genome.fa.s9634.2.7.7.80.10.50.1000.18.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  18  of  78  ( 9351 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)
3918592--3918764	37	4.6	37	74	13	165	43	5	9	40	1.62
3918724--3918782	24	2.4	25	86	13	79	42	3	10	44	1.55
3918825--3918879	21	2.7	21	86	13	71	36	0	0	63	0.95
3918829--3918877	19	2.4	21	90	10	75	36	0	0	63	0.95
3920067--3920093	14	1.9	14	100	0	54	25	0	0	74	0.83
3920067--3920152	14	5.9	14	75	14	50	25	4	0	69	1.07
3921644--3921712	31	2.2	32	92	2	113	31	24	5	37	1.79
3923846--3923880	5	7.0	5	93	0	61	17	60	2	20	1.49
3928381--3928443	2	31.5	2	100	0	126	50	0	0	49	1.00
3928999--3929032	5	6.4	5	87	12	50	82	0	0	17	0.67
3930024--3930071	25	1.9	25	86	0	69	27	2	2	68	1.11
3934353--3934388	16	2.1	18	90	10	58	72	5	5	16	1.23
3941623--3941678	23	2.4	23	90	0	85	39	25	25	10	1.87
3944166--3944210	20	2.1	20	84	12	54	35	2	8	53	1.45
3945058--3945137	32	2.5	32	81	0	97	36	16	12	35	1.86
3947125--3947170	18	2.6	18	89	3	67	34	8	28	28	1.87
3947556--3948057	258	2.0	251	88	4	752	41	16	12	29	1.86
3949607--3949648	14	3.0	13	86	13	57	9	30	38	21	1.85
3950754--3950856	40	2.6	40	95	0	179	30	14	11	43	1.81
3958590--3958796	81	2.6	81	94	1	362	51	7	1	39	1.42
3963676--3963706	2	15.5	2	100	0	62	51	0	0	48	1.00
3965526--3966090	105	5.4	105	91	1	873	22	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3966871--3966971	53	1.9	53	83	2	132	13	22	13	49	1.78
3977228--3977354	44	2.7	47	70	20	115	65	4	4	25	1.32
3977364--3977390	2	13.5	2	100	0	54	51	0	0	48	1.00
3977420--3977462	20	2.1	20	86	4	59	58	0	0	41	0.98
3983617--3983675	21	2.8	21	94	0	100	20	6	22	50	1.71
3983886--3983971	44	2.0	44	90	4	138	33	19	17	29	1.95
3984013--3984093	40	2.0	40	82	4	99	35	20	16	27	1.94
3985135--3985167	16	2.1	16	94	0	57	39	27	6	27	1.80
3985806--3986467	182	3.6	181	87	2	907	43	13	15	27	1.84
3989332--3989386	20	2.8	20	82	0	65	27	18	27	27	1.98
3989453--3989485	17	1.9	17	93	0	57	39	18	6	36	1.75
3996467--3996516	24	2.0	25	92	3	84	52	0	4	44	1.20
3996806--3996836	15	2.1	15	100	0	62	25	6	54	12	1.62
4002245--4002454	105	2.0	105	85	0	285	40	21	13	23	1.90
4003902--4004004	22	4.7	22	86	7	147	18	27	23	31	1.97
4007290--4007484	105	1.9	105	83	0	255	39	22	13	24	1.90
4008973--4009043	22	3.3	22	88	4	99	19	23	21	35	1.96
4009762--4011071	200	6.5	200	91	0	1998	39	13	15	31	1.86
4011371--4011416	18	2.8	16	81	15	58	28	36	2	32	1.69
4015641--4015683	22	2.0	22	85	0	59	30	13	11	44	1.80
4015666--4015705	21	1.9	21	89	0	62	37	20	15	27	1.92
4017298--4017333	3	12.0	3	93	0	63	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4020360--4020542	91	2.0	92	93	3	316	30	11	22	34	1.90
4020886--4020916	16	2.0	15	93	6	53	58	6	3	32	1.40
4023509--4023556	22	2.2	22	84	0	60	52	22	14	10	1.72
4028452--4028509	21	2.6	22	81	8	73	46	20	15	17	1.84
4035649--4035690	2	21.5	2	90	4	68	0	0	50	50	1.00
4037795--4038016	110	2.0	110	100	0	444	18	24	17	39	1.92
4041948--4042138	101	1.9	101	88	0	292	57	13	10	18	1.65
4042753--4042881	63	2.1	61	81	10	145	49	5	3	41	1.41
4043576--4043657	43	1.9	43	82	5	103	30	25	4	39	1.77
4045557--4045633	30	2.6	30	100	0	154	10	23	25	40	1.86
4057618--4057697	24	3.4	24	78	3	99	26	18	20	35	1.95
4059853--4059887	18	1.9	18	88	0	52	20	42	20	17	1.89
4059849--4059909	31	2.0	30	87	9	88	19	37	21	21	1.94
4062399--4062480	24	3.5	24	88	3	121	26	17	20	35	1.95
4062558--4062629	35	2.1	35	89	5	110	9	25	30	34	1.88
4067126--4067216	24	3.8	24	82	2	112	26	15	19	38	1.92
