genome.fa.s8747.2.7.7.80.10.50.1000.16.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  16  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)
4142117--4142146	14	2.2	14	94	5	53	30	33	6	30	1.83
4145360--4145411	3	18.3	3	80	11	65	71	0	1	26	0.97
4145663--4145743	41	2.0	41	85	0	108	28	22	22	27	1.99
4146077--4146191	42	2.8	40	78	6	122	30	18	23	27	1.97
4145823--4146251	196	2.2	197	86	2	612	33	14	18	32	1.91
4146322--4146424	41	2.5	41	82	1	125	33	21	18	27	1.96
4146021--4146955	255	3.7	255	88	2	1407	33	17	16	32	1.92
4146600--4146699	42	2.4	41	77	6	112	30	20	23	27	1.98
4151464--4151497	16	2.2	15	94	5	59	23	5	23	47	1.73
4151655--4151684	11	2.7	11	94	0	51	6	16	10	66	1.41
4153820--4153850	11	2.8	11	95	0	53	6	16	9	67	1.39
4155798--4155831	16	2.2	15	94	5	59	23	5	23	47	1.73
4155989--4156018	11	2.7	11	94	0	51	6	16	10	66	1.41
4157965--4157998	16	2.2	15	94	5	59	23	5	23	47	1.73
4158156--4158185	11	2.7	11	94	0	51	6	16	10	66	1.41
4164623--4164656	16	2.2	15	94	5	59	23	5	23	47	1.73
4166366--4166421	2	31.0	2	76	20	52	55	0	0	44	0.99
4166366--4166423	14	4.1	15	75	16	61	55	0	0	44	0.99
4166606--4167802	82	14.5	82	80	3	978	25	18	21	34	1.96
4166608--4167691	411	2.6	409	80	5	1152	26	18	21	33	1.96
4166894--4167627	329	2.2	329	82	5	896	26	18	20	33	1.96
4168647--4168846	65	3.1	63	76	15	203	31	17	21	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4169907--4169950	21	2.1	21	82	0	52	36	15	38	9	1.80
4171494--4171575	23	3.6	22	75	8	76	25	21	25	26	2.00
4171502--4171556	21	2.5	21	76	5	56	25	21	21	30	1.98
4178849--4178900	24	2.2	23	82	3	68	0	7	13	78	0.94
4182857--4182919	28	2.2	28	91	0	99	30	19	17	33	1.95
4183639--4183774	51	2.7	51	80	2	139	37	15	19	27	1.92
4183784--4183889	45	2.4	45	80	3	115	41	18	13	26	1.87
4183784--4183981	45	4.4	45	73	9	107	40	18	14	26	1.89
4183805--4183986	45	4.0	47	72	11	137	40	18	14	26	1.89
4183829--4183998	92	1.9	92	81	4	211	40	18	15	26	1.90
4185579--4185622	20	2.2	20	100	0	88	31	15	25	27	1.96
4185775--4185832	20	2.6	22	89	10	84	31	20	22	25	1.98
4188210--4188402	99	2.0	98	89	3	298	30	16	16	36	1.91
4193239--4193269	12	2.6	12	100	0	62	45	6	0	48	1.28
4193259--4193729	22	21.5	22	90	0	719	40	0	11	47	1.39
4193753--4193811	31	1.9	31	92	0	100	44	8	5	42	1.57
4195922--4196835	42	21.6	42	85	1	1042	35	24	20	19	1.96
4197567--4197696	56	2.3	55	88	6	199	33	12	21	33	1.90
4198984--4199025	17	2.5	17	96	0	75	28	11	9	50	1.70
4201086--4201872	42	18.6	42	86	1	959	35	24	20	18	1.95
4202652--4202773	56	2.2	56	88	2	174	29	12	24	33	1.92
4210746--4210797	19	2.7	19	96	0	95	23	26	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4213662--4213711	20	2.5	20	100	0	100	48	32	4	16	1.64
4213828--4213871	16	2.8	16	83	16	56	0	20	6	72	1.07
4224796--4224876	14	5.7	14	77	2	81	24	30	20	23	1.99
4224798--4224878	29	2.9	28	81	3	108	24	30	20	23	1.99
4224880--4224927	13	3.6	13	82	2	51	22	16	16	43	1.87
4224891--4224927	13	2.7	15	80	20	53	24	18	16	40	1.90
4228568--4228608	20	2.1	19	90	4	64	39	4	2	53	1.35
4234963--4235281	36	9.7	35	65	19	166	26	19	14	40	1.89
4234746--4235282	65	8.2	65	86	1	698	26	19	13	40	1.89
4235281--4235644	131	2.8	130	80	3	388	28	31	16	24	1.96
4237398--4237438	20	2.1	19	90	4	64	39	4	2	53	1.35
4238011--4238096	43	2.0	43	100	0	172	23	11	27	37	1.89
4239890--4239920	14	2.2	14	94	0	53	22	29	22	25	1.99
4244279--4244337	29	2.0	29	93	0	100	49	10	6	33	1.63
4244403--4244466	30	2.1	30	88	0	92	48	9	6	35	1.61
