genome.fa.s8747.2.7.7.80.10.50.1000.14.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  14  of  51  ( 6054 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)
3481003--3481061	32	1.9	29	83	10	73	54	0	20	25	1.45
3487495--3487528	3	11.3	3	87	12	52	67	0	0	32	0.91
3487495--3487533	12	3.2	13	82	14	55	66	0	0	33	0.92
3490285--3490330	24	1.9	24	90	0	74	23	10	17	47	1.79
3492323--3492362	3	13.3	3	89	10	64	67	0	0	32	0.91
3492785--3492838	22	2.5	22	87	0	81	12	5	22	59	1.54
3497380--3497422	22	2.0	22	85	0	59	30	11	13	44	1.80
3500159--3500451	85	3.4	85	87	0	424	25	18	21	33	1.96
3500506--3500849	121	2.8	121	88	0	501	23	16	25	34	1.95
3500872--3501235	64	5.7	64	90	0	557	29	13	21	34	1.92
3500872--3501235	192	1.9	192	92	1	613	29	13	21	34	1.92
3502566--3502619	13	4.3	13	77	15	51	3	16	1	77	1.00
3502540--3502624	23	3.6	23	73	12	66	4	18	3	72	1.16
3504528--3504573	21	2.3	20	85	7	58	65	2	15	17	1.37
3507175--3507337	83	2.0	83	85	4	222	41	7	6	44	1.59
3511922--3511954	18	1.9	17	88	11	50	48	3	0	48	1.17
3514188--3514235	18	2.9	17	82	11	55	72	4	6	16	1.20
3514287--3514311	2	12.5	2	100	0	50	48	0	0	52	1.00
3515500--3515526	7	3.9	7	100	0	54	14	0	0	85	0.61
3515880--3515939	31	1.9	31	90	6	95	38	6	11	43	1.68
3516266--3516327	25	2.7	22	75	22	65	37	1	1	59	1.17
3516444--3516496	19	2.7	19	76	21	56	64	1	0	33	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3516461--3516511	19	2.8	18	85	11	61	60	0	1	37	1.08
3516461--3516666	64	3.2	59	84	11	157	57	0	0	40	1.12
3516623--3516673	12	4.3	12	76	18	54	66	1	0	31	1.03
3516926--3516963	18	2.1	19	90	5	60	28	10	0	60	1.30
3522795--3523339	199	2.7	199	81	7	556	35	19	17	27	1.95
3526359--3526399	16	2.4	17	88	12	66	7	17	0	75	1.02
3527805--3527840	18	2.0	18	100	0	72	44	27	11	16	1.82
3531342--3531382	20	2.0	20	100	0	82	29	26	9	34	1.88
3533636--3533716	21	3.8	21	75	16	78	14	23	39	22	1.91
3533636--3533720	20	4.1	20	79	10	89	14	23	38	23	1.91
3549073--3549128	19	2.8	21	86	10	82	42	8	12	35	1.74
3552439--3552485	17	2.6	18	87	12	62	2	19	6	72	1.17
3553193--3553248	19	2.8	21	86	10	82	42	8	12	35	1.74
3562285--3562372	3	29.3	3	100	0	176	67	0	0	32	0.91
3566376--3566402	3	9.0	3	100	0	54	66	0	0	33	0.92
3571445--3571523	6	14.0	5	80	15	59	69	2	7	20	1.25
3571606--3571647	17	2.4	18	96	4	77	40	7	4	47	1.52
3571570--3571612	2	21.5	2	100	0	86	48	0	0	51	1.00
3571656--3571688	17	1.9	17	88	11	50	45	12	3	39	1.57
3572633--3572679	20	2.6	18	78	15	60	65	4	19	10	1.39
3572641--3572686	20	2.3	20	92	0	74	65	6	17	10	1.45
3574048--3574249	41	4.9	41	68	4	147	35	11	19	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574046--3574249	82	2.5	82	89	0	318	34	11	19	33	1.88
3575342--3575511	84	2.0	84	94	0	295	28	10	18	42	1.82
3576906--3576977	29	2.4	31	77	9	78	38	9	22	29	1.86
3593861--3593915	26	2.1	26	89	0	83	27	29	7	36	1.84
3609065--3609131	2	34.0	2	96	3	127	50	0	0	49	1.00
3616599--3616630	14	2.1	16	88	11	50	18	43	6	31	1.75
3622334--3622393	30	2.0	30	87	9	88	15	11	8	65	1.47
3623765--3623791	9	3.0	9	100	0	54	55	0	11	33	1.35
3623756--3623791	18	2.0	18	88	0	54	58	0	13	27	1.36
3624167--3624213	20	2.3	20	89	7	69	76	2	17	4	1.04
3624166--3624233	22	3.1	22	77	14	77	76	2	17	2	1.04
3624149--3624242	44	2.1	46	86	4	129	74	3	17	5	1.14
3627247--3627316	35	1.9	36	82	5	88	28	12	12	45	1.79
3627982--3628340	159	2.3	159	81	2	398	34	16	19	29	1.94
3628456--3628768	116	2.7	117	86	3	411	35	14	21	28	1.93
3628791--3628923	42	3.2	42	81	3	128	29	22	18	30	1.97