4067295--4067366	35	2.1	35	91	0	117	9	27	27	34	1.88
4068126--4068150	6	4.2	6	100	0	50	52	32	0	16	1.44
4078594--4078654	27	2.3	27	94	0	104	31	14	18	36	1.91
4081602--4081631	14	2.2	14	94	5	53	13	26	26	33	1.93
4083314--4083370	27	2.1	27	93	0	96	33	14	17	35	1.90
4087113--4087157	3	14.7	3	86	4	54	60	0	2	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087095--4087157	16	4.1	16	77	6	58	63	0	1	34	1.04
4087444--4087569	66	1.9	66	90	0	198	27	16	27	27	1.97
4087516--4088042	111	4.7	111	86	0	644	29	14	23	32	1.95
4089532--4089730	99	2.0	98	84	2	256	32	15	14	37	1.87
4092354--4092563	65	3.2	65	77	9	173	30	23	18	26	1.98
4095639--4095678	14	2.9	14	96	0	71	62	20	0	17	1.33
4101295--4101638	171	2.0	171	96	0	634	29	11	11	46	1.76
4101631--4101670	21	1.9	21	90	10	64	32	7	5	55	1.50
4103677--4103727	20	2.5	20	100	0	102	29	19	25	25	1.99
4114237--4114284	23	2.1	23	88	0	69	25	0	31	43	1.55
4114300--4114325	3	8.7	3	100	0	52	65	0	0	34	0.93
4114526--4115360	40	19.5	41	67	15	217	25	17	31	25	1.97
4114564--4115360	46	18.5	45	68	15	310	25	17	31	25	1.97
4114518--4114974	129	3.5	129	88	0	671	24	17	32	25	1.96
4114602--4115186	212	2.8	211	82	5	587	25	16	31	25	1.97
4114945--4115416	129	3.7	128	84	4	574	25	16	32	25	1.96
4114564--4115360	258	3.1	255	78	7	665	25	17	31	25	1.97
4114604--4115315	341	2.1	341	87	0	1003	25	17	31	25	1.97
4114602--4115318	83	8.4	83	68	11	324	24	17	32	25	1.97
4114521--4115408	470	1.9	470	88	0	1337	25	16	31	25	1.97
4115466--4115895	121	3.5	121	85	6	557	23	18	25	32	1.97
4115587--4115803	66	3.4	65	67	19	204	23	18	26	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119190--4119272	34	2.5	33	76	5	85	18	0	34	46	1.49
4119244--4119291	23	2.1	23	96	0	87	25	0	35	39	1.56
4123887--4123950	3	20.7	3	90	6	101	64	0	0	35	0.94
4125190--4125242	21	2.5	21	78	0	61	22	26	16	33	1.96
4125820--4125916	20	4.9	21	82	9	107	51	19	17	11	1.75
4125820--4125911	40	2.3	40	83	3	123	51	19	17	11	1.76
4125835--4125927	19	4.7	19	81	6	105	49	21	18	10	1.77
4125928--4126023	40	2.4	39	87	5	156	11	21	17	48	1.78
4125928--4126023	20	4.8	20	84	3	131	11	21	17	48	1.78
4127716--4128090	187	2.0	183	89	5	576	21	12	18	47	1.81
4127716--4128090	94	4.1	93	90	4	573	21	12	18	47	1.81
4128181--4128306	19	6.8	19	78	12	100	49	22	17	11	1.78
4128186--4128275	33	2.5	36	77	13	89	51	21	18	8	1.73
4128259--4128296	20	1.9	20	88	0	58	50	28	13	7	1.69
4128338--4128428	19	4.6	19	83	5	110	12	19	19	48	1.80
4128331--4128428	39	2.5	39	89	1	142	12	20	18	48	1.79
4128829--4128917	42	2.1	42	82	0	106	21	37	16	24	1.94
4130297--4130332	14	2.6	14	95	0	63	33	0	22	44	1.53
4130439--4130499	19	3.5	19	74	21	78	44	18	22	14	1.86
4130439--4130518	33	2.4	33	91	0	124	46	20	21	12	1.83
4130549--4130693	19	8.4	18	70	21	98	12	23	19	44	1.84
4130547--4130673	33	3.8	33	97	0	236	11	24	18	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4130568--4130655	14	5.6	14	70	23	59	11	25	19	44	1.84
4130660--4130700	20	2.0	20	90	0	64	19	19	21	39	1.93
4133225--4133276	24	2.2	24	82	0	59	36	21	19	23	1.95
4134125--4134291	20	8.3	20	81	6	169	32	19	20	27	1.97
4134238--4134291	21	2.6	20	80	8	63	31	18	25	24	1.97
4139181--4139236	29	2.0	29	85	3	78	35	14	3	46	1.62
4140866--4140926	2	30.5	2	100	0	122	49	0	0	50	1.00
4142623--4142652	3	9.7	3	92	7	51	70	0	0	30	0.88
4143177--4143238	30	2.1	30	90	6	99	32	11	14	41	1.81
4143171--4143288	34	3.6	34	83	11	156	31	10	16	41	1.82

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78