genome.fa.s8531.2.7.7.80.10.50.1000.19.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  19  of  19  ( 2279 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)
3647868--3648194	117	2.8	117	94	0	564	24	23	15	36	1.94
3652825--3652999	93	1.9	93	86	4	255	25	27	17	29	1.97
3652918--3654056	450	2.5	452	90	2	1779	25	26	21	26	1.99
3654840--3654890	15	3.4	15	94	0	84	21	3	23	50	1.65
3658017--3658164	80	1.9	78	87	2	215	33	16	14	35	1.89
3658192--3658235	19	2.4	19	92	7	74	52	13	4	29	1.60
3659489--3659671	69	2.6	70	78	8	176	33	8	8	48	1.65
3660758--3660782	9	2.8	9	100	0	50	56	0	0	44	0.99
3662264--3662290	2	13.5	2	100	0	54	51	0	0	48	1.00
3665969--3666008	21	1.9	21	94	0	71	30	15	7	47	1.72
3666003--3666101	33	3.0	33	94	1	164	32	7	15	45	1.73
3666087--3666141	13	4.2	13	75	13	58	34	3	12	49	1.59
3666337--3666393	21	2.7	21	91	0	96	19	26	26	28	1.99
3672355--3672405	19	2.8	18	76	5	57	45	5	0	49	1.26
3672980--3673016	12	2.8	14	76	16	51	27	0	0	72	0.84
3672935--3673006	30	2.5	30	80	10	87	29	1	4	65	1.20
3672964--3673003	18	2.3	18	82	4	55	27	2	0	70	1.01
3678863--3678888	13	2.0	13	100	0	52	69	0	0	30	0.89
3681479--3681528	20	2.5	20	83	0	73	10	22	20	48	1.79
3681479--3681555	20	3.8	20	81	5	57	14	19	23	42	1.87
3681523--3681617	21	4.6	19	74	14	82	20	18	24	36	1.95
3681523--3681617	41	2.3	41	92	5	156	20	18	24	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3682595--3682625	6	5.2	6	100	0	62	0	16	48	35	1.46
3682749--3682796	19	2.5	19	96	0	87	39	20	20	18	1.92
3682828--3682879	21	2.5	21	93	0	95	28	28	17	25	1.97
3682884--3682929	19	2.3	20	77	7	58	30	15	26	28	1.96
3686211--3686444	124	1.9	123	80	5	274	39	19	14	25	1.90
3687137--3687163	2	13.5	2	100	0	54	48	0	0	51	1.00
3689114--3689144	16	1.9	16	100	0	62	64	22	6	6	1.40
3689212--3689270	10	5.7	10	75	15	57	62	18	8	10	1.51
3689219--3689269	16	3.2	16	80	0	57	64	19	5	9	1.44
3689208--3689269	32	2.0	30	87	6	88	64	17	6	11	1.46
3692526--3692691	82	2.0	82	98	0	323	27	23	18	30	1.97
3694161--3694222	24	2.6	24	89	0	88	51	22	14	11	1.74
3694427--3694503	23	3.3	23	98	0	145	41	19	9	29	1.82
3694440--3694503	13	5.4	13	71	21	68	37	21	9	31	1.85
3705153--3705200	15	3.2	15	87	0	78	47	20	4	27	1.68
3713015--3713071	30	1.9	29	85	3	78	47	8	14	29	1.74
3713545--3713569	11	2.3	11	100	0	50	52	0	16	32	1.44
3715823--3715946	23	5.3	23	80	6	117	32	24	22	20	1.98
3716049--3716096	15	3.2	15	87	0	69	47	20	2	29	1.61
3716053--3716104	15	3.5	15	83	0	50	50	23	1	25	1.60
3718522--3718635	54	2.1	54	96	0	210	36	14	6	42	1.70
3718605--3718647	20	2.1	21	91	4	70	39	9	6	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3718802--3718897	38	2.5	38	84	0	129	25	27	22	25	2.00
3719046--3719158	46	2.5	46	92	4	187	33	18	6	41	1.75
3719547--3719616	36	2.0	36	91	5	117	21	28	32	17	1.96
3722468--3722494	2	13.5	2	100	0	54	51	0	0	48	1.00
3723043--3723067	2	12.5	2	100	0	50	48	0	0	52	1.00
3724718--3724794	34	2.3	34	100	0	154	36	19	3	40	1.70
3724781--3724823	20	2.1	21	91	4	70	39	9	6	44	1.64
3724978--3725074	38	2.6	38	86	0	131	25	25	23	24	2.00
3725222--3725334	46	2.5	46	92	4	187	33	18	6	41	1.75
3731535--3731591	19	3.1	17	90	5	60	24	22	26	26	2.00
3731541--3731591	19	2.7	19	96	0	93	23	21	29	25	1.99
3731685--3731722	20	1.9	20	88	0	58	18	13	34	34	1.89
3734262--3734311	25	1.9	25	88	8	73	62	10	2	26	1.38
3741701--3741740	20	2.0	20	100	0	80	25	5	10	60	1.49
3741987--3742016	14	2.1	14	93	0	51	26	6	16	50	1.70
