22	48	1.78
3702055--3702096	18	2.3	18	87	0	66	11	19	45	23	1.83
3701981--3702244	132	2.0	132	95	3	480	20	14	40	24	1.89
3702179--3702226	18	2.7	18	83	3	71	14	16	45	22	1.84
3703518--3703575	20	2.9	20	84	0	62	43	20	17	18	1.89
3704077--3704149	20	3.7	20	92	0	119	26	20	27	26	1.99
3704057--3704192	41	3.3	41	79	6	150	25	18	23	33	1.97
3704077--3704183	20	5.3	20	81	6	108	24	19	25	30	1.98
3704117--3704212	41	2.3	41	80	7	106	20	19	21	37	1.94
3704257--3704298	19	2.2	20	86	4	59	35	28	16	19	1.93
3704832--3704871	20	2.0	20	85	0	53	17	25	12	45	1.83
3709454--3709529	31	2.4	31	82	4	98	28	14	21	35	1.92
3711317--3711832	137	3.8	137	84	3	635	35	24	15	24	1.94
3711744--3711881	54	2.6	54	90	0	213	36	20	16	26	1.94
3711606--3712018	191	2.2	191	88	2	607	35	23	16	24	1.95
3711471--3712126	328	2.0	327	86	5	905	34	25	16	23	1.95
3711792--3712158	137	2.7	137	89	1	522	34	25	16	23	1.96
3713352--3713565	118	1.8	119	80	9	258	37	6	6	49	1.55
3720936--3721074	60	2.3	61	83	4	176	34	23	4	37	1.75
3721193--3721280	29	3.0	29	67	18	81	37	4	25	32	1.76
3721190--3721344	60	2.6	59	84	4	195	40	3	21	33	1.72
3731593--3732238	182	3.6	182	89	1	947	43	13	16	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3733188--3733237	19	2.6	19	93	0	82	30	2	10	58	1.42
3733513--3734390	198	4.4	198	92	1	1362	36	16	15	31	1.90
3733513--3734511	396	2.5	394	88	3	1308	36	16	15	32	1.89
3733557--3734517	198	4.8	200	88	2	847	36	15	15	32	1.89
3734814--3734856	15	2.8	16	82	10	63	25	39	0	34	1.56
3734812--3734864	15	3.5	15	78	0	61	20	39	3	35	1.71
3735526--3735682	64	2.5	64	83	6	194	34	20	17	28	1.95
3736792--3736855	21	3.0	21	88	4	101	23	26	23	26	2.00
3738567--3739091	199	2.6	197	81	7	546	38	13	16	32	1.87
3739106--3739229	64	2.0	63	90	1	194	33	12	12	42	1.79
3741196--3741268	21	3.5	21	77	3	94	21	16	27	34	1.95
3741188--3741265	41	1.9	41	97	0	147	20	17	25	35	1.95
3742425--3742558	22	6.4	22	72	10	102	39	22	17	20	1.92
3742407--3742516	43	2.6	41	87	5	175	39	21	17	21	1.93
3742490--3742537	19	2.5	19	96	0	87	43	18	18	18	1.88
3742447--3742578	60	2.1	63	85	9	175	41	21	17	19	1.90
3742803--3742827	13	1.9	13	100	0	50	48	0	4	48	1.20
3748767--3749406	318	2.0	318	99	0	1262	30	14	27	27	1.95
3749456--3750542	120	9.1	119	83	4	1100	28	16	27	27	1.97
3750504--3750609	33	3.2	33	98	0	203	25	22	22	29	1.99
3750286--3750835	300	1.8	295	82	6	692	27	17	26	28	1.98
3754068--3754117	21	2.4	21	89	0	73	44	32	16	8	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3757299--3757486	96	1.9	99	82	5	240	34	13	9	42	1.77
3769143--3769183	22	2.0	21	86	13	59	41	0	4	53	1.22
3771673--3771702	2	14.5	2	93	6	51	46	0	3	50	1.18
3774753--3774970	109	2.0	110	85	4	298	32	16	28	22	1.96
3784015--3784058	14	3.1	14	90	3	61	9	63	18	9	1.49
3789582--3789860	74	3.8	73	85	1	360	46	23	11	18	1.81
3789575--3789841	148	1.8	147	87	4	403	46	23	11	18	1.81
3793351--3793413	2	32.0	2	96	3	119	49	0	0	50	1.00
3793474--3793610	74	1.9	73	92	1	229	24	22	7	45	1.77
3797953--3797990	17	2.2	18	86	9	53	39	0	2	57	1.12
3798279--3798327	25	2.0	25	91	0	80	22	6	6	65	1.38
3798333--3798366	15	2.4	14	85	5	50	20	0	8	70	1.13
3800202--3800357	65	2.4	63	83	7	181	30	23	17	28	1.97
3800339--3800400	19	3.4	19	93	4	101	22	29	19	29	1.98
3808265--3808299	2	17.5	2	100	0	70	48	0	0	51	1.00
3808837--3808942	45	2.3	45	83	4	133	30	20	18	30	1.97
3808913--3808961	19	2.6	19	84	9	57	24	28	20	26	1.99
3812403--3812452	21	2.4	21	86	0	64	30	36	4	30	1.76
3812943--3813007	33	2.0	33	84	0	85	43	26	12	18	1.85
3816085--3816115	2	15.5	2	100	0	62	51	0	0	48	1.00
3819075--3819126	2	26.0	2	100	0	104	50	0	0	50	1.00
3823080--3823161	13	5.9	15	68	17	52	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)
3823323--3823398	30	2.6	30	87	2	118	21	35	10	32	1.87
3830267--3830316	23	2.2	23	100	0	100	64	0	10	26	1.25
3832815--3832883	22	3.4	22	67	19	67	10	18	39	31	1.84
3832803--3832892	39	2.3	39	96	0	162	8	18	44	27	1.80
3841831--3842136	155	2.0	155	92	2	517	29	17	5	47	1.71
3843067--3843176	53	2.1	53	96	0	202	34	6	23	35	1.80
3847127--3847185	29	2.0	29	100	0	118	23	13	13	49	1.78
3851808--3851866	29	2.0	29	100	0	118	23	13	13	49	1.78
3855298--3855334	18	2.1	18	89	0	56	18	27	18	35	1.95
3855390--3855434	19	2.4	19	85	14	67	22	26	20	31	1.98

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