3628814--3628935	39	3.0	40	83	3	138	28	25	18	27	1.98
3628862--3628956	39	2.4	39	84	3	111	30	24	21	24	1.99
3630993--3631379	183	2.1	183	92	2	636	45	8	3	42	1.49
3631500--3631528	15	1.9	15	100	0	58	17	6	27	48	1.72
3633584--3633638	24	2.3	24	100	0	110	14	43	14	27	1.84
3633687--3633776	44	2.0	44	87	6	128	15	2	24	57	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3638975--3639012	19	2.0	19	100	0	76	36	10	26	26	1.89
3641167--3641287	35	3.3	36	79	12	97	44	11	14	29	1.80
3641167--3641272	38	2.9	37	81	12	112	45	11	13	30	1.78
3645698--3646118	217	1.9	219	98	1	812	31	17	14	35	1.91
3660749--3660779	11	2.8	11	100	0	62	41	19	9	29	1.83
3669560--3669592	17	1.9	17	100	0	66	39	6	18	36	1.75
3669934--3670358	55	7.7	55	87	0	555	34	11	17	37	1.85
3673077--3673136	30	2.0	30	87	6	86	33	6	16	43	1.74
3673216--3673334	21	5.7	21	80	11	129	24	35	18	21	1.96
3673216--3673334	41	2.8	42	85	7	145	24	35	18	21	1.96
3673216--3673333	63	1.9	62	85	5	166	24	34	18	22	1.96
3685950--3686319	55	6.7	55	90	2	566	34	10	19	36	1.85
3692353--3692405	19	2.6	19	76	8	52	33	15	18	32	1.92
3692751--3693504	55	13.7	55	89	2	1086	34	10	19	36	1.86
3704545--3704653	40	2.7	40	91	0	173	18	13	31	36	1.90
3705458--3705509	21	2.5	21	87	0	68	25	25	11	38	1.89
3710238--3710489	81	3.1	80	89	6	364	37	12	22	27	1.90
3717045--3717096	22	2.4	22	96	0	95	36	9	19	34	1.84
3720354--3720492	64	2.2	64	89	6	212	30	22	16	30	1.96
3726263--3726310	21	2.3	21	92	0	78	35	18	20	25	1.95
3726276--3726316	21	2.0	21	95	0	73	36	17	21	24	1.94
3729054--3729176	64	1.9	64	90	6	196	30	21	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3729803--3729830	14	2.0	14	100	0	56	35	21	7	35	1.81
3730670--3730696	2	13.5	2	100	0	54	51	0	0	48	1.00
3739278--3739344	21	3.2	21	89	4	100	34	22	5	37	1.79
3742084--3742132	14	3.5	14	91	0	80	32	8	24	34	1.85
3742122--3742164	16	2.7	16	81	0	59	32	6	30	30	1.84
3746786--3746846	9	6.3	9	75	14	59	3	16	0	80	0.84
3746786--3746840	19	2.7	21	75	13	62	3	18	0	78	0.90
3746786--3746846	21	3.2	18	76	15	59	3	16	0	80	0.84
3753334--3753368	17	2.1	17	94	0	61	62	8	20	8	1.49
3756751--3756803	16	3.3	16	97	0	97	24	22	18	33	1.97
3765282--3765324	22	2.1	21	87	12	63	60	0	0	39	0.97
3765543--3765686	51	2.8	50	84	2	180	45	12	13	27	1.80
3766139--3766178	19	2.1	19	85	0	53	55	0	0	45	0.99
3766111--3766235	62	2.0	63	81	4	146	52	0	5	41	1.25
3766469--3766493	12	2.1	12	100	0	50	40	0	28	32	1.57
3767945--3768526	71	8.2	72	71	7	334	20	23	24	32	1.98
3767977--3768749	142	5.4	142	74	6	582	20	22	23	33	1.97
3769100--3769533	36	12.2	36	72	7	271	35	10	22	31	1.89
3770139--3770472	166	2.0	167	98	0	652	29	18	11	39	1.86
3771515--3771564	25	2.0	25	84	7	66	4	10	6	80	1.02
3779505--3779570	5	13.4	5	73	9	55	39	1	1	57	1.17
3781598--3781656	20	3.0	20	82	7	59	11	28	15	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3781624--3781660	19	1.9	19	100	0	74	13	37	16	32	1.87
3782773--3782806	17	2.1	17	94	5	61	67	0	0	32	0.91
3791471--3791559	22	4.0	22	94	0	142	26	23	22	26	2.00
3798503--3798570	22	3.1	22	84	0	91	27	19	20	32	1.97
3802069--3802137	22	3.0	23	81	8	79	20	5	10	63	1.45
3802675--3802714	19	2.1	19	86	9	55	45	5	5	45	1.47
3804926--3805017	41	2.3	41	82	1	105	26	22	16	34	1.95
3804958--3805070	41	2.8	41	80	0	118	30	23	16	29	1.97
3805680--3805720	22	1.9	21	85	5	55	12	19	7	60	1.54
3810978--3811018	22	1.9	21	90	5	64	24	2	12	60	1.43

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51