4244259--4244695	142	3.1	140	85	3	558	42	12	8	36	1.74
4244545--4244621	29	2.6	29	81	2	100	45	12	7	33	1.72
4244884--4244949	30	2.2	29	86	2	87	24	6	30	39	1.79
4244893--4244955	29	2.1	30	82	2	74	28	7	25	38	1.84
4248884--4248930	20	2.4	19	80	16	51	48	4	0	46	1.21
4249141--4249212	3	24.3	3	88	2	110	37	0	0	62	0.95
4249257--4249314	24	2.4	25	80	8	75	41	31	12	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4253059--4253186	62	2.1	62	100	0	256	44	9	21	24	1.81
4259165--4259272	50	2.2	50	94	0	198	41	15	14	27	1.87
4259187--4259295	50	2.2	51	86	3	150	47	13	11	27	1.77
4261008--4261097	42	2.1	42	91	0	144	21	22	24	32	1.98
4261016--4261488	239	2.0	240	90	2	756	28	15	18	37	1.91
4261570--4261693	58	2.1	60	86	8	175	39	20	14	25	1.90
4262450--4262493	23	1.9	23	85	0	61	36	2	0	61	1.09
4265263--4265295	17	1.9	17	93	0	57	66	0	3	30	1.06
4269614--4269665	19	2.6	21	87	6	72	48	3	13	34	1.61
4272638--4272735	8	12.1	8	89	10	139	0	24	0	75	0.80
4272633--4272735	15	7.1	15	84	11	135	0	24	0	75	0.80
4272623--4272735	23	5.0	23	84	9	144	0	24	0	75	0.81
4272624--4272733	50	2.2	49	84	15	147	0	23	0	76	0.79
4272638--4272771	45	3.2	42	80	17	127	2	20	1	75	0.99
4272637--4272766	43	3.2	38	73	23	95	2	20	1	75	1.00
4273473--4273524	19	2.6	21	90	6	81	46	5	13	34	1.67
4274542--4274675	20	6.7	20	82	5	144	30	24	17	26	1.97
4274552--4274655	41	2.6	40	84	4	129	33	23	18	25	1.96
4275178--4275222	19	2.4	19	88	7	65	46	28	15	8	1.76
4275218--4275334	52	2.2	52	89	1	171	12	23	22	41	1.88
4275273--4275338	33	2.0	34	96	3	125	12	25	24	37	1.90
4275218--4275363	19	8.1	19	73	17	114	13	23	19	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4278608--4278642	18	1.9	18	88	0	52	28	17	0	54	1.43
4283765--4283799	18	1.9	18	88	0	52	28	17	0	54	1.43
4287087--4287289	42	4.8	41	78	6	183	22	36	17	23	1.95
4287084--4287259	84	2.1	84	97	0	334	21	37	17	24	1.94
4287223--4287289	21	3.2	21	66	6	55	23	35	20	19	1.95
4287084--4287289	84	2.5	84	90	1	279	21	36	17	23	1.95
4288766--4288820	19	3.2	18	70	24	55	45	20	21	12	1.84
4288766--4288855	33	2.7	33	89	0	135	44	21	20	14	1.86
4288848--4288944	33	2.9	33	87	3	142	18	20	18	42	1.90
4288851--4288944	19	5.5	19	68	23	82	15	21	19	43	1.88
4291202--4291226	12	2.1	12	100	0	50	0	28	0	72	0.86
4292196--4292266	20	3.5	20	90	0	115	29	18	28	23	1.98
4292546--4292598	19	2.8	19	97	0	97	15	20	15	49	1.80
4292537--4292563	14	1.9	14	100	0	54	14	22	14	48	1.81
4292725--4292761	14	2.6	14	86	0	56	48	21	0	29	1.50
4294624--4294691	20	3.5	19	82	6	82	38	23	23	14	1.92
4294680--4294737	14	3.9	14	75	16	62	50	22	15	12	1.77
4294664--4294753	32	2.8	32	89	3	135	47	23	16	12	1.80
4294771--4294828	14	3.9	14	79	16	71	10	17	24	48	1.78
4294754--4294844	32	2.8	33	94	3	166	12	18	21	47	1.81
4294829--4294872	20	2.3	19	84	11	54	20	25	18	36	1.95
4295359--4295403	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4296529--4296585	25	2.3	26	79	14	66	54	17	8	19	1.68
4296722--4296780	20	3.0	20	87	0	73	42	22	18	16	1.89
4297255--4297389	20	6.7	20	78	7	94	25	17	23	33	1.96
4297255--4297392	61	2.3	61	84	0	186	24	17	23	34	1.96
4297378--4297429	20	2.5	21	87	3	70	19	25	17	38	1.93
4301575--4301626	26	2.0	26	92	0	86	26	28	17	26	1.97
4304080--4304167	40	2.2	40	85	0	113	34	14	20	30	1.93
4305805--4305848	20	2.2	20	84	8	54	79	11	6	2	1.01
4321705--4321749	22	2.0	22	86	4	63	31	33	26	8	1.87
4323070--4323433	121	3.0	121	92	0	613	25	14	23	36	1.93

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