3742086--3742148	15	4.3	15	72	20	53	31	3	17	47	1.63
3742170--3742227	17	3.3	18	72	16	59	32	1	12	53	1.48
3742180--3742233	17	3.2	17	76	10	65	37	3	12	46	1.60
3742267--3742312	18	2.6	18	76	16	51	30	2	17	50	1.58
3743930--3743967	20	1.9	20	88	0	58	34	18	21	26	1.96
3744755--3744846	32	2.9	32	74	7	98	35	15	17	31	1.91
3744753--3744880	31	4.1	31	73	5	114	30	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3744839--3744905	30	2.2	31	83	2	82	20	19	26	32	1.97
3745735--3746185	54	8.4	54	85	1	548	27	15	20	35	1.94
3748160--3748259	45	2.2	45	85	0	137	42	17	18	23	1.89
3748212--3748285	30	2.5	31	86	4	107	43	17	17	21	1.88
3748167--3748330	75	2.2	75	82	2	195	42	18	17	21	1.89
3748243--3748358	45	2.6	44	84	2	151	42	19	17	20	1.90
3750212--3750274	26	2.4	26	86	0	81	26	11	12	49	1.74
3750227--3750385	26	6.0	26	82	11	173	27	10	12	49	1.72
3750225--3750386	13	12.2	13	75	14	143	27	9	13	49	1.73
3751095--3751128	16	2.1	16	94	0	59	26	0	11	61	1.30
3755532--3755758	105	2.2	105	83	4	271	27	18	22	31	1.97
3758481--3758526	24	1.9	24	95	0	83	17	26	10	45	1.81
3760468--3760515	21	2.2	22	81	7	53	60	10	0	29	1.30
3760775--3760800	2	13.0	2	100	0	52	50	0	0	50	1.00
3760916--3761032	52	2.2	53	83	3	155	35	21	17	26	1.95
3761794--3761917	66	1.9	64	85	6	169	36	20	18	24	1.95
3769383--3769443	18	3.4	18	95	0	104	19	19	31	29	1.97
3769980--3770425	54	8.3	54	88	0	649	32	20	17	28	1.96
3770841--3770914	19	3.7	19	75	21	71	27	21	17	33	1.96
3770938--3770987	20	2.5	20	87	6	66	18	26	18	38	1.93
3777158--3777602	54	8.3	54	85	0	561	33	19	18	29	1.95
3777921--3777979	22	2.8	21	75	7	57	28	27	13	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3778116--3778185	20	3.5	19	82	7	86	20	31	15	32	1.94
3780053--3780138	43	2.0	43	81	0	100	45	13	11	29	1.79
3780925--3780967	21	2.0	21	86	8	61	44	0	2	53	1.13
3781577--3781976	55	7.3	55	85	4	517	32	19	20	27	1.97
3781577--3781953	109	3.5	106	86	4	477	33	19	20	27	1.96
3782813--3782850	20	1.9	19	94	5	67	63	0	31	5	1.17
3782817--3782857	20	2.0	20	90	0	64	60	0	31	7	1.24
3782905--3782935	14	2.3	13	94	5	53	41	0	0	58	0.98
3782919--3783272	145	2.6	128	82	10	381	42	1	15	40	1.57
3783241--3783274	16	2.1	16	88	5	50	67	0	23	8	1.18
3783242--3783297	25	2.5	20	73	24	58	69	0	23	7	1.12
3783536--3783576	20	2.0	20	100	0	82	34	19	9	36	1.85
3788519--3789124	52	11.7	52	96	0	1059	29	26	15	28	1.96
3789120--3789399	55	5.1	55	91	1	456	28	28	14	28	1.95
3789120--3789399	108	2.6	110	92	2	474	28	28	14	28	1.95
3790552--3790635	7	11.7	7	75	16	66	10	5	0	83	0.81
3790552--3790635	10	8.6	9	76	15	69	10	5	0	83	0.81
3791749--3791783	3	11.3	3	93	6	61	2	34	0	62	1.10
3802059--3802099	20	2.0	20	100	0	82	34	19	9	36	1.85
3804948--3804994	21	2.1	22	88	7	69	31	25	19	23	1.98
3805029--3805070	21	2.0	21	100	0	84	19	28	38	14	1.90
3805106--3805168	20	3.2	20	95	0	108	12	28	36	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3805258--3805317	29	2.0	31	93	6	106	43	16	6	33	1.74
3805477--3805522	22	2.1	22	95	0	83	34	2	8	54	1.43
3807488--3807557	34	2.1	32	86	5	95	21	31	14	32	1.93
3807771--3807810	21	1.9	22	90	10	66	12	10	40	37	1.77
3807838--3807880	21	2.0	21	90	0	68	27	25	20	25	1.99
3807916--3807957	20	2.1	20	100	0	84	14	28	42	14	1.84
3807992--3808021	15	2.0	15	93	0	51	16	26	33	23	1.96
3808137--3808196	29	2.0	29	90	6	93	43	15	6	35	1.72
3810686--3810756	28	2.5	28	90	0	97	33	12	16	36	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19

